ID HERVH repbase; DNA; HUM; 7713 BP. XX AC D11078; XX DT 11-NOV-1996 (Rel. 1.1, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 3) XX DE Internal part of endogenous retrovirus RTVL-H (HERV-H family). XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVH; LTR7; KW env; gag; pol. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-7713 RA Hirose Y., Takamatsu M. and Harada F.; RT "Presence of env genes in members of the RTVL-H family of human RT endogenous retrovirus-like elements."; RL Virology 192(1), 52-61 (1993). XX DR GenBank; D11078; Positions 501 8213. XX CC primer-binding site 2..19 CC /histidine tRNA/ CC LTRs of HERV-H are represented in REPBASE by the LTR7 sequence. CC The putative env gene, consisting of about 1800 base pairs, CC has two open reading frames interrupted by a termination codon. CC The amino acid sequence of this region showed significant CC homology CC to those of other retroviral envelope proteins and contained CC eight CC potential glycosylation sites. It is estimated that there are CC about CC 100 copies of RTVL-H elements containing the env gene per haploid CC human genome. XX SQ Sequence 7713 BP; 1869 A; 2440 C; 1110 G; 2294 T; 0 other; tttggtgcct tgactcggat tgggggacct cccttgggag atcaatcccc tgtcctcctg 60 ctctttgctc cgtgaaaagg atccacctat gacctctagt cctcagaccc accagcccaa 120 ggaacatctc accaatttca aatctggtaa gcggcctctt tttactctct tctccaacct 180 ccctcactat cctttaacct ctttctcctt tcaatcttgg cgccacactt caatctctcc 240 cttctcttaa tttcaattcc tttcattttc tggtagagac aaaggagaca catcttatcc 300 atggacccca aactccggcg ccagtcactg attagggaag cagcctttcc ttggtgttta 360 atcattgcag ggatgcctct ctgattattc acccaggttt cagaggtgtc agaccacgca 420 gggacatctg ccttggtcct tcacccttag cggcaagtcc cgcttttctg ggagaggggc 480 aagtacccca accccttctc tccatgtctc taccccttct ctgcttttct ggggcagggg 540 caagaaccct tcaacccctt ctccttcacc cttagcatca agtcccgctt ttctaggggg 600 gcaagaacct ccaatccctt atttgcatgc cctgacctct tatctctgca ccctaatccc 660 ttatttccgt gccccaacct cttatctctg caccccaatc ccttatttct gtgccccaac 720 ctcttatctc tgcaccccaa ccccttattt ctgtgccccg acctctttcc cgcttttctg 780 gagggtaaga acccccaaaa cccctccctc tgtgtctcta ctctctcttt tctctgggct 840 tgcttccttc actatggaca actttccacc ctccattcct ccttctccct tagcctgtgt 900 tctcaaaaac ttaaaacctc ttcaactcac acctgaccta aaacctaaat gccttatttt 960 cttctgcaat gctgcttaac cccaatacaa actcgacagt agttccaaag agccagaaaa 1020 tgggactttc aatttttcca tcctgcaaga tctaaataat tcttgtcgta aaataggcaa 1080 atggtctgag gtgtctgaca tccaggcatt cgtttacata tcactccctt cctagtctct 1140 gtgcccaatg caactcatcc caaatcttcc ttctttccct cccacctgcc ctctgagtcc 1200 caaccccaag cattgctgag tctttctaat cttccttttc tacagaccca tctgacctct 1260 cccctcctca ccaggctgag ctaggtccca attcttcctc agcctccact cctccaccct 1320 ataatccttt tatcacctcc cctcctcaca ctcagtctgg cttacagttt cattccgtga 1380 ctagccctcc cccacctgcc cagcaatttc ctcttaaaaa gttggctgga gctaaagaca 1440 tagtcaaggt taatgctcct ttttctttat ctgacctctc ccaaatcagt tagcatttag 1500 actctttttc atcaaataca aaaaacccag cccagttcat ggctcattcg gcagcaaccc 1560 tgagacgctt tacagcctta gaccctaaaa ggtcaaaagg ccgtcttatc ctcaatatac 1620 attttattac ccaatctgct ccaaacatta aataaaactc caaaaattaa attctggccc 1680 tcaaacccca caacaggatt taattaacct caccttcaag gtgtacaata atagaaaaaa 1740 gttgcaattc cttgcctcca ctgtgagaca aaccccagac acatctccag cacacaagaa 1800 cttcgaaatg cctcaacctc aggtgccagg ggttcctcca gaaccttctc ccccaggagc 1860 ttgctacaag tgccagaaat ctggccactg ggccaaggaa tgcccacaga ccaggattcc 1920 tcctaagctg tatcccatct ctgtgggacc ccactaaaaa tcagactgtt caactcacct 1980 ggcagccact tccagagccc ctggaactct agcccaaggc tctctgactg accccttctg 2040 agatcttctt ggcttagcag ctgaagactg acactgccag atcgcctcgg aagcctacag 2100 gaccatcaca gatgctccag gtaactctca cagtagaggg taagtctgtc cccttcttaa 2160 tcaatatgga ggctacccac tgcacattac cttcttttca agggcctgtt tcctttgcct 2220 ccataactgt tgtgggtatt gacggccagg cttctaaacc tcttaaaact ccccaactct 2280 agtaccaact tagacaatac tcttttaagc actccttttt agttatcccc acttgcccag 2340 ttcccttatg aggccgagac acttcaacta aattatctgc ttccctgact attcctggac 2400 tacagctaca tctcattgct gcccttcttc ccaatccaaa gcctcctttg catcttcttg 2460 tatcccccaa ccttaaccca caagtataag atacctctat tccctccttg gtgaccaatc 2520 atgcacccct taccatctca ttaaaaccta atcactctta cccggctcaa tgccaagatc 2580 ccatcccaca gcatgcttta aaaggattaa aacctgttat cactcgcctg ctagagcatg 2640 gccttttaaa gcctataaac tctccttaca attcccccat tttacctgtc ctagaaccag 2700 acaagcctta caggttcagg atctgtgtct tatcaatgaa attgttttcc ctatccaccc 2760 tgtggtgctg aacccatata ctctcctatc ctcaatacct ccctctacaa cccattattc 2820 tgttctagat ctcaaacatg ctttctttac tatcccttta cacccttcaa cccagcctct 2880 cttcgttttc acctggactg accctgacac ccatcagtcc cagcagctta cctgggctgt 2940 aatgctgcaa ggtttcaggg gcagccctta ttatttcagc caagctcttt ctcatgattt 3000 actttctttc cacccctcca cttctcacct tattcaatat attggtgatg ttcttctttg 3060 tagcccctcc tttgaatctt ctcaacaaga cacacttctg ctccttcagc atttattctc 3120 caaaggatat ccccctccaa agctcaaatg tcttctccat ccgttaccta ccttggcata 3180 attcttcata aaaacacacg tgccctccct gctgatagtg tctgactgat ctctcaaacc 3240 ccaacccctt ctacaaaaca acaactcttt tccatcctag gcatggttgg atactttcgt 3300 gttaggatac ctggttttgc catcctaaca aaaccattat ataaactcac aaaaggaaac 3360 ctagttgacc ccatagatcc taaatcgttt ccccactcct ctttccattc cttgaagaca 3420 gctttagaga ctgtctccac tctagctctc cctgactcat cccaacactt ttcattacac 3480 acagctgaag tgcagggctg tgcagtcaga attcttacac aaggaccggg atcgcatcct 3540 gtagcctttt tgtccaaaca acttgacctt actgttttag gctggccatc atgtctccat 3600 gcagcgtctg ctgccaccct aatactttta gaggccctca aaatcacaaa ctatgctcaa 3660 ctcattctct acagctctca taatttccaa aatctatttt cttcctcaca cctgacacat 3720 atactttctg ctccccggct ccttcagata tactcactcc atttattctc ccacaattac 3780 cattattcct ggcctggact tcaatccggc ctcccacatt attctggata ccatacctga 3840 ccctcatgac tgcatctctc tgatccacct gacgttcacc ccatttcccc acatttcctt 3900 ctgccctgtt tctcaccctg atcacacttg gtttattgat ggcagttcca ccaggcctaa 3960 tcgccactca ccagcaaagg caggatatgc tatgaactag ttgccttaat tcaagccctc 4020 actcttgcaa aaggactacg tgtcaatatc tatactgatt ctaaatatgc ctttcatatt 4080 ctgcaccacc atgcggtcat atgggctgaa agaggtttcc tcactacaca agtgtcctcc 4140 atcattaatg cctctttaag aaaactctgc tcaaggctgc tttacttcca aaggaagctg 4200 gggtcattca ctgcaagggg catcaaaaga cttcagatcc cattgctcta ggcaatgctt 4260 atgctgataa ggtggctaga caagcagcta gctctccaac ttttgtccct catggccagt 4320 ttttctcctt cacatccgtc actcccacct actccacagc tgaaacttcc acctatcaag 4380 ctcttccccc gcaaggtaaa tggttcttag accaaggaaa atatctcctt ccagcctcac 4440 aggcccattc tattctgtcg tcatttcata accttttcca tgtaggttac aagccactag 4500 cctgtctctt aggacctctc atttcctttc catcatggaa atctatcctc aaggagatca 4560 cttctcagtg ttccatctgc tattctgcta cccctcaggg attgttcagg cctcctccct 4620 ttcctacaca taaagctcgg ggatttgccc ctgcccagga ctggcaaatt gactttactc 4680 acatgcctcg ggtcagaaaa ctaaaatatc tcttagtctg ggtagacact ttcactgggt 4740 gggtagaggc ctttcccata gagtctgaga aggccaccgc ggtcatttct tcccttctgt 4800 cagacataat tccttggttt ggccttccct tctctataca gtctgataac ggaccagcct 4860 ttactagtta aatcacccaa gcagtttctc aggctcttgg tattcagtgg aaccttcata 4920 tcccttaaca tcctcaatct tcaggaaagg taaaaccgac taatggtctt ttaaagacac 4980 acctcaccaa gctcagcctc caacttaaaa aggattggac agtactttta cctctcgccc 5040 ttctcagaat tagaacctgt cctcgagatg ctacagggta cagtccattt gaacttttat 5100 atggacgcac tttcttgctt ggtcccaacc tcatcccaga caccagccct ctaggcgact 5160 atcttccagt cctccaacag gctaggcagg aaagtcacca ggctgctaat cttctcttgc 5220 ctactccaga tccccagcca tatgaagaca ctctagctgg acgatcagtt cttgttaaga 5280 atctgacccc tcaaactcta caacctcgat ggactggacc ctacttagtc atctatagta 5340 ccctgactgc cgtccgcctg caggatcctc cccactgggt tcaccattcc agaataaagc 5400 tgtgtccatt ggacagccag cctaatccct cctcttcctc ctggaagtcg caattactct 5460 cccctacttc ccttaaactc actcgtattt ctgaagaaca gtaataaccc ttatgagcct 5520 aatacatccc ttcattctat taggtctgtt tgtccttacc ctactttttg caacagggct 5580 ttatgaactc acccccacca cttaggctga gcccaaaaaa tcttgtcatc cctactattt 5640 tctgtccagt catactccta ttctctgctc tcaactactt ataaatgccg tactcttgtt 5700 tacactgctg gtttacactg tttcttcaag ccatcacagc tgatatctct tggtgctatc 5760 cccaaaccgc cactcttaat tccctcttag agtgggtaga tgatctttgc tggcagggca 5820 ccctccaata cttccaccct gatgaagttc tattctttac ttttatactc tctcttattc 5880 tcattcccat tcttatgcca ccttttgcct ctccccagct atctccacca cactatcaac 5940 cttacccatt ctctcctagc tgcttctaat ccctccttag tgaacaactg ctggctttgc 6000 atttcccttt cttccagtgc ctacatagct gtccctgcct tacagacaga ctgggctaca 6060 tctcctgtct ccttacacct ctgaacttcc tttaacagcc ctcaccttta ccctcctaag 6120 gaactcattt actttctaga caggtccagc aagactttcc cagacatttc acatcagcaa 6180 gctgccgccc tcctccgcac ttatttaaaa aacctttctc cttatattaa ctctactccc 6240 cccatatttg gacctctcac aacacaaact attattcctg ttgctgctcc tttatgtatc 6300 tcttggcaaa gacccactgg aattccccta ggtaatattt caccttcttg atgttccttt 6360 actctttatc tccaaagccc aactacacac atcactgaaa caattggagc cttccagctc 6420 catattacag acaagccctc tgtcaatact gacaaactca aaaacattag cagtaattgt 6480 tgcttaggaa gacacttacc ctgtatttca ctccatcctt ggctaccttc cccttgctca 6540 tcagactctc ctcccaggcc ctcttcttgt ttacttatac ccagccccca aaataacagt 6600 gaaaggttgc tcatagataa tcaacgtttt ctcgtacatc atgaaaattg aacatcctcc 6660 tctatgcagt taccccatca gtccccatta caacctctga cagctgccgc cctagctgga 6720 tccctaggag tctgggtaca agacacccct ttcagcactc cttttcactt ttttacttta 6780 catctccagt tttgcctcac acaaggtctc ttcttcctct gtggatcctc tacctacatg 6840 tgtctacctg ctaattggac aggcacatgc acactagttt tccttacccc caaaattcaa 6900 tttgccagtg ggactgaaga gctccctgtt cccctcatga cactgacatg acaaaaaagg 6960 gttattccac taattacctt gatggttggt ttaggacttt ctgcctccac tgttgctctc 7020 ggtactggaa tagcagtcat ttcaacctct gtcacgacct tccgtagcct gtctaatgac 7080 ttctctgcta gcatcacaga tgtgccacaa actttatcag tcctccaggc taaagttgac 7140 tctttagctg cagttgtcct ccaaaaccgc tgaggccttg acttactcac tgctgaaaaa 7200 ggaggactgt gtatattctt aaatgaagac tgttgttttt acctaaaaca acctggcctg 7260 gtgtatgaca acataaaaaa actcaaggaa agagaccaaa aacttgccaa ccaagcaagt 7320 aattatgctg aatccccttg ggcactctct aattgcatgt cctgggtcct cccaattctt 7380 agtcctttaa tacccatttt tctccttctt ttattcggac cttgtatctt ccatttagtt 7440 tctcaattca tccaaaactg tatccaggcc atcaccaatc attttatacg acaaatgttt 7500 cttctaacaa ccccacaata tcacccctta ccacaagatc tcccttcagc ttaatctctc 7560 ccactctagg ttcccatgcc acccctaata ccgcttgaag cagccctgag aaacatcacc 7620 cattctctct ctccatacca ccccccaaaa attttcactg ccccaacact tcaacactat 7680 tttatttttc ttattaatat aagaaggcag gaa 7713 // ID MER91A repbase; DNA; HUM; 196 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 1) XX DE Primate MER91A repetitive element; non-autonomous DNA transposon. XX KW DNA transposon; Transposable Element; Nonautonomous; MER91A; KW Nonautonomous DNA transposon fossil. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-196 RA Smit A.F.; RT "MER91A."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative nonautonomous DNA transposon fossil. 6 bp TIRs. 5' 10 bp CC similar to MER1 group TIRs. Average divergence from consensus CC 25%. XX SQ Sequence 196 BP; 32 A; 54 C; 69 G; 39 T; 2 other; cagggctgcc atgtacagtt gtgcaggttg tgcactgcac aagggcgcct ggccgaggga 60 gcgagtgggg gctgaaatcc agcccgtgct ccgctcgcca agccgtgmgt cctggtgtgg 120 ggctgcgtct acctagagga aggggcgcct ttttctaatt cacacaaagg cgccgtatgg 180 gctagcnctg gccctg 196 // ID LTR16A repbase; DNA; HUM; 450 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE LTR16A repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR16A; KW Long terminal repeat of endogenous retrovirus; MER71A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-450 RA Smit A.F.; RT "LTR16A."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC A retroviral LTR. The internal sequence is closely related to CC that CC of HERV-L. CC 5 bp duplication sites. XX SQ Sequence 450 BP; 85 A; 162 C; 104 G; 89 T; 10 other; tgtgacggac atgraggtgc gctgcccaga tcccccttca agaacggaar tyttattncc 60 cyagctgctg ggagwgctgt cggcagacag ccctcagctg tcagcccctt caggaattgc 120 ctcngctgaa gagagccgcc tcgcccaagg tcacgccccc tccccggggc agcccacatc 180 caatgactgr tcaatrtgga ggtataaagg cccggccctc tcgccccaac tcgggacaac 240 tctgaagggc catyccagct ccagagctcc ccgtggggtc ggctgaggcc tttgttgcga 300 ctgcattgca gcccaacttc tccctctgcc caatcctgct tccttccctt cccttccaca 360 ggcgttgatc ccaagggcgc tccctaataa acctcctgca cgctaatctc catctcagag 420 tctgcttccc ggggaaccca acctgcaaca 450 // ID LTR78 repbase; DNA; HUM; 1304 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR78_LTR; LTR78. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1304 RA Smit A.F.; RT "LTR78 - ERV1 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSDs rnd-3_family-944 & rnd-3_family-496 24%/30% subst CC (probably subs). XX SQ Sequence 1304 BP; 335 A; 304 C; 398 G; 247 T; 20 other; tgtaacagga tgttaaantg gaagtttcgg ctgaggcacc aagatacaat agataccana 60 ttccaaagtg aggtgccaga ccacnatgca gattttcaaa gnaggtggcc gaaaaccggt 120 tnnacgactc ttaaacccct cacccacatc gagggtataa aagggtcggg angttggaga 180 tgaggggaga tttgtgaaga ggatttcttt ggagagagct gttggtgtgc tgtgagtccc 240 accccacccc caaggagaga ggaggggggg tgctccccct tcacctcaag ccnagngaga 300 ggggcttcaa cgggaccact cggagagctt gatatgtgtc ccctgcagtt tgggggacac 360 agtggactgg tgtctgactc ccgcctggga aatctaaagg gcgagagacg ggctggccag 420 ctgctctgac ggcggagcaa aggagaggtg gctgcgctgg gatcggcctg cactcccaga 480 gtttgtcggg gcaaaggatg cgtgagtgtt tcccgtggac cagatgtggg ccacgcgnga 540 gagagagccg gcgtggggtc atcttaggtc ctgtccaaga gggccgcctg gaggggcgaa 600 nggacctcag cagagagaag ctggaggtac cgccggattc ccaggggctg aggaaggagt 660 aagcgaccag ccagaagaga gatgcattcg cccacgtcaa gggaactgca ggtgagagat 720 ccccagcgat gggggggggg atctccgaag aacccacaaa agcgcccacg agagaaagag 780 tcagctttaa acacctgcca ggcccagaga gcgcgaagcc agctcacaga cagtaccagt 840 caagtaagaa ctttcctgct ccccttncct ctcctccctc cccncgctcc aaccctggag 900 gggtcagaaa ccgcggttag caagtggggg aggaggagna gggaaagaga aaaaagaagc 960 caccacaccc ccttccccgg cngcaggctt ccngcctgca gcaggcccna gctgggggag 1020 gggagaagct ttaactttaa atcaagtttg gagttttgat tattacatgg gactggacat 1080 tttaattact gaattgagac tgtgttttgt gacttaaagt gaccgtagga ctttttatta 1140 cctaagagtg accagaaaag tcatgggact tgcccgagtt ttcatccagg ggcaggggaa 1200 gaactanccc cactgaataa atttaaaggg acagtgggag acaaaaataa agttgctttn 1260 tgattacatc ccatgagtcn tgcttgttca acgtaccggt taca 1304 // ID Charlie22a repbase; DNA; HUM; 491 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; Charlie22a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-491 RA Smit A.F.; RT "Charlie22a - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 16 bp TIR; TIRs identical to MER5A. 28% subst in dog-human; pos CC 1-64 similar to Charlie14a and Charlie22a. XX SQ Sequence 491 BP; 146 A; 96 C; 91 G; 157 T; 1 other; cagtggttct caaactatgc tcccacggaa cactggtgtt ccacaagctg gaccgaggtg 60 ttctnccgct aaaatcgaat aatggcagtc ttttcccaat ttacagaaaa aattaagtta 120 atggatagaa ttttctcaat tttaagtttt tctcccataa atttttctta aacctttggc 180 gcctgctacc gcttgtctgc tagtgagtgc tagcagatga caaaacgaat gaacaagtag 240 caaatgaata ttaacggaaa aactcagaaa cagccgatca tgcttagttc aacagcttgt 300 ttttttcatg gacacgtgtg ctcatggttg tgattttata ttgcatacat ataatatagt 360 catattttct gctagtaaaa ttgttcctag ttcgtatgat ggaattaaat atatcagtat 420 ttcatggtgt tctgcaaaga gcaccatgac ttccaggtgc tctgccacct gaacaagttt 480 gagaaccact g 491 // ID PrimLTR79 repbase; DNA; HUM; 503 BP. XX AC . XX DT 31-MAY-2008 (Rel. 13.05, Created) DT 02-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE Long terminal repeat of LTR-retrotransposon: consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW PrimLTR79. XX NM LTR79. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-503 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(5), 608-608 (2008). XX DR [1] (Consensus) XX CC Present in >200 copies. Its closest sequence to date is LTR11_EC CC from horse and a more distant human LTR31. The youngest copies CC are >84% identical to consensus. Renamed to PrimLTR79 due to name CC overlap. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 503 BP; 126 A; 115 C; 95 G; 167 T; 0 other; tgtaactgag cctatattat aaaaatcata agatgtttgt tttacttatt ttcctttttc 60 tttgtccttt tcttcctcca tgcatgattg cttgcacgta gtcatttcgg tagagggtag 120 tcactaataa ttgattaact tcatatccta acccccaggg gctgcctgca agattaatga 180 acttgttttt cttttaaaga acaatgatcc ttaggtcatg cagacctcct tgatggcatc 240 cagaagtttg atcaggactg atgatagagc cgagggacgc aaacagcttt gatcattggg 300 ggatctcacc tcccgcatac ctaccttact cataaaagcc cccagttatg ttcaaaggca 360 ggtcggattt gagagtttgc ctctcccacc ctctcacttt ggccaaattg aataaacctt 420 tctctgctcc taagcactga tgtgtcagtg tttggcttac tgtgcatcag gtacttgaac 480 ctaaattttg gggttctaca aca 503 // ID MLT1J-int repbase; DNA; HUM; 1387 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; ERVL-MaLR; KW MLT1J-int. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1387 RA Smit A.F.; RT "MLT1J-int - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC Associated mostly with MLT1J2 and MLT1J. XX SQ Sequence 1387 BP; 379 A; 293 C; 402 G; 295 T; 18 other; gaaattggta cctagaagtg gggtgctgcc ataacaaaaa cctaaaatat gtggcattgg 60 cttagcggtc gggcggcggg cggcaaggaa acagatattg naggctggaa agntggagac 120 ccntgttatg cagtggcaaa acatttggta aaactgttac ctgcgataac ttggaaggca 180 gaccacgtgc ctactgagcc tgtagctcta gggaaagngg ttggaaaaan tcagaatgtt 240 agtgtgtgtt ggctgctnct tgctgctttt agcaaggtat tacaagaaag agatgagctc 300 aggnaagaat tggccggttt gcaagcagaa atgaaaggga atagagagag tccagaaatt 360 tggggccttg cagggttgga aaagccaact gcttctgnac cccaaacagc aagagataag 420 actgaaaaag gctttgagca acaaaggccc attaagnctt ctcgccagac aangggactc 480 agcccngcgg caaagatcag attaagggtg ttgccttccc acccaagcct attgtttcag 540 atggcctcaa ggtagccgcc attaagttga gagggagggg atgggcagag cacagaggcc 600 agnaaataaa agantaaagc aggcttgaga actatgtcta ggaaagaact ttggntgtgg 660 ttactggcac atggaactga ctggaagcaa atagatcaga agcctactaa gtttttgagg 720 gaattgtatt gccaaagaaa ccacaagcct ggcctgnaaa agcctgtgac tgttcaancc 780 ctaaaacaac ccttgggccc ccaaacttgc accagcagga agtgggctgc gaaagctgtg 840 cagcccccaa ggagggcata ctccccaacg cccacttcag atgtggccac ggaggataat 900 ggacaaggaa gaacctccca gagggcagag ccaggggcca cggagaacaa tggacaaggg 960 agttcctccc agagagcaga atcagggtct aatcaaggaa cttcccccac tgccagggca 1020 gggggtcttc acaatncctg cccagcagga tttcatnatt gctatggacc agtgactgct 1080 gtgtgtctcc cattcttccc ttttccgaat gggagttttt attgcggtta tcctgtccct 1140 gctccaccat tgtatattgg gtgtgtgggg ggcagataac ttgtctttta gttcataggt 1200 caccggacca tgaggagcca catccggacc tgatggagag gactgcgcat cacccagaga 1260 tcctggactt tgagctggat gcagtaactg gatgggactt tgggttgtct cccttgggga 1320 gggggtgagt gtgttctatg tgtgggaaga agggtgcaac ggatatttgg tggccagagg 1380 ggcagac 1387 // ID LTR35A repbase; DNA; HUM; 547 BP. XX AC . XX DT 04-AUG-2008 (Rel. 14.02, Created) DT 04-AUG-2008 (Rel. 14.02, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR35A. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-547 RA Smit A.F.; RT "LTR35A - ERV1 Endogenous Retrovirus from primates."; RL Repbase Reports 9(2), 570-570 (2009). XX DR [1] (Consensus) XX CC Somewhat younger subfamily of LTR35. XX SQ Sequence 547 BP; 135 A; 169 C; 110 G; 133 T; 0 other; tgagacagag tagggacggg gcttggcttc agctcacccc cactagagca ttctttcatg 60 cattcccact gatcacaaaa cccacaccac tacctcactg acaccataat gtttaaccat 120 gccttttact taaagaattc caggaactgg ccttaggaga taaccaaggt tgcggagtgt 180 cccacctcgg gaaggaatgc tgaacaattg atttacagcc ttgttgccgc cggccagacc 240 accaggtggc ccattactca agataaccat cgcaaccaga taatgctgac ctgcataccc 300 tacccctcac gtgctttgcc cagcccagcc tgcataccct acccctgatg tcaattcccg 360 cgctttgcct aataaaaaag ccctaccggc tcttttcggg gagtcagtca gggaattctc 420 tctctctctt gtgctgcctc ccttatgccc gggcataagc tccaatgaag ccttgtctgg 480 gaaaactctt tcggcctcat gtcaatttct attgcattga gagcccaaga acccatggtc 540 ggtaaca 547 // ID LTR89 repbase; DNA; HUM; 879 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR89_LTR; LTR89. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-879 RA Smit A.F.; RT "LTR89 - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSDs; not similar to anything else; 35 % subst level, but CC perhaps uncharacterized subs; AATAAA signal at decent place in CC this orientation. XX SQ Sequence 879 BP; 192 A; 192 C; 246 G; 247 T; 2 other; tgttggggag gcttaaaagg gggatactca aacggaattg gggtgagcta tactgggcac 60 ccagcttaag gggcagaggt ctgcagtcag cggatatttc aaacctgcct tggcctgtat 120 tcctcttccc ttttgtttcc tctggataga tgcttttgat ggcaattctc tgccccagtg 180 acatcctgca ttccctttta tcttagagca ttttatagtc tccttttgtg attggggtat 240 agttagatag ttagagctgg gatccttcac ctttccccta tttgatatgt aggatttatg 300 taattttggt attcgtctta tctattgatg ctggacattg gggaggacac gtatggatct 360 aagcgatatc cttggtgcca agatgtcggg agcgcccgga tccatctggg gacttttcca 420 ggtgctnatg ggcgggtgct gtatgtcaca agatgccaag agcccacaag aagaagataa 480 gatcaccgga tgagacctcc gaggacaaac atctccgaat tggggagcga aggtcgcatt 540 tgcaggctcg ctcctcccat ctctcctgat aacgcccccg ctgcttatta tgggatgtgg 600 gttgttatgg tgatgggagg gggctgaact gggaggggat tgtgaaagat gttgcaatgt 660 ggaaaagggg cttaacctat ataaaccttt gtcaaaattt actcctttga gctgggcttg 720 agacgtcgca ttgcctgctc ccatgatgcc ggcgggcatc atgaggtcaa taaagtttcc 780 taagattctg cgagccagac tggtctctgt cttcnctacg ttaccctggg accccaggga 840 ggccacggct actgaggagg ggtcccggta gcggtaaca 879 // ID TIGGER5 repbase; DNA; HUM; 2302 BP. XX AC AC004067; XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate TIGGER5 repetitive element. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW DNA transposon fossil; MER2_type family; MER47; TIGGER3; TIGGER5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-81 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX RN [2] RP 1-216 RA Smit A.F.; RL Direct Submission to Repbase Update (1996). XX RN [3] RP 1-2302 RA Smit A.F.; RL Direct Submission to Repbase Update (1998). XX DR [3] (Consensus) XX CC DNA transposon of the MER2 subfamily. Bp 317-1801 are 63% similar CC to CC the GOLEM consensus sequence. Too few copies in the database yet CC to CC construct a consensus. XX SQ Sequence 2302 BP; 718 A; 440 C; 494 G; 637 T; 13 other; cagatggttc ccaacttacg atttttcaac tttacgatgg tgcgaaagcg atacgcattc 60 agtagaaacc gtacttcgaa tttctgatct tttcccaggc trgcgatatg cggtacaata 120 ctctgtcgcg atgctgggca gcgrcagtga rccgcagytc ccagtcagcc gcgcgatcac 180 gagggtaaac aaccrrtayt ctacagtgta ytrtrtgact ggcgtttctt ggacattgtg 240 tttcgcgctt ttgcatcctg tcatgtctac agtatgctca tctatgcctc ctgcttctgg 300 tgagaagaag aggaaggcaa ttactcttga gatgaaactc aagataatcg ccctgcatga 360 agacggcaag ggattaatgg ccattgcaca agagttggga ctttcacgat ccatgatcct 420 caaccatctt aaagaataag aagtgaatca gtgaggcagt gaaatcgtca gcattagtta 480 aatccactgt cacgaagaaa agagcttggc tgattgataa tatcgaaaaa ttacttgtca 540 tgtggatgta agaccagata tcgaagggca tactacttac tgatgatgcc agctagggca 600 agaagtgttt ttgattacac taaaagagtg aatgaatgtg tcgatgatcc tattatacac 660 aagtgtttat ggcaagtcat aggtgattcc agtgcttcaa aaggcatcat aattttctta 720 atgtgaaggt cagcagagag tcagcaagcg ctgatattga atgtgtcaaa gcttttagga 780 agagctgtac acgataattg tggataataa atatttccca ggacaaatat tttatgtaaa 840 taaaataggg ttgctctgga agcaacctgt caagaactta aggcattcag actgtgtatt 900 gctgcttttg ggtggaaatg ttgcagggtt caaattaaag cttttcctaa tttacaactc 960 agggaaccca agaacactca agaatgtgag caagcattcg cttcttattt attatcacca 1020 taacaagaca ccctggagga cctcagcatt gttcgaagac tggcttttga actgttttct 1080 tccacaggca agagaatatt gtaagcaaaa aacgacttca ttcaagattc ttctgatctt 1140 agacagtgct ccagggcacc cacagcatat aggtgacatg cattcttatg gaaagttatg 1200 agtttgctgc caaacacaac cacactcaac tcatggacca aggcacaata gctgcattca 1260 aagcacacta tgccaggcat ttgctccggc tgttgaagtg aatgaatctg gctgaatgct 1320 cctagagttc tggaaaagtt ttaacattct aaatgctatc cagaatatca ctggagcatg 1380 gaaagaagtc acacagcaat gcatgaatgg catttggaaa aaagttttga agacatgtga 1440 acacattcaa aggccttagc aaggttctgc tgttgatgaa acagtaacaa gatactagtg 1500 cttggagaat agctagaatt gatgaagagg atatttatta acttcttggc attgaatctg 1560 aagagctttc caatgaggag ataatcaaac tggaggaaga aagaagttga gaaagaggaa 1620 gaagttatac ctgaggcacc aagaaagtta acggcaaaga aactggcaga gatatttgcc 1680 actatcagca gtgccattca gaagttagaa gaaagggatg tcattattca caggagctga 1740 cacacagtac aggatgctct tgcttgctac agagaaatat ataatgaaaa ggagaacaaa 1800 ctgtatagtc caaacctgat gtcttcctga agaacactat gcctgctaaa ccattaacaa 1860 gtatcgatgc cccagtgcct tctcccagct actctcaggc ctcatcagaa gagaaattaa 1920 tgaccctgtt gcagtagcat ccccatcatc cagcaattaa ttttagttca atgcttcaaa 1980 cattcttcag gcccagtatg cattcacctg tgtatgttac ttaattgtga gtacccatac 2040 aaccatactg tttytyactt tcagtacagt attcartaaa ttacatgaga tattcaacac 2100 tttattataa aataggcttt gtgttagatg attttgccca actgtaggct aatgtaagtg 2160 ttctgagcat gtttaaggta ggctaggcta agctatgatg ttcggtaggt taggtgtatt 2220 aaatgcattt tcgacttaca atattttcaa cttacgatgg gtttatcggg atgtaacccc 2280 atcgtaagtc gaggagcatc tg 2302 // ID LTR21A repbase; DNA; HUM; 505 BP. XX AC . XX DT 21-JUL-1997 (Rel. 2.06, Created) DT 28-JUL-1997 (Rel. 2.06, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR21; KW LTR21A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-505 RA Kapitonov V.V. and Jurka J.; RT "LTR21A."; RL Direct Submission to Repbase Update (JUL-1997). XX DR [1] (Consensus) XX CC Putative LTR of endogenous retrovirus. XX SQ Sequence 505 BP; 123 A; 161 C; 91 G; 112 T; 18 other; tgttagggac aaactgcccc caagaaagct tcttggtgct gcccacccct ccccgcaaac 60 ctctccgcgc tgcccaccct tcccccaagc ctytttacat ttctaagccc ttatctaggc 120 accacggtga agccagcctg atagaagact tyacytatca grccttgctg caataaagca 180 aaccccaatt acaaaccatc cggaccgcac agggggaggt cgtgggaarc ataaacaaac 240 tttacctaca ccctccngta ccgtaaacgt cacaaggtga tatgtggcar aattaaccag 300 caaacaaccc cgggatgcrg ccataccaaa gractccctc aaactccctk ccccaatrta 360 aacccctcat tctgtaagct tggggctgct tyccttgact gtkawggggg cagccgrcag 420 gttaataaar gcttgcctga acttggggct ctctctctyt ggtcctttct ctcggctrac 480 cttacattct cactctctaa gttca 505 // ID LTR25-int repbase; DNA; HUM; 7188 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW LTR25-int. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-7188 RA Smit A.F.; RT "LTR25-int - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC mer4 group. XX SQ Sequence 7188 BP; 2154 A; 1513 C; 1386 G; 2053 T; 82 other; tattttggtg cattggccgg gaaagaaagg aattcatcag aagggtgagt aagagtggac 60 ntttaactct ttactttcat ttctgaggct tgtcctcagt tttttttttt ttcttctcaa 120 gaagcaagcg aaacactggg cccctgtcag ccagttaaaa gaccagtagn gtggctncna 180 gccctaaaag actnagggga caggnntgct ggagaggant ttgccaatcc cccattgccg 240 taagntgttg ggaatgttgg ctctgttcca atccagtttc ctttcacgga gggcctagcc 300 atcgtgtggg actgaaagga ggtcctaggg caactgaaga tttctggctg aggctacacc 360 tcagtgttac ctgaaggccc ttggactaac tccagtcccc gacagcccat gcagggtgtc 420 ggcacaagga cttccagtct tttctattgc attttctttc tttcttttca cggctatcat 480 gtctcctatc ccttctttgt atgcaatgtt gtgggtgttt ttgcaaccta gggatataat 540 cttgctgggt aaagtcagtc agtgtcttag taatcaggaa tgtaactcaa agaattgttg 600 tttttgtgat ttcctagaaa cagggggaat tcaagatttc agtctaaatt ttcacctagt 660 aagggccttt ctgtccccca ataatagaca ttcatggcac tgnatgggag gatatttcac 720 cctgagtgaa taccctcctt tgcatttgag ttgttttttt tcctccatgt gaaagctcag 780 cactgtccaa tgaatctaaa cagttccttt atgagacaag ttaattttct tttgctgggg 840 ggcatgctat ggggacagcc tatcaaaccc caaacntctc tttctaactt ttgcctgaaa 900 agaatttagt cagagttttt acctaacatt tctaacctta cagcaccacc tagtggaatg 960 ggatttttct ccatggggag ccttgtcagc cctctgcccc aaacctctag tttcccaatt 1020 cttttccctt ttacatccct ctatcagtga tcaggcccca tgccctatct gtagacagga 1080 aaactccact ttcaacagcc gggaggaagc catcctgaca agacagatct tgcttcaata 1140 ctatctccat caaaggaagg acagccattc aatttttacg ctctttttga ggcacctgtt 1200 ctgcatccaa ctacattggn atttaaacaa aaaggggatt ttatgtttga aagtnaatcn 1260 gtcccattct ctgggattcc gatntttccc tggggccata gcaagggaag ccagagatgg 1320 tgttaggaca ctccctccat taaagtnttt gcccaaatcc aactactaca taatctctcc 1380 caggcccctg gggtaccttg ggagcctttt gggccgagtg ggtctaggaa accagcaggg 1440 tggaaagcta gggtcttgcg caggtgagca catgactagt cctgccnact agctcctccg 1500 gatccatggg tgaaggtcat gcttgcatcc atgggtggca cctatgacgg tcgccgggac 1560 ccagaggaca aggaagtgaa gaggagaagg gggatgccct ttctctcttt ccctccaccc 1620 tgggtcacnc agaagggaag aaggagactg aggaacgcct ttgtctctcc tctttttcta 1680 gatgggtaac aaaccatctn cagtctgcac tcccctcnag tgcattctga aacactggaa 1740 ctcctttgac cctgagactc tgaagagaaa atggcttata ttctattgca caagggcgtg 1800 gccatcttac caggggagac agaaggcctg gccttctgag ggaagtnttg atttcnacac 1860 tatccaacaa ctagatcttt tctggtggga gggaaatggc agttccctat gtacaagctt 1920 tctttgccct gtgagacaac ccagatcttt gtaagcattg taaagttaac cctgccctct 1980 tggcagccat gtcaggcaag cctacaaagg ataattcccc aaagtcagag agacaaaccc 2040 ttggggaacc ctcaaatgca acttccgggt gccctacctg ccccncttat ttngggcccc 2100 caatanccat atcatcagct cctccggttg tgccactnaa gaaaccccna cattcgctgt 2160 tgcccctgca gaaaatgccc aatggacatg gtgctactag ggttcaagtt cccttctcat 2220 tgcaggacct tagacaaata aagggggacc taggcaagtt ctctaatgac cctgatagat 2280 atatagaggc tttccaaaat ttaacccaag tgtttaatct tacgtggaga gatgctatgc 2340 tacttttaag ccaaacccta actgttacca agaaacaggc agccttacag gcagcagaaa 2400 cattcagaga caaacagtat ctcctatagc cagtcnaaaa gaaacccagt caaagttaaa 2460 gaggtgaaaa agagacagaa tccccattcc caataggaag agaaacagtg ccccttaaaa 2520 atcctaattg gagccccagt gatcccatag atgagtggaa aagaaaacac tttctgatgt 2580 gcatactaga aggcttgcaa agaaccanaa ccaaacntct taattactct aagctntccn 2640 tgttaaatca gaaaccagat gaaaatccct cagcctttnt ggaaaggctg agagaagctt 2700 tagtaaaaca cacctccctg tntcccgatt caataaagaa caggtttatt actcaggcag 2760 cccctaatat cagaaggaag ttgcngaaac aggccctgtc caaanatctt tctagntttt 2820 ctcatcctca agttgaaact ttgcagtatg taaataacac tctcctctgt gccccaactg 2880 aggaggtctc aggaaggcac tgaggctctc ctcaatttct tagctgaaag ggaatatagg 2940 gtctcaaaat ctaaagctca gctctgtcaa acttcagtaa agtacctagg tctagtctta 3000 tcagaaggga cnagaacacc gggtgaggaa agaattaagc ccattttctc ttttcccttt 3060 cccaaaactc ttaacagtta aggggattct tgggcattac nggattttgc agactgtggg 3120 tacctgggta cggtgaaata gctnaccctt tataccacct cataaaagaa actcaagcag 3180 ctaaaactca ctccctaact tgggaacctg aggctcaaaa gcctttaacc agctaaagca 3240 agccttactt aaagcaccng ccctcagtct tcccataggg aaggcattta atctttatgt 3300 ntcagaaagg aagggaatgg ccctgggagt tttaactaag gctcaaggtc cagctcaaca 3360 gccagtgggt tacctaagca aggaacttaa cttggtggct aaaggatggc cagcctgcct 3420 ccgagcagtt ncagtggtgg ctttgctggt gccagaggcc actaagttaa ccatggggaa 3480 taacttaact gtttacatcc cacacaatgt agcaggactg ctgtcctcta aaggaagtct 3540 ctggctaaca atcacctcct caaatatcaa gctttgctgc tagagggatc tgcagtccag 3600 ttaaaaacct gcccttgcct gaacccagcc actttctccc agaggaaact ggagaacctg 3660 aacatgattg tgaacaggta gtggtgcaaa ctggtaaaag aaataagaag aatcactgtt 3720 tatattctct gtaaagtttt aattaataaa taaagatttt cttaaagngc actcagctta 3780 attaaaagtg gatatccaag ctataggtat attcaaaagg cctttatgtt tttctcttca 3840 taaatcttgt tttcctggaa gaggnttttt tctcanttga ctgaattact tttntccact 3900 ctgtcttgcc actgttggtg catgcatgga aggccctaaa ataacttctg gtggcctggg 3960 actcctcggg aaaacagaaa aggcaccaca gatcccattt tggaaaaaat ctctgttttc 4020 ctcatggaac ccctagaatt agaggtggat aagtccctct caaaatctgt ttttgtcttc 4080 cagctatgct tgtttattag gccccggaaa ctatattcct agccctgttc ttaaaaggcc 4140 tcaaccagag gccaataatc caattaggaa actggcaaac aaaaaatcta tagctactgg 4200 atcttcttct gtttgtctgg tggttatata tgtgntgtgt gtgatgtcta ttaaaaaanc 4260 tctaattaat tggcntanaa ataagcactt aaataaaata tttttaagaa aaaantaaag 4320 gctgtagtgc ctctcggttc acgtaacttt aatntttaag aaataaaaac gtcttggaga 4380 ttnttggtaa aatacaaacg tcttcaagat gtaaanaggt ggtctaaatt acgcaggtca 4440 gatactaggt ttgctaaatg ttttaaggtt gtaaactgct tctttggcct ttaagaactg 4500 tcaacttgcc tgcttcacaa tnggtaaggc ctggggacat atggaagtaa ccacgcccct 4560 aactatactg gaagaagtca aactttatct gcacctagca cataattaaa acaacttacc 4620 aggttttaca ttaaagttaa aattactaaa agttaccatt ataacatgta attgagacta 4680 ctgaaaatgg atttgcatgc aaggtgtgta aaaacagtaa aatgttttta gtaaaagatt 4740 ataagaaggc atagaaatnt acattttgcc taggagtaaa agattgtctt aaattaaata 4800 aagtaaaagn tttaagcaaa ttgtggaaag actgtaaaaa ttaatcttgc aaangaaact 4860 ctgtntgtna anatattaac taaattcaaa aggatattat atggttttcc tttaaattaa 4920 gcattnaaat aaaagcacaa caaggctttc ttaagatgct aatctgctct ttagcaaaat 4980 ttntaaaggg ttataaaagg tttgtgaaaa tctnacctca tggtcaaact ggttaagatt 5040 aaatagaatt gtctataaga tttcattaaa aattgggatt aacattaata gtaaactaat 5100 gcaagggtga aatttggctt tctctcttga acagaatttt tatgtaatan taaaggctaa 5160 tgaaaggttt ttgctttttc aaatttttga gtcatcattt tggcaaaaca aataacttat 5220 ggtaatctaa aattctattt cataatatca agtgttttaa aactctaaca tatttaacag 5280 acttcccaaa atnaaacttc agtttcaagg ttgtctttcc tgacccctgg cttttgggtg 5340 ctacagaggc ccctagaaca tccaaaagaa aggcaaacag gattatttaa catgtttaga 5400 tacatgggat tgccaaaatg atgtctaatt tcttcaggtt atatttcagt aaataatatt 5460 aacatatgtt ccaaaactgt atggaatgtc taaggttcta atgtntgaat atgtgctatc 5520 aattacaatt aagnttatta tgttgggtta ttgtaaacca cagaaataac caaatttctt 5580 tgtcaatcgt gtttctgact gtaaccatcc tggacatttt gtcattnaca gacaattgtc 5640 ttgttttaat cctcttcaaa aaatggttta taatcagctg tgggacttta acaggtgctc 5700 tcaaatgcag gtttctgata acagaaaaac gtacagaact cataaaaagc taaaatgttt 5760 acgaatatca agcagaacaa gagttaacga aatagactaa actaatagaa aactaaagca 5820 atgtttttaa cttttgcttg gaacattgct gatccttatt ttgttttttt caggtnagga 5880 aacttttgag ctagctanag cttttaacaa ctgagcaagg tatactcctg taaacaaaat 5940 ttggaacatg tttgtttctc tctgcctggt tcttctaaaa ttcagaaact agttgtgagt 6000 attcttaact tacaacaata tagttgtttg catcagtgca acaaaatcca ttttcttttg 6060 caacgagaca caatngaaaa atgctggttg ttttaccaag gctttgactg gaagggtgtg 6120 tttcccttta aggaatcaag cttgacttgc aaagccaata aaagcccctt gggaaaactg 6180 gcctcatacc ttgtctacac agtccccgta cagggttcct ggcctgtggt gagtaaagaa 6240 tgtcactttc taacaggctt agaaacctat gctcttggga cctcaagaag aaaggagttt 6300 acccaactca caggtatttg agggtacaaa tccatggctn ggcccagctt taaaaagtcc 6360 tatctaagat tccttntgga acagagttcc atcaaagcca atcaaaaagg cctatgtaaa 6420 gataattatt cttgctgcac tttatgcaaa taatcaggcc aagtataana ctaaagtcta 6480 ttttgcaaac aattcagtct atcgtgantt gtttttaaca aaaatgagga ctaaagagaa 6540 agaaattatg tttcaaanct tatcatacat ttgtcattaa cttctagtct cattagttgt 6600 ttttaagttt ttgnctacat tttaaactaa ccctgcttat tcctgtaagc caaccagcaa 6660 tctccggctg cagctcagaa aaacagaaag ggatgggtaa tgtaaaaatc tagatcaata 6720 ttctagttct gggcaattat tctgcaaatc ctgccgggta atggaaataa atagggtgcc 6780 cataacccag aggtttcctt tntcagaaaa gtaagaccaa ggaagctaac caaagccaag 6840 ccccatgcac ccaaatctta gcaggcataa ctatagccac cagttatcag ggcgtgtcag 6900 cagcctcaan atttttaagc ttgtccttac cccccttgtc tcattttaat acatgtcctc 6960 taataaccca aattgtttct tttcacctaa aagctatcaa gctccaaatg gtaatgcaaa 7020 tggaaccatg cataaacacg cctttcttct gaggacactt aaaccagccc cgggaggaat 7080 cctagctgct gttccctaca caacacccct ctccagcagg aagtagccag aaanatcaat 7140 gcccaatctc cctaacagca gttagggtct ccactcctga ggggggac 7188 // ID HERV18 repbase; DNA; HUM; 6053 BP. XX AC . XX DT 01-OCT-1997 (Rel. 2.09, Created) DT 01-OCT-1997 (Rel. 2.09, Last updated, Version 2) XX DE Endogenous retrovirus HERV18, internal part - a consensus. XX KW Endogenous Retrovirus; Transposable Element; HERV18; HERVL; LTR18; KW retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6053 RA Kapitonov V.V., Goremykine V. and Jurka J.; RT "HERV18."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-6053 RA Kapitonov V.V. and Jurka J.; RT "HERV18."; RL Direct Submission to Repbase Update (OCT-1998). XX DR [2] (Consensus) XX CC HERV18 is flanked by LTR18s. CC This endogenous retrovirus is related to HERVL and MuERVL CC retroviruses. The basic difference is that HERV18 encodes CC a normal env protein instead of dUTPase encoded by HERVL CC and MuERVL. CC Internal portion of HERV18 DNA consensus sequence (position CC 1930-4300) is about 60% identical with HERVL (position 2269-4695) CC and MuERVL (position 2269-4621). CC In spite of the lack of significant identity on the DNA level CC between CC gag portions, HERV18 encodes gag protein (nucleotide position CC 456-1356) similar to the gag encoded by MuERVL. CC Pol protein is most similar to the pol proteins encoded by simian CC foamy, gibbon leukemia, Friend and Moloney murine leukemia CC viruses. CC HERV18 env protein is similar to env proteins encoded by type D CC retroviruses (including simian Mason-Pfizer retrovirus and avian CC leukosis virus), HERVR and HERV3 endogenous retroviruses, CC Gibbon and Feline leukemia viruses, myeloblastosis-associated CC viruses, CC and Simian sarcoma and Rous sarcoma viruses. CC HERV18 env is similar also to the virion spike glycoprotein CC encoded by Ebola, a single strand RNA virus. XX SQ Sequence 6053 BP; 1394 A; 1558 C; 1782 G; 1318 T; 1 other; atagtcagca ggatcccgag gtgagtgagc cttcggcccc cgatgatccc gggtcggcca 60 tgtggccgca gcatgggttg tggtacccgg tggcagctgt gctgctagga tgggctccag 120 tggaaacatg ggcggcggtg gacgggtccc ccatgagcgt ggagaaggcg ctgaagcacc 180 tggaagcgca gagcaccgag aaggagcgtg cctttgccgg cagagtcgga tgggcatttt 240 tgactgtgct acaggaagta catgctcagt ccctgcggga tgcagcacag gtaagggacc 300 tccaggcgca agcggagcgc ctggaggccc agatacacag cttggaaaaa gacctggrgg 360 taagggacct ccaggcgcag gcagggcgct tggaggccca gctacacagc ttggaaaagg 420 aattagaggc tgccgtgaat gcaggcctgg gcccgtcatc ccggccagag acccccactc 480 ggtctgatac cgaggaggaa gaacccccgt tgcgggctca cccagtggtc cgtcagaaag 540 tagagcatga acagccgttg gggccccaag ggcgggctca gggaccccct accatgatgg 600 aacacacttc atatagtgcc tataccccaa ctgagttgcg ggaattaggc aagcagtgtc 660 ggcagcgttc gggggaaccc ctacccgcct ggatgcttca cctttgggac gagggagctg 720 acagtatttt ctgctccacc tctgagatgg aaaagctggc ctccattatg actcacccct 780 ccctccgtca gtggttgcag gtgagcaggc agttagcaca ggggcaaggc gaccacaccc 840 taattgagtg gctgatggca gccatacgaa cggtatggaa cgatgctgga gaaataccag 900 aaactgtgag taaatggcag tcatatacag atttggtgca agtaattcag gagatgggta 960 tgcggcaggc tatgtttgat ctgaataccc gagggccaga tgatgaacgc tttacctccc 1020 acatgaggga tcttgtgttg ggctctgcgc ccccgagtgc cttcggctcc ctggccgctg 1080 tcctcacccc gtatgtgggg caccacatac atgaggtgac tactgccatg gcggccctca 1140 gggaagcaga aggccatcgg caggaccggg gagtccgcgc cataaagaag gggaaggcgc 1200 cccctccaca gggggccacc ccatgagaca aaaaggggcc ccaacgggtg actcgcacgc 1260 agatgtggat tgatttgatt ttggctgggg ttgaccgaga gaaaattgat aagcagccca 1320 atgaagtact gttaactttg tggaggcaat tgtccccaga gcagcaattc cagaaaatgc 1380 ccaagagggg gaaggacatt gctgctcgac ccagtcccgc ccagacgctc cagctcaagg 1440 actacttgct gcagccaggc ggaggtatag agccttttct gtttgattag ggaactggcc 1500 gaggtgcccg gcttgggggg acaccggacg accggaggcc acatgtggaa ttggcaatcc 1560 actggtcccc caccaatgta cagtgggtgc tggcgctggt agataccggc gcagattgca 1620 gccttgtcta tgggaacccg gataagtttc cgggcaaggc tgcatatatt gacggctatg 1680 gaggccggtc agtgaaagtg aaacctgtat ctttgcacct tggcatcggc cgcttggctc 1740 cccgcttata cactgtgtat gtctctccca tacctgaata cattctgggg gtggatgttt 1800 tacatggctt ggctttacaa accatggccg gagaattcag actccaagta cgtgtggtta 1860 agccggtact gcgtggacat acgcatcacc agccccaggt cctgccacaa ccccgacggg 1920 ttacttccac tcatcaatac cgcttgccag gtgggcatac ggagataact gagactatta 1980 agaagttaaa ggaggtgcag atagtgcgtg gcacccatag cccctacaat tttctggtat 2040 ggccagtcag aaagcctgat ggaacttggc gaatgacggt ggattatcga gaactaaata 2100 aagtaacacc ccctttacat gcagctgtac catctatcat ggatttgatg gaccgcttga 2160 caacggaatt gggacagtac cactatgtgg tggacttggc caatgcattc ttctcaattg 2220 acattgctcc agagagccag gaacagtttg ccttcacatg ggaagggcga caatggactt 2280 tcacagtgtt gccgcagggc tatatgcata gccccaccat atgtcatggt cttgttgcca 2340 cggatttagc cgcctggaaa tgtccaaagg gggtccacct attccattat attgatgata 2400 ttatgttaac ctctgattct cttgcagatt tagaagcggc ggcacccctc ttgcgacaac 2460 atttggcagc atgcggttgg gccgtcaacg aatccaaggt ccaagggcct ggattgtctg 2520 ccaaattctt gggagttatc tggtcgggta agacgaaggc cataccagag gccatcattg 2580 ataaaattca ggcatatccc cggcccacca tggtgaggca gctgcagact tttgtgggcc 2640 tcttgggata ttggcgggca ttcgtgcccc atttggctca aatgataaaa ccattgtatc 2700 agttaacaaa aaagggagct gcctgggatt gggatgatga ggctgagacc gcctttctgg 2760 cagccaagcg ggctattcag caggcacaag ccctacgggt agttgaccag gggcgcccat 2820 ttgaactgga tgtgcatgtg accacagatg gttttggctg gggcctatgg cagcgcacgg 2880 agcgcttgag aacgccagta ggcttttggt cccaactttg gaagggagct gagctccggt 2940 attcattgat agagaagcag ttagcagctg catatgctgc ccttcaggct cgtgagagcg 3000 tggcaggatg ggctacagtc atcgtgcgga tgacttaccc aatagcggga tgggtacgtt 3060 catgggtaac gaccccccag actgggacgg cgcagacatc cactttagca aagtggggcg 3120 cctacttaga acagcggagt acgctgagta caagtccctt agcagcagag ttgcaagagg 3180 tcttgggacc tgtagtccta atgcaagata aggccatggg gcctgaggca cccctagacc 3240 ctgagccttc accgtttaag gaagggcatc cccccattcc tgatggggca tggtacacag 3300 atgggtctag ccggggtgct actgctgcct ggactgctgt cgcagtccag cctagtactg 3360 acaccatatg gtttgatacc gggtgtggac aaagtagcca atgggctgaa ctcagggcag 3420 tgtggatggt gatcaccaag gaggtgacac ctatggtaat ctgcaccgat agctgggcag 3480 tttatcgagg cttaaccttg tggttaacta cctagaagtt acagaagtgg ctagttggtc 3540 accggcccat ttggggccaa gccatgtggc aagacctatg ggaaatgggt catcaaaaag 3600 atgtaactat ttatcatgtg tcaggccata tgcctttggc cgcccccagc aatgatgagg 3660 cagatgcctt ggccaaggtc caatggttag agtcggcatc tacatgagat gtggccttgt 3720 ggctacaccg gaaactggga catgcggggg gtaaactgat gcaacaggtc aataagtgct 3780 ggggtctgtc tttgcccacg caagacattt gggaggcctg ccagaagtgc ccagcatgcg 3840 ctcaggcata ccctagacgg agacagctgc ccagtgttac acaacaagtg acggtagggc 3900 ggatgccctt gaccagatgg caaatagact acattgggcc gctgccaaag tcgcaggggt 3960 atacacatgc actgacggct gtagacatgg ccaccagcct gttgttcgcc tacccttgca 4020 gggtggccga ccaacaacac accattcagg ccctgcaaca cttatgtgcc ctatatggtc 4080 gtcccctggc cattgaaagt gataggggaa cacatttcac tggacagcag gtacaacagt 4140 gggcacaaca gatggacata aagtgggggt ttcatgttcc ttacaactcg caagccgcgg 4200 gtatgattga gtgatataac ggactcctga agaatgggtt acacttgcat gttactcccc 4260 cgtctttgcg gggctggagt tccaggctgg acctggtgct ccaaatcttg aatgaatggc 4320 cacggaaagg cggcccagcc ccagtggagg cactgttaca ccgggccgcc gcccctatcc 4380 agttacagat acacaccaag gatgacctcc tccgaccagg tatggggaca aacggtaacc 4440 tgttgttgcc tgccccaacg cccctgaagg caggggaaca gaaaacctgg ctgtggccat 4500 ggaccctcca agccccccat tgccgatggt tggctatcgt agccccctgt ggggagggcc 4560 tacagtatga cttacatgtc actccttggg tatttaatgt atggcctccg cgattgaccg 4620 ttcatagggg aatggccagg gaaggaaccc tcctccgggg gacatatgta ctgtctgtgt 4680 ggcctattat gagctcccct gtgactttgg cacggataca ggacccaaag gaaccatggg 4740 gagctgagaa ggtgtggtac cattgcccag ggcagaagcc cttggtggct gcattgttat 4800 ccagggatga aaggttggcc tgtattttgc ctgagggacg tgatttaccc ctgttagtac 4860 ctgtgcctgc tttgtcattt cgaccgtagg ttgacatgct ccaacagcat tgtggactgg 4920 gcccacacct acactgaggt gaccaatgtt tccaactgtt ggatctgcac cgcccttcca 4980 gcagcagctg cggatggctt gccctggcac atacatccag cttctgcgga gaactggaca 5040 tggctagaga cttggggtcc catggccgac ggttggaatg caacacggca agctttggat 5100 agggggtgcc gcaaaaccca cattgcaatg cctgccccct ggctgaccca tagcatttat 5160 gatggatggg gctggctagt gggagaacat gtggtgcccc cagcgcaggc accatgatgt 5220 atagagcaac attggggtaa tgtcaccgtg gggtggttgc ccgccacagc ctgtgcaaac 5280 ataacacatg tcaccacacc aaaggtgtgg tggaacaagc ggcctcacca aggctgggcc 5340 ccgatggact ttgtgccccc tgggagttta tgggtctgtg gggacacagg atggccatat 5400 ctgccagcga attggactgg atgttgtacc tgggggtggc cttatgtgcc tgccactgtt 5460 cttcccacat tgcctaggtg cccgcataac tgggaggcgc tacgttcccg gtttttgcga 5520 gtgcgacgag ccccctggtg gttctacccc ttagcagtaa ctatccttgg agcgggtgtc 5580 atcactgtag aaatgcaagt tacagccctt gcagagcaca cagctcaggc cctgaattac 5640 acccgagttg ccctccttct gttaacggat gaggttgatc aaatcaggaa ggtggtgctg 5700 caaaaccgga tggtcttaga catagtaact gctgcccaag gtggcacctg tgccctttta 5760 ggaacacaat gttgtacctt tatccctgac aatcaccaga acataacagc agctttgcaa 5820 ggggtgtcac aggagattaa ggcggttgag agccttactg atgaccccct gcagagatgg 5880 tgggcatccc tgggctctgg cctacgctgg gccctaataa tcataggtag catagcggga 5940 atattagtgg tgagttgttg ctccctgtat tgttgctgtg gcctatgggt ccagggttcc 6000 accctatggg cacgtgtccc cactaggagg actccctcgg cctagggggt gga 6053 // ID MER22 repbase; DNA; HUM; 1563 BP. XX AC X04912; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human SSTI moderately repetitive DNA sequence family. XX KW MER22; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1563 RA Epstein D.N., Karlsson S., O'Brien S., Modi W., Moulton A. RA and Nienhuis W.A.; RT "A new moderately repetitive DNA sequence family of novel RT organization."; RL Nucleic Acids Res 15(5), 2327-2341 (1987). XX DR GenBank; X04912; Positions 1 1563. XX CC A strictly tandem repeat, appearing at 2 chromosomal locations CC only. XX SQ Sequence 1563 BP; 245 A; 511 C; 516 G; 291 T; 0 other; gagctctggg cttccatacc tgtgtgggac agggaagctc tctcggtctc catggcccaa 60 gtgatggctg cacgctcggt ccaggaagag gcggaggaag cccaccgctc ctgacattgg 120 ccttctagga aaggcggtgt tgcatcccac ctgcacttcc tctctgattc ttgagggcca 180 accgcttcct ccgctcctgg ggaaagtgcc ttctagcacc gaatcttttg gctgccacgg 240 atgtcaggga gccaacggga ctgggttttg gctgggtgca ggggaggttg cgtcaggggt 300 actagccggc ggcgggctgg gggtggggtg tactttgtcc aaactcccgg ctcctctggc 360 gggcctccct gaacgtggcg tggactcgcg cacaggccct gtctcgcagg ttttcaggtg 420 cgcttggctt ttcctccgct ttgtggggca ggtctccagt gcccccggcg cacgcctgga 480 catcactgtc cgtctcgtcg tcgcccctac ggcctcaaag acacacgctg cctgcatgtg 540 ctcttggggg acgacagtgc acatgtggac acactggctc cagctcggac tcgcctctgt 600 ctctctttgc ccgtgtcgcc ggaagccgcc tcgggttgcc ggagccctcg ggccttggag 660 atgaaggcag gcccctgctc ctgccaggaa ggagggaggc agtgggctca tgggtcggtg 720 cctttgcagc cgacagcacg tgcggccctg gggatcttcc tgtgccccgg cgagaccctt 780 tccgcctcac tgcattggaa ccccattccc gatcacccgc tgggatccat catcggactc 840 caagaggagt ccgcgcagcc agccggcacc ccgaagctcc tccttcagcg ggaaccgaag 900 cagaagagcg atcaaggagg tcctcaccac aggactccta tgggtccgac cctgggtctc 960 ccgcaggccc ctctggcagt cctcttccca cccgccgcct cggcttcgcc gccgccgccg 1020 caacctccag caccgccccc caggccccgc agccgccgtc gccgccattt tttaaagggt 1080 cgcagcctga ctctgcggag taaggggggg tggagcgggg gagtcgctcg ccagcatgcg 1140 cgagcccgag ccgccgcttg ggtcacagtg aaagccaccg ttgcccgggg atgggtccct 1200 gacacttggg gaagtaggag ccctgtgtga tcgtgcgtct gagtctgggc tgagaccagt 1260 cctggccagg gcagttacca ggacggtctc ggaggccggg attcgcggag ggtccagcag 1320 caggaagaaa ccccaggagg aagaaacctc agacagatcg ccggcgaggc agcgcgggat 1380 cccagcctca ggcgtgcgcg gacggtgtgc gggtgagtct ccccaaaagt ggagcccttg 1440 tgatgacgag cacaggtccg cctgcgtgcc cgtgggcggc tctctcaccg gtggctctca 1500 gtcgcggaga gcagaacccg cagcttcagg ggctgctgcg ggagggtgtt ccctgctgta 1560 cgt 1563 // ID MamRep605 repbase; DNA; HUM; 876 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Interspersed Repeat from mammals. XX KW Transposable Element; Interspersed repeat; MamRep605. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-876 RA Smit A.F.; RT "MamRep605 - Interspersed Repeat from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC rnd-3_family-605 An oldie, 25% div (31% subst) even in dog-human CC ancestor. Termini unclear, but likely not far from current CC edges. XX SQ Sequence 876 BP; 240 A; 194 C; 208 G; 222 T; 12 other; tattggtaat aganactgtt gtcagtactt gggggcnaca gtgaggtatc ccccaagaac 60 ttggaaataa gggaaataag attgccctct gagagttaaa ctataaaatc aacacataat 120 ggatcagagc agagatatgc aaagtcacct taaagagaca gaatggctcc caggccagca 180 agacttgact gtaacctgat tgaatgtatt aacatatcta aagaaagaat gtgtcaatca 240 gaagggaggt tggtcagcca tggaagcata gaaaaaggag agtcacagag gcaaacgttg 300 gcagtgccca tccaagcact gtccagggga gagggagcct tggccaatgg acttcgagta 360 ttccggtccc attggcaagg ccatccctac tgtggagatg gatgcatcag gctatcttag 420 cctgatgcca ttaaacattc gantcatnta actaactccc cttgttctga ttccatgctc 480 accaagcaac cttctgatta taatttggct tcccatgtag gtctgcctac agggagagaa 540 tgngctggtc atgcngacnc gagtattctg gtccncgtga cagttatatt tctcattgta 600 aattaataaa ttggcattct ggttttatac atcagtctct tgtgagcttg gttaatgtga 660 gtccgcccct gagagatgga tccgctctcg gtgtgctgac aaaatcaggt ttctgagcct 720 gcaaggctga gggccagacc ctggaccgtg gtaaattcac caaggtaatg aatgccaccc 780 tgtgaggcct cttgggagac agccagccgg cctttcccct ggtgacactc cantcnccac 840 gntnttgcca ttggcatttc attttaaatt ctaaca 876 // ID CER repbase; DNA; HUM; 384 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 02-OCT-2000 (Rel. 5.09, Last updated, Version 3) XX DE Human D22Z3 repetitive DNA (centromeric DNA) - a consensus. XX KW SAT; Satellite; Simple Repeat; CER; Satellite repetitive element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Metzdorf R., Goettert E. and Blin N.; RT "A novel centromeric repetitive DNA from human chromosome 22."; RL Chromosoma 97(2), 154-158 (1988). XX RN [2] RP 1-384 RA Jurka J.; RT "CER."; RL Direct Submission to Repbase Update (02-OCT-2000). XX DR [2] (Consensus) XX SQ Sequence 384 BP; 76 A; 96 C; 93 G; 119 T; 0 other; cagaacactg ctgctgggtt ctgagtgttt gtccctcaca taggattcca gaacactgct 60 gctgggttct gaatgtttgt ccctcacata ggattccaga acactgctgc tgggttctga 120 gtgtttgtcc ctcacatagg attccagaac actgctgctg ggttctgagt gtttgtccct 180 cacataggat tccagaacac tgctacgagg ttctgaatgt ttgtccctca cataggattc 240 cagaacactg ctgctgggtt ctgagtgttt gtccctcaca taggattcca gaacactgct 300 gctgggttct gagtgtttgt ccctcacata ggattccaga acactgctgc tgggttctga 360 gtgtttgtcc ctcacatagg attc 384 // ID MER21I repbase; DNA; HUM; 4191 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Primate MER21I repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 class; KW Internal sequence of retrovirus-like element; MER21; MER21I; KW MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-4191 RA Smit A.F.; RT "MER21I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of a common non-autonomous, MER4-group CC retrovirus-like element with MER21 LTRs CC Bp 64-2450 are 84% identical to bp 3085-5243 of MER4BI CC Copies are on average 16% diverged from the consensus sequence. XX SQ Sequence 4191 BP; 1236 A; 787 C; 1082 G; 1001 T; 85 other; attggtgtca gtgaagcggn atttgctgga acagccctgg ctcatagaaa catgtggttt 60 gggaagagaa aggataaaag ggtgggggat gaggaatctt tgattcctnn gtggccacgt 120 ggtcacccat ggtatgaagc tgcagctgtg ctgngatcag ttactaaagg taaaagttac 180 cagtggaatt tagagatgaa cctaactccc ngggagttgg ttcactggat gcataaggaa 240 atgcaaacta atatgaaaaa agcaaaacat tcaatccctt ggttattgtt atctgtaata 300 gctaaaatga aantaaaaga gagcactggg tcgggccttg angctggacc aagctcagat 360 ntcagtcngt ctgagctcag gccactagcc tcaaagccac ccccaaaggg aaaaattatg 420 ccgggacaac agaaagtatc tctaagacct gtggttacca agaaggtagt caatgtgggg 480 gaagggcaaa accaagtaac tattgaaacc agagggtata gtgtgaagga agtgttccat 540 tttgtagatt ngtatcatca gcttcctgag gaacctttac taagatggat tgtgagagta 600 actaattggg ggcgatatct ttggttttaa acgctgcaga gtagaaagag cacgtttggg 660 ctgatgcagg acccagagct cannactgag ccactgaaaa cggntgtata nggtccagac 720 acacaggagg ttattcctga gggagcagcn agcctngatg gactgnataa aagccactgt 780 anancctgtt taccctgaga aaggggaact gtccgactcc cnctntaaat nccaagtgga 840 gcactccaga tgaggcagct gatatgcttt ctatacaagc catgcaggac tggctncatg 900 atganaggga tattcgcnca ctggatatnc ccgttaccca ggtcatggna aatgctgtgg 960 ttangagggc cccttctgtc tgaagacacc cangnagtct tactgctgca gaaccgagca 1020 agagttccgg gaagcctngt cgnatttncc gtctcaggtt ccgctcacgg gtctnacaga 1080 tgctaataaa aatactaggt taattaataa cagaatgggg acaggcagag ggaagagtca 1140 aganactcat ccagcgggan agaaattttt aaacggttat taanaaatgg gatgaaaaaa 1200 tanactattg ataggatgaa agnaagagga aagagtcaag ggactcgtcc tagcgggatg 1260 gaaatcttca gatggttatt aaatggaatg aataagaaga aattgatggg gttaaaacaa 1320 aggtcttaac acagcactag tgaaaactgg gtggaccaan gggagcccct gctggtscct 1380 caacattaaa gggccccaaa caantctgct ntatttacct cagtttggag gaatttngaa 1440 agccggaagg caaagattac aangagaaac ccgacctgaa attgcctggg gcaatagtca 1500 ggcagattaa tcaaggtaaa gattgacaga agggccagag tcccttggtc agacctctgg 1560 ctggggaccc aaagcctctt ttntacgcaa gagagggtaa aatggtcngg gggtggagaa 1620 gagaagttcc tgggactaga acatgaaaac gtgagagttg atagaattat acaagttggt 1680 atatttgaac angctttatg tgaagtggtc gtgtctcctt tacctgantg tnttatggga 1740 atggacattg tgtctgactg ggaaacgctt cccctaccta gtaccgtaaa acagaaagca 1800 tgtaaatccg ccctttaagc aatattaatt ggacacgcta aatgggaacc agtaagattn 1860 cccgagccca cacagtgcag agcagaagct ggagtgctgg tagggacaaa ttctccattt 1920 aatagccctn tgtggagtat ttactggagc ttacggcaaa agcctatgag cgcctcccag 1980 cgataactac tgggantttg gactagagaa tttccacttg aggngcactt actgccttgc 2040 tatgngacgt taattgaagc tacccctatg gctgaaggac ataaaatgat tttgaaacct 2100 gaaataccaa tactatgtca ttgatactgg gatgtcagag aaatnctcta acggaatggc 2160 agtgcccaga agngttccat aataaaatng aaatggttta tacaggatca tgctacccgg 2220 ggaatgcaag aagaaaacac tcacgagcag ggagcctctt tacccctagg actgactctg 2280 gaactgtgtg aggtgctgct ggattctatc gacacttgga cagtgcccta taaacagctc 2340 tcaactgacc aacaaagagc tgcttggttt atggatggca gttccaaggt gaacgnacaa 2400 catcctattt ggaaggctgc tactttgatc aaagaaggta aaaacagatc agcctggtgg 2460 gctgaattgc atgctgtttt gaaatgaaag aatngaanag tggtaaaagc ccctgtgttt 2520 gggtttttac tgactcacgg gcagtggcca atggctggcc acacggtcag gcaggagggc 2580 aatggaaacc tggcttatta aagggatgcc catatggggc atggccctat ggaaatttga 2640 tggagtgcat taaagtagaa cangtcaatg cctatcagaa gagctccctt ccaggttcag 2700 aaggtgactg gaattgacaa gcagatatcc ccgtgtgctc ccttgaggtg gccacctggg 2760 tccatgaaat gagtggatat ggggtactgc agcaatgnag agatgaactg aatctagaca 2820 tgtttctctt acaccctctc aggcacataa taccagtaag aactgttctg tttgccngca 2880 agagagacag agactgccga tggctatagg gcagattccc tggtaggaag gccgtgaaca 2940 cagctggcaa ntgagactga tgccagtagc cctgnggggg ctacaaatgg gtcttgacag 3000 gaatagacac cggntcngga ctaggctttg cttacccagt ggaagntgaa aatgcttagg 3060 gtgctataag aaaaccagaa cagaagatat tgcatngatt tggatggcta ancatcattt 3120 cttcagaccg aggaacacac cntacagccc ataatgtcca acaatgggca gagagatact 3180 ctcctcagag taatggtttg atagagaagt agaacaggca attaaaacat tggttgtcta 3240 aaacaagggg agntaaaagc atgaagggnt ggcttacgcg ccttcacgag tgtgtgctca 3300 cactcaacat gagtgggact agagtgtccc cgctagattt ttcagttttt ctggttgatc 3360 tggggaagag ggggtgagga ggatgctggt atgactatgc aattcttgcc aagggaggag 3420 tacgctggta taangactat atttttttct tttttcccca tatcacctca aaaaattttt 3480 tttcttctcc tacctgacgc agtggtccta ggaccagggc tgcaactaca agtgccggaa 3540 gcagggatga tttctaagna agaaactgta actatgtttt taaagcctta tgtcagaatt 3600 cctaaggggc ctgatggggg tgggttgtgc cttcacccca tctggcaaaa ttggggttaa 3660 nagtgaatgc agctatattg cctggtggta aaaatagccc gtagttctgc accttgtaat 3720 accttatntg aatgngagtg gactgagggg gaggcacttg ctagactagt attgctgcct 3780 gcaatctaga ccagcacagt ggccgattct aatgtccctt ccaaaggtga aagcttgggt 3840 agatattaat ggagaaagga ggaataatag ctgagggtaa agaaatgaat aaatgggtta 3900 tgaattgagg gaaatccaat attacattaa cacctcgaaa gaggctcaga gcaagagatg 3960 acattgtctc ttagctcaat tatnccagat gcctgaaagg gtgaagctat gtatttgctg 4020 agaccactcc tgcttttgga acctgacaag attgaatgga ancctgcaaa cctnagtggc 4080 ctcancctgg gagacattca tacaatatga tggactggac taattattaa tgattgtata 4140 aatccttgtt tcgntgtaag ggattcagtg gttggaaanc agggagtggc c 4191 // ID HIR repbase; DNA; HUM; 319 BP. XX AC K00580; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human HINF family repeat DNA. XX KW HIR; Tandemly repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-319 RA Shimizu Y., Yoshida K., Ren S.C., Fujinaga K., Rajagopalan S. RA and Chinnadurai G.; RT "Hinf family: a novel repeated DNA family of the human genome."; RL Nature 302(5909), 587-590 (1983). XX DR GenBank; K00580; Positions 65 383. XX CC Full tandem repeat unit (never confirmed independently). XX SQ Sequence 319 BP; 87 A; 74 C; 78 G; 80 T; 0 other; gattcccagg tgcacagaga tcctaatccg catccatcga aatctcacaa agtgtccata 60 aatcactcag ggagggcccc catggataca gggccgtagt aggatgctcc tatagtgggc 120 attaatatga gaatgaccga aaagtgcatt taggaccata ttataatttt cgggttccca 180 ggtgcacgtt tccaataacc aggtgcacgg atgtataggg tcccccccat ggatagaggt 240 ccgtgttagg gtgctccata tcgggcatga atatcaggaa caccggcatg tgcacttagg 300 accatgtttt aatttttca 319 // ID MER6 repbase; DNA; HUM; 865 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER2-group; KW MER6; Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 119-835 RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [2] RP 1-865 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [3] RP 1-865 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Internal deletion product of Tigger-like DNA transposon. CC 25 bp terminal inverted repeats, TA target site. CC Over 2000, on average 18% diverged copies in our genome. CC Shorter deletion product are MER6A, corresponding to bp 1-341 && CC 600-865 of MER6, and MER6B (see below). XX SQ Sequence 865 BP; 214 A; 174 C; 198 G; 278 T; 1 other; cagcaggtcc tcgaataacg tcgtttcgtt caacgtcgtt tcgttataac gttgatgaga 60 aaaaaaatcg attcccggcc ggggccactg tctgtgtgga gtttgcacgt tctccccatg 120 tctgcgtggg ttttctccgg gtactccggt ttcctcccac atcccaaaga tgtgcacgtt 180 aggttaattg gcgtgtctam atggtcccag tctgagtgag tgtgggtgtg tgtgtgagtg 240 cgccctgcga tgggatggcg tcctgtccag ggttggttcc cgccttgcgc cctgagctgc 300 cgggataggc tccggccacc cgcgaccctg aactggaata agcgggttgg aaaatgaatg 360 aatgaatgaa tacaaattat tgtaaaataa aaatttataa agtatacgat aatcatacaa 420 atgcacgaca ataaatgatg tggtacgaaa gtgctcagcg agcccgccat atttgtgatt 480 gtttgttttt gaactgcgtg gtggtaggag gtgctcctta caattttcgc tttgcaaaca 540 tttattcctt gatttaaccc accaccacta cgaccgccgt cactcactga ttcaccaaaa 600 attgggtaaa taattatctt acttgttttt attaatcttt cttaaatgta tgtatagctc 660 acatttattt caatgtttaa tattagaagt gttttggtct ttatttagaa gtttggtgat 720 gtttttgtga ccagaaatat gccgtaggaa cttaactctt gtttatatca attagcctat 780 ggtaaaattg gtttcgttat acgtcgtttc gcttaaagtc gcagtttcca agaacctatc 840 gacgacgtta agtgaggact tactg 865 // ID MER57E1 repbase; DNA; HUM; 373 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 22-MAY-2008 (Rel. 13.06, Last updated, Version 2) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER57E1. XX NM MER93b_LTR. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-373 RA Smit A.F.; RT "MER57E1 - a subfamily of endogenous retroviruses from placental RT mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC mer4 group, 18% divergence from the consensus. XX SQ Sequence 373 BP; 109 A; 96 C; 62 G; 104 T; 2 other; tgttaaaata attaattggg aggccattag gctgaggtgg ctccagcacc ctgggttcct 60 acgtaagcaa accgaaaccc aactcagtgt aaatggtaaa acgaaactta agcttaacca 120 atcagaaacc gccaactaac ctctaactag ggactttcca ctggaatgat ccaaataagg 180 ctactgctcc aactttaacc aatcaaatat tttctttgcc ttgcttccgc gntcacccta 240 taaaagtctt cccctcatgc cccttcagtg gagccctgaa ccacttgtag tctggngctg 300 cccgattcat gaatcgctgt ctgctcaaat aaactcttta aaattttaat gtgcctaagt 360 ttatctttta aca 373 // ID MER53 repbase; DNA; HUM; 189 BP. XX AC . XX DT 27-JAN-1997 (Rel. 2, Created) DT 15-OCT-1997 (Rel. 2.09, Last updated, Version 2) XX DE Medium reiteration frequency repeat; putative non-autonomous DNA DE transposon related to Mariner terminal inverted repeats - a DE consensus. XX KW DNA transposon; Transposable Element; MER53; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-189 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX DR [1] (Consensus) XX CC TA target site duplication; MER53 is an almost perfect CC palindrome. CC Identified in humans and rodents. XX SQ Sequence 189 BP; 68 A; 29 C; 27 G; 65 T; 0 other; gggttgccag atttagcaaa taaaatacag gatgcccagt taaatttgaa tttcagataa 60 acaacaaata attttttagt ataagtatgt cccatgcaat atttgggaca tacttataac 120 taaaaaatta ttcattgttt atctgaaatt caaatttaac tgggcatcct gtattttatc 180 tggcaaccc 189 // ID LTR67B repbase; DNA; HUM; 620 BP. XX AC . XX DT 16-JUN-2008 (Rel. 13.06, Created) DT 05-AUG-2008 (Rel. 13.07, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like element. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; ERVL; KW Long terminal repeat; LTR67B. XX NM LTR67B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 334-620 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 664-664 (2008). XX RN [2] RP 1-620 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (01-AUG-2008). XX DR [1] (Consensus) XX CC [2] Extended to full-length. RepBase entry only covers pos CC 337-620. Eutheria incl. armadillo. Quite similar to LTR33B and CC to MLT1N2. XX SQ Sequence 620 BP; 110 A; 166 C; 175 G; 169 T; 0 other; tgtggcggat atggtggatt ggcgctcagc atccattcca acctccttct agtgtgcctt 60 cctgtactgc agaggctgga aagctaaaaa ctacatttcc cagactccct tgcagctagg 120 gttctggatg cgaattaggt tccgccaatt agatgcactc gcgtgagatt tggaaggcgg 180 aagtgaggcg gaggccatct tcctgctgct tcggctgttt tctgctggca agcatggtcg 240 tggagacgtt gggtttttct gcagcagcgt tccagtgtcc agtcactagc ttcgtgggtg 300 tcgagaggca gttgcggcgg cggcggcggc ggcttcctga tccctggatc gcagctacgg 360 cggtgtgttc ttgaagtcaa cagttccagt ggcggcctcc tgattcccca ccttcctgat 420 tgtggcagag gtagcagctc ccctggcggg ccagttctgc ggtgttgttc tgggagtcat 480 tcctggaggc ccagcctaga gcccgctcct ccagcccttc caacgatttt gtaagcacct 540 aattccctgt attaaatccc tttctgctta aaatagctag agtggtttct gtttcctgca 600 actgaaccct gactgataca 620 // ID LTR1F2 repbase; DNA; HUM; 739 BP. XX AC . XX DT 01-MAR-2009 (Rel. 14.06, Created) DT 18-JUN-2009 (Rel. 14.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR1F2. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-739 RA Smit A.F.; RT "LTR1F2 - ERV1 Endogenous Retrovirus from primates."; RL Repbase Reports 9(6), 1177-1177 (2009). XX DR [1] (Consensus) XX CC 10.5% subs, 35 copies. XX SQ Sequence 739 BP; 167 A; 249 C; 206 G; 115 T; 2 other; tgatacggac aggaggcagg gaaatactgg gtagaagagg gcggggtccc cggcgagggc 60 cccaccctca agcctggacc cgcggcccta aatgagaaca nncatccctg ttttcccgcc 120 cgaatgttgc cttttccaaa accaccctgg cccgccacgc cccccatcct gtacccataa 180 aaaccccaaa ctccactggc agaggagcag agcggcgcgg cagagaagga gagaagagaa 240 gaagcgtctg aacgtcgaga ggagttcggc tggggacggt cggagaggag ttcggccggg 300 gacggccgaa ctccagggga agattatctt cccactccat cccctttcca gctccccatc 360 ccgctgagag ccacctccat cactcaataa aacctccgca ttcaccatcc ttcaagtccg 420 tgtgacctga ttcttcctgg acgccggaca aggacccggg taccaagagg gcagggtgta 480 aaaggctgtc accctgactc tccactgagc tggttaacac ttagccgtcc gcggacggca 540 actgctaaaa gagcattaat tgtaacacac ccctagacgc tgccgtgggg ccggagccca 600 aaagcgctcg ccccggcccc ggcacccgct cgcctgcgtg ctccccctcc cgcaaggggt 660 ttgagcgcgg cggccgagta agcgagccac acccctgtcg caagtcccgc gaaggggtca 720 agggaactct cccgtctca 739 // ID Tigger3c repbase; DNA; HUM; 602 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Mariner DNA transposon from primates. XX KW Mariner/Tc1; DNA transposon; Transposable Element; GOLEM; mariner; KW Tigger3c. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-602 RA Smit A.F.; RT "Tigger3c - Mariner DNA transposon from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC (MER7C) 15% div. XX SQ Sequence 602 BP; 166 A; 139 C; 114 G; 183 T; 0 other; cagtcatgcg ccacataacg acgtttcggt caacgacgga ccgcatatac gacggtggtc 60 ccataagatt ataatggagc tgaaaaattc ctatcgccta gtgacgtcgt agccgtcgta 120 acgtcgtagc gcaattactt tatttttaaa taaatttagt gtagcctaag tgtacagtgt 180 ttataaagtc tacagtagtg tacagtaatg tcctaggcct tcacattcac tcaccactca 240 ctcactgact cacccagagc aacttccagt cctgcaagct ccattcatgg taagtgccct 300 atacaggtgt accatttttt atcttttata ccgtattttt actgtacctt ttctatgttt 360 agatatgttt agatacacaa atacttacca ttgtgttaca attgcctaca gtattcagta 420 cagtaacatg ctgtacaggt ttgtagccta ggagcaatag gctataccat atagcctagg 480 tgtgtagtag gctataccat ctaggtttgt gtaagtacac tctatgatgt tcgcacaacg 540 acgaaatcgc ctaacgacgc atttctcaga acgtatcccc gtcgttaagc gacgcatgac 600 tg 602 // ID CHARLIE5 repbase; DNA; HUM; 2612 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Primate CHARLIE5 repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; CHARLIE5; MER1 family; KW MER3; MER33; hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [2] RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [3] RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [4] RP 1-2612 RA Smit A.F.; RT "CHARLIE5."; RL Direct Submission to Repbase Update (FEB-1998). XX RN [5] RP 1-2612 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [5] (Consensus) XX CC CHARLIE5 is a hobo-Activator-TAM3 (hAT) like DNA transposon. An CC ORF from CC < 841 to 2439 encoded a transposase related to the transposases CC of other CC Charlies and 50% similar to the human protein AC004883. Copies CC differ CC from the consensus by 16% on average. Common co-amplified CC internal CC deletion products are bp 1-63<>2352-2612 (MER33) and CC 1-171<>2269-2612. CC MER3 appears to be a recombinant product of 5' fragments end of CC CHARLIE5. XX SQ Sequence 2612 BP; 939 A; 349 C; 444 G; 875 T; 5 other; ctgcgctgtc caatacggta gccactagcc acatgtggct attgagcact tgaaatgtgg 60 ctagtgcgac tgaggaactg aattttnaat tttatttaat tttaaattta aattttaaaa 120 tggaagcagt ataaaatatt tttccattaa acacaacttt attgttttgg taggactaca 180 tttcacttta accattgcat cgcataatat agatattgct gtattgtagt gcacgtgtcg 240 ggcgcgtgcg ttgtttctag tattacacgt aaacacatca ctgatctagt cggtgtcgac 300 ggattgattc agtttaaatg atttttttct atgcancgat gtaacattgt aatgtgttta 360 tttgaatatt ttatgcagac agcacgagtt acagtgatac ctatgtaaat cataattggt 420 aattaaattg aaatacttat tattttaatt ataatataat taaattattt ttctagttaa 480 aaataagtat ggacaaattt tnaaatttaa aatgaaggca tactactgat acagaattga 540 gtggagatgc agaagctagt actatgaccg gaacagtaaa gaaaaaaaaa gagactggaa 600 gaaggtatgt tacaaatttc acgatgaatg gcaattgcaa tttgctgcgg cagagcaaaa 660 cgaaaaagct gtttgttgtg taaaaaatnt taaagataat aaagtggana atattaagag 720 acattttcag caaatacata gtgaatttga taagaagttt tctctcaaca gtcaaaaaag 780 aatcaatgaa attagtcgcc tgaaatcaga attaaatgtc caacaaaaat ttttaaataa 840 tttttaacag gatctgagct tgtaactttg gccagctata aaatggcttg gattcttgca 900 caaaaaagaa aaccattttt agatggagag atggtaaaag aaattatttc agttatggaa 960 attttgttag aaaattatga ggaaaagact aaaaatgata ttttacaaaa agtgaaagat 1020 cttcaattaa gccaccaaac aattgcccgt agaatacaag acctttctaa caatatcaaa 1080 gatcaattga ttcaaaattt gaaaaactgc aagtactttt ctttagcttt agatgagtcg 1140 tgtgatatga gagacactgc ccaattaata ctttgggtac attttgtctc aaaggacttc 1200 caaatttaca aagaaatgtt gtcaattcgt ggcctaaaaa atcgaactca tggcatagat 1260 tttttaaact cttttacatc tgtcaaagaa gaatttcagt tagatatgaa aaaattagtt 1320 tctatcacga cggatggtgc tccagctatg ttaggtcaaa aatctggatt tattggaatt 1380 ttaaaacaag agactgatgt ttcccttatt gcttcgttcc actgtatgat acatactgaa 1440 aatatttgtg ctcagttttc tgaagcagac tctatgaaaa gcgtcatgga tacagttgtt 1500 aaaatcgttc agtatataca tgcaaatgct gtgaatcacc gccagtttat ggaactgttg 1560 aaagaaatag aagacaatga atttaatgat cttgtgttct ttgccaatgc tcattggttg 1620 agtcgtggaa gagttttaca aagatttact gtactgttaa ctccaattca agattttctt 1680 gaaacaaaag gaatgcttgc caaatattca ataatcaaag acaaaaaatg gcaatgtgat 1740 ttacgttttc tcaccgatat cacactgcat atgaacaagc taaatttgaa gctccaagga 1800 aaggaaaagc ttatttgtga cctagctaga caggtacaag aatttatgtt gaaattgaaa 1860 cttttcataa tacaaatcaa taataatgat tttacacatt tttctaacat gaatcaatat 1920 gcagaagatt ttaattgtaa tcgacagcat tatgtaaatt ggctgcaaaa actacaagaa 1980 aaatttgaag aacgctttgt tgatattgat aaatttagag ttgcttttca atttatgcaa 2040 tacccttttg aattcaatgt taataatact gagttgacac aagagttagt gaatttactt 2100 aacttggaca gacgtagttt tgaaactgat atgcttttgc ttcaaagtca aatcaattct 2160 tctaaaaaag atgaaccagt tttgtcaatg tggatacgaa tattaaagga aaatgatttt 2220 ttgatactcg attcagttat tggaaaactt ttaagtatgt ttggaacaac ttgggtatgt 2280 gaatctactt tttcaactgt aaattttatg aaatctaaat acagatcaag tatttccgat 2340 gaaaatttag cgtccgaatt gagatgtgct gtaagtgtaa aatacacacc ggatttcgaa 2400 gacttagtac gaaaaaaaga atgtaaaata tctcattaat aatttttata ttgattacat 2460 gttgaaatga taatattttg gatatattgg gttaaataaa atatattatt aaaattaatt 2520 tcacctgttt ctttttactt tttttaatgt ggctactaga aaatttaaaa ttacatatgt 2580 ggctcgcatt atatttctat tggacagcgc tg 2612 // ID LTR12 repbase; DNA; HUM; 826 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 4) XX DE LTR from human ERV9 endogenous retroviral sequence (HRES-1/1). XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR12; KW Long terminal repeat; PTR5; PTR7. XX NM LTR12. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-826 RA La Mantia G., Pengue G., Maglione D., Pannuti A., Pascucci A. RA and Lania L.; RT "Identification of new human repetitive sequences: RT characterization of the corresponding cDNAs and their expression RT in embryonal carcinoma cells."; RL Nucleic Acids Res 17(15), 5913-5922 (1989). XX RN [2] RP 1-826 RA Levy S.L., Lobelle-Rich A.P., Elder H.J., Payne S. RA and Montelaro C.R.; RT "An unusual retrovirus-like sequence identified in human DNA."; RL J. Gen. Virol 71, 1613-1618 (1990). XX RN [3] RP 1-826 RA Lania L., Di Cristofano A., Strazzullo M., Majello B. RA and La Mantia G.; RT "Structural and functional organization of the human endogenous RT retroviral ERV9 sequences."; RL Virology 191, 464-468 (1992). XX RN [4] RP 125-826 RA Smit A.F.; RT "LTR12."; RL Direct Submission to Repbase Update (FEB-2000). XX RN [5] RP 1-826 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [4] (Consensus) XX CC LTR from human class I ERV9 endogenous retrovirus (HRES-1/1). CC Copies on average 8-9% diverged from consensus sequence. CC [5]. XX SQ Sequence 826 BP; 232 A; 237 C; 194 G; 162 T; 1 other; tgagaggtga agccagctgg gcttcctggg tcgggtgggg acttggagaa cttttctgtc 60 tagctagagg attgtaaacg caccaatcag cgctctgtgt ctagctaaag gtttgtaaac 120 gcaccaatca gcactctgta aaaacgcacc aatcagcgct ctgtgtctag ctaaaggwtt 180 gtaaacgcac caatcagcac tctgtaaaaa cgcaccaatc agcgctctgt gtctagctaa 240 aggtttgtaa acgcaccaat cagcactctg taaaaacgca ccaatcagca cagcactctg 300 taaaatggac caatcagcgc tctgtaaaat ggaccaatca gcaggacgtg ggcggggcca 360 aataagggaa taaaagctgg ccacccgagc cagcagcggc aacccgctcg ggtccccttc 420 cacgctgtgg aagctttgtt ctttcgctct tcacaataaa tcttgctgct gctcactctt 480 tgggtccgca ctacctttat gagctgtaac actcaccgcg agggtctgcg gcttcactcc 540 tgaagtcagc gagaccacga acccaccggg aggaacaaac aactccggac gcgccacctt 600 taagagctgt aacactcact gcgaaggtct gcggcttcac tcctgaagtc agcgagacca 660 cgaacccacc ggaaggaaga aactccggac acatctgaac atctgaagga acaaactccg 720 gacacaccat ctttaagaac tgtaacactc accgcgaggg tccgcggctt cattcttgaa 780 gtcagcgaga ccaagaaccc accggaagga accaattccg gacaca 826 // ID LTR13 repbase; DNA; HUM; 1007 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE LTR from a human endogenous retrovirus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR13; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1007 RA Pavelitz T., Rusche L., Matera G.A., Scharf M.J. and Weiner M.A.; RT "Concerted evolution of the tandem array encoding primate U2 RT snRNA occurs in situ, without changing the cytological context of RT the RNU2 locus."; RL EMBO J 14(1), 169-177 (1995). XX RN [2] RP 1-1007 RA Smit A.F.; RT "LTR13."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of class II endogenous retrovirus HERVK13. 6 bp target site CC dups. CC This consensus represents a young subfamily, with copies on CC average CC 7% diverged from consensus (<5% divergence excepting the 39 CpG CC sites) CC The tandem duplication at pos 313-368 and 366-422 is absent in CC some CC copies and tripled in others. XX SQ Sequence 1007 BP; 240 A; 273 C; 241 G; 253 T; 0 other; tgtgggcggc aagccaccca ggtgccgagg caagagaccg agggcacgag ctgttccagt 60 ataataaaat atataaaata agaatagtta tactagatat agatcttaga tatgattata 120 tatgaatatc attaatcatt agtttgtagc aattactctt tattccaata ttataataat 180 cctcgctcta caatcataac ctaggaaaaa ccaggccata cagagatagg agctgagggg 240 acatagtgag aagtgaccag aagacaagag tgcgagcctt ctgttatgcc cggacagggc 300 caccagaggg ctccttggtc tagcggtaac gccagcgtct gggaagacgc ccgttgccaa 360 gcggaccgtg gtctagcggt agcgtcagtg tcaaggaaaa acacccgcta cttagcagac 420 cgggaaaggg agtctccctt tccccggggg agtttagaga agactctact cctccacctc 480 ttgtggaggg cctgacatca gtcaggcccg cccgcagtta tccggaggcc taaccgtctc 540 cctgtgatgc tgtgcttcag tggtcacgct cctagtccgc cttcatgttc catcctgtac 600 acctggctct gccttttaga tagcagtagc aaattagtga aagtactaaa agtctctgat 660 aagcagaaat aatggcgtaa gctgtctctc tctctctcct ctctctctct gcctcggctg 720 ccaggcaggg aagggccccc tgtccagtgg acacgtgacc cacgtgacct tacctatcat 780 tggagatggc tcacactcct taccctgccc ctttgtcttg tatccaataa atatcagcgc 840 agcctggcat tcggggccac taccggtctc cgcgtcttgg tggtagtggt cccccgggcc 900 cagctgtctt ttcttttatc tctttgtctt gtgtctttat ttctacactc tctcgtctcc 960 gcacacgggg agaaaaaccc accgaccctg tggggctgga ccctaca 1007 // ID L1PA17_5 repbase; DNA; HUM; 1734 BP. XX AC . XX DT 27-DEC-2001 (Rel. 6.11, Created) DT 27-DEC-2001 (Rel. 6.11, Last updated, Version 2) XX DE Primate L1PA17_5 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1PA16; KW L1PA17_5; L1PB4; LINE1 repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1734 RA Smit A.F. and Hubley M.R.; RT "A few more common, ancient interspersed repeats in the human RT genome."; RL Repbase Reports 1(4), 27-27 (2001). XX DR [1] (Consensus) XX CC L1PA17_5 represents a consensus sequence for the 5' end of LINE1 CC elements associated with L1PA16, L1PA17 or L1PB4 3' end. CC Though spread through the genome in early primate evolution, the CC average divergence of copies to the consensus is 22%, reflecting CC the mixture of subfamilies and the high CpG content. XX SQ Sequence 1734 BP; 421 A; 548 C; 489 G; 263 T; 13 other; tttttttttc aagatggctg actagggacg tcggatgcca gttctcctca gaaagaagat 60 caaagttaca ggtgaatggt catgatccga atggaaaact gagggaagag agccaggacc 120 tgtcggagag cccacgggaa gaagctgggg tgcagaaaag gaaagcagca agagtctggc 180 agagattgac ccccgaggaa ctcggagccc cgcggaaagg gtaggtgggg gtgcttctct 240 gctcccctca cccctgcgac aawctgctga ccgccaaact gttggggagc ccctctgccc 300 tcgcgacccc gggcaatgct gtcggtggcg atttgggaac ttcctgggga cagagmaccg 360 ggtggccagc tcgcgcaggt gtgcccgcac tcccctcaga cccgaactga gatggcgggc 420 gccatactgg ttgtgcaccc gttgtgggcc actgccctgc ccagggaacc tcngcccttg 480 agtcaccgca tcaccagatc ccccgcaaac ataccccaca acccgctctg actttggcaa 540 ncacagggga ccagcgggtc cccggggagc tgcgggaccc ctggagatct agccctcggc 600 gcgggccgcc cctaagggag gggggagcgc agcccgccaa agcccccctt gggacaaagg 660 aaacgcgggc gcggcgccaa tcgctgaagg gggcagcacc agcggccggg aatagacgtg 720 gagagggggt catctcccgc tccccccgtc cactgttgcg gacgcagcag nggctctccc 780 cgctgggggc cggcgcgngt gcacttggag aaagcgcttt ccagtgcttt tcgcggtggc 840 tncacccccg ctgaaagtga gcccgtgccg cttgggcttg cacaaagggc ggggcccanc 900 tccccctccc tacacagagt ggcagcgtcc cggcaacgga ggacagacaa gccacagagc 960 tgtctgctct ggactggggg aagaggctct gccccgagcc cattttggtg gtagccgcca 1020 gaggggcatt ttccgcggcc ctcagccaca ctgcggccng gagccaaagg acaatgtctn 1080 tatgaactga aggtcgtgag ccctgcgaca ggggcatgat agggaagcgg atcgcgttcc 1140 tgcctgccca ggacgaggag ctggtgcagc cccctcaccc cctccccnga gacctcagcg 1200 caccccaaca cgatctcccc ccaccacccc catcagggca ggtgcctcca ctcgtcatca 1260 gcctacccga gggcgagccg gctcttactc ttaagcgcca cctactggac tggagactga 1320 actgcaccac caaataaaaa acctgctgnc agaagggcat agtgctagtg catgagataa 1380 gcttcctgag acctccgcac tctcagcccc gcaggagata gtgtgtcggc tcatacgccc 1440 aatacatcgc tacaacaagc agcatctgag aaagccaccg cacaaaagct atccacaacc 1500 aaggaaccca tacagagcct tggccccctg aaagcaccca gaaacgaagc caaacgatca 1560 tacacaacat acaccacagt cataccctca agggaaaaaa gaataaaaaa ttaaaaagtc 1620 ccatccaaac gatagcaaat tcaaaaataa gaagcgacag ctccctcaga tgagaaggaa 1680 tcagcgcaag aactccggca gtacaaaaag ncagagtgtt tcgacacctc caaa 1734 // ID MER52AI repbase; DNA; HUM; 7091 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Primate MER52AI repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 class; KW Internal sequence of endogenous retrovirus; MER4I; MER52AI. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7091 RA Smit A.F.; RT "MER52AI."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of an endogenous retrovirus with MER52A LTRs CC MER52A ERVs appear autonomous with coding regions for gag and pol CC Matches over its length to different other members of the MER4I CC group CC e.g., bp 2343-6515 are 81% identical to HUERSP-3. CC Copies are on average 10-12% diverged from the consensus CC sequence. XX SQ Sequence 7091 BP; 1819 A; 1828 C; 1659 G; 1747 T; 38 other; ttttcggggg ctcatctggg atctgtggaa gggtgagtaa aagcggacct gctgctttct 60 gtcctttttt tggagtccct aaactccaca atagccaaaa tgaaagaaaa ataccgggcc 120 tctgtcagcc agttaaaagc gactagcgcg gctgccggac ttaagacacg gaggacaggc 180 ttgctgggga ggacactgtc aatcccccat caccctcggg tgttgggaat gttggctttg 240 ttccaatcca gtttcccttc acggaggtct agccatcgcg tgggaccgga aggaggtcct 300 ggggcaactg agggtatctg gccgaggcta cacctcggtg ttatccaaag gcccctggac 360 tgactccagt ccccgacngc ccattagggt gtcagcacta ggacctccag tctttcctat 420 ngtattttct ttctttcttt cacggctgtc atggctccta tctcttcttt atatacaatg 480 ttaaatgtta agggtgttgt tgcaaaccac agagataata tnactgggta gaatgagcat 540 ttggcttagt catcaggagt gtaanttgga acaatgtggt ttctgtctat tcttagaagc 600 aaggaggatg taacgattga gagttttctt tcccctgttg aaggaaccca ttagcatagg 660 gcaagaggct atttccccca ggcaccttcc cctcccctgc acttaagttg ttttcttctc 720 tttcctccac catgtcagga gtcaacatag tcctgtgaat acagggagnt tttctatgtg 780 agggattatt ttttcctttt gggaggcacc ttattaggcc aggtccccaa ttcccgggac 840 tccctttctc tcccttgttt gaggaggacc tggtcccaca gcttcactgc ttatgatagg 900 gaagcaacag agaggctgcc ccgccggttg ctggctgcaa tttggcgagg gccacctggg 960 actaatttaa tgggtccata caccctcctg aggcaccttt tgtcccaagc tttggtttga 1020 agccctggaa aggaaaacta gatctgaggg acccagaggc agntaacagc agaagnctag 1080 gggcacagcg caggtgagca cgactattcc tgccgattag gccttcccgc ttcgtgggtg 1140 gaggtcntgc tcacatccat ggcatagatg aggtctaggg aacccaaagg ttactgacag 1200 caggaggctn gggcaccgca caggtgagtg cgaatatccc tgctaactat gcctccccac 1260 ttcatgggtg gaggtcgcac ttgcacccat ggtcggcacc tgcacaggcc gccaggactc 1320 ggggatataa ggtcggaaga aagaaaggga cgcctttttt ttctctccct cacgtacccc 1380 gggtnttcgc tggaaagaga aagagaaaaa gggtgccttt ttccccctct ttccagatgg 1440 gtaaccaacc atcttcagcc tgcactcctc tcgagtgcat cctgaatcac tgggacccct 1500 ttgaccctca gactctggag agagaaanaa atgccttttt cctcctctgt cctctcttcc 1560 agatgggtaa ccaatcatct tcagcctgca ctcctctcga gtgcatcctg aatcactggg 1620 actcctttga ccctcagact ctggagaaaa agcgcctcat attcctttgc acaaaggtgt 1680 ggccggatta tgttttgcag gaaggagaag catggcctca ggaaggaagc attaatttca 1740 ataccatcct gcagctggac cttttctgta aacgtgaggg caaatggtcc gaggtcccat 1800 atgtgcaggc tttctttgcc ttgcagggta atctggacct ttgccaacat tgtaggattg 1860 attcagccct cctggtggcc atctcaggag aggctgcaag gggcaatccc agggaantag 1920 ggaagcaaac cccagaggta cctccagcgg gggagtcaac tccctccnct cctccctatc 1980 caggttttct ctcaagcttg ccccatccta gaaatcctca ttttaggcag gtcccagtct 2040 cactcctgcc cctacaacag atgcctggtg aatatggccc cattaaggtc caggtctcct 2100 tttctctaca ggacttaagg caaattaagg gggatcttgg caagttttca gacgaccctg 2160 acaggtatat agaggctttc cagaatttaa cccaagtatt tgaactctcc tggaaggatg 2220 tcatgttact tttgaatcaa accctgacta ccgctgaaaa gcaggccgcc ctgcaagngg 2280 caganaattt tggggatgag ctttgtatct catatagggc cagggaaggg gatgagactt 2340 atccgattgg aagaatagca gtaccattgg aggaccctaa atgggacccc aatgatgaaa 2400 tgggagaatg gaagaggaaa cactttcagg cgtgcatact ggagggctta cgaaggacta 2460 gaactaagcc tctcaattac tccaagctat ccacgataga ccagggatta gatgagaatc 2520 ccactgcctt cctggaaagg ctaagagggg ccttggtaaa gcacacctct ctatctcctg 2580 attcagtnaa gggacagctg gtcctagggg ataagtttat tacncaggtg gcccctgatg 2640 tcaggaggaa gctgcagaaa caggctgcgg gaccagatgg tactttagag ggcctcctgg 2700 gagtggccac cttggtcttt tgcagtaggg attgggagga agtccagaaa agagagggga 2760 gatacaagaa aaaggcagag gctctaatag ccgccttgcg ggctcacaga ccccagagtc 2820 cccgagatgc acctgttaac tgctacaaat gtggcaagcc agggcacttt aggaaggact 2880 gcccgggcaa caggaggaag ccaccttgac cctgtccaat ttgcgatggg gaccactgga 2940 gggcggactg tccacagaga cacgggtcan tgggtccaga gccagtntcc caaatggtcc 3000 agcaggactg acgggtccca gggctcctct ccccggctct ggtggttcag acnaccattg 3060 ccatccagga gccccgggtg attctggaag tcgaagggag gaaggtggac ctcctcctgg 3120 acactagagc gggcctttca gttctcctct ccaatccagg cccccctcct ctcttagcac 3180 gaccgtgagg ggcgtctcag gaaagccttt aacccgatat ttttcccaac ctcttagttg 3240 tagttgggga gacctcttgt ttactcatgc ctttttaatc atgcctgaaa gcccaactcc 3300 tctgctgggc agggatattt tggctcatat gggaaccacc atccttatgg ctccnggaca 3360 gactctttgt ctccccctag tggagaccga tattaaccca gaagtttggg caactcaagg 3420 gaaaattggc caagccacaa ctgccacacc ggtctggatc caccttaagg atcctacctc 3480 cttccctaac cagagacaat atcccctaaa accagaagtt aggaaagggc tagaagccat 3540 cattgataac ttgaggatgc agggcctcct caaaccctgc aacagccctt gtaatacccc 3600 aatattggag gtacagaaac ccaacaggga atggagactg gtccaggacc tccgcctcat 3660 taatgaggct gtggttccaa ttcatccggt ggttcccaat ccctataccc tgctaactca 3720 aatacctgag ggaactaaat ggttcacagt cctggaccta aaggatgcct ttttctgcat 3780 accattacac cccaactccc agtatttgtt tgcattcgag gatccctcca accagaccac 3840 ccagctaacc tggacggtgt tacctcaggg attctgagat agcccccacc tgtttgggca 3900 ggcgttgtca aaagatctct ctgagttcct ttatcctcag gttaaagttt tacaatatgt 3960 agatgacatt ctcctttgtg ccccaactga ggaaatctct caggagggca gtaaggctct 4020 tcttaatttt ctggctaaca gaggatataa ggtctcaaaa tctaaggctc agctctgtca 4080 gacttcagtg aagtacctag gtctagtctt gtcagagggg accagggcac taggcgaaga 4140 aaggattaag cccatctcct cctttcccct ccccnaaacc ctcaagcaac tgaggggatt 4200 cttgggcatt acaggattct gcagattatg gatacctggg tacggtgaaa tagctcatcc 4260 cttatatcac ctaataaagg agactcaggc agctaagacc cactccctaa tttgggaacc 4320 agaggctaaa agggcctttg accaattaaa acaagccttg cttgaggcac cagcccttag 4380 tcttcccata ggggagatgt tcaatcttta tgtatcagaa aggaagggaa tggccctggg 4440 agttctaacc caggcccgag gtccagccca gcagcccgta ggctacctaa gcaaggagct 4500 tgatttggta gctaaaggat ggccagcctg cctccgggca gttgcagcgg tagccttgct 4560 ggtaccagag gctactaagt taaccatggg gaataacnta accatttata ccccacgtaa 4620 tgtggcagga ctgctgtctt ctaaggggag tctctggcta acggacaacc gcctcctcaa 4680 atatcaagct ctgctattag agggatctgc agtccagtta agaacctgtc cctccctaaa 4740 cccagccacc ttcctcccag aggaagctgg ggagcttgaa catgactgca aacagatagt 4800 agtgcaaacc tatgcggcca gagaggacct caaagaaacc cccttagaga acccagactg 4860 gactctcttt atggacagaa gttcctttgt agagcaaggg atccataagg cagggtatgc 4920 aatagtcacc ctgaatgaca ttgttgagag cacgcctctc tcctcgggca caagtgctca 4980 actagctgag ctaattgccc tcacgagggc acttgaatta agcaaaggga aagcagttaa 5040 catttatact gattctaagt atgctttcct agtcctccat gcccatgcca ctatctggaa 5100 agagagggac ttcctcacag ccaatgggtc tcccattaaa taccatcagg aaattaacag 5160 actattatcc tcggttttcc ttccatggga agtggcagta atacattgta aaggccacca 5220 aaaggggacg gatgaaatag ctgagggaaa taagttggca gaccaagcag ctaaatcggc 5280 agcgagaggg ccncagattt ctgatccact tgaggcccct ctgatctggg agggctccgt 5340 aagagaaata aaacctcagt attcccctgt ggagatagaa tgggccacct ctcggggata 5400 cacccttcag tcctcaggat ggctgcaatc ggaggatggc aagcttcatc taccagcttc 5460 cagccaatgg aaagttctta aaatccttca ccaagncttc cacctaggta aggataaaac 5520 ctatcaantg gcccaaaggt tgttctcagg taaaaatctg ctaaaaatag tcaaacaggt 5580 cattaatgct tgtgagactt gccttaaaaa taatcccctc aattgacggc ttctccccnc 5640 cggaacccaa agaatgggag gctacccagg ggaagactgg cagatggatt tcacccatat 5700 gccaaagata aggggcatcc agtacctcct ggtatgggta gataccttca ctaactgggt 5760 agaagcattt ccatgttgaa cagagaaagc ctctgaggtg ataaaagtac taattaatga 5820 gataattcct cactttggac ttcctaagta cctccagagt gataatggcc cctcnttcaa 5880 ggcagctgtc anccagggga tctcaaaggc actaggcata caataccatc ttcattgtgc 5940 ctggagacca caatcctcgg gaaaggtaga aaagacaaat gatattatca aaaggcacct 6000 cagaaaactg tctcaagaga ctcatctccc ctggattact cttctcttcn tagccctact 6060 atgtgttaga aacacccctt cgaagctggg tttaagtccc ttcgaaatga tgtatggacg 6120 gccttttctc accaatgatt tcttgctaga ccaagaaacc tctgatttga ttaaacatgt 6180 aacttctttg gcccatttcc aacaggaact gaaacaactg tcagaggccc aaccccatga 6240 actagggcca cctctattca acccagggga cttagtactg gtaaaggcac ttccttccct 6300 ttctccctct ctaggcccgn antgggaggg accttacact gtacttcttt ctactcctnc 6360 ggcagtaaan gtcactggaa tagattcttg gattcattat actcgagtaa aggcctggga 6420 aactgacgga attacctctg ttgacccaga agagcacccg aagcaccagt gtgaagaaat 6480 cggagacctc aagctaaaaa tcacaaaaga taagtgccaa taattaacct tccatggata 6540 tcctctttat agtctcgcct atgcttgctg ttctcgcctt tgttctgttc ctcaccataa 6600 ggcgtctttg ccaaggaccc cttaatcctg aacncccang ggattatcta ctcccctaaa 6660 cagctatctc tcttctaaag tttaactgcc cccatacaag atttaatttc tttcaccagg 6720 gtgaaacagc tctggccaca acattgtttt cagaatgatt agtntatttt acttcttatt 6780 tctgttatct ttggcactag attttttcct tttagctcct ctttgtataa tactcatatt 6840 tggtccatgc atacttaacc tccttgtaaa atttgtttct tctcgcctag aggccatcaa 6900 actccaaatg gtcatgcaan tggagcctcg gacaatggct ccctttttac cggggaccct 6960 tagataggcc tctgagagag atctgactgc cgttttcccc aaaacaatgc cccctgtcag 7020 catgaagcag ttaagagcgg tcatcatccc tatcctaatg gcagttagat gtacctcttc 7080 agagggggga t 7091 // ID MamGypLTR3 repbase; DNA; HUM; 839 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 02-JUL-2009 (Rel. 14.08, Last updated, Version 2) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; MamGypLTR3_LTR; KW MamGypLTR3. XX NM MamGypLTR3_LTR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-839 RA Smit A.F.; RT "MamGypLTR3_LTR - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; Pos 640-839 (end) 70-80% similar to the same region in CC MamGypLTR1a; 5' end undefined. XX SQ Sequence 839 BP; 187 A; 198 C; 269 G; 164 T; 21 other; cananccgcc ccatccnaga aggtgggngt ggncaccttg agatcacttg gggagtctcn 60 cttaggagga taaatcgcct tngagtcact gaaggtagcc ttcctcagan tgggaaatgg 120 caccttggag tcactgaggg tagcctccct tagaagggtt gggcgagtag ccccattgtc 180 cggaggaaag gggtgtaatn agaccctttg ngttttgagg gtttaaaagg aaaagctgcc 240 tgcaccctgg ngtggtccct ggggaggaaa ggngganggt ggttctgggt ccgcgaggtg 300 gcagatgccg gaaccagtcc tgacccagcg ctcctggggc cggctggcgc cctgggaggt 360 ggctgtgtat gtgaactgaa agagctgagc actaagagct gcaaccttgg gagcccaagc 420 gtggggcacc cttggccgag cttagcactg agggagtggg atcatcctcc ctcaaagaac 480 cacngcggcc tgtgcgggga tctggaccag caagggcatc accgcagcag nggaccctgg 540 aatctgcagg accagtcttc aacagcgaca ccatgtggca gcgagaagca atggcagtag 600 tggactgatc agactccagt tctctccccc ttgngtntgg aagcnggact gaccccccct 660 ttggactgng taagccccta gggttcttgg acaattcagg gggnagggga agcctcaaga 720 gggagatact ggacttcctg ctaataaggc aggtgggngc tcgagcgatt aattggaaaa 780 taaaagagat gtgaccatat ttgtaccccg agtttgtgga gcagttcata ccggttaca 839 // ID HERV30I repbase; DNA; HUM; 8257 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Internal sequence of primate endogenous retrovirus HERV30 - a DE consensus. XX KW Endogenous Retrovirus; Transposable Element; KW Endogenous retrovirus class I; HERV30; HERV30I; LTR30. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-785 RA Kapitonov V.V. and Jurka J.; RT "HERV30I."; RL Direct Submission to Repbase Update (21-NOV-1997). XX RN [2] RP 1-8257 RA Smit A.F.; RT "HERV30I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [2] (Consensus) XX CC Consensus sequence of an endogenous retrovirus with LTR30 LTRs, CC with ORFs for gag (1367-2445) and pol (2827-6400). The latter is CC not yet open in the current consensus. CC HERV30I is 81% identical to HERV9 over nucleotides 1397 to 6509. CC Average divergence from consensus 8.5 %. XX SQ Sequence 8257 BP; 2408 A; 2127 C; 1698 G; 1919 T; 105 other; ttttggtgag ccagccagga ggctccagga aaggcatcta gatcgtcacg tggtgagtac 60 gatcggacct ctttcgcttg ctattctgtc ctatccttcc ttagaattcg gaggctaaac 120 cgggcacctg tcggccactt aaaggcgatt agcatggccg ctggactaaa gacacgggtg 180 tcaggctgtc tggaaaaggg ctctctaaca acccccgacc ctttggggtt gggagcattg 240 gttcgcccgg accagttcta agtctttcac tttccgtggt ggtcccgaag tacacccggg 300 agtgctcagc ggacgtccta gtctcccaga tatcctggtt gagaccatgg ccccaccaga 360 ggctcccccn gcangggtta ctgagcgtga gacagccaca tcttctgact cctgcgtcct 420 gggtcctaat gtccgccggc tagacttctt tcctcatctc gcaagcaagg ttattcccgc 480 taggcaggat caagattccc tatttagaag ncttaaattc ttggggtggt gcccagaaga 540 tccctgttca tggtgccctc cggggtttag gcaggtgtcg ccatttgatg gccactttga 600 agggccagtt ccccaccata gtgtatggtc ncccacatca ggacaattta aagacaggtc 660 tgtaattttc atgtggatag tagaagcctt agggcatttc ctccattgct ccccagatag 720 actttcccct tccttggggc ctctcaagta caatctgtgg tgcatgggta cagctcttag 780 agccgttgaa ttgtttttca accattcaat aattgntatt ggaaggaaga aaatatagtc 840 agttgggaca caggatactg gtaccgcctt gagagggggg cttactcctt tgatggcaag 900 tggggacaga aggctagagt acagcagctg ttctctcagc cctggcctag aggacatcca 960 ccaccccctt taagcttact aagcctcctg tcgctaattc agagatttct ccttgaagga 1020 cagttttgat ggccaggccc acgtaaattg ggccttagca tgcaagcatc agtggtgccc 1080 ccgacccagg ccttgccacc ccggaacagg taggatgtgt tggaagaagg accacaataa 1140 atccaacagt cctcgtgccc catttagtgg tcaatgggtg cacggcaggg gcaagggaan 1200 tttccatcct gctggtaagc atggttaaat ctggtagatg gagggctcag gaaangcggc 1260 catgagcttt gagcacaatt ggacctgacc cttgggggac gccctaaggg aagatgagtc 1320 ccaggactaa ccaggggtgt gggcatncct gtgtttaaaa ttccagatgg gcaccacacc 1380 ttcaaaactg gacactccct taagatgtat cctgaataac tgggacaaat tcgaccctga 1440 aaccttaaaa aagaagcggc tgattttctt ctgtaccant gcctggccac ggaatttctt 1500 acaaaatgga aaaacttggc cccctgaggg aagtattaat tataacaccc ttctacaact 1560 agatcttttc tgtaaacagg aaggtaaatg gagtnaagtc ccttatgtac aggctttctt 1620 tgcccttcgt gacaatactg ccctgtgcca agcctgcaag ntttgcccaa atgacaaagg 1680 cccacaatta cctccatact cagggcctct tccctcagcc ccactctcct cccccactga 1740 ctctcctcca tccggcccca ccgaagtgtt agaggcacac cggaaagaga acgtaaactc 1800 cgcgagccag gcacccaaac tatgtccctt acaagcagta ggaggggaat ttgggcccac 1860 ccgtgtacat gtctcttcgc actctcagat ttaaaacaaa taaaggcaga tttagggaaa 1920 ttctcagatg atcccgataa ctatatagat gtcttgcaag gattaagaca gtcctttgat 1980 ctaacatgga gagatatnat nttgcttctt gatcagacct taagtcctac tgaaaaggaa 2040 gnagctttaa cagcagcccg gcaatttggg gatctgtggt accttagcca ggtaaatgat 2100 caaatggccc ggaaggagag ggaaaaattc cccacagggc aacaggcagt ccccactgta 2160 gaccctcact gggatactga ctcagatcat ggagattgga gccacaggca tttgctaact 2220 tgcattttgg aagggttgag gaaaagtagg aaaaagccta tgaactactc aatgctatcc 2280 acaattacgc agggaaaaga ggaaaacccc tcaacttttc tagaaaggnt aaaggaggcc 2340 ctaagaaagc acacctccct aactccggat tccntggaag gccaacttat tntaaaggat 2400 aaatttatca cccaatcagc ggccgacatt aggagaaaac tccaaaagtc tgccttaggc 2460 ccggaacaaa atttggaggc attattgaac ctggcgacct cggtgttcta taanagggac 2520 caagaggaac aggccaaaag ggaaaagcga gataagagaa agnctgcagc cttagtcatg 2580 gccctcagac aagcagacct tggcggctca gagggaacca aaagaggagc aggacaatcg 2640 cntggtagng cttgtnntca mtgcggtttg caaggacact ttaagaaaga ttgtccaacm 2700 agaaacaaac tgccccctta cccatgtcca atatgccaag gnaatcactg gaagncgcgc 2760 tgccccagag gacgaaggcc ctctgggcca gaagcaccca gccagatgat tcagcaacag 2820 gactgagggt gcctggggca agcgccagct cakgccatca ccctcacaga gccccgggta 2880 agttcgacca ttgagggcca ggaagtngac ttcctcctgg acaccggcac ggccttctca 2940 gttttaatct cctgccctag acgactgtcc tcaaagtccg ttactatccg aggaatctta 3000 ggatagcctg taaccaggta tttctcccgc ctcctcagct gcaattggga gactttgctc 3060 ttttcacatg cctttcttgt tatgcctgaa agtcccacac ccttattaag gagggacata 3120 ttakccaaag ctggggctat tatctacatg aatatgggga acaaattacc cgtttgttgt 3180 cccctacttg aagaaggaat caactctgaa gtctgggcct tggaaggaca attcggaagg 3240 gcaaaaaatg cccgtccagt tcaaatcagg ctaaaagacc ccaccacttt tccttatcaa 3300 aggcaatatc ccttaaggcc tgaagctcac aaaggattac aggatattgt tagacattta 3360 aaagctcaag gcttagtaag aaaatgnaag cagtccttgc aacaccccaa tcctaggaat 3420 acaaaaacca aatggtcagt ggagactagt gcaagacctc agaatcatca atgaagcagt 3480 aattccttta tatcctgctg tacccaaccc ctatacaccg ctctctcaga taccagaaaa 3540 agcagaatgg ttcactgttc tggacctcaa agatgccttc ttctgcattc cccwgcacwc 3600 tgactcccag ttcctctttg cctttgagga tcntacagag cacacgtccc ggcttncgtg 3660 gacggtcctg ccccaggggt ttagggatag ccctcatctg tttggncagg cactggcccg 3720 ggacctaggc cnattctcna gtccaggcac tctgntcctc caatacgcgg atgacntact 3780 tcgggctacg agtttggaag ccncacgtca gcaggctact ctagacctct tgaactttct 3840 agctaatcga gggcacaagg catctaggnc agaggcccag ctctgccnac aacaagttaa 3900 gtgtctaggc ctaancctgg ccgaangaac tggggccctc agcaaagagc gnattnancc 3960 tatactggcc taccctcgcc ctaagacatt gaaacagttg cgggggttcc ttggaatcac 4020 tgacttttgc caactgtgaa ttcctggata cagcgaaatg gccaggccac tctataccct 4080 gataaaggaa aatcagaagg caaataccca tctagtagaa tgggaaccgg aggcggaaac 4140 agccttcaaa actttaaaac agaccctggt acaagctcca gccctgagcc tccccacagg 4200 acaaaattta tctttatatg tcaccgaaag ancaggaata gctcttggag ttctnactca 4260 gactcgtggg acagccccac aaccagtggc atacctaagt aaagaaatta atgtagtagc 4320 caaaggctgg cctcactgtt tatnggtggt tgcagcagta gccatcttag tgtcagagac 4380 tattaaaata atacaaggaa aggatctcac tgtctggacn actcacgatg taagtggcat 4440 attaaatgct aaaggaagtn tgtggctctc agataaccgc ctactcaaat accaggcact 4500 actccttgar ggaccagtat ttcaaatacg cacgtgtgcg gccctcaacc ctgccacttt 4560 tctcccagag gatgaggaac caattgagca taactgccaa caaattatag ctcagactta 4620 tgccgcccga aaagatctct tagaagtccc cttaactaac cctgacctta acctgtatnc 4680 tgatagaagt tcatttgtag aaaatwgggt acaaaaggca ggctatgcca tagttagtaa 4740 tacaacagta cttgaaagta agcctcttcc cccagggacc agtactcagt tagcagaact 4800 cgtggcgctt acctgagcct tagaactggg agaagaaaaa agaataaatg tgtacacaga 4860 tagcaagtat gcttatctag tcctacatgc acatgctgca atatggaaag aaagggagtt 4920 cntaacctct naaggaacac ccattaaata ccacaaanaa atcatgaaat tantgcacac 4980 agtgcaaaaa cctaaaaagg tggcagtctt acactgccgg ggccatcaaa aagatgaagg 5040 agaagaagca gaaggaaact accaaacaga kkctgaggcc aaaattgctg ccaggcagga 5100 ctttccttca gaaatgccca tggaaggacc cctggtatgg agcaaccccc tccaggaggt 5160 taagccccag tattccccaa ctgaaacaga atggggactt tcacgaggac atagttttct 5220 cccctcgggg tggctaacaa canaagaagg aaaggtgctc atacctgaag ccagccantg 5280 gaaaatactt aaaaccctcc ancaaacttt tcatacggnt attgaaagta cccataagat 5340 ggccacatcc ctatttacag ggccaaacct cctcaaaacc atccggcaag tagtcaaagc 5400 ctgtgaaatg tgccaaaaaa anaacccctt ggcccactat aaggcctctc cgggaggaca 5460 aagaacagga cattatcccg gagaggactg gcagttaaat tttacccata tgccaaagtc 5520 aagagaattt caatacttat tggtctgtgt tgataccttt acaaattgag tagaagcctt 5580 cccttgtana acagagaagg cccaagaagt ggttaaagtc ttagttcatg aaataattcc 5640 tanatttgga cttccccaaa gcttacagag naacaatggt ccagctttta aagctacaat 5700 aactcaagga atttccaagg cactaggaat acaatatcan cttcactgtg cctggaggcc 5760 acaatcctca aggaaagttg aaaaggcaaa tgaaacactn aagaggcatt tgagaaaact 5820 agcaaaagct catctcccat ggcccactct cttgcccatg gccttattaa gaatccgaaa 5880 ctcccctcac aaaatggggc tcagtccata tgaaatgctg tatggatggc cttttctcac 5940 aaatgacctc ctgctcaatc aggaaacggc caatttagtc aaagatataa cttctctagc 6000 aaagtatcaa caaaatctta aaactttacc taaaaagtgt gacaggaaaa aagggataga 6060 gntgttncaa ccagaagatc tagtattggt caagtctctc ccctctagct ctccntctat 6120 ggatccctna tgggagggac catactcggt aatcctctct acccccactg cagttaaagt 6180 ggcgggagtg gaatcctgga ttcaccacac ccaagtcaag ccttggacan ctcctgagaa 6240 gcttacagaa tcatcaactc cggagtcaca aggtcagcca gaccagcttc gatacacctg 6300 nccgccacna gaggncctgc gtctcctntt tcggaaagga anacctccga ccagaaaaan 6360 tcctggagtt aatcctgaag agggacttct ccttacctaa atgaggatca gtggggaaaa 6420 aaaaaaaaaa aaaaaccaac atgatcttta acttctctcc ttgctctctt taatggaaga 6480 cttctactgt tttgttacat tattaagcac gtttcttcta tctgccttcc ttgtaacagc 6540 aattcactcc tttttccctc ctctttcctg tgaccatttc acttacaaca cttcatgatt 6600 cctcttaggc ttcctgtcat cctcttcata ctcgtgtccc tttctccaac aacaacacac 6660 accccgtgtc agtgtgcctc ccctggagga gacaactggc attctatcag aaactcttgc 6720 agattgggta gccccttcca aacacccaca tcttttgcca ctcatactta catgagaaaa 6780 gaatgttata aaactacatc tctctgttct cacaatagcc ttacatatca ccaaaaaaaa 6840 aaaaaaaaat ccaaactaac taccctaaaa aatgggggac caacacttgt tagacatatt 6900 atacccatat aggtatgtct aacaaaggag aagtccaaaa taagactaaa aaatgacata 6960 tccaataaat aattaaaaac ttagtccaac tatccaatac tcccagtcca tataaaaaat 7020 tagacctttc cagactacaa aaaaccctta actatcattc tcgtccctgg agcctgttta 7080 acaccaccct tacaagaata caagaggcct ctcctaataa tccaaccaac tgttggatgt 7140 gtctcccctt gcgtttccaa ccatatgtcc cagtccctgt ccccagacag tggaacttat 7200 ccaccccagt cctaaacacc accaaattaa tcggtcccat agtcaccaat ttaccagcca 7260 cagaggcctc anatctcaca tgcatgaact tcagcatgac tctcaanaaa aacgcccccc 7320 aatgtcantc ctggacgtca gtaacgtcag gtttcacctg tctaacntca ggcatctttt 7380 ttcatctata ataacacagc ctgtcgatgc ctgaatggca ctccaaaaga actatgcttt 7440 ctctcctttn tagcanctcc catgtccata tgcactgaac aagagttaca aagtctcctt 7500 atancncagt ctcgccagnc acgagccctt attgtccctt ttattgtagg agccagaata 7560 ntnggcgggc tcaagactat tggaattgga ggcataacct cctccaccca attctattat 7620 aaattatcac gaaaattaaa tgatgacatg gaacaagttn ccaacnccct agtgacccta 7680 caaagccagc ttanttctct agctgcggtg gtcctccaaa accagaganc cctggaccta 7740 ttaacagcta aaagaggagg aacctncntc ttctttaaaa aaaagggaga agaaggttgc 7800 tatttcatta accagtcaga aatcattact taaaaantna aataaataag agaacggaan 7860 aaagtagaaa aaaggagctt gaacactcag aaccctgaaa tatgtttaac caatggatac 7920 cttggctcct cccctttcta ggncctgtaa cagccatcct actctactcg cctttaggcc 7980 ttgcattttt aacctccttg tcaaatttgt ttcctccagg atcgaggcca tcaagctaca 8040 aatggtctta caaatggaac ctcaaatnag ctcaactcac agcttctacc gaggacccct 8100 ggatcgaccc actggtccct cactagccta gaaagttccc ctctgaagga caccacaact 8160 acaggtccct tctttgcccc taacaagcag gaagtaacca gaacgaccac cgcccagttc 8220 ccaacagcag ttggggtgtc ctgtttagag gggggac 8257 // ID MER46C repbase; DNA; HUM; 338 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Mariner DNA transposon from placental mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER46C; KW mariner; ZOMBI_C. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-338 RA Smit A.F.; RT "MER46C - Mariner DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC (Zombi_c) 14% div. XX SQ Sequence 338 BP; 98 A; 71 C; 66 G; 103 T; 0 other; caggtccaca atcccttatc cgcaattccg aaatccaaaa agctctgaaa accgaaagtt 60 ttttcataag tttggcacga actcatttgg cggcaaaacc tgacctgaac tgatatgagg 120 ctatttatag tctttattta tcccacttag tgtgaatatt catatatttc gctgcagaaa 180 tattaatgtg tttgattacg gggtgctgcc ccagaccccg ctgggggtgt tatataatat 240 acggtatatg cactatatta cctttctaaa atccgaaaaa ttctgaattc tgaaacacat 300 ctggccccaa gggtttcgga taagggattg tggacctg 338 // ID LTR14B repbase; DNA; HUM; 608 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 02-DEC-1997 (Rel. 2.11, Last updated, Version 1) XX DE LTR of human endogenous retrovirus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW LTR of endogenous retrovirus related to HERVK(C4); LTR14B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-608 RA Kapitonov V.V. and Jurka J.; RT "LTR14B."; RL Direct Submission to Repbase Update (NOV-1997). XX DR [1] (Consensus) XX CC LTR14B sequences are ~94% similar to the LTR14B consensus CC sequence. CC Bases 227-608 are 69% similar to bases 186-548 of LTR14. CC Internal retroviral sequence has been found [1] in GenBank CC sequence CC AC003100 (position 20395-26285). XX SQ Sequence 608 BP; 139 A; 172 C; 136 G; 161 T; 0 other; tgggagaaaa gctgagtgtt gggaaaagct gaggcagggc ttgcatgtct gacataatgt 60 aaaagagtct tggaacatgt ccggggtcca gggtctaaaa cccctcgtgg cctttggaac 120 accaagctct gtgctaaagg gtggaaggct accctgacgc accataatct aagcccaggg 180 cataaaaccc ctcgtggctt ggatagaatc cagggctcgt ggcctctgga atgtgtctag 240 acttgctggc tccttgctcc ttgctctccc aggatcgatt gtatcttgag ttaaaagaac 300 ctgctctcca ttatctcaag tagcagaaca tgttccatat gcctcaaagg aaatgctaaa 360 ccatcacagc tgtagatcat gcgcttaatg caacttgccc tttcgacccc cacattctca 420 ccacctgttt ctttgtttga tcaccaataa atagtctggg cttccagagc tcggggcctt 480 tgcagcctcc atacttagcg ttggccccct ggacccactt tctctctcaa actgtctttt 540 ctcattcctt tgactccgcc ggacttcgtc acccccacga cctggtgttg ggtctgatca 600 ccccaaca 608 // ID MER5C repbase; DNA; HUM; 324 BP. XX AC . XX DT 23-AUG-2000 (Rel. 5.07, Created) DT 23-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Non-autonomous DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; MER5C; KW Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-324 RA Jurka J.; RT "MER5C."; RL Direct Submission to Repbase Update (15-AUG-2000). XX DR [1] (Consensus) XX CC 14 bp terminal inverted repeats and 8 bp target sites. XX SQ Sequence 324 BP; 112 A; 39 C; 55 G; 116 T; 2 other; cagtgctact caaagtgtgg tccatggacc agtgctagtc tgcaaactgt ttgttaccag 60 tccatgataa gataagtaca gaaattgaga gtaagcattt agaaactttt atagcaattt 120 gacagagtaa ttttatgtct gttgaatcta ataataaaaa awgaaaaaat ttgggcttgt 180 attttgtatg tctttttttt ttaaatttca tttttctagt aattcatttt tattgtattt 240 tacaaaagta ttagtctgtg ayagattgga aattaaaaaa aaaaaaaaac tggtccttca 300 ccacagatag tttgagaagc actg 324 // ID MER58C repbase; DNA; HUM; 215 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE hAT DNA transposon from placental mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; MER1_type; KW MER58C. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-215 RA Smit A.F.; RT "MER58C - hAT DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC 22% div. XX SQ Sequence 215 BP; 67 A; 49 C; 52 G; 46 T; 1 other; caggggtcgg caaactacgg cccgcgggcc aaatctggcc cacggcctgt ttttgtacgg 60 cccgtgagct aagaatggtt tttacatttt taaagggttg ttaaaagaaa waaaaaaaaa 120 aaaggcgaag aacatgcagc agagaccgca tgtggcccgc aaagcctaaa atatttacta 180 tctggccctt tacagaaaaa gtttgccgac ccctg 215 // ID LTR7B repbase; DNA; HUM; 464 BP. XX AC . XX DT 18-SEP-2000 (Rel. 5.08, Created) DT 01-OCT-2008 (Rel. 13.11, Last updated, Version 2) XX DE LTR from human endogenous retrovirus RTVL-H2-like. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; LTR7; LTR7A; LTR7B. XX NM LTR7B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-464 RA Jurka J.; RT "LTR7B."; RL Direct Submission to Repbase Update (31-AUG-2000). XX DR [1] (Consensus) XX CC 77% similar to LTR7A. Most differences are in the middle of the CC sequence. 92% similar to individual sequences. XX SQ Sequence 464 BP; 122 A; 148 C; 76 G; 118 T; 0 other; tgtcaggcct ctgagcccaa gctaagccat catatcccct gtgacctgca cgtatacatc 60 cagatggcct gaagcaactg aagatccaca aaagaagtga aaatagcctt aactgatgac 120 attccaccat tgtgatttgt tcctgcccca ccctaactga tcaatgtact ttgtaatctc 180 ccccaccctt aagaaggtac tttgtaatct cccccaccct taagaaggtt ctttgtaatt 240 ctccccaccc ttgagaatgt actttgtgag atccaccccc tgcccgcaaa acattgctcc 300 taactccacc gcctatccca aaacctataa gaactaatga taatcccacc accctttgct 360 gactcctttt tcggactcag cccgcctgca cccaggtgaa ataaacagcc ttgttgctca 420 cacaaagcct gtttggtggt ctcttcacac ggacgcgcgt gaca 464 // ID ALR2 repbase; DNA; HUM; 179 BP. XX AC . XX DT 28-SEP-2000 (Rel. 5.08, Created) DT 28-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Human alpha repetitive DNA subfamily 2 - a consensus. XX KW SAT; Satellite; Simple Repeat; ALR2; Repetitive sequence; KW satellite DNA. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-179 RA Jurka J.; RT "ALR2."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX SQ Sequence 179 BP; 55 A; 26 C; 40 G; 58 T; 0 other; agctttctga gaaactgctt tgtgatgtgt gcattcatct cacagagtta aacctttctt 60 ttgattcagc agtttggaaa cactgttttt gtagaatctg tgaagggata tttgggagct 120 cattgaggcc tatggtgaaa aagaaaatat cttcagataa aaactagaag gaagctatc 179 // ID LTR42 repbase; DNA; HUM; 495 BP. XX AC . XX DT 14-MAY-1998 (Rel. 3.04, Created) DT 14-MAY-1998 (Rel. 3.04, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like sequence. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR42; KW Long terminal repeat of endogenous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-495 RA Jurka J.; RT "LTR42."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX SQ Sequence 495 BP; 109 A; 155 C; 99 G; 127 T; 5 other; tgtagggtcc cccagncttt cccctccttt ctttctctgt cctgaccgaa aaacagantg 60 ccttgaccac tctgtgaccc agccagctgc aggtttttcc ctgcaggctt gaacccaagc 120 cagggccttg aacattccca ggcactgata aaggtattta ggttgttgcc caaaacactg 180 aaagaaacta gccccggccc tgagccaaat tccttaaacc ctcatataaa ctccataccc 240 tgaccccctc gctgcagaca tacctaggta gaacatccct tttctctcac tgtccatctt 300 gaggactgct gcagcccact ctgtaggtaa gttcccctaa taaatgcttt ggactgatca 360 ccctggcatt tagtgcttct ttctttggaa tcccaactgg ccccatctca gganggtttg 420 gggyactccc ttgtgggaac tcccctgcca ctgcttttgg ggcgactcca gccacaggtt 480 cagcgggatr aaaca 495 // ID L1PA8 repbase; DNA; HUM; 919 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA8) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P3; L1PA8; L1PA8 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-919 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-919 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 5.5%. XX SQ Sequence 919 BP; 355 A; 186 C; 193 G; 185 T; 0 other; ctaatatcca gaatctacaa ggaacttaaa caaatttaca agaaaaaaac aaacaacccc 60 atcaaaaagt gggcgaagga tatgaacaga cacttctcaa aagaagacat ttatgcggcc 120 aacaaacata tgaaaaaaag ctcatcatca ctggtcatta gagaaatgca aatcaaaacc 180 acaatgagat accatctcac gccagttaga atggcgatca ttaaaaagtc aggaaacaac 240 agatgctggc gaggatgtgg agaaatagga acgcttttac actgttggtg ggagtgtaaa 300 ttagttcaac cattgtggaa gacagtgtgg cgattcctca aggatctaga accagaaata 360 ccatttgacc cagcaatccc attactgggt atatacccaa aggattataa atcattctac 420 tataaagaca catgcacacg tatgtttatt gcagcactat ttacaatagc aaagacttgg 480 aaccaaccca aatgcccatc aatgatagac tggataaaga aaatgtggca catatacacc 540 atggaatact atgcagccat aaaaaagaat gagttcatgt cctttgcagg gacatggatg 600 aagctggaaa ccatcattct cagcaaacta acacaggaac agaaaaccaa acaccgcatg 660 ttctcactca taagtgggag ttgaacaatg agaacacatg gacacaggga ggggaacatc 720 acacaccggg gcctgtcggg gggtgggggg caaggggagg gagagcatta ggacaaatac 780 ctaatgcatg cggggcttaa aacctagatg acgggttgat aggtgcagca aaccaccatg 840 gcacatgtat acctatgtaa caaacctgca cgttctgcac atgtatccca gaacttaaag 900 taaaataaaa aaaaaaaaa 919 // ID MER21B repbase; DNA; HUM; 863 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 01-JUN-2008 (Rel. 5.05, Last updated, Version 5) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER21B. XX NM MER21B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 19-815 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-863 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [3] (Consensus) XX CC LTR of a class I retrovirus-like element. 4 bp target site dups. CC Copies are on average 17% diverged from consensus. CC MER21B is a member of a closely interrelated group of LTRs CC further CC including MER34, MER39, LTR29, LTR48 and LTR49. XX SQ Sequence 863 BP; 203 A; 188 C; 234 G; 218 T; 20 other; tgtgatattg tgaaatatat atttggtctt cgnccccgtt tcctggcaca nagctcctaa 60 aacccttgga atctccngag tgataggagt ntctttgtgt gctaatgagn tgactgntgg 120 ctggcggccc ctaggtagct tcaggatggg ggctggtcac cagaaagacc aaggcangat 180 tagagggttg ggactttcag ccccaccccc caacctccag ggaggggaga ggggctgaag 240 gttgagttga tcaccaatgg ccaatgatnt aatcaatcat gcctacgtaa tgaagcctcc 300 ataaaaaccc aaaaggacng ggttcggaga gcttctggat agctgaacac gtggaggttc 360 ctggagggtg gcgngcccgg ggagggcacg gaagctctgc gccccttctc ccatacctcg 420 ccctatgcat ctcttcatct ggctgttcat ctgtatcctt tgtaatatcc tttataataa 480 acnggtaaac gtaagtaaag tgtttccctg agttctgtga gccgctctag caaattaatc 540 gaacccaagg agggggttgt gggaacccca atttatagcc ggtcggtcag aagcacaggt 600 nacaacctgg ngcttgcgac tggcatctga agtggggggc agtcttgtgg gactgagccc 660 tcaacctgtg ggatctgacg ctatctccag gtagatagtg tcagaattga attgaattag 720 aggacaccca gctggtgtcc gctgnagaat tgnttgcttg cttgtnngtg gggaaaaacc 780 cccacacatt tggtcacaga agtnttctgt gttgattgtn ntgagtgaga gaatagaaaa 840 aacactttgt ttgtgttttt cca 863 // ID L1PB4 repbase; DNA; HUM; 903 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PB4) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P5; L1PB4; L1PB4 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-903 RA Smit A.F.; RT "L1PB4."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [1] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 13% CC Subfamily linking the PB LINEs with the MA LINEs (via MA4A). XX SQ Sequence 903 BP; 369 A; 169 C; 169 G; 192 T; 4 other; ctaatatcca gaatctataa ggaactcaaa caactcaaca agaaaaaaac aaacaacccc 60 attaaaaagt gggcaaagga catgaacaga catttttcaa aagaagacat acaagcggcc 120 aacaaacata tgaaaaaatg ctcaacatca ctaatcatca gagaaatgca aattaaaacc 180 acaatgagat accatcttac accagtcaga atggctatta ttaaaaagtc aaaaaacaac 240 agatgttggc gaggatgcgg agaaaaggga acgcttatac actgttggtg ggaatgtaaa 300 ttagtacaac ctctatggaa aacagtatgg agatttctca aagaactaaa aatagaacta 360 ccattcgatc cagcaatccc actactgggt atctacccaa aggaaaagaa atcattatat 420 caaaaagata cctgcactcg tatgtttatc gcagcactat tcacaatagc aaagatatgg 480 aatcaaccta agtgtccatc aatggatgac tggataaaga aaatgtggta tatatacacc 540 atggaatact actcagccat aaaaaagaat gaaatcatgt cttttgcagc aacatggatg 600 gaactggagg ccattatcct aagtgaaata actcagaaac agaaagtcaa ataccgcatg 660 ttctcactta taagtgggag ctaaacaatg kgtacacatg gacatacaga gtggaataat 720 agacactgga gactcmgaaa ggtgggaggg tgggaggggg gtgagggatg agaaattacc 780 tawtgggtac aatgtacact attcgggtga tggktacact aaaagcccag acttcaccac 840 tacgcaatat atccatgtaa caaaactgca cttgtacccc ctaaatctat aaaaataaaa 900 aaa 903 // ID LTR8A repbase; DNA; HUM; 727 BP. XX AC . XX DT 30-JUL-1998 (Rel. 3.06, Created) DT 30-JUL-1998 (Rel. 3.06, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like sequence (HUERS-P3) DE related to the MER4I-group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERV8I; KW HUERS-P3; LTR8 subfamily; LTR8A; Long terminal repeat; KW MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-727 RA Kapitonov V.V. and Jurka J.; RT "LTR8A."; RL Direct Submission to Repbase Update (JUL-1998). XX DR [1] (Consensus) XX CC LTR8A is a subfamily of LTR8. LTR8A individual sequences are CC about CC 87% identical to the LTR8A consensus sequence. There is only 71% CC identity between LTR8A and LTR8 consensus sequences. CC LTR8A subfamily consists of two minor subfamilies which will be CC characterized further when GenBank accumulates additional data. CC Solo LTRs are flanked by 4 bp targets, characteristic of CC MER4I-group. CC Internal sequence HERV8I is also related to the MER4I-group. XX SQ Sequence 727 BP; 206 A; 197 C; 131 G; 189 T; 4 other; tgaaactgcc tttgcaaaaa ttataacagt gagaaaatta tgacagtgaa agagatctga 60 tctaaccaac ccccatcttg cctttaacct ccaaactgcc cttaatyatt cctgggcttg 120 ggccaagcta actttgggag acatttagtt tatagtttaa atgataatag cccttcccca 180 aaactmaacc gcctttgtaa agctaatgaa agaccaccag gytaggagga tgagaggagc 240 ctgaattctg ctaaggtgta gacataaacg attaccagcc attattccag aggtcacaag 300 atttgcaact tccccaatta ctcctgcaga taacatcact attgtagaac ctaagattgg 360 ccttttgaga tatcttttca ggtttttttg catttctgac accaatggct ccacctggac 420 ccgccaacca ctcctgtggc cccacccaga agtgactcag cacgcacgag gaccattttc 480 cacaccccta tgattgcatc cccaaccaat cagcagcaag cacccattgc ctagccaccc 540 ccaccccctg ccyaccaaac tatctttgaa aaaccctagc ctctaaattt tcagggagat 600 tgatttgagt aataattctg tctcccacat ggcgtggcca gccttacgtc aattaaactc 660 tttctttatt gcaatgccat ggtctttgtc tgtgcagcgg gcaggaagaa cccatcgggc 720 ggttaca 727 // ID SATR2 repbase; DNA; HUM; 319 BP. XX AC . XX DT 18-OCT-2000 (Rel. 5.09, Created) DT 18-OCT-2000 (Rel. 5.09, Last updated, Version 1) XX DE Primate satellite-like sequence - consensus. XX KW SAT; Satellite; Simple Repeat; SATR1; SATR2; Tandem repeats; KW minisatellites; satellites. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-319 RA Jurka J.; RT "SATR2."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC 86% similar to SATR1 but with multiple indels. XX SQ Sequence 319 BP; 78 A; 60 C; 77 G; 104 T; 0 other; tgtacaccct gtgatattat tcgtaatatc ctagggagat gttactccta atgtcacagt 60 gggtgtacac cctgtgatat tattcgtaat atcctagggg gatgttactc ctaatgtcac 120 agggggtgta caccctgtga tattattcgt aatatcctag ggagatgtta ctcctaatgt 180 cacagtgggt gtacaccctg tgatattatt cgtaatatcc tagggggatg ttactcctaa 240 tgtcacaggg ggtgtacacc ctgtgatatt attcgtaata tcctaggggg atgttactcc 300 taatgtcaca gggggtgta 319 // ID LTR6B repbase; DNA; HUM; 558 BP. XX AC . XX DT 16-JUN-2000 (Rel. 5.05, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE LTR from retroviral-like sequence S71. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVHC2; KW HERVS71; HSRVS713L; LTR6B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 66-558 RA Blusch H.J., Haltmeier M., Frech K., Sander I., Leib-Mosch C., RA Brack-Werner R. and Werner T.; RT "Identification of endogenous retroviral sequences based on RT modular organization: proviral structure at the SSAV1 locus."; RL Genomics 43(1), 52-61 (1997). XX RN [2] RP 1-558 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR6B is associated with younger HERVS71 endogenous retroviruses. CC The copies are 3-4% diverged from the consensus sequence. XX SQ Sequence 558 BP; 135 A; 161 C; 91 G; 171 T; 0 other; tgtaatgccc aaccttgttt ttactaaccc tgtttttaga ctctcccttt cctttaatca 60 cctagccttg tttccacctg aattgactct cccttagcta agagagccag acagactcca 120 tcttggctct ttcactggca gccccttcct caaggactta acttgtgcaa gctgactccc 180 agcacatcca agaatgcaat taactgataa gatactgtgg cgagctatat ccgcagttcc 240 caggaattcg tccgattgat aacgcccaaa gccccgcgtc tatcaccttg taatagtctt 300 aaagcccctg cacctggaac tgtttacttt cctgtaacca tttatccttt taactttttt 360 gcctacttta cttctgtaaa attgttttaa ctagaccccc cctccccttt ctaaaccaaa 420 gtataaaaga aaatctagcc ccttcttcgg ggccgagaga actttgagcg ttagccgtct 480 cttggccgcc ggctaaataa acggactctt aattcgtctc aaagtgtggc gttttctcta 540 actcgctcgg gtacaaca 558 // ID MER67B repbase; DNA; HUM; 661 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 4) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I-group; subfamily MER67B. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; MER67B; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-661 RA Smit A.F.; RT "MER67B."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC MER4-type LTR. Duplicates 4 bp. Average divergence from consensus CC 22%. XX SQ Sequence 661 BP; 162 A; 197 C; 119 G; 179 T; 4 other; tgagaactgc agaactctcg gcacagaaca actccatcca aacccctgca ctaagagact 60 tgaccaaact ctagcatggc ttctagcagc ataaggccgc gtccctagga tgaccccagc 120 ccccccttaa agtgcctgcc tgagaaagct caacgctgcc aggagaattt actgtttgtt 180 ctagccaaca cctgatgata ggcccctgat ctccctttct tagagcattt actaaaaagg 240 gcttacaatt gtgaatcctt cctctgtccc tttgagatat gtatgtatct cctacaactc 300 aggagtgtct ttctcaagga cctgagagcc attcctttga aatgtaatca tcgagaagga 360 tagggcctct gtctcccagt ctctgtggga ggatagaatc ctaactttga taancgccag 420 ctagcagaca cagctggcct aatcacattg acactgacca gccctttgta atttttcact 480 tccctgactc tgctgagccc ccacgtnccc tctccccnct ccctcattct ccctttaaaa 540 cgcccagtca cctctgcaca aattggaatg garctcagct ctttccccta ctgccagtag 600 ttactgaata aaatccgttt tcaccgcttt aactagtgtc cggctttgtt tatctttgac 660 a 661 // ID LTR64 repbase; DNA; HUM; 557 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Putative LTR from human endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR64; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-557 RA Jurka J.; RT "LTR64."; RL Direct Submission to Repbase Update (JAN-1999). XX DR [1] (Consensus) XX CC Less than 500 copies per genome. XX SQ Sequence 557 BP; 157 A; 123 C; 96 G; 170 T; 11 other; gtgagacaaa gtaacaaatg taagaagcca tgtctgctca tttctgcttg ccaacataat 60 ttcacaaagc ccctgactct gtgatgacat gcagctctcn agaaagatgc tttgaagaca 120 aarcaggatr gagcacacag ccccccayrt ctcttgcctg agtcactaya ttccttaaaa 180 gataaatgac cctagtcctt gccttttcct acacagaaga taatgtctga cagggttagt 240 gattatgcct ctgtaatcta taaccagatg tactcttaca cccaaacttt gatgtgattc 300 tgctctaatg taacttctga gcaagtttga tgtgattant tctngcaagt ttgatgtgat 360 tttgcacgta ctgaacctct accacctgta tataagctgt gggctgaaac actgttttgg 420 agcagtctga cagaacctct ctgaaagact gctcccaggc tataggcnty cctcagtcta 480 cagtcctcag taagacttct gaataaaact aactttaatt ctttaaaagc ttgatttttt 540 tntttcttta gttaaca 557 // ID L1MDA_5 repbase; DNA; HUM; 3320 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Partial L1MD LINE1 repetitive element 5' end - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M6_5; L1MDA_5; L1MD_5; MER79. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 500-1 RA Smit A.F.; RT "L1MDA_5."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-1604 RA Jurka J., Walichiewicz J. and Kapitonov V.V.; RT "L1MDA_5."; RL Direct Submission to Repbase Update (28-JUL-1997). XX RN [3] RP 1-1604 RA Smit A.F.; RT "L1MDA_5."; RL Direct Submission to Repbase Update (19-AUG-1997). XX RN [4] RP 1605-3320 RA Jurka J.; RT "L1MDA_5."; RL Direct Submission to Repbase Update (FEB-2000). XX CC 5' end of L1M subfamilies. CC Originally expanded to 1619 bp and classified as a 5'-portion of CC L1 CC (Jurka et al. [2]). A shorter version submitted by A.F.A. Smit on CC Aug. 6 - deposited in the Appendix. Minor refinements of the 1619 CC bp consensus [2] worked out by A.F.A. Smit (August 19, 1997 [3]). CC Replaces MER79 [1] and L1M6_5 [2]. Average divergence from CC consensus is CC 24%. Appears to be 5' end of L1MD1 and L1MD2 subfamily LINEs. XX SQ Sequence 3320 BP; 1301 A; 692 C; 678 G; 627 T; 22 other; ttaaaaacaa agcgggagac ttccgcttcc gggaagatgg agtagacgta cttttcccta 60 ttcctcccgc taagtacaac taaaaaccct ggacattata tataaaacaa acataagaag 120 actctgaaag gtggagagaa gaaggcagac cggctaggga cctcgggacc cgaggaacga 180 cacggtagtg agttccctgg gttttctttt tgcctcatat atcccagact tggagctgaa 240 gaagccggca acccggaaac gccaacgggc acagacaaaa aaagccccaa caaaagcctg 300 ctctctctag ccaaaggacc aggaaagggg cagcctagca agacagaaaa cttttagaca 360 ataaccgctc tactccagcc aaacaccaca gaaaaaactg tggccccacc cccacccacg 420 ccagcaaagg ccgagtgggg agcctagact tccaccctca ccaggctgta acgaggcgcc 480 ccaacacctc caccgggatg gtgtcagaga aggccaagta gggagctggg actttcatcc 540 ccgccaggcg gtaatgaggc ccmccttccc cttgccmctg cggtgtcagt ggagaccacg 600 tggggagcct ggacttccac ccccacccgg cagtaatgag gcgcccctcc ccctccctac 660 tggggtggtg tcagaggagg cctagtggag agtcgggact ttcaccaccg cccagcggta 720 atgaagccac ctcctcctct tgccmccatg gtgtcagtgg aggccacgtg gggagcagta 780 atgaggcact cctacccctc ccagccaggg aggtatcagc ggaggcctag tggggagccg 840 aactcccacc cccgcccagc agtaacgagg agcccctccc tcacctcggg tgtcaacgga 900 ggccgagtgg ggaacctgga cttctacccc cacctggcag taatgaggca gcgcccctnc 960 ccctcycctg ccggagcggt gtcagaggaa gccggctaaa acagaaggtt taaataagat 1020 ccagagtctc ataacataat acccaaaatg tccaggtttc aatcgaaaat cactcgtcat 1080 accaagaacc aggaaratct caaactgaat gagaaaagac aatcaataga cgccaacacc 1140 gagatgacag agatgttaga attatctgac aaagatttta aagcagccat cataaaaaat 1200 gcttcaataa gcaattacga acgtgcttga aacaagaraa aagtagaaag cctcagcaaa 1260 gaaatagaaa gtctcagcaa agaaatagaa gatataaaga agaaccaaat ggaaatttta 1320 gaactgaaaa atacaataac cgaaataaaa anctcaatgr atgggctcaa tagcagaatg 1380 gaggggacag aggaaagaac cagtgaactt gaagatagag caacagaaat tacccattct 1440 gaacaataga gagaaaatag attggaaaaa aaaatggaca gagcctcagg gacctgtggg 1500 actataacaa aagatctaac attcgtgtca tcggagtccc agaggagagg aaaaagagrr 1560 tagtatttga agaaataatg gctgaaaatt tcccaaattt ggcaaaagac ataaacctac 1620 agatagattc aagaagctga gtgaacccca aacaggataa acccaaagaa atccacacca 1680 agacacatca tagtcaaact tctgaaaact aaagacaaag aaaaaaaaat catcttgaaa 1740 gcagcgagag agaaatgaca ccttacctat aggggaaaaa caattcaaat gacagtggat 1800 ttctcatcag aaaccatgga ggccagaagg aagtggcaca acaatttttt caagtgctga 1860 aagaaaagaa ctgtcaaccc agaattctat atccagyaaa aatatccttc aggaatgaag 1920 gggaaatcaa gacattctca gatgaagaaa aactaagaga atttgttacc agcagaccta 1980 ccctaaaaga atggctaaag gaagttctct aaacagaaag gaaatgataa aagaaggaat 2040 cttggaacat caggaaggaa gaaagaacat agtaagaagc aaaaatatgg gtaaatacaa 2100 tagactttcc ttctcctctt gagttttcta aattatgttt gatggttgaa gcaaaaatta 2160 taacactgtc tgatgtggtt ctngcnaaaa atgtatgtag aggaaatatt taagacaatt 2220 atattataaa ttgggggagg gtaaagggac ataaagggag gtaaggtttc tacacttcac 2280 ttgaactggt aaaatgataa caccagtaga ctgtgataag ttatgtatat ataatgtaat 2340 acctagagca accactaaaa aagctataca aagagatata ctcaaaaaca ctatagataa 2400 atcaaaatgg aattctaaaa aaaatgttca agtaacccac aggaaggcag gaaaaagaaa 2460 acagagaaat gaaaaacaga acaaacagaa aacaaaaaat aaaatggcag acttaagccc 2520 taacatatca ataattacat taaatgtaaa tggtctaaat acaccaatta aaagacagag 2580 agattggcag agtggattaa aaaacatgac ccaactatat gctgtctaca agaaactcac 2640 ttcaaatata ataatatagg caggttgaaa gtaaaaggat ggaaaaagat atatcatgca 2700 aacattaatc aaaagaaagc aggagtggct atattaatat cagataaagt agactcttca 2760 gagcaaagaa aattaccaga gacagagagg gacattacat aatgataaaa gggtcaatcc 2820 acaaagaaga catagcaaat cctaaatgtg tatgcaccaa acaacagagc tgcaaanata 2880 tgtgaagcaa aaactgatag aactgaaagg agaaatagac aaatccacaa ttatagttgg 2940 ggacttcaac anccctctct caacaattga tagaacaact agacagaaaa tcagcaagga 3000 tatagaagaa ctcaacaata ccatcaacca ataggatcta attaacattt atagaacatt 3060 ccacccaama acagcagaat acacattctt ttcaagtayc canggaacat ataccaagat 3120 agaccatatc ctgggycata aaacaaacct caacaaattt aaaagaattg aaatcataca 3180 gagtgtgttc tctraccaca atggaatcaa actagaaatc aataacagaa agataacagg 3240 aaaatctcca aacacttgga aactaaacaa catacttcta ataatccatg ggtcaaaaaa 3300 gaagtctcaa aggaaatnaa 3320 // ID L1MC4B repbase; DNA; HUM; 1522 BP. XX AC . XX DT 19-FEB-1997 (Rel. 2.01, Created) DT 25-APR-2009 (Rel. 14.05, Last updated, Version 3) XX DE MER42 repetitive sequence; 3' LINE1. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW Repetitive sequence; LINE1; MER42C; MER42 family; KW MER42c subfamily; L1MC4B. XX NM MER42C. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1522 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX DR [1] (Consensus) XX SQ Sequence 1522 BP; 541 A; 229 C; 299 G; 380 T; 73 other; atgtayagka ggattgatca aataagtaaa cgtattnaag ataatgggag ccaggtttct 60 cactgtcgga gaagggagtt acaaatatgg aaagggrgaa grctagaatg aaccctgtgg 120 tattrgattr gaattggagg tatcagtrtg aactcatgrt ttttaatata yryryryryr 180 tttttcctag tcctgtccac tgagagggcc tagaagcaac gacaccccag tagcaacgag 240 cacacctagc acccagatct tggtttctaa ataccattct ccactaaaag gaaccagggc 300 tccttggaga aatggctgat tctaggacta gggcaggaaa tgtacaagat gagcctggaa 360 catcttgttr tgccagaaaa taaggaagtg ctcaaaaaac gatrrgggca trtcaaaagg 420 acacagaagc cagcttgaag gggctcccac tggccaaatc tgggacaatt tgagcatcaa 480 aataaataat rgtagtaatg gattataact cattgaataa aataaatatc catgagttca 540 tactaatata aataaatgaa taaaawaaat aaatgagaar ggaaagctct tcttacagtn 600 gaatgccaan taataaatnt agaargaata ataatagaaa aatcaccatt aggcaaayac 660 cgcagtaata actgtttyag gcaagatcca tcgatagatg ctmtaattag tgggcgaaar 720 tttgatgaga aacggratat ttgcatagtc tcaaagtatc tcctcacaag atatttatta 780 attacaaagg gaaaaayagt gactttacag tagagaaacc tggcagacac caccttaacc 840 aagtgatcaa rgttancatc accaaaaatg agacaaaytg acatcatgcg cyncctgatr 900 tgatgcgccg agaagaacaa catsgcttct gtgatattcc tgccaaagat gcataacctg 960 aatctaatca tragaaaata tcagacaaac ccaaattgag ggacaktcta caaaataact 1020 ggnctgtact catcaaaart gtcaaggtca taaaagacaa rgaaagactg aggaactttc 1080 tacntttgac ggaagactag arncatgaca actaaatgca acgcgggatt ctgrantgga 1140 tcctggrtcg agaaatagtg ggagtttkta yctataaagg acattattgg gacanttgrc 1200 gaaatttgaa tanggtctgn agattagata atagtattgt atcaatgtta atttcctgat 1260 tttgataatt gtaytgtggt tatgtaagag aatgtccttg tttttaggaa anacacactg 1320 aagtatttag gggtaaaagg ncatsatgtc tgcaacttac tctcaaatrg ttcagraaaa 1380 aaaatnnata tayataarya gagaatgata aagcaaatgc ggyaaaatgt taacaattgg 1440 tgaatctggg tgaagggtat acgggwgttc tttgtactat tcttgcaact tttctgtaag 1500 tttgaaatta cttcaaaata aa 1522 // ID LTR47A2 repbase; DNA; HUM; 432 BP. XX AC . XX DT 28-MAR-2009 (Rel. 14.03, Created) DT 28-MAR-2009 (Rel. 14.03, Last updated, Version 1) XX DE LTR from human endogenous retrovirus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR47A2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-432 RA Jurka J.; RT "A variant of LTR47A subfamily."; RL Repbase Reports 9(3), 703-703 (2009). XX DR [1] (Consensus) XX CC The 5' half is different from other LTR47. ~82% identical to CC consensus. XX SQ Sequence 432 BP; 110 A; 104 C; 94 G; 122 T; 2 other; tgtaggaaaa cagcctgttg catggcaaga gtgatgccat cttgaagcaa aaccaccatg 60 atgaccgatg tttgactcct gcataccaag gtgttctgca gcaaggtctt taaacaatgc 120 ctgtagcata gataacccct cataaagatg cttatctaac ctccccagtg gtcacaagtt 180 ttggcaagaa agtctgagac atgaccagct gcacatgtct ttaccctaaa agcttgctat 240 ataaaggata ctttctggag ggtgggtgca gggratccac tatctcacgg ctacctgaga 300 catcgcttct gtttgtaagt ccctattaaa trtttctttc tgagaaactg gatttgtcag 360 cctctttctt tggcctctca gctccctcag cctttggggg taggtttgca tagacctgct 420 caccgtggaa ca 432 // ID MER87B repbase; DNA; HUM; 509 BP. XX AC . XX DT 31-MAY-2008 (Rel. 13.05, Created) DT 31-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Long terminal repeat of LTR-retrotransposon: consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER87B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-509 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(5), 610-610 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 509 BP; 146 A; 121 C; 94 G; 147 T; 1 other; tgtaacagtg aaacagcaaa agaactaaca taactaactc catttttgtt taaggggcct 60 ttacccattc ctgcacatag gctaggataa ttttagagca ctgagataat atgcaaaaac 120 agcaatcatg tagtttttaa aactaactct gggattaaag grgaagtatg taaacaacta 180 actgttttgt taaagattta taggagcatt gtgacctgac caaggacaaa gaaggaagtt 240 cccaacctcc ttggaccctc gctggtgccc agatgtctgc agtcatcagt cacctcttga 300 tcccaacccc ctcctcttcc cctgccctta acataaaaag agcctgaaat ttgtactgac 360 ttaagatggt actttaggac aatagtccta gtccaccatc ttctcggttt gctggctctc 420 caaataaacc tgcttttcct tcctaccaac tccttgtctc tcgagtttgg cttttgagca 480 gtgagcagct gaacctgggt ttggttaca 509 // ID CHARLIE1 repbase; DNA; HUM; 2761 BP. XX AC . XX DT 09-OCT-1997 (Rel. 2.09, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE Autonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; Charlie1; KW DNA transposon fossil; MER64; hAT superfamily. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-177 RA Smit A.F.; RT "CHARLIE1."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-2761 RA Smit A.F.; RT "CHARLIE1."; RL Direct Submission to Repbase Update (1997). XX RN [3] RP 1-2761 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [3] (Consensus) XX CC An apparently full-length member of the the hobo/Activator/Tam CC group of DNA transposons. The coding region from bp 596-2521 CC encodes CC a transposase related to those of the other members of the CC family. CC 15-16 bp terminal inverted repeats. 8 bp target site CC duplications. CC Individual copies on average 20.5% diverged from consensus. XX SQ Sequence 2761 BP; 882 A; 477 C; 509 G; 875 T; 18 other; cagcggttct caaagtgtgg tccgnggacc cctgggggtc cccgagaccc tttcaggggg 60 tccgcgaggt caaaactatt ttcataataa tactaagacg ttatttgcct ttttcactct 120 cattctctca cgagtgtaca gtggagtttt ccagaggcta catgacgtgt gatgacatca 180 tcgctctgat ggctaatgga atgtgtgctt gtgtattctt gtgttttcta aaattttcta 240 aggtagtagg tttagggtat aaatacgtgc gttttcagag attaactcag tttnttctca 300 gtacttctac cgtgctctta ctagctatct tcggttatac ctgctataat ctctgtaacc 360 tcattatcgt ccaataaatc gttattttga aatcctgaag ttttccttgt gcctatgtgg 420 aaacacaaga agtaagtaca ctttgttgtc ttgttttgca ataatatttt aaanattttc 480 caaatgttta aattttatct aaaactacta ttttagaatt taataatatt tattctaaaa 540 taaaatttta tttataatgt ttttcttata tttaaggatg gatngttggc tttaaaaagg 600 gagattagaa gactcgcttt ctcaacccac agctgcancg tctacgtcta aagatgctga 660 aatgnacgaa actgacatat cagcaagttc tctggctcat ggaagggagg aatctactcc 720 aaagaaactg ggcaaaactg taaataaaaa acaaaaatat gatgaaagct atcttttcct 780 cagctttata gatgttaata atttacctta ttgtgtctta tgcaacagaa cgttttcgaa 840 tagtattatg gtgccagtta agttgcggca tcattttgag accaatcatt cagagtttaa 900 agaaaaagga attaaatatt ttaaacgtag atgtnatgag ctctttaaaa gccaaaaatt 960 gtttsttnca gcttttcaaa ctagaaatga aaaagccact gaagcatctt acaggataag 1020 ttgccgcatt gcactggctg gagaagcmca cacagtaact gagagackaa taaagccttg 1080 wacagttgac attgctgaat gcctgctgga tgaaaagtca gtaaaagaaa tcatggcant 1140 gccgctttcc aatgatacaa naactcgtca aattaaagat ttagctgcaa acatgaagac 1200 cgagttaata tctcatctgc agaattgtac ttttgcctta caaatggaca aatctacaga 1260 tgtggctgga nttgctgttt tgcttncatt cgtccggtat cagcaccaac tgatcatcaa 1320 agaanatctt ttatgtgaat gcttggcagc aaacacaagt ggtgctgaaa tattcaaagt 1380 gttgaatggc ttttttgaat cccatggttt atcctggaac aactgtgttg acatttgcac 1440 tgatggtgca aaagcaatgg tgggtaaaac tgctggcgcc ttagcacgaa tcaaggcagt 1500 ggcaccaaac tgtactagta gtcattgtat tcttcaccgc cacgcactcg cagtnaaaaa 1560 aaagccagtt tcacttaaga atgtccttga tgaagcagta aaaattatta attttattaa 1620 atctcgaccc ttgagtacac gtctttttaa tattctgtgt gacgaaatgg gaagtacgca 1680 taaagcactt ctgctgcata ccgaagtacg atggttgtct cgaggaaaag cacttgtgcg 1740 attgtttgag ttgcgagctg aactagccgc ttttttcatg gaacaccatt tttacttgaa 1800 agaacgactg acagacaaac tatggttatt cagacttggg tatttggcag acattttctc 1860 gaaaatgaac gaagtgagcc tgtcacttca aggaaaacaa ctgacagtat ttgttgccaa 1920 tgataaaatt cgagctttca agcgaaaatt agaattttgg aaaacttgta tccgccaccg 1980 tgagcttgac agcttcccaa tacttaaaga cttttctgat gagatcggtg gtgatattaa 2040 cgaatgtgat tttttgatat tgtataatga aatgtgtcaa catttggaag atctgcataa 2100 ctcagtgaac caatattttc caaatgacca atgcatgatg ttacaaaatc atgcatgggt 2160 aaaagatcca ttcaaagtgc aagatagacc aatggatttt aatgtaacag agtatgaaaa 2220 gttcattgat atggtttcag attccacatt gcaactaacc tttaagaaac taccacttgt 2280 cgagttttgg tgtagtatca aagaagaata tccacaatta tctgaaaagg ctattaaaat 2340 actcctccct tttccaacta catatctgtg tgaggccgga ttttcttcat atacttcaac 2400 caaaacaaca tatcgcaaca gattgaatgc agaagcagat atgagaatcc agctgtcttc 2460 tattaagcca gacattaaag agatttgcaa aaatgtaaaa caatgccact cttctcacta 2520 aatttttttg ttttggaaaa tatagttatt tttcataaaa atatgttatt tatgttaaca 2580 tgtaatgggt ttattattat ttttaaatga attaataaat attttaaaaa tttctcagtt 2640 ttaatttcta atacggtaaa tatcgataga tataacccac ataaacaaaa gctctttggg 2700 gtcctcaata atttttaaga gtgtaaaggg gtcctgagac caaaaagttt gagaaccgct 2760 g 2761 // ID LTR38B repbase; DNA; HUM; 610 BP. XX AC . XX DT 01-APR-1999 (Rel. 4.03, Created) DT 01-APR-1999 (Rel. 4.03, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR38B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-610 RA Jurka J.; RT "LTR38B."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC 66% similar to MER38 over the entire length. CC 3' similar to LTR36 and distantly similar to MER87. XX SQ Sequence 610 BP; 164 A; 154 C; 96 G; 170 T; 26 other; tgtaaccagg cagcttarct tcaaaatgca ttttaaaact tttttttccc tttctcttga 60 gtttcaagat ataaccttga agcaaactgc agaagccttt tctcttatcc ttaaaataga 120 ctccanatcc ctccctttct caccgtatat actcccttca catttatcta actgtatgct 180 agtatctaat tatgtgctta cttagaagtt ccaggggcta atcttgagac agacagacca 240 agcctggaga cccagctgca aaattccaga gattacytca aggcagctag tcaacaaccy 300 rgccattgtt gagatgaygc cagcccacas tccaggtgga ctgggaccca agatagccac 360 cggaaaaaga cacacagacn ttgtactcag cacaattctt gcmagcacan tkngnaatgc 420 ctyccwtatc aagttttccc tttttaaacc cttgccttcy ccctaaaart tgaagyggtt 480 gctttggata ggaatcyggc crcttcccca ttactagttt tggttaataa agtcactttc 540 tttctacyag acctcactct tgtcaattgg actctgyaag cagyragcag ccdgacccat 600 gtcakttaca 610 // ID LTR33 repbase; DNA; HUM; 521 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE LTR from endogenous retrovirus-like sequence (HERVL33). XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR33; KW Long terminal repeat of endogenous retrovirus; MER55. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-468 RA Kapitonov V.V. and Jurka J.; RT "LTR33."; RL Direct Submission to Repbase Update (OCT-1997). XX RN [2] RP 1-521 RA Kapitonov V.V. and Jurka J.; RT "LTR33."; RL Direct Submission to Repbase Update (DEC-1997). XX RN [3] RP 1-521 RA Smit A.F.; RT "LTR33."; RL Direct Submission to Repbase Update (DEC-1997). XX DR [3] (Consensus) XX CC Average divergence from consensus 29%. LTR33 is a putative LTR CC [2,3] of CC an endogenous foamy virus, as it flanks an internal sequence CC closely CC related to HERVL and MERVL [2,3]. CC 6 bp target site duplications[3]. XX SQ Sequence 521 BP; 73 A; 170 C; 130 G; 142 T; 6 other; tgtgctggat atcttctgtt tgcccctcca gatccactct ccacccttct ccaccctgct 60 ctgtgccccg ggaggctgac ctctatggac tgcatcamcg ggctcccttg ccctctggct 120 tctggttggg tttggccaat gggaggcact ggcaggagat tggagggtgg aaggagagwg 180 agatcggggt atttattccc cyggctccct ccctgctggg ctgcggtttg gcagtggctg 240 cgttcctcta ccgaaggcca cagctcctgt cgggcagccc tctccttgta gctacagctm 300 cagctctctc tgggttccgg taacmgctcc ctccccttgc cccttcaggc ctaggggtgg 360 taacagctyc ccgctgttgc tagccccggg gtgcttcacc atcccttgtt ggtttccctt 420 aaccctgccc acacctttgt aaatagtccc ttcattaaac tctcctcaat tactccattt 480 gagtgtgcca tctgtttcct gccgggaccc tgactgatac a 521 // ID L1MA9_5 repbase; DNA; HUM; 2113 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE Subfamily of LINE1 repetitive element 5' end - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1 subfamily; L1M6_5; L1MA9_5. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-2113 RA Kapitonov V.V. and Jurka J.; RT "L1MA9_5."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC 5' end of L1, probably of the L1MA9 subfamilies. CC Multiple ~30 bp tandem duplications in promoter region. XX SQ Sequence 2113 BP; 522 A; 791 C; 500 G; 279 T; 21 other; gacatcagca agatggcgga ataggacttt ccagcgctcg tcctcacaga aacatcaatt 60 tgaacaacta tccacgcacg aaaatacctt cacaagagct aaggaaacca ggtgagagat 120 tacagyacct gggtgtagca cagaaataag aaaagacgca ttgaagaggg taggaaggac 180 agttttacat tacccgcgtc acccctcccc caancccagg cagcacagca tggagagaga 240 taccctctgc ttgggggaag gagagggaag tgagcacagg actttgcctt ggaccccaaa 300 cactaggccc gccccagtaa aacccagtac taggcaggcc cccatagccc cagactccag 360 gccagtacct acggactgag ccgyaccaga tcccacagcc caggctccag gcctgcctgg 420 tggactcagt ctccaggcct gccccagcac caggccaacc ccagtgcccc aggctccaga 480 ccggccccag caccaggcca gccccagtag ccccaggctc caggctgscc ccagcaccag 540 gctggccccc atagccccag gcttcaggcc caccccagca ccaggctggc ccctrcagcc 600 ctagtcatca ggccagcacc tatagaccca gcctccaggc tggcccctgt agacacaggc 660 tccaggccta cccagcrcca ggccagcccc tgtagcccca ggctccaggc ccaccccagg 720 ytccagacca gcccagagcc aggtyggccc acatagcccc aggcttcagg cctgccccag 780 yaccaggtca gcacccctgg cctcagacct tagccaggta ccaggctggc acctgtagac 840 acaggctcca ggcctgccca gtaccaggcc agtccctgtg gccccaccct ccagggcyag 900 cccctgtggc cccatgctcc agcagaccca gggttcaggc ctgtcccagt agaccccagc 960 actaggctag tccccataga cccaggctcc aggactgtcc ctgtgtaccc aggtcccagg 1020 gcagccccta tggccccagg acccaggcca gccctcagag acctagcctc taggccagcc 1080 ctgcagaccc agcctccagg ctggcaccca yagacccaag ctccaggcca tcccccaggt 1140 tccaggccag cctcagtagc tccaggcacc aggctagcac ccacagaccc aggctccaga 1200 ctagccccac gctaccccag caccaggcca gccccaggct ccaggctggt ccctgtggcc 1260 caggctccag tggacccagg gtccaggcct gctccagcag acccagggtc caggcccacc 1320 ccagtagacc ctggttccag gctagccccc atggactcag gctccaggac cacccctgca 1380 gacccaggct ccaggccagc cccyatggac caggatccar ggcccatytc cccagttgca 1440 ggctccaggc ctgccccagt gccaggccag cccccatgga ctcaggctcc aggcccatcc 1500 cagtggaccc aggctccagg cccatcccag yaccaggcca gcccctgyag actcaggctc 1560 aaggcccacc ccagcaccag gtcagcccct gtggacccag gcttcaggcc agcccctata 1620 gacacaggct ccaggccyac cctcatggac ccaggctcca ggcccayccc cacagaccca 1680 atcaacaggt ccacccagtg gatccaggct ccaggcycaa ccctgtggac ccaggcacca 1740 ggcctgccac ctgctgaccc aggcaccagg ccagcctgcc taaggactcc agcagcaagc 1800 ctgcctatag accataccag atggcctgcc cagaatctct ggatgactgg tgaagggctt 1860 tcccagacaa agccagtctg caaagactgg aataagtccc tacttcttca aatgtgcaga 1920 caccaatgca aggcccaaga atcawgaaca atcagggaaa catgacacca ccaaaggaac 1980 aaaataaatt tccagtaact gaccctaaag aaatggagat ctatgaactg cctgacaaag 2040 aattcaaaat aattgtttta aggaagctca gtgaactwca agaaaacaca gatagacaat 2100 taaatgaaat cag 2113 // ID HERVK11I repbase; DNA; HUM; 7953 BP. XX AC . XX DT 05-NOV-1998 (Rel. 3.1, Created) DT 19-NOV-1998 (Rel. 3.1, Last updated, Version 2) XX DE Internal portion of HERVK11, a HERVK-related endogenous DE retrovirus. It is flanked by MER11 LTRs. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERV; KW HERVK superfamily; HERVK11I; MER11. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-3879 RA Kapitonov V.V. and Jurka J.; RT "HERVK11I."; RL Direct Submission to Repbase Update (04-NOV-1998). XX RN [2] RP 1-7953 RA Kapitonov V.V. and Jurka J.; RT "HERVK11I."; RL Direct Submission to Repbase Update (18-NOV-1998). XX DR [2] (Consensus) XX CC Average similarity to the consensus sequence is about 93%. CC 6 bp target site duplications. There are two major subfamilies CC of HERVK11. HERVK11I is a consensus sequence of internal CC portions flanked by LTRs MER11A, MER11B and MER11C. CC Second subfamily (HERVK11DI) is flanked by LTR MER11D, and it CC is only 65% identical to HERVK11I. CC HERVK11I codes 4 proteins: gag (position 156-2297), protease CC (2063-3082), pol (3037-5785) and env (5624-7951). XX SQ Sequence 7953 BP; 2107 A; 1931 C; 1565 G; 2350 T; 0 other; tctggcgccc acgtggtctt tcttttttcc taagtgcatg tgggaacccg attccctttg 60 gtaggtgcgg agaaacgtca tcggttcggt ccacagaaac gcttgttcga ctccccgacg 120 actggtgagt agtctgtgta tggtccgggt taactatggg tcacgcggag tctaaacatt 180 atgcttatct ctgctatatt aaactcctgt taaaacaggg cggggttcga gtgcccatgg 240 aaaatatggt cactctattc agggcggtgg aaaaatactg tccttggttt cctgaaaaag 300 gaaccttata tgtagaacta tgggatcatg ttggttcaac attccgggaa ctggtcccag 360 caggaaatta tgttcccgtc actgtttggg gtgattgggc cttggtacgt gccgtcctaa 420 tgacatacca atcccgtgac cccctgcagt taccacagtt ttctgaatct ggcgatcctc 480 cgcctcttcc tcagctttcc tctcccacac ggccttcatt atctgctcag cctctccctt 540 cgcctactcc tcccccacct aacgatactg aggattcaat gtctaactcc ggtgactttg 600 gcttaacgtc accccctgat gatcttattt cttttcacga agagctggta cttgtagctc 660 ccgcggcccc gactcagaca gcccgggacc atatatatgc taattcttcc ctcttcaaac 720 ctttgcagtc tttgcctccg gagccaccta atggctccag gaccaaacta caatttacct 780 gtaattctgc aggccctccc ccatccactg cagcccctca ccctcctgtc gtttcggttc 840 ctcaaccggt cactttgcca tccactcaac ctgcttctct gtacccttct tcacacatgg 900 ataccagtaa tcaccagtac gcttctgcct cttctgctcc cccaatgccc ctttctcaca 960 ctctcatacc ggtccgacct cctcaacctc agtttccctt atctacacat acttttcctg 1020 tcacttctat gccgactccg tctcatgtgc ctgctcttga aacttccatg caatgcttat 1080 tacgccaaaa caaagaaaca agtggattag aggtgtgggc ttatccggtc acgctggaac 1140 ctcccaatgc tcaaggggta caaatgcgtc gatatgcgcc gctcaatctt acctttttaa 1200 aagaatttaa ggatgcttgt actcagtatg gtcctacttc tccttatgtt aaaatggtat 1260 tacaaacttt ttgtactgag gtcattttgc ttcctttaga ctgggacctt ttggcaaaag 1320 ctgttctaac tccatctcag catttacaat tccgtacctg gtggtcagag gaggcccgtc 1380 tgcaggctca gctaaatcgg actaatggca ttctaattac tcaggctcag ctcacaggct 1440 ccgatagttt ctctgatact tacgcccaat taggctttga tgctcttacc acggaacaag 1500 taacaaaggt gtgtatgaga gcttgggata aattacgcgc cccaggccaa gctcctgttt 1560 cttttactac tgttaaacag ggtcacaatg aattataccc tgattttttg gctaaattac 1620 aagatgctgt tgaaaaatct gtctctgatg agcgcgctca aggtattctc cttcgtatgt 1680 tagcttttga aaatgcgaac catgagtgta aaatggccat gcgttccgtc caacgacaaa 1740 atttacctga tcacgaggtg ttgcctgcat atattaaagc ttgtgaaggc attggatcag 1800 agacccacaa agctattctg tgggcacggg ccatgaagga cgccaatcaa actggctcga 1860 ctaattcttt tcttggagcc tgctataatt gtggtcaact tggtcatact cgaaaaaatt 1920 gcactgttaa aaacttaaaa gcggccaagc cggctcaaca aacacggcca aatgctcctg 1980 ctactgtttg cccacgttgt cgtaaaggta aacattgggc aagtacttgc cactctaagt 2040 ctgatataga tggaaatccc ttgccacaga accagggaaa cgggaagcgg ggccagtccc 2100 aggccccaat atcaaatggg acacctcaga ctcagaccaa cgttgcgttt ccgcttcaag 2160 cggtcccaac gcagccccca gcacaaacaa atttacctac agccaaccca gatgggtccc 2220 agcctcttct tctgtctcag tacaatgctt gtctacctcc acagtagggg gcagggcggt 2280 caatctctgt agtaccattc ctctaaattt actacctaat tctttgcctt taattgtccc 2340 cacgggggcc actggccctt tacctcaagg ttcggtgggc ctggtgttag gcagggcatc 2400 cacctctgct aaaggtatca tagttcatac tggtctcatt aattctgatt cctctgatga 2460 gattaaaatt atcgtgtctg ccaaggttcc tgtttccatt ccggccggtg agtcaattgc 2520 tcaattgctt ttactaccta atatcgtttt aaacaaagga gataagacac gtggccctgg 2580 gatgggctcc ggcggtgaaa aggccgctta ttggattaat gtaatttcta aacaacggcc 2640 cacctgcacc atacacattc aaggaaaaaa gtttgagggc ctagtagata ctggggctga 2700 tgtttctatt atttcctcta ctttacggcc ttcctcctgg cttaaacatc ccgccaacat 2760 gggactagta ggtgttggaa aagccgagga agttcaccaa agcacattta tcttggcttg 2820 cactgggcct gatggtcaaa agggaacaat tcagccttat atcatgccca tccccattaa 2880 tcttcggggc agatatttgc tggaacaatg gggggctgaa attaatattc cacataactc 2940 ttatagtgct cccagtcagc atatgatgga aaacatgggg tttgttcctg gactcggtct 3000 cggtccaaag catgaaggga ttactaaacc cctcccaatt actataaaag aagacagggc 3060 tggtttaggt tatccttttt agtggcggcc gctgccacgc ctcctgatcc tatcccttta 3120 caatggaaat ctgacacacc cgtttggatt cagcagtggc cgctttctaa agaaaaactg 3180 gaggctttaa ctcaattggt ttctgaacag ttacaacttg gaaatgtgga accttctctt 3240 tccccctgga attctcctgt gtttctagta aaaaagaaat caggcaaatg gcggatggta 3300 accaatttaa gggccattaa tgctgtaatt aaacctatgg gggccgtcca acccggcatg 3360 cctgcccctg ctttaatacc taaaaattgg cctctcatag ttattgatct taaagattgt 3420 ttttttcata ttgctttaca taaatcggat tgtgaaaaat ttgcttttac tgtaccatct 3480 atcaataatc aggagcctgc agctcgttat caatggaaag tacttcctca gggaatgcta 3540 aatagcccta caatctgcca gctttatgtt ggacaagtgc tttcaccagt tcgagcccaa 3600 tttccccagg cctatattct tcattatatt gatgatattt taattgctgc ccccactgat 3660 aaagaattaa ttgactgtta tcaaattttg agccgctgtg ttacagaggc tggattacac 3720 attgctcagg ataaaattca acagaccact cctgttcaat atttaggaat ggtggtcgat 3780 aaacaacgta ttcaacctca aaaagttcaa attaggagag attctttgaa aactttaaat 3840 gacttccaaa aacttttggg taacattaat tatttaagac ctactttagg cattccgaaa 3900 tatgcgctgt ctaacttgtt ttctacgctg cgtggagatt ccaatctccg cagtctcagg 3960 actttgaccc ctgaggcttc accggaacgg gaattcatgg agggaagaat ccagactgcc 4020 cagttatcta gagtacagcc atttcagcct tttcagcttc tggtttttgc ttcattgcac 4080 tcccctactg ggctaatagt tcaacataat gatttagtgg agtggtgttt tcttcctcat 4140 tctgtgtcaa aaactttgtc tgtttatctg gaccaactgg ccatcttaat tggacaagct 4200 cggtgtaaaa tacttgaaat ttccggattt gatccaaatt taattgtagt tcctttaaat 4260 cggctcaaaa ttcaagccac ctttcaacat tccgtactgt ggcaaattca cttggctgat 4320 tttattggcg ttattgacaa tcattatcca aaaaacaaat tgtttaattt tataaaaatg 4380 acatcttggg tggtccctcg attaaccaaa gatcagccca ttcctgaggc cattacagtg 4440 ttcactgatg gctccagtaa tggaaatgct ggttatgtgg gtcctacaga caagcttatt 4500 tctacccctt atacctctgc tcaaaaggca gagttaattg ctgtaattac tgccttacag 4560 gatttcccca aacctttaaa tattgtctca gattccgctt atgttgtaca tgccactaaa 4620 aatatagaaa ccgctactat caaacatatt gataattctg aattggcttc tttattttca 4680 aggttacaac aggtggttcg ccagcgtaga caacctttct atattgcaca tattagatct 4740 cataccactt taccgggacc catgtctgcc ggtaaccata aagtcgactg tttggtctct 4800 tttgcaaccc aagaagctca ggagttccat aatctcactc atgtcaatgc tgctggatta 4860 aaagataaat ttgctcttac ctggaaagag gctaagctta ttgttcacag ctgttctcag 4920 tgtcaagttt ttgtacttcc aaatcaggaa cctggcgtta atcccagagg cctaactcct 4980 aatgatttat ggcaaatgga tgtgactcat gttagctcct ttggcagact ctcatatgtg 5040 catgtttctg tagatacttt ctcaggtttt atctgggcta cttgccaaac aggggaaggc 5100 atggcccatg ttaaaaaaca tctgtattct tgctttgcag ttatggggct tccacgtcaa 5160 atagagacag acaacgcctc tggatatgtt agtaaggctt ttgacttatt tatgcaacaa 5220 tggagaattt cccttattac cagaatcctt tatgatcctc atggacagac tgtggtggag 5280 tgggcaaatg gcactttaaa aactcaattg gaactacagg tgtgtccaac aaagcataat 5340 ttaactactc cccactccca attacatttg gcattgttta ctttaaattt tttaaatgtt 5400 cctaaaaata atactctaac tgcagccaaa cgccattata caggcaaaaa attctcccta 5460 aacgaaggca agccagtgtt atggaaaaac tcccaaacca atacctggga acctggaaca 5520 attataacgt ggggaagagg atatgcttgt gtttcaccag gagatcatca atcccctgtc 5580 tgggtgccca ctagaagact taagcttcgt gtgaatactg acaatgaaaa ccacagggaa 5640 aagacgtccg tgtcagagac cgccctcaga cgtggtgaga tctgtgccaa ctcctcagaa 5700 gctggcacgc caaatcaaaa tgggtctgat tcaatcctcc ctgatggcaa cggagaccca 5760 tctaactaat cccacttctc ctaattacct ttctttttct ccttacaaac ctaaaaatct 5820 caccatttct attagcctga aaataacatc cctctgttct tctcttcctc cttcagcact 5880 gaatctcgct tacaataggt tttatttaat gattctcctc cttatacttt ctgtctcacc 5940 agtttcctct cacactgatt tacctgctac acaaaattat tcttattggg cttatgtgcc 6000 ttttcctcca cttattcgac ctctcacctg gatggatgct cctgcagaaa tctacactaa 6060 cgatagtgtg tggatgcctg gagctacaga tgaccattgc cctgctcaac caggagaaga 6120 aggcactgca tttaatgtta ctatgggtta taaataccct cctctgtgcc tcggacatgc 6180 acctggttgt atccatctag aaactcaagt ctgggctgct tatcttccgg agagatcagc 6240 tacagagaaa tggggacatt tggtctccgg cctctccctt tctcctttaa gacaaatgaa 6300 agggggagta ataggagata ccccatactt tcaatataaa cctgtaggaa aaccatgccc 6360 taaaaatttt gagggcccat ctaaaacttt aatttgggaa gattgtgtta actcacatgc 6420 agtaatatta aaaaatgact catatggttt agtaatagac tgggcaccaa agggctattt 6480 aaaaaacagt tgctcctctg gcggaaagga atgcctggag gctacttatt ttatttctta 6540 ttgggaggac gaggatcatc atcctacttt gcataggagg ttcagctcgt tctttccctt 6600 aaaatgggaa gataagggca ttaccccccg ccacccgagg cctcgtatga tattccccat 6660 tctgagccca gaacacccag aactttggaa attggctatt gccatgtctg gactgcgagt 6720 atgggaaggg gaaacttttc tgtctgttgt ccccactacc gcccctcaca tccgtgattc 6780 tgaaccccat gataaatccc ctttgaacct ttttcctctt tttgatgccg atcctccttt 6840 atgggactcc gattggcatt acgataattc ttatcgaccc aggtatgccc ctctacctct 6900 tcagcatccc caggcacctc ggattgcttc tttacggtgg agaacattgg gcattgccac 6960 cgccgctcct ctccctcagt atcaacgtag attcagacat tctgctttgt ttacctccaa 7020 cctgactatt cctatacaga gttgtgttaa gcctccttac atgctgttag tgggaaatat 7080 caaaatttgg acgaacaatc aaactgtcca atgcattaat tgtcatttat acacttgtat 7140 taactcccgt tttgactcca ggaaaagtgt aatgttggtt cgagctcgag aaggaatctg 7200 gattccggta actttgccca gaccttggga atcctccccc tcaatacatt taattaatga 7260 agtgttacag cgaattctaa aaagatctaa gagatttgtt ttcactttaa tcgctgtgat 7320 catgggccta attacagtca ctgcactggc caccactgcc ggaatggcat tacatcaatc 7380 tattcaaacg gctcattttg ttaatgattg gcaagccaat tccacccaaa tgtggaattc 7440 tcaacaaggc attgatcaaa aattggctaa tcaaattaat gatttaagac agtctgttat 7500 ttggcttgga gatcgggtag tgagtctcga acatcgcatg caaatgcagt gcgattggaa 7560 tacttcggat ttctgtatca ccccatattc ctataacgag actgatcatt catgggaaat 7620 ggtcaaagga caccttctgg gtagggaaga taatttatca ttggacataa ctaaattaaa 7680 gaaacaaatt tttgaagcct ctcaagctca cttatccatt gtgcctggag ctgaggcgtt 7740 agatcaggtg gcagaaaatc tttctggact aaaccccacg acttggatta agtctattgg 7800 gggctccact gtagtaaatt ttggaattat gtttctctgt ttaatcggct tgtttttagt 7860 gtgccggacc agtcaaagaa tcctgcgtca aaatcgagag aacgaacaag ccttcatcgc 7920 catggcacat ttatataaaa agaaagggag aga 7953 // ID L1MEB_5 repbase; DNA; HUM; 1089 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Partial L1ME LINE1 repetitive element 5' end - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1ME1B_5; L1MEB_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1089 RA Smit A.F.; RT "L1MEB_5."; RL Direct Submission to Repbase Update (AUG-1997). XX DR [1] (Consensus) XX CC 5' end of L1ME1 or L1ME2 LINE1. CC Average divergence from consensus is 26%. CC L1MEB_5 is 70% similar to L1MDA_5 sequence. XX SQ Sequence 1089 BP; 437 A; 209 C; 227 G; 195 T; 21 other; cagacttccg cttccggtaa tggtggagta agctcctacc ggaccaaccc tcccgcagat 60 aacaactata aactctggac aaaatacaaa aaacaactac ttgaaggcac tggagagtga 120 ccaaaagcag gcagaaactg gaggggagtc gacacctgga agaagggaat wgcacggagt 180 gagttcccat ttctacggct ttttgcctga gagcaggccg cagttggtgc gtcgtacaga 240 tggctaaaac wtcagtagaa aacccgcggt cttactggct tgaagaacca gagaanagaa 300 ttcggggcaa ccacagccac tggaaagtga ggggaaaatc ccggaaagga gagagccaga 360 gagaggatcc ccaaattctg tgtataaact ctgcccaaat ctctggctga cccctgaacc 420 acgcatgcgc ggagcagact ccaagcagcc cagctaaaga caaaagaact gaactgagat 480 tggagctgcc gcccaagaaa cagagtttgc agttcgagtc cagccaagyt aactgcctac 540 taaaacaaaa gaaacaacac tctttagaga aaaataacag aatccagagt ctccacaatk 600 taacattcat gatgtccagg atacaatccc aaaattatac magataagaa gaaacagraa 660 aaatgtaatn catccttaag agaaaagaaa ataaaaaccg accctgagat raaccagatg 720 ttggaattaa cagacaagga ctttaaagca rctattataa atatnttcaa tgaaataaaa 780 caaaatatgc tcacaatgaa taaaaggata ggaaatctca gcagagaaat agaaacgata 840 aaaagaacca aatggaaatt ctagaamtga aaaatataat atctgaaaca aaaaattcac 900 tgaatagact taacagcaga atggagatga cagaggaaag agtcagtgaa cttaaagata 960 gatcaataga agttatacaa tctgaagagc agagagaaaa awnatttawa aaaaaagwgm 1020 akagtctcac aaacatgtgc gacaatatca aaaggtcnaa catanatgta attggaatcm 1080 cagaaggag 1089 // ID LTR82A repbase; DNA; HUM; 872 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR82A_LTR; LTR82A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-872 RA Smit A.F.; RT "LTR82A - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSDs. 24% subst in dog-human. 88% similar to LTR82B, but CC with some larger indels (15%). AATAAA at pos 680 conserved in CC LTR82B. No matches to known ERVL class LTRs yet. CC rnd-3_family-3546. XX SQ Sequence 872 BP; 226 A; 171 C; 212 G; 258 T; 5 other; tgttatgatg tctgtaattt actttaaaat acttcagcat agacagtgtg atattatgta 60 tgtgttagtt agtttaagct ncactctagg ggcagtcagt tgccctaatc aggaattcac 120 actccagggg tggtcagcta gcattntatc agaaaggcca cactccagag gcggctacta 180 caagcgcttc ngctatctnt atctctgatc aacaccagag gctttgctaa ttagcatant 240 gaatgtcaga aatgggtttt cattggtgaa attagtggct tgttaattag catgatggat 300 gttagaaatg ggctctcatt ggtgaaatta aaggtattca agatatgtgg attggctaaa 360 atattttaga gacactcccc acccttgcat gaacagggta taagaatcta gcgaggcctg 420 tagcctgtac ccttagggat ggcgcccgag gcttgatccc taaatggtcc tgtgtccagc 480 cattggtttg gaggatttct ggttgcctga tgccgactat aagggtaaca gaatcctgcc 540 tctggaatat tgtcgcgtct gcctcgagtg aacctttcat gcaaggtgtg gtcggagcac 600 ctaaaaggac agagagctgg gacttcatcg agcttacaga acaggttgta tgaactgttt 660 tgtgcctgct tgctaataaa tgtttgttta ataaatgtct gtatgtgtgg cagaatttgg 720 tctgagactt gctttcatta taacctggta gcgaggttgt gggggagtag ctaaccctca 780 cccacctcaa acttcttcgg cggctaccgt tatctaccaa aaagaaccta agagttgtgc 840 atgaccaaat tggcttaggt cagttcgcaa ca 872 // ID MLT2B2 repbase; DNA; HUM; 503 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Interspersed repeat MLT2B2 - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT2B2. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX DR [1] (Consensus) XX CC This sequence is a human endogenous retroviral LTR. XX SQ Sequence 503 BP; 111 A; 129 C; 121 G; 134 T; 8 other; tgtgatggtt aattttatgt gtcaacttga ctgggctaar gggtgcccag atagctggtt 60 aaacattatt tctgggtgtg tctgtgaggg tgtttccaga tgagattagc atttgaatca 120 gcggactgag taaagaagat tgccctcacc aatgtgggcg ggcatcatcc aatccgttga 180 gggcctgrat agaacaaaaa ggcagaggaa gggtgaattt gctctctctc cttgagctgg 240 gacatccatc ttctcctgcc cttggacatt agaactccag gttctcgggc cttcggacty 300 cgggacttgc accagcagcc ccccagattc tcaggccttc ggactcggac tgaryyacgc 360 caccggcttc cctggttctc cagcttgcag acggcatatc gtgggacttc tcagcctcca 420 taatcacgtg agccaattcc cctaataaat cycytctatc catcctattg gttctgtctc 480 tctggagaac cctgactaat aca 503 // ID LTR66 repbase; DNA; HUM; 610 BP. XX AC . XX DT 21-MAY-1999 (Rel. 4.04, Created) DT 21-JUL-2000 (Rel. 5.06, Last updated, Version 2) XX DE Long terminal repeat from endogenous retrovirus HERVL66 - a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW HERV-L-like endogenous retrovirus; HERVL66I; LTR66. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 610-1 RA Kapitonov V.V. and Jurka J.; RT "LTR66."; RL Direct Submission to Repbase Update (MAY-1999). XX RN [2] RP 1-610 RA Kapitonov V.V. and Jurka J.; RT "LTR66."; RL Direct Submission to Repbase Update (JUL-2000). XX DR [2] (Consensus) XX CC CC LTR66 is a long terminal repeat from primate-specific HERVL66 CC endogenous retrovirus (its internal sequence deposited in Repbase CC as HERVL66I). CC LTR66 solo elements are flanked by 5 bp-long target-site CC duplication. CC There are about 200 LTR66 copies in the human genome. CC The average nucleotide identity between LTR66 copies and their CC consensus sequence is about 92%. CC An original orientation [1] has been changed according to the CC HERVL66I internal sequence [2]. XX SQ Sequence 610 BP; 161 A; 138 C; 114 G; 195 T; 2 other; tgtggaggaa aagttaaata ttaaatttga actcaattga acatggacac aaacaatggt 60 caccaagtcc tggaacaggt tgtgtgagcc ccttgaggca ttcatccagc gctgtttcgg 120 agaaatctct atttcaatct attcctatac attagttatt gaaaaacaat agacaatcac 180 aaaaacaagt tgaccttttt gtgttccttg agcccagtcg tgaagggccc tcgtgactgg 240 gcctcatgcc aaacaactcg ttacaaaaag agctagggtc ccagactgcr ccraagcttc 300 atgagacctc tcctcgtctg tgcacggatg agtggccgac tctggagccc aggctgttgc 360 ttcccagtct ggtggtgaat cctccatagt ctggtgagtg taaatatata tatatatata 420 tatatacata tatatatatc ttttcccttc tccccttccc attgcaattt gcttattata 480 tcaatttgct tattatatca tttgcttatt atatctgcat tgccatttac gtgggataaa 540 gcttgtttac ccttaaaggt attgtgtgtg tgtcttttct tctcccctca cgcgtttccc 600 gcacagaaca 610 // ID MER20 repbase; DNA; HUM; 218 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Nonautonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; MER20; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 1-218 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [2] (Consensus) XX CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. XX SQ Sequence 218 BP; 55 A; 51 C; 64 G; 47 T; 1 other; cagtggttct caaccggggg tgattttgcc ccccagggga catttggcaa tgtctggaga 60 catttttggt tgtcacaact gggggggggg ratgctactg gcatctagtg ggtagaggcc 120 agggatgctg ctaaacatcc tacaatgcac aggacagccc ccacaacaaa gaattatccg 180 gcccaaaatg tcgatagtgc caaggttgag aaaccctg 218 // ID LTR1F repbase; DNA; HUM; 776 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR1F. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-776 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 939-939 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 776 BP; 184 A; 256 C; 213 G; 122 T; 1 other; tgatacggac aggaggcagg gaaatactgg gtagaagagg gcggttcccc ggcaaaggcc 60 ccaccctcaa gcctggaaac ccgcggccct aaatgagaac aggcattcct gttttcgcgc 120 ccaaatgttg ccttttccaa gaccaccctg gcccgccacg gccccctatc ctgtacccat 180 ataaacccca aaccccaggc tccacgagca gaagagcagc agagcagcag agcagcagag 240 cggcgcggca gagaaggaga gaagagaagg agcgtctgaa cgtcgagagg agttcggctg 300 gggacggtcg gagaggagat cggccgcggg acggccgaac tccaggggaa gatcatcttc 360 ccactccatc ccctttccag ctccccatcc atcccgctga gagccacctc catcactcaa 420 taaaatcccc gcattcacca tccttcaagt ccgtgtgacc tgattcttcc tggacgccgg 480 acaaggaccc agggtaccaa gagggcaggg tgtaaaaggc tgtcaccctg actctccact 540 gagctggttt aacacttaag ccgtccgcgg acggcaactg ctaaaagagc attaattgta 600 acacacccct agacgctacc gtggggccgg agcccaaaag cgctcgcccc ggctcctgca 660 cctgcccatc tgcgtgctcc ccctcccgta aggggtttga gcgcgcggcg gccgagtaaa 720 cgagccacac ccctgtcgca agtcccgcga gggggtcagg gaactctccc gtytca 776 // ID KER repbase; DNA; HUM; 337 BP. XX AC K02285; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human K element interspersed repeat DNA. XX KW KER; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-337 RA Sun L., Paulson E.K., Schmid W.C., Kadyk L. and Leinwand L.; RT "Nom-Alu family interspersed repeats in human DNA and their RT transcriptional activity."; RL Nucleic Acids Res 12, 2669-2690 (1984). XX DR GenBank; K02285; Positions 1 337. XX CC Not confirmed as repeat. XX SQ Sequence 337 BP; 89 A; 71 C; 106 G; 68 T; 3 other; agctcatctg tccactgaag atgcttggac agagttagga atgcttcctg ggagaggtaa 60 catttgagac tttcctggaa gaatggtcag agtaaaccaa gtaagtagga atggaaagag 120 gatgggaggc cccagcttcc cagaggcata aggtgaggan gnccctatgc attcagatgt 180 ggcccaccct ggggtctggt ggactaaagn cttggacacc ccagatcagc cttagtggga 240 tgaggcagga aagacagctg agggtcagaa cccaggcagg tccaatgcca gggtgggcat 300 ttcgagttgg tgagacattt caccctggtg ccaagct 337 // ID LTR69 repbase; DNA; HUM; 588 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 24-JAN-2009 (Rel. 14.02, Last updated, Version 2) XX DE Long terminal repeat of an endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR69. XX NM LTR69. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-588 RA Kapitonov V.V. and Jurka J.; RT "LTR69."; RL Direct Submission to Repbase Update (24-AUG-2000). XX DR [1] (Consensus) XX CC There are ~100 copies of LTR69; they are ~85% identical CC to the consensus sequence. 5-bp target site duplication. XX SQ Sequence 588 BP; 172 A; 163 C; 132 G; 121 T; 0 other; tgtagtatac tataagagac atatcgtggc tataagatta atgatagcca taaggcccac 60 tcaaacatct cgcagggccg acactacgtg tcacttagca gtatgatgca acctggcctg 120 gggatttcca accctggccc ggggatttcc aggtctctat gacaacggga cctaaaaacc 180 ctggttgccc tagagacaag gccacctcag cacagatgca actttcataa accttaaaac 240 aaagcttacc cttacaagaa tagcttaaac tccctttatg aaagaaacac ctggtaactg 300 acccggactg aatacaggta taagaaaggg ggaagaatcc cccaaactct gagaatggtc 360 tccggatgga gaccctcccg gtcagtcggt catctgaccc ctgactgtat ctggcccatg 420 ccaccggcct gctcccgcta tccgtcttgt aagagcgctg ccagaataaa ctgcttgaac 480 atcagacggt gtctaagact catctttgat gcgaatcgaa ccgaagggga aaagtcgccc 540 ctggggaagc tggttaacta ggaccaccca agacccccga acacgaca 588 // ID L1MA5A repbase; DNA; HUM; 1044 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MA5A) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M2; L1MA5A; L1MA5A subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1044 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1044 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 13%. XX SQ Sequence 1044 BP; 428 A; 168 C; 203 G; 243 T; 2 other; ttaatatcca gaatatacaa ggaactcaaa catctcaaca gcaaaaaaac aaacaatcca 60 attaaaaaat gggcaaatga tctgaacaga catttntcaa aagaagacat acaaatggcc 120 aacaaatata tgaaaaaatg ctcaacatca ctaatcatca gggaaatgca aatcaaaacc 180 acaatgaggt atcatctcac cccagttagg atggctatta tcaaaaagac aaaaaataac 240 aaatgctggc gaggatgcgg agaaaaggga actcttatac actgttggtg ggaatgtaaa 300 ctagtacagc cactatggag aacagtatgg aggttcctca aaaaactaca aatagaacta 360 ccatatgatc cagcaatccc actactgggm atttatccaa aggaaaggaa atcagtatat 420 caaagagata tctgcacccc catgtttact gcagcactat tcacaatagc caagatatgg 480 aatcaaccta ggtgtccaac aacagatgaa tggataaaga aaatgtggta tatatacaca 540 atggaatact attcagccat aaaaaagaat gaaatcctgt cattcgcggc aacatggatg 600 gaactggagg acattatgtt aagtgaaata agccaggaac agaaagttaa acaccgcatg 660 ttctcactca tatgtggaag ctaaaaaaag ttgatctcat agaagtaaaa agtagaacag 720 aggatactag aggctgggaa gggtaggggg aaggggggga tagggagaga tttgttaaag 780 gatacaaaat tacagctaga taggaggaat aagttctagt gttctatagc actgtaggat 840 gactatagtt aacaataata tattatatag tttcaaatag ctagaaggag gatattgaat 900 gttcccaaca caaagaaatg ataaatgttt gagatgatgg atatgctaat taccctgatc 960 tgatcactat acattgtatg tatcgaaaca tcactatgta ccccatgaat atgtacaatt 1020 attatgtgtc aattaaaaaa aaaa 1044 // ID MER81 repbase; DNA; HUM; 114 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE MER81 ia a non-autonomous DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW hAT superfamily; MER81; nonautonomous DNA transposon. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 114-1 RA Smit A.F.; RT "MER81."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-114 RA Kapitonov V.V.; RT "Direct submission."; RL Direct Submission to Repbase Update (NOV-2000). XX CC MER81 has 34-35 bp terminal inverted repeats. CC MER81 copies are flanked by 8-bp target site duplications [2], CC therefore MER81 belongs to the HAT superfamily of non-autonomous CC DNA transposons. Original orientation of MER81 [1] was changed CC [2] CC based on orientation of a transposase encoded by BLACKJACK. XX SQ Sequence 114 BP; 21 A; 37 C; 31 G; 25 T; 0 other; tagggtgacc aactcgtcct ggtttgcccg ggactttccc ggttttagca ctgaaagtcc 60 cacgtcctgg gaaacccctc agtcccgggc aaaccgggac ggttggtcac ccta 114 // ID CHARLIE1A repbase; DNA; HUM; 1450 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 2) XX DE DNA transposon. XX KW hAT; DNA transposon; Transposable Element; Charlie1a; KW DNA transposon fossil; MER1_type family; MER64. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1450 RA Smit A.F.; RT "CHARLIE1A."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC An internal deletion product of Charlie1 which is much more CC common CC than the full-length element. XX SQ Sequence 1450 BP; 471 A; 261 C; 270 G; 440 T; 8 other; cagcggttct caaagtgtgg tccgcggacc cctgagggtc cccgagaccc tttcaggggg 60 tccgcgaggt caaaactatt ttcataataa tactaagacg ttatttgcct ttttcactgt 120 gttgacattt gcactgatgg tgcaaaagca atggtgggta aaactgctgg cgccttagca 180 cggatcaagg cagtggcacc aaactgtact agtagtcatt gtattcttca ccgccacgcg 240 ctcgcagtna aaaaaatgcc agtttcactt aagaatgtcc ttgatgaagc agtaaaaatk 300 attaatttta ttaaatctcg acccttgagy acacgtcttt ttaatattct gtgtgacaaa 360 atgggaagta cgcataaagc acttctgctg cataccgaag tacgatggyt gtctcgagga 420 aaagcacttg tgcgattgtt tgagttgcga gctgaactag ctactttttt catggaacac 480 catttttact tgaaagaacg actgacagac aaactrtggt tattcagact tgggtatttg 540 gcagacattt tctcaaaaat gaacgaagtg agcctgtcac ttcaaggaaa acaactgacg 600 gtatttgttg ccaatgataa aattcgagct ttcaagcgaa aattagaatt ttggaaaact 660 tgtatctgcc accgtgagct tgacagcttc ccaatactta aagacttttc tgatgagatc 720 ggtggtgata ttaacgaatg tgattttttg atattgtata atgaaatgtg tcaacatttg 780 gaagatctgc ataactcagt gaaccartat tttccaaatg accaatgcat gatgttacaa 840 aatcatgcat gggtaaaaga tccattcaaa gcgcaagata gaccaatgga ttttaatgta 900 acagagtacg aaaagttcat tgatacggtt tcagattcca caccgcaact aacctttaag 960 aaactaccac ttgttgagtt ttggtgtagt atcaaagaag aatatccaca attatctgaa 1020 aaggctatta aaatactcct ctcttttcca actacatatc tgtgtgaggc cagattttct 1080 tcatatactt caaccaaaac aacatatcgc aacagattga atgcagaagc agatatgaga 1140 atccagctgt cttctattaa gccagacatt aaagagattt gcaaaaatgt aaaacaatgc 1200 cactcttctc actaaatttt tttgttttgg aaaatacggt tatttttcat aaaaatgtta 1260 tttatgttaa catgtaatgg gtttattatt ttwaaatgaa twaataaata ttttaaaaat 1320 ttctcagttt taatttctaa tacggtaaat atcaatagat ataacccaca taaacaaaag 1380 ctctttgggg tcctcaataa tttttaagag tataaagggg tcctgagacc aaaaagtttg 1440 agaaccgctg 1450 // ID MER84 repbase; DNA; HUM; 508 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 2) XX DE Putative long terminal repeat of endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER84; KW retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-508 RA Smit A.F.; RT "MER84."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Related to MER83. 5 bp flanking site repeats. XX SQ Sequence 508 BP; 135 A; 143 C; 93 G; 134 T; 3 other; tgaggagagc aaagaccacc tggtgaccat caaacaggcc atccggaggc aaaactcctt 60 atctggggaa tttagaagta attagacttc cctattatct aaagcaggca tctggttcca 120 ggcctctttc ccnnaaaaac ttataagtaa ctagaatttc tatacgtctc cggaatgcat 180 gcatgctgaa actcactgtg caacccttgc tgacatcaag gcaccaaaat gtctacaaat 240 gtaatcattt accatgacct acgtggctaa tatggtccaa attaccctta agctcccgct 300 ttaaggtcca taaatgctcc taaggaaaaa tccaccgcgg cgcgctcagt cctctcttgc 360 tgaggcgccc cgctgcactc tkctgcagcg ttctttctgt ctaataaaac tttccttttt 420 caaacctata ctgttgtcgg taaattcttt ttaccaaccc acgagtcgac cacttcccga 480 tgccggggct ctgacacctc gcctggca 508 // ID LTR45C repbase; DNA; HUM; 539 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 07-APR-2008 (Rel. 13.05, Last updated, Version 2) XX DE Putative LTR from retroposon related to the MER4I-group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER4I-group; KW endogenous retroelement; LTR45C. XX NM LTR45C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-539 RA Jurka J.; RT "LTR45C."; RL Direct Submission to Repbase Update (31-AUG-2000). XX DR [1] (Consensus) XX CC Patchy similarity (~65%) to LOR1, LTR26, LTR31, LTR39, LTR45 CC and MER72. On average, ~83% identical with consensus. XX SQ Sequence 539 BP; 161 A; 136 C; 98 G; 138 T; 6 other; tgaaactgtg ccccaaagag ttttttaaat taaagaaacc aatgactaac agaaattctt 60 gagtttgcag gatggcagat aagaaaagaa acaacttgct gaaatgctga aactccctct 120 gcttgtgaga taamaaaact ggctgaaatc ggttggaacc aatatggcca actggagtct 180 gcrcagaacg agcttgctga cgtcacagcc tgaatttcca ccgcatgttt catactaact 240 ccccctgaat ttgcacatgc gacccatgag gtagcatgaa gagataactg ygcatgccca 300 aggactttcc agacctcccc tttccttcca ccaatcacct rctaatccca gaatccaccc 360 cctaaacctt ttctaataaa attactgcct taaagccagc acagggagac agatttgagc 420 tggactcctg tctccttgtt agtcgacttg caataaaaag cttttctttt ctcaaaaacc 480 cagtgtcata gtattggctt ctagcrcatc aggcagyaag ccccttttgc ttggtaaca 539 // ID MER70A repbase; DNA; HUM; 472 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Primate MER70A putative LTR - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MER70A; KW Repetitive element; putative LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-472 RA Smit A.F.; RT "MER70A."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-472 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC A putative long terminal repeat of a retrovirus-like element. 5 CC bp CC target site duplications and similarity over the poly A site (bp CC 376-381) region to MER54 and LTR52 suggests a classification with CC the foamy-virus (ERVL) type elements. 500-1000 copies of CC MER70A+B. CC 21% divergence from consensus. Reversed from [1] after poly A CC site. XX SQ Sequence 472 BP; 91 A; 134 C; 128 G; 114 T; 5 other; tgcaggacag ttctccgggt ggccttggac cgacccagtt ctccccnctt tctcgcttgt 60 agttctcaag aataactgta gaatgtgctg ggaatgcaac atcctgagat agggaggaac 120 tggccggaac agcccgggct ctgttccagt ccctcctaga aacaggatgt ccttcaacgc 180 tttagcccag cgagtcatgt ngcccctgag gtataaaacc cagggcgggc tgctttccgg 240 ggtccctcag ctgcggtgca agtggggcac gcgcagncga gactccatcc gccctgggca 300 gctttcctga gccttggggg accggctcgc natgaatcct aggcttctgt tgtcccttgc 360 tgcctatctg taagtaataa acccgcttca tgtaacttgt tgcgtgtgtg ngtgttctgt 420 ctcaccggac tcagacaagt tggtaaccag tgcacagtga acctgcttca ca 472 // ID MER65I repbase; DNA; HUM; 4871 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 4) XX DE MER65 repetitive element - a consensus. XX KW Endogenous Retrovirus; Transposable Element; KW Internal sequence of retroviral-like element; MER4 group; MER65I. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-4871 RA Smit A.F.; RT "MER65I."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX SQ Sequence 4871 BP; 1542 A; 868 C; 777 G; 1556 T; 128 other; gaccaagaca gtgttagaaa tgagttcaaa atgaactcac ctcagacaaa tcttgacctc 60 tggaattgaa tgcagcaatg actgagtcct ttgtactctc tattttcgtg agttcctttt 120 ctgccctggc gaatcttctc tcagattctc agactccctc cctttggtga gtcctttttt 180 actttattcc agatctgatt tagttaaaag accactttaa ataaagaatc ttacatccct 240 tctgggacca taagtctttt ttgacaagca ctttctgata taaagacaag gatccttctg 300 gtttgagaac tctagtttat attctgtctg tgagacattt attttctggt aaattcactt 360 ttgtttcttt gtgcctgctg tgagacattt attttctggt aaattcactt ttgtttcttt 420 gtgcctgttt taatattttg tttgatgtat aaacctggct aaaaattttt gtgaatattc 480 tgattttggt gtcattttgg tttggttaca tgtgtctgta aatgatttgg ctctttttta 540 ccttatttgt ttctaaacat cttccaagag caaaaataac cattctaaat ggtgagtgca 600 agacagccaa ttaaaagcta gtagggtagt cgacgccatc gaaaatacca gtccaaactc 660 ctgacattcc ctgacagtac tgataagatt ttctctggtc tcaagaaaaa aaagaacagg 720 attctcaaaa ttctaaggca cgccaagtct tctaggactc tagccagcta tacattatgg 780 tctattctcg tgcgcgttyt wmaactgatg ggcaaacnac atcarnaaaa acncagaact 840 yaaacggcma ttwtctstct aagcttrtya aaaactrcaa ccaactatag agttaacatg 900 gagmrycttc atawgytcty tgtctctctc tnttttttct acccgctttg aatctgctga 960 cttttctgcc agtattaaga taaactcatt gcttatggga tttcagccaa gattttytaa 1020 aaagagtytc aaaggacttt caaattaatg nctttacaaa ttacaacagc tccatggcaa 1080 cmammaacct agacaccytt tggaaatgta aattkaggtt tgcctarcta acaattgctw 1140 agggcgatgg aacagytaat taaaagattg atagtctaaa aagraaagaa ctagataaat 1200 gtttatraaa gytaarggct stcagatcaa acaggtcaaa atcttnagct canagcaata 1260 ataaaaggta tctctgtctg rcataaaaat tgctttstct gccacatagg rgccagaaar 1320 agctgaanaa aaawaayaac tgtaaatatc tttttgaaaa gtgcctttcc cacgttaact 1380 agtcaaacca gactaacaaa aaacagattt gttactaatt caaggycatc tggaaatttt 1440 gtttttctta tacaattcag ccagtcctag ytaaaatgta aacatttgaa tattyaacct 1500 ctaaactcan ttgaatcnaa taaaaggaww aaraggtttt taaaaatcaa actgccatgr 1560 aaactgcttt acccaaaatt ttggtccaca gccttcattr gattacctat cggggcaaat 1620 aaagcttagc cacgnaaaca rgtcccattt tgtcaaaaat ataatttgga tccaactgtc 1680 attttataaa ccggcgagtt trtattacta tgttttactg tctcatgact aaaattctaa 1740 aatgaaagct ataagatctt tgtgtatgta tgyatncgtn tytatgtatg tttacayata 1800 ttrtatgtrt tgcatctasw tgataaaatc tgacatagtt arccagaatt cccttttaaa 1860 aattctattt agattggctt aggtaaacga gcactcatrw aaawtatata gtaattaacc 1920 caaatgcttt ttagttcacg tgacttaagt aaatctttga taaataagtc ggttttaaat 1980 ttgttaataa aataaaaata aaaatatctt caaaantgtc agcatacatt tttgycyrgg 2040 tttactgntn aganangatt atatttatct ctactagatg ntttaaggtn ataaaagtat 2100 aaatccagmc taaaaacana atnatctttg tttgtatanc tttttgataa gactaagact 2160 aattcgatay tgttagttta atgaaaacaa ctgtatyttc tgtgttatcg gcaaaatgcc 2220 catrtattta agtttrrggc tcttacttag gtgaacacct gatattcaca ggctataaaa 2280 atgrttaama rggaaataac ttgaaatgac gactagcttt gtytamtatc ttagttttca 2340 taagtaatcy agrtataatt rttaaaaatg aataaagtac gtaaacgtaa atgagataaa 2400 tgtgtgtagg tgaaaattct gtatagttta aaatcttaaa gttatgctat gttaaattaa 2460 atgatactca taaaatgtct aagtcatttc caaaattata tgaaaagcat tttcaaatca 2520 taagtggtaa aggatgctaa acctttgcta tgttatattt atggatatgt tactgatatg 2580 attgttccag aaattgtata aaactctcag aaacctaata tgccataact ctagttatta 2640 tgtcatatac cacagaagta atgaaccttt tatgtgagct gtgttatcat aatgaattct 2700 catcagagtt ttagccatag tcatttaaaa tctttatcat tcattgttat tgttttgatt 2760 tttctctaaa agcatttgca atcactacat ccaaaaatgc ttccttttca aggagattta 2820 tggaaacgat cgtgacaaga actctttaat acaagtttct gataaatttc acattatacc 2880 accgactgtc taaaaattct tcagaactct aataaggaaa cagatgaatt tgtgaaacta 2940 cttctcagtg taccaagcag ggaaaaatat tgatttcatt gaaataattg ataactgatg 3000 aggataatgt tttttatgat ttttatttga aaatttgctg attctttact taaatgtttt 3060 gttttccaga tctatggaat ttttttcttt taaactgttt ataacttaca gcaatctggt 3120 aaagtatact tctgtgaaaa caaaagtaaa aacatttgct ttttctccct actcgatccc 3180 tccaaaattt ggcaactatt catgagaatt gatatgttta tggtaataca gatatttgca 3240 caagtacagt aacagtctgc tccctctttg tagcaggata caactgagac cattggttat 3300 attaccaagg ctttgactgg gatgttatat tcaagataga atgaaccaat atgaactgca 3360 gggcaaagtc tgaagtcaac cttggtttaa gggttcctag acttacagcg ggttgtaaaa 3420 gtttaatctg agattcctta taaaaactta gagcaaagaa aattttaaaa gagagcctac 3480 atggtccatt gtctgccttg gtttggcttc cctaaagaat cagaccatgt ttgaagtaac 3540 tcaacctatt ttgcaaacaa acttattcta ctgaaattat cattggtaaa actagagatg 3600 cccatagaga gaaaagttat gtttctaaag aaaaactgna atacgcctgt tattagattg 3660 cagccctgtg cattgtttcc gwgyttttat tatcyacmtg wagackggac wwkaccccga 3720 attctnctag yttcctccaa tncmattttc tcccatngaa tcactaagar maagacctac 3780 tctgttcctg aagccctata agctgaagnt ggamaactcg atgtaaatwt cmwgggacaa 3840 amtctcgtnc ctgatgtgtg ggccacacmr agagttcacc aaaccgctcg atgccataac 3900 cagagacact caaactgcaa accaggacaa gaagttgacg gcttcacgct gtggacagtt 3960 tttcccaaga tgtcagaaca agactcccca tcataatgan gctcttaccc ctcttaaytk 4020 tcctttctta tgcctgcctt tttgacttgg caggataatg gtgtaattga aatttcacaa 4080 tcagtagctt ctgtcagtaa cctcacagaa cctgacctaa gagatccttc agccccccta 4140 gtgggtgact ttgggaacat ccctaataca actggtgctc actctgcttt aatccaactc 4200 agtcatggga cactagatga taaaattgct ctaaattatc tattggttaa atcaggaaat 4260 atctgttcta ttgctaatag cacatgctga acctggataa attcccctgg ggaacttgag 4320 gccccatata cacgaaatta caaaacatag gttataacag gtcacatagg ttataatggg 4380 tctcacccaa ttccctatgg tcatttgatt tattcaactg gttgtcttta agcctaggtt 4440 catagctcaa aactattatg aaaactgggg gtatcatatt actactaata ttaatttgta 4500 ttttcctttt aacaatttgt acttgttact tgtgaagtct ctgcagaagt acaactccta 4560 acagaatcgt gctggcccag cgcgtccaga tgatggccaa aagaccacag aacagaaaaa 4620 atagaattta acgatggact tcaggtagac ttagtctgag tgcaactctc tccaaatttc 4680 cactttgctc aaatgtggct aaatgagctc tgacactgac tcctggtcac cagtcacttc 4740 ctgatgatgt ggaaccagac cacaccaaac tgggacagct ccatcccagc accaaggggc 4800 aatcaaagcc tgactgcagg atgactggtc agctatgctt ttggagaaag atctcaatta 4860 aaagggggaa a 4871 // ID L1MD1 repbase; DNA; HUM; 971 BP. XX AC . XX DT 20-FEB-1997 (Rel. 2.01, Created) DT 07-MAY-1999 (Rel. 4.04, Last updated, Version 3) XX DE 3'-end of L1 repeat (subfamily L1MD1) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1MD1; L1MD1 subfamily; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-971 RA Smit A.F.; RT "L1MD1."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 15%. XX SQ Sequence 971 BP; 358 A; 155 C; 187 G; 257 T; 14 other; cttgtatcca gaatatataa agaactctca aaactcaaca ataaaaaaac aaacaatcta 60 attaaaaaat gggcaaaaga catgaagaga catttcacca aagaagatat acaaatggca 120 aataagcaca tgaaaagatg ttcaacatca ttagctatta gggaaatgca aattaaaacc 180 acaatgagat atcactacac acctattaga atggctaaaa taaaaaataa tgacaayacc 240 aaatgctggc gaggatgtgg agaaactgga tcactcatac attgctggtg ggaatgtaaa 300 atggtacagc cactctggaa aatactttgg cagtttctta taaagctaaa catacamtta 360 ccatatgact cagcaattay actcctaggt atttatccca gagaaatgaa aacttatgtt 420 cacacaaaaa cttgtacacg aatgttyata gcagctttat tcataatagc cmaaaactgg 480 aaacaaccca gatgtccttc aacgggtgaa tggttaaaca aactgtggta tatccatacc 540 atggaatact actcagccat aaaaaggaat gaactattga tacatgcaac aacctggatg 600 aatctccaga aaattatgct gagtgaaaaa agccagtctc aaaaggttac atactgtatg 660 attccattta cataacattc ttgaaatgac aaaattwtag arwtgragar cagattcctg 720 gttgccaggg gttagggacg ggggtggggg tggagggagg tgggcatsst ggagttccct 780 gtggtgatgg aaatgttctg tatcttcact gtatcaatgt caatatcctg gttgtgatay 840 tgtactatag ttttgtaaga tgttaccatt gggggaagct ggatgaaggg tacacgggat 900 ccctctgtat tatttcttac aattgtntgt gagtgtgtaa ttatttcaaa ataaaaagtt 960 taatttaaaa a 971 // ID MLT-int repbase; DNA; HUM; 1735 BP. XX AC . XX DT 24-JUL-2000 (Rel. 5.06, Created) DT 01-OCT-2009 (Rel. 14.11, Last updated, Version 2) XX DE MLT1- LTR retrotransposon internal sequence - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MaLR family; KW LTR retrotransposon; MLT1R; MLT1c subfamily; MLT1AR; MLT-int. XX NM MLT1AR. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL PhD dissertation, Univ Southern California, 1995. XX RN [2] RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [2] (Consensus) XX CC Internal sequence consensus for MLT1A retrovirus-like element CC (MaLR). XX SQ Sequence 1735 BP; 441 A; 356 C; 501 G; 396 T; 41 other; gaaattggta ccgagagtgg gggtgctgct gtaacaaata cctaaaaatg tggaagtggc 60 tttggaactg ggtaatgggt agaggctgga agagttttga ggtgcatgct agaaaaagcc 120 tacattgccg tgaacggacc gttaagggca attctggtga gggctcagaa gaagaggaga 180 gctgtagaga aagcctcaat cttcttagag antacctaag tggtcgtgaa cagaatattg 240 gtagaaatat ggacggtaaa ggccattctg atgaggtctc agatggaaat gaggaacatg 300 ttattggaaa ctggaggaaa ggcnatcctt gttataaagt ggcaaagaac ttggctgaat 360 tgtgttcgtg tcctagtgtt ttgtggaagg cagaacttgn gagtgatgaa atnggatatt 420 tggcngaaga aatntctaag caaagtgttg agggtgcggc ntggcttctc ttgactgctt 480 atagtaaaat gcgagaagag agaaatgant taaagatgga attnntaatc aaaagggaag 540 cagaacttaa agatttggaa aattctcagc ctanccatgt tgtaaagaat gagaaagcgt 600 gttcaggaga gaacaccaag ggtgtggcca agcaaccgtt tgataaggag attagtatgg 660 atnaacggaa gccnggtgct attcatcaag acaatggaag aatgaccccg aaggcatttc 720 agagatcntc aaggctgccc ctcccatcac aggcccagag tgcaagggcc tggagggnag 780 aacggtttca agggcaggnn ccantcccca ctgcccagtg ccacctcagt ctgctcccta 840 tcttcggctg cccgtttagn tgtggctcaa gtgggcccag gtgcagctag ggccgcctct 900 cctggaggna caggttataa accttggcag catccgcgtg gtgccatctc cgcaggcgcg 960 cagagtgcat gagctgtgga ggcatggctn cctccaccta gatttcaaag atgcgagacc 1020 tggggcccaa gcagaggnct cgcggggcag ggccaccaca gagagccccc actagggcaa 1080 tgcccagtgg agccgtgggg tcnggcctgc aaagagcccc cactaaggca atgcctagtg 1140 gagctatggg ggcagggccg cctncgngac cccagaccng tagagccacc agnntgcaat 1200 tccagcctgg gagagccgca ggcangngac tccaacccgt gagagctgcc acatgggctg 1260 cgcccagcaa agccatgggg gtggngctnc cnggngtctt gggggnncaa cccccacccc 1320 agtgngtctg gaaggcggaa catcgagtca aagaagatta ttctcgagcc ttaagattta 1380 atgttgtttg ccctgttngg ttttggactt gctcgggacc tntcactcct ttcttctttc 1440 ctatttctcc cttttggaat gggaatgtct atcctatgcc tgtcccacca ttgtattttg 1500 gaagcacata acttgtttga tttcacaggt tcacagctgg agagcaattt tgcctcagga 1560 tgaatcacac cttgagtctc acccatatct gatttagatg atatttagat gagactttgg 1620 actttagact ttngagttga tgctggaacg agttaagact ttgggggcta ttgggatgga 1680 atgagtgtat tttgcatgtg agaaggacat gaatttnggg gggccagggg tagaa 1735 // ID Charlie12 repbase; DNA; HUM; 2873 BP. XX AC . XX DT 06-SEP-2005 (Rel. 10.08, Created) DT 06-SEP-2005 (Rel. 10.08, Last updated, Version 1) XX DE hAT DNA transposon from primates. XX KW hAT; DNA transposon; Transposable Element; Charlie12. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-2873 RA Smit A.F.; RT "Charlie12 - hAT DNA transposon from primates."; RL Direct Submission to Repbase Update (06-SEP-2005). XX DR [1] (Consensus) XX CC Autonomous elements that gave rise to MER30 CC elements. Only two copies in genome (on 2q37.3 and 7q22.1). CC Reconstructed from these; only MER30-like sequences are CC consensus. Product =>55% similar to Charlie8. See CC Charlie12_GG in chicken.lib (March 2002). XX SQ Sequence 2873 BP; 957 A; 478 C; 550 G; 888 T; 0 other; caagcttgtc caacccgcgg cccgcgggcc gcatgcggcc caggacggct ttgaatgcgg 60 cccaacacaa attcgtaaac tttcttaaaa cattatgaga tttttttgcg attttttttg 120 taattttgta atttgactat gtgattctca agtgtgaact tcgtagacaa caatggaatg 180 gaaaggggta atcagagtat gtcacatcca caaataatgg actagtatcc ataatttgca 240 ttataattgc aaacagttca gcaagaagaa attaaaagcc attaaaatta actaacaaag 300 agcgagagga cgctattgca gtgccacgtg aagtgaattg tgacaaagaa ttcaagtgtg 360 tattctggac aaggcagagc gctgctgtac accagacact gtcgccattt gtacgcatgt 420 gtggcttcag ttttatggtg gtgtgcgact tccagtgtgt tatcttctaa tcacggacag 480 ttgaattgac accttcaggc gttatatgtg cttctggcga cttgagcaat gatatttgat 540 aatatttcaa cctacctttg taaatgatag gtgtttaata ttagttagaa gacctataag 600 tattagtctt cttatttggt tattaaacct tgctttctat tttcctgtct attaattttc 660 ataataaatg taaatcgagt tgcttatcta ttattatttt ttaaaattcc agcatatggc 720 ttctacaatg tctcaaaaga aaacaaaccc cccccaaaat aaaaaataca gatgagggaa 780 gattgctcaa cgaaaagtgg acagatgact acttttttgt caaggcaaat agtaaggcac 840 tctgcttgat ttgtagggaa tttgtgccag tttcaaagac tataatttga aaaggcatta 900 tatgcaaaga cgtgctgcca aatttggtgc gtatcaagga atgtgtcgta aggacaaaaa 960 tagcagaact gaaaaaatgt ctgtcttcac aaaaaaaatt ttttttaaag ttgcaactca 1020 aacagtctat tgtaaaagct agttatatga tagcaaattt aatagcaaaa agcaaaacta 1080 tttacagatg gtgagtttat taagcaacgt atgggaggca tggcatatat catttgccct 1140 gataaaaaag aagatatctc taaaatcagt ttgtcttgcc ggaatatagc caggtgaatt 1200 ggagaaattg gaaagtctat gaaaagagcg taaaactgct aattttaaat tttgtgcttt 1260 ggcgatggat gaaagcactg atgctacaca tatggcacaa cttgccattt ttattagagg 1320 cattgatgac gaatagaatg tcatcattat ataaagccat ataatgaaga aataataaac 1380 ccatataatg aagaaatggc ttttttagtg ccattaaaaa acagagtaaa tcaagagatt 1440 tatacgaagt agtaaaagat gcattaaagc aattttcttt gtgcgttgtg aacatacctg 1500 gtatagttac tgatgatgcc cctgcgatgg tacgtaaaag agagggagtt gtaaaattaa 1560 tagaaaatga tgcagttgcc gcctgaaact cacttttgat gatgtgtcat tgtatagtac 1620 atcaagaaaa tttatgcaca aaagctttaa aaatggataa catcatgcaa attgtcatca 1680 aggctgtgaa tttcataggg gccaagagat tgaatcattg ccaattccag gaattcctta 1740 aaagtatgga tgctgactat agcaacatca tttacttttc ggaagtaaag tcgagacaga 1800 tgttgaaaag attttatgat ttgcgacatg aaatcgagtt atttatggta tcaaaaacaa 1860 aatttgtgcc agaacttgat gacgaaaact ggcttacaga tttagcattt ttagtggatt 1920 tgaccactca tttaaatgag ttaaacatga atcttcaagg tgaaaaccaa cttctcaata 1980 caatgtttca aaccataaca gtgttccaaa tacaattgaa attatggcaa gctaaaatta 2040 aggcaaacag ttttacggat ttcaacacat ttgctaaaca cgggcttgtc aacagcaaaa 2100 agtattctgc cttgcttttt gatttgataa aggaatttga aaacaggttt taagatttct 2160 ggaaaaataa tcaatatttt ggtatagttg caactccatt ttcagccaac ataaatatgt 2220 tacctgcgaa tgcatacagc tgcaatgtga cattcaactt aaagaaaaat ctcatcaggc 2280 ttctttcctg gactttgtaa gacctatctt cccagagaca aatatccctc gcttcacagt 2340 catgccttac tcatgtcgtc ggtttttggc agcacctgcg tttgtgagca actgttttca 2400 aggatgaagc acacgaagag taaaattaga accaaaatat ctgaggagca ccttgagaac 2460 tcgctgagaa ttgcaactac ttccatcgaa ccagatattg atgcattagt ttctcaaaaa 2520 caatgtcaaa tatcccacta gttttatgtt gtcctctttt acttttataa taaaaattat 2580 caaaaaatta atgacgtttt attacttaga tacgtacatt ttctatgtca gtgattgcaa 2640 agttgggacc tgcttgacga ttttaaaaga ccctctgaaa ggggcagcac atggttagat 2700 tatgatgcga ggactttttt gcttatctgt ggtggtggat atcacgaaaa ttatgcacag 2760 accttttttt tttagctcat cagctatcgt tagtgttagt gtattttatg tgtggcccaa 2820 gacaattctt cttccaatgt ggcccaggga agccaaaaga ttggacaccc gtg 2873 // ID LTR5B repbase; DNA; HUM; 1002 BP. XX AC . XX DT 08-MAY-2001 (Rel. 6.04, Created) DT 08-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE LTR from human endogenous retrovirus 5' LTR, clone HERV-K18. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR5B; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1002 RA Jurka J.; RL Direct Submission to Repbase Update (MAY-2001). XX DR [1] (Consensus) XX CC 79% similar to LTR5. 89% do individual copies. XX SQ Sequence 1002 BP; 248 A; 244 C; 242 G; 267 T; 1 other; tgtagggaaa agaaagagag atcagactgt tactgtgtct atgtagaaag ggaagacata 60 agaaactcca ttttgacctg taccctgaac aattgccttt gccctgagat gctgttaatc 120 tgtaactttg gccccaacct tgagctcaca aaaacatgtg ttgtatggaa tcaaggttta 180 agggatctag ggctgtgcag gatgtgcctt gttaacaaaa tgtttacagg cagtatgctt 240 ggtaaaagtc atcgccattc tccagtctcg ataaaccagg ggcacaatgc actgcggaaa 300 gccgcaggga cctctgccct ggaaagccag gtattgtcca aggtttctcc ccatgtgata 360 gtctgaaata tggcctcgtg ggatgggaaa gacctgaccg tccacccagc ccgacacccg 420 tgaagggtct gtgctgagga ggattagtaa aagaggaagg cctcttgcag ttgagataga 480 aggaaggcct ctgtctcctg cctgcccctg ggaactgaat gtctcagtat aaaacccgat 540 tgtacatttg ttcaattctg agataggaga aaaaccgccc tgtggcggga ggcgagacat 600 gttggcagca atgctgcttt gttattcttt actccactga gatgtttggg tggagagaar 660 cataaatctg gcctacgtgc acatccaggc atagtacctt cccttgaact tatttgtgac 720 acagattcct ttgctcacat gttttcttgc tgaccttctc cccactatca ccctgctctc 780 ctaccgcatt cctcttgctg agatagtgaa aataataatc aataaatact gagggaactc 840 agagaccggt gccggtgcag gtcctccgta tgctgagcgc cggtcccctg ggcccactgt 900 tctttctcta tactttgtct ctgtgtctta tttcttttct cagtctctcg tcccacctga 960 cgagaaatac ccacaggtgt ggaggggcag gccacccctt ca 1002 // ID LTR40B repbase; DNA; HUM; 462 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate LTR40B repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR40B; KW Long terminal repeat of endogenous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-462 RA Smit A.F.; RT "LTR40B."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC LTR40 long terminal repeats are found flanking an internal CC sequence CC (HERVL_40) related to the foamy-virus like MERVL. 5 bp flanking CC sites CC duplications. Average divergence of copies from consensus 25%. XX SQ Sequence 462 BP; 97 A; 117 C; 116 G; 128 T; 4 other; tgttgggaga caattctcca tgggtctctc gcgtttctgc acgtcttgcg agcagagcac 60 tgactgcctt tttttctgga ctatcttttc aaggatgttt gtatagcgaa caaccttgga 120 agatagagat aatgtctccc tctggagcaa agggcaggct tgcttactgc ccattataaa 180 agattcgggt tccctaagct cagggttcct ctcctgtaac gcaacccact gcgtgcgcag 240 catccayctg ggcctctycg cgtcgcccct gtgggamttg gggggcaagg ggaactgacg 300 caaatgctga tgctcwtgct gcctgctgtg ctgtgagtaa taaagtcctt tgtctctgac 360 ccaggagtct catgtcttct gccagcatcc atgaaactgt ggcaggctaa cttgttagct 420 tgcaagtagg gtaaaatctc agacccttca cagttcttga ca 462 // ID LTR81A repbase; DNA; HUM; 1350 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR81A_LTR; LTR81A. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1350 RA Smit A.F.; RT "LTR81A - ERV1 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD, but so old it could be predating anything we call the CC ERV1 class (perhaps it's a Gypsy element). ~35% subst in CC dog-human. Orientation only based on AATAAA at pos 1285-1290 CC (conserved in other 2 subs). XX SQ Sequence 1350 BP; 348 A; 328 C; 403 G; 253 T; 18 other; tgtaatggga ataatanttt tgaaatatat taatgtgctt ttctcttttg catttccttg 60 tatgtgacct tctccctttc agccagaggc atccatttgc ctcggggagg attaggattg 120 ttacagcagg aatgcaaaga gaaagagtca atgttcagct tttgacntcc aaaataggat 180 ttttgagtcc ncagcaagac aatagtcttg aaagccaggc tttgtcgaga gagaaaggat 240 tttctaaatt cttttaagct cccattaaca tatcaagagc caggcctggn ngactagatc 300 atagagtttt actataacta gggtagagag aactcaggat atgacgtaag ggaagtccct 360 gccaaaagag gaagggggga aagcccgccc cttctggncc tgggggattg tgggaaggag 420 aaggaggngg aggtagggca aggaggtcag atgccagggt cctcgcttnt cctcccctta 480 gggccgaanc ccgaggggag ggnggctaga aacatccaga taggtatggg ggaacccgag 540 aacatcgggg ctagtggccc gcttccccag gcatagctgg gggaggctgc aagcctctag 600 gagaagcccc acattcggct ggcaccactc caacatggcg cgggagcaat agcgcagcac 660 tggcggaggg aggtggctag anagatgagc ctgaggcagc gctcctggct ccccatggcc 720 tgcgcgtggc gtgcagggga tccagaagtt cccgcgtgcc ccggtgaggg gacgcggagg 780 tgctgagagg gccggtggac cggcagaggc ctggggtcgg gacgaagagg ccacagngtg 840 cggggacttc gngaccagag gcaaatggct gggaccacgg actccagcag tgggtgccag 900 cacgacgccc caaaaggcca gatgggacca gccgcacctc agcggncacc agtccaggga 960 ncagaccaga ccagccactc cgcagcagag accagcgagg atccagagga caccgcgcgg 1020 atccgaggcc ccttccccct ncccaccacg aggtcacgta agcccccccc catacaccca 1080 gacaccatct tggggaggag cagggggagg gggaggaaat ctgaaagact gagcatttac 1140 ccgaaagaga ctgagttatc caaaagagac tatttaaacc gaagagactg agatactgtt 1200 aattggcaag ttttaaaatt ccctccttct ccccactncc cagcagggtg ggggctcgtg 1260 agaaagatta gatcagttat agaaaataaa gaagctacat tttctttgca catctgagtg 1320 tantgtgagt aaatttgcaa ccccgctaca 1350 // ID MER5A repbase; DNA; HUM; 189 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 3) XX DE Nonautonomous DNA transposon. Medium reiteration frequency MER5 DE repetitive sequence - a consensus. XX KW hAT; DNA transposon; Transposable Element; MER5; MER5A; KW Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 34-185 RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [2] RP 1-189 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [2] (Consensus) XX CC 14 bp terminal inverted repeat, 8 bp insertion duplication site. XX SQ Sequence 189 BP; 46 A; 51 C; 47 G; 43 T; 2 other; cagtggttct caaagtgtgg tccccggacc agcagcatca gcatcacctg ggaacttgtt 60 agaaatgcag attctcgggc cccaccccag acctactgaa tcagaaactc tgggrgtggg 120 gcccagcaat ctgtgtttta acaagcyctc caggtgattc tgatgcatgc tcaagtttga 180 gaaccactg 189 // ID LTR28 repbase; DNA; HUM; 1020 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 12-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-MER41I-MER57I-MER65I group; LTR28. XX NM LTR28. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1020 RA Kapitonov V.V. and Jurka J.; RT "LTR28."; RL Direct Submission to Repbase Update (21-NOV-1997). XX DR [1] (Consensus) XX CC LTR of endogenous retroviruses related to CC MER4I-MER41I-MER57I-MER65I. LTR28 elements share common fragments CC with MER52, MER61, MER61B, MER61C, LTR1 and LTR27. The average CC similarity of LTR28 sequences to the consensus sequence is about CC 81%. XX SQ Sequence 1020 BP; 223 A; 320 C; 250 G; 206 T; 21 other; tgatagcgac aggaggcagm caaatgccta ggcagatagg ggcgggtccc cggtgaaacc 60 ccaccttcaa gccaaagaca gtttaaagcc tgaaagccaa gctacaagtc ccggataaat 120 cctcagaccg gaktgagaac ttstcttcct gtttggcgcg ctttcctctg attgatcccc 180 acccttcacc tattttacat atacccaccc tttcctaatt ggytttttac actgtcttgc 240 ccaccttcga atgttgyctt tkttttaacc ttttttgcat actcacaaac caatcagcac 300 gcactmcccc ccatcctgtg cctataaaaa ccccagactc agtcagtaga ggagangaca 360 gcttgacttc atasttggna gaagrattgg gagagagaca acctgacttc agggaagacg 420 acctgccctt cccgtcccct ctccagctcc cctctccact gagagccgct ttcatcactc 480 aataaaattc tccgccttca ccatccttca attgtcagcg tracctcatt cttcttggac 540 gccggacaag agctcgggac ccaccgagtg cgggtaccca aaaaggctgt cacactggcc 600 ctttgccctc gctggcggag ggcagccgcc ccacatgaca gaagcagcgg cggggctgag 660 ccagccchag agccaygggc tggagtgagg caaggggccg actgagctgt taacacgcat 720 ccgtctgcag acggcagaac taaaagagct awttagcaya ctgtaacacc ccctctgggg 780 cttcggggtc gcgggcaycc ytacctgggt gctgccgcat tcccctccag gtgacatgcc 840 tggtctggcc gcaggccctg cacagagctt gctcctgtgc cggtgcccga agcagccggc 900 cagatcccgc actcgctcgc tcgcgtgctc cctcccgcaa ggggytgagc gbggcgggct 960 gagtagacgg ggcacccctg ccatgagtcc ggtgaagggg ycaagaaaaa tcctgcatca 1020 // ID LTR16B repbase; DNA; HUM; 463 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW LTR16B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-463 RA Smit A.F.; RT "LTR16B - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC >20% div HERV(L)16 LTR LTR16B(1,2) copies are 21-24% CC substituted in dog-human ancestor. XX SQ Sequence 463 BP; 80 A; 170 C; 105 G; 105 T; 3 other; tgtggcggcc atgaaaatgc gccgctcaga tctcctgctg cggggagcat agttgactga 60 cggccccagc tgctgcccct ctggatccac caccgcgttc gcgccgaggc cacgcttccc 120 ncgggctgct cccagccaat gactgagcac ggcgggggta ctaatgcagg cccattcctg 180 cgagacgcag gactcctcta acgggcgact ttggctcgag gactccccat cggcctggcc 240 gaaactttct tagaactgcg ctgcagtctg agactcttcc tacccaatcc tccttccttc 300 cccctctcct tcacaggngt cagacctgca tcgtggtctg aaggctctcc ctgcctnctc 360 ctgctccctc ccctttatcc ttcacaggca tttcccccaa taaatctctt gcacgtctaa 420 tcccgtcttg gcatctgctt ctcagaggac ccgaactaac aca 463 // ID L1MB1 repbase; DNA; HUM; 915 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MB1) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M3; L1MB1; L1MB1 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-915 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-915 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 16%. XX SQ Sequence 915 BP; 355 A; 150 C; 184 G; 225 T; 1 other; ttaatatcca aaatatataa ggaactccta caactcaaca acaaaaaaac aaataacctg 60 attaaaaaat gggcaaagga cttgaataga catttctcca aagaagacat acaaatggcc 120 aacaggtata tgaaaagatg ctcaacatca ctaatcatca gggaaatgca aatcaaaacc 180 acaatgagat atcacctcgc acctgttaga atggctatta tcaaaaaaac aaaaaataat 240 aagtgttggc gaggatgtgg agaaattgga acccttgtac actgttggtg ggaatgtaaa 300 atggtgcagc cactatggaa aacagtatgg aggttcctca aaaaattaaa aatagaacta 360 ccatatgatc cagcaatccc acttctgggt atttatccaa aagaattgaa atcaggatct 420 cgaagagata ttngcactcc catgttcatt gcagcattat tcacaatagc caagatgtgg 480 aaacaaccta aatgtccatc gacggatgaa tggataaaga aaatgtggta tatacataca 540 atggaatatt attcagcctt aaaaaagaag gaaatcctgc catatgcgac aacatggatg 600 aaccttgagg acattatgct aagtgaaata agccagtcac agaaggacaa atactgcatg 660 attccactta tatgaggtat ctaaaatagt caaactcata gaagcagaga gtagaatggt 720 ggttgccagg ggctgggggg agggggaaat ggggagttgc tgttcaatgg gtataaagtt 780 tcagttatgc aagatgaata agttctagag atctgctgta caacattgtg cctatagtta 840 acaatactgt attgtacact taaaaatttg ttaagagggt agatctcatg ttaagtgttc 900 ttaccacaat aaaaa 915 // ID HERVL_40 repbase; DNA; HUM; 5530 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Primate HERVL_40 repetitive element - a consensus. XX KW Endogenous Retrovirus; Transposable Element; KW Foamy-virus-like endogenous retrovirus; HERVL_40. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5530 RA Smit A.F.; RT "HERVL_40."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC HERVL_40 is flanked by LTR40 long terminal repeats. It encoded CC proteins CC closely similar to that of the murine foamy-virus-like endogenous CC retrovirus MERVL. It has patchy 60% DNA similarity to MERVL (e.g. CC over CC bp 1667-2925). CC There is considerable divergence between subfamilies over bases CC 4700- CC 5200, and it is possible that a fragment is missing in this CC region. XX SQ Sequence 5530 BP; 1404 A; 1265 C; 1295 G; 1404 T; 162 other; ttttgacgat gaggatggat gggatgctga cagagacatg gctttctgga agaggaagga 60 tgagggcctc gtgggctaat taacgggatt tgaggaaagt ctctgggaat cagtagcgaa 120 cmtgttgacc aaattgtatg stcaaccagg caataaatgg ttcttcactt tattgcctgt 180 taatgagaag gattggagag gtggtcgcag gccgaktacc gggaagtagg ttcaaagaca 240 gctgcccgaa tggtgccctg gttgttgcta actcttctgc tggwgwggga cgtctttatc 300 aatctggagt taccctcagg tccactccac tgtaacaacc agtactaaga ttttgcctgg 360 atgggcagaa agttcttccc tcttttagac aamaattgca gagatatgta accactgtgg 420 gcagaaacca ggtgaatcwt tagaactttg actggttcac ttgggggwtg aggnwgtgag 480 gcacgtaacg cttgttaagg aagaatggca acagctgggc catcttacgg ctcagcccct 540 cctkcagtct atcatkccaa ccttagatcc tggctgccaa taaganagtt nagggactct 600 cwgagagatt tccttgagas aamcaaactc ccatgggaaa ccatagatga ggcattgant 660 agtattcggg ctcttactgn cctggatttg gtttacagtg ctgacgaagg tgatccactg 720 gagaatgaga aaccgaccca aagaaaccta gataaattct tgcaccagnc tgctgccctg 780 gaaaactccc ctaactctta tgttgaaann aggcgagaac ntaagagatg ttatggcgat 840 gaggcagcag atgccctgga ttaaagttga attntnaagg caantcgctg ntgtgtaagt 900 naaggccaag tcagctaggg gacgcaagcc cawkagcccc agctagaaaa caatgtctgg 960 ctatggctgc tgagtcaagg ggtcctcaaa gctgaaataa atggtgtcag taatsaggac 1020 cttgctactc aatatagagc tttaggtgga ccaaaaacat tggaagttta tttggttgag 1080 ccatgagcag ccgntakgcc gctcaaaact gaaagtaaat gcaaagcctt gcttantggc 1140 acagagctgc tctctcccta catgctgcct gctcccctcc cagncaccct aatttcagct 1200 gctttaagga aaaaaataat tagaaacggg actaaagttt ccccgtctaa gggggatcga 1260 agtccataca cacccatctg agtatgctgg ggaanttkng ggaggggagg aactcaaact 1320 tttatggctt tgttggatac gggcgcccaa gtcaccatcc tacctgmact cctgtggaag 1380 gaaaaggcgc ccggattcag gtaatagggt ttgagcaagg tttgcagtag ggaaaggaaa 1440 ntaatgtgac cttctgggtg gancctctag gccaattcaa tgtactgtgn tgctgcttcc 1500 acatctgaat atatagtagg aattgatgtt tatatgcttg tacttccctg tctcataagt 1560 gtcagaggaa atctcctawt cgggaacagc cacatgtaga gaagtgctag tgggacacwt 1620 wmatttatct gtcaccaggc ttcctatcsc ccmctgkkcg gtccaacasa gacagtatag 1680 aatcccwgga agaagaaagg gaatctgtgc cctgagtaaa tactaatacc tataggcggc 1740 agaggtagta agagatmcag katctcwaca saacagcctt gtatgsccag tgmaaaagwc 1800 taacmggagc wggaggctka cagtggawtg ttwccmawtg gattcagttk ttkctcccgt 1860 ggccccagct gctscagaca tcgtgactst akctgaatcc actacacgga mtwatggmac 1920 wtggtgcgct gttttgaaca ttgmcaacgm cttmtttscc ataccagagg catctgagga 1980 tcaakagmwg ttcgcgtcca tgtggcaagg cctcwaacac gtgtttgtwg tmctcckcca 2040 gkgwtaccta aactcccctg ccatttgcca cmagtggatg ggtcaggatt tagcgcgagt 2100 kcctctaccc tctgatgtcc aaagctttca ctatatagat kacgtcctgt tggttggcaa 2160 gtcagaagcc tccgtmtcaa cagccctgac tgcggtgtta tcacacttct acananagaa 2220 tggctgataa actccaaaaa cattcaggga cctgcttgcc aagtaaagtt tcttggaant 2280 atgtaggcag attcacaktg cntaatccct ccggcagtca agaaaaagct gtctcttcag 2340 gcccccgsca ccaaagagga gcaccttact tgactctttg gntattggag acggtttgtg 2400 cctcgcttgg gcattctact tggtccttta tattagctan cctacaaatc agtatccttt 2460 gagtngggcc cgaaccaaaa ggctgcgttg gaanctgtcc agnaagctgt gncacgctct 2520 ctacctttgg ggcctcacaa tcctaatgac acctttgagc tacaaktmtc tgtaactgat 2580 gattttgcca attggagcct ctggcaaggg gaggcaacct ccacctggag gtaccccttg 2640 gggttttgga ctcactttcc tcctgataag gctaccagac acgccccttt tgaaaagtag 2700 ctattagctt gctactgagc tcttgtcaaa actgaacacc tkwcccacgg aggccttgtg 2760 actctccagc ctgatattcc cactttgggg tgggtcaact tagactcaat gactaataag 2820 gtgagaaggg ctcaacaagc ctcgcttgtc aaatagaaat ggctatattc aagaacgcag 2880 ctngnctngc cccagcggca tctnagcttt acatgaaaaa gtggcagcta tccctttggg 2940 ggaaacttta tcccccactc cgccgcccga agcaaagccg ctggctcaat aggaccctcg 3000 attcacagag gttcncctaa atgctgggcc tggttcactg atggtttggc taagctgaaa 3060 cctaatggtg tccactgggc tgcggcagct gttcagcctc agcgncagct mtgnaagact 3120 gaaaaccgac aaggtcgctc agctcaatgg ncagaattca aagccattct cataacctgg 3180 acaatactcc ccttgataaa snttgttata tttttactga cttacgactg ttgccaatgg 3240 cctagccgtt tggtctgcca cttggaagac tacagactgg cagattaaag acacccctct 3300 ttggggccgt aaactatgga aacaaattgt ggctnccgat tagacaatct gggtcactca 3360 tgtagatgcc cangtaaggg cccgttttct gatgagacca aatggaatca agctgctgat 3420 cgagcctgca ccgcccagat tgctacaawt gctgcctgga tccatcatcc taccggacat 3480 ggcaacacat ccaccatcan agactgggca caaagtaaag gaccgtatgt ttctgatgca 3540 gaagctacca ctgcatgcca gacttgtgac tcctgccaaa agttgacctg tttkttctgc 3600 ggtgagagag gccacattgc atagggcatt gcccctgtcc acttctggca nattggctac 3660 atcgaacctt tgaccncctc ttagggctac cgatgntgcc tcaccactat tgacacattt 3720 ttcagnttat ggtgttgctg ttccagtcca atcagccgac tctagccaca ccattgtggc 3780 ccttgaaacg aanctgtgtn atgttttcag ctttccagac tatttgcagt ctgacaatgg 3840 tgcacctttt atcacaaaag ccactcaaca atgggctgat agtcaaggta ttcaatggac 3900 cttccacgct ccctactatc cacgagcatc tggtattgtt gagcgttgga atggccttct 3960 cataaactga ctcaaaaaga tttctgactc twtctccctc acctcctcct ggtccacaca 4020 ccttagtagg acaatttggt cactnaatat ggctgtcccc ggaaagggtc atctcctttt 4080 ggccgcttcc tgagtaatga tcagtacaaa aggagagtgc gggaggttat atagacttat 4140 tttgaaaatt cgggattccg cctgaccaat cctgggcatg atgtttcttt ctttccccta 4200 atagcaaccc caggccagcc tggttggtac atcttccagg tggcagcccg gccaaaaggg 4260 ganctaggga attcaaactt aattctggtt cagccacctg kattctcttg ttggattgac 4320 atgattwtag atcatnagga taatgaccac ttggttgagt atactgcttk ccgagtcccc 4380 statagtggc ccacatggnc aaagtgggga ccataatgag tctctgtang tttstataaa 4440 atgcctttgt ccctcttnca cctgattgtt ctgaataaaa gatctgggtg cgagtaggaa 4500 atgactggaa aaaaggtgaa gttatagnta ctggaatggg acawgccgat tttntagcgg 4560 tggagggaaa gcaacaaccc tgccacctgg gaagggaana ccttagaccc cgggaagtgc 4620 gggggaataa ggggcattaa kgntctcttt gtcttttaga tcmagcaccg ccacctagca 4680 aaacaatcat attgtctcct ggagccaagc agcagctgca gctggcaatc tgacctgctg 4740 ctgggtttgt catctccttc cacatgccat gaaaacagga aaactcatgt ggatatggcc 4800 ggtcctgaac tattctgcta tgcctgatgc catcaatggc agcttcccaa catggatgtg 4860 tacaaacaca cgawccagca caacwttgtt tcaatctgac tgatacaaat ttatatgctt 4920 ctcctgatgt ctgaacagcc ttgggttata ccatgtatgg ctacwgaggc tgcaaatact 4980 cagtgacact gcccatgtgg cttaaccaaa scgatgtaat gagatcaagt ttgacaacaa 5040 atcccgaatt ggtaaccttt cggattntat gtttatatgt gggggagagt gggccatgga 5100 atgtctctcc attggkgatg ggggttgctt tttggcccat ctattgctcc ctgtaattat 5160 tggcaatgac accaaagatt atcaggtcag tctaaactct cttntgtggg tcgtaatgga 5220 taatagactg gccttagaca acattctggc tgtctaaaat aagacctant ggtcccgttc 5280 atgggatttg ttcagctgat tgagtccggg accctgnggg gcatggttga ggtyaatact 5340 gcaggttggc ctcatcctgc tgcttggatg tcctgttgat agtagcctta attaaatgct 5400 ntatgagaca aattgaacag atttggtccc agcctctgtc agtcagatta atcagaatgg 5460 ctgatagagt ggcgtactca tgkgaaaatt taccagaagc caagatggtg taggamcgag 5520 gggtggatat 5530 // ID MER101_I repbase; DNA; HUM; 6639 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.06, Created) DT 05-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE ERV1 Endogenous Retrovirus from primates (internal portion). XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER101-int; MER101_I. XX NM MER101-int. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-6639 RA Smit A.F.; RT "MER101-int - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC closest to PRIMA4-int; probably non-autonomous 16% subst; CC related seqs predate radiation. XX SQ Sequence 6639 BP; 1770 A; 1380 C; 1324 G; 2130 T; 35 other; ttcttggtgt cagaagcggg atttgaagca accccgattc tcctcccggc gccgtcctga 60 accaacgcat tggtgcctgc aagagcccct tgagctcagt tgtcttctca ctggagatgc 120 caggataggg ataggtaggg taatggcctc nggtaagtcc tctcgaattc agacctccca 180 tgccttggtt gaggtctcag agactttttc cccgtaggtc tcgtccatcg accccagagg 240 gacttcnttt agccatgggc ttgggagggg cttctcagcc agtcccccca tctggactct 300 gaaggggaca ttccctttgg ccccaggctt agnggggggc ctttccancc agttctctcc 360 atgcggatgc cggaggggct ctccctgtcg cccgaggttt agnaggggct tcccagtcaa 420 ctcggccggt ccataaggtt ttgtggggac gctcacgcta agggcactgg aagggacgcc 480 ttcgtcaggt cagtgcaatg ggtaacccat gttttaagtt ttccctgntg atcagccgcc 540 ttccggcact ccagctggct ttatgagcaa aaattatggt ccagggagtt gtaattggct 600 aggtctctgg acaaaaatta cccaggataa tcttaaactt tgttggccaa agtggggctc 660 ctttgaaatt ccaaaacttg cctatctgcg cgcacaattg gaacaaagaa aacaccgaac 720 ctcccagaga caatgggaag cctttttcag ttggtacttt gaaagttcta aatggaatca 780 agaggctacc attgcctccc ttagagaaaa taattccaaa ttgagtgagc gccttaatga 840 aatagaaaga gattagcgct tgcgagactg aaactaaagc tgtnaaaaca cctctggaag 900 acccttcttc cactagcccc ccttgcctgc cactctgcct gtcttctgca ccttttttca 960 ccacctctgc tttatccttc actccctcct tcctctttca ctctttcagc tggttatttt 1020 gaaaaggttt ctaaattttc tctaggctcg tctgtgtgtt tccttgtaaa atcctgtgat 1080 aaattcctgt gattttatgt taccttggca tccattttaa tcctcctcta acacacccag 1140 actccttgtt gagaaagctt aaattctctc tgtgcttgag atgtaaattt gctaccctgt 1200 tttctctaaa attcggtaag ggcttcagcc atgtgggaca gataaatttc agcctgttcc 1260 atttacagag acgcagtttg aatccaactg tccttttaaa ctagtgagtt ttacctgact 1320 catggctaaa gttttaaaat taaagctata agatctttat ttgtgtctgt ctgtattttt 1380 ntgtatatgt gtgtatacat gtctgttcgt atattgtcta cggtaccaaa ttggcttata 1440 aataaatgag tactcataaa ttaagcaaat aagcccaaat gcttttcaag ttcatgtgac 1500 ttagtaatct tttggcggat gggactagtc taatattgtt ggtttgatgg gaatggctgt 1560 gtcttctgag ttatcagcaa aatatgcatg tatttaactt tagggttctt gcttttatga 1620 tacttgcctg gcatgcagta atgtaaaatt ggttgataga aaatttagct tgggatgatg 1680 gctagatttg tctagtgtct catgaagttt tccaggcata attnttaaga gtgaatggat 1740 tggatggatg taaatgggat aaaagtttat aaatnaactt ttgataatgg ttatgttttg 1800 taatatgttt acttgggagg gcttctcaaa tntctttagt aactataccc ttagagtttt 1860 gctaagctaa attaaatgat ggatattcat tgaatgtcta gatcatttnc agataagata 1920 taatgctgag acattnattg ctgaatatga gtttaggctc atatactttt ggcttcttat 1980 ttcagagaaa caaaagttat ttggatctgt tagtaaaaat gtcctgttcc atattaaaaa 2040 gntgttctgt tagaaagcct atgtctctgg aaattgtaaa atgtgtattc atggattgtt 2100 ggtacatgat tggcagttaa aagttgctta cttcctaggt tttcactgaa aattagggtt 2160 actaagagtt aacattgtaa ttaatgtgtg tgattaaact actagagatg agaaagacca 2220 ttctgtatgc aagtgtatga ggagggtagg atgtattttt ggtaaggaag gttgaaaaga 2280 aaagagaata attttgtatg agaaagaatc ttgtgtggta aatttttntc ctanagtaaa 2340 atgactggtt atttaagaaa gaggaagtat aggacaaagc agaaagtcca agcatgtcat 2400 aaatggtcta agtaaatcat gataaggttt atgaaaagaa agtttataaa aggaattttc 2460 tgtgtgatca ggttggctac aattggaagg aaattgttta tgggtctttc taaggattga 2520 gctttgatgt tagaaatgca ctgatgcaga acttaaaaat ttggtcccct gtgttagaac 2580 aaggttttct taaaatgttg atttgctctt agtaaaattg caagaggttt tgatttttaa 2640 ttctgaaatc tgtttcctta acagccatcc tctaaactac aaacagtttc tatttctgcc 2700 acatttcttc ctgagatcta tctaatttcc ctagtttcag gttggaaatg cagctctcct 2760 tctttctacc cttgaaaagg tatatctttt tgcttggctg gggtgataac cctctccttc 2820 aaccttttcg tcagctcctg taactttttc tccggttcta acactgccgt tatggcctga 2880 tgctaaaatg tttatcttga aggtctagaa aggcaatgtt tccttcagta caacttgatt 2940 ctgtactttt ggcttttctt gatgtgtctg aattgttcca tgtaaccagg aaacttccta 3000 tgctgttact aaaaaccacg tattcccctg ctcaaggtac tagttttctt gtttacattc 3060 ctctataata tgggtacact cataaccctg gacacactct tcctgtgcct gattaaattc 3120 aagtaccctt ttcatcaggt ttaactttca ggttatctaa atgggctttc cgtaaggaga 3180 agcaatcacg ctgcaggagg tttttttttc tttgcctttt aggtaactgg cctaggaaac 3240 aaagattctg tgttttacca agataatttc ctgtgcttca tgttgtcttt attgggtttt 3300 tgattactta ggaaaactga gctttaaaag ggttaaggtt tttacatcca tgtaactttc 3360 tgtattgctt ttgaagtctt ttgattatca ctctggttaa atgaataact attatttagc 3420 agtgacctgt gattctgttt aatcaagtac tttgaacctt ttgacatctt tggcaggttt 3480 ccccaggatc aaaatcctaa attaagtctt tttgacctaa aattaacttt aggattttcc 3540 agttgggccc ctggagagca tcaaagaatt atctctcatc ttgtagagat attaaatgat 3600 taggcttatt tggtaaatca tatgggaagc attgtcaaat aagaaatggt gtttaacttc 3660 ctttaagtta catttgtgta aatgtgttat taaaatgtgt tccaaaattg catgagattt 3720 ctaaaattcc gatatgtcat gatatgtatt atcagtcatg attntgatta ttatgttaaa 3780 tgnttgtatg ccacaaaaat aactaaattt ccttgtcaat tgtgaactct catcagattt 3840 ttgaccatgg ctgttctggg tttttgtcat ccacagttat tgttttaaat tcttctctag 3900 aagcatttgc aatcagtata gtccaaaatt gctttaatca agcaaagcaa aattaattac 3960 atgaaattaa gtanttgata aggataactt tatgactttt atttaaaatg ttggttctnc 4020 atttaaattt tttttcagat tcaaggaant tttctttcat aagntattta tagtttgcaa 4080 taatttggta aagtatcctt tatgaacaaa agtggaagca tttgcttttt ctccctactt 4140 gattcctcca aaattcagaa actatttntg agtattctta ttttatttat ataagttcaa 4200 taaaaatctg ctctctcttt ataagcagga tacaattgga aacnttggtt atattgccaa 4260 ggttttgact gaaatgtcat atttaagaat gtgcataaaa tgcctggctt caagagttcc 4320 cagccttaca gtgagtgagt aaaaattgtc acttcctggc aggcccaaga accttaagac 4380 tgtaagtaaa atctaaagcc tgccttggtt tggcttccta gcctcaagag gttctaaaat 4440 ctgagattcc tatatgatca atgtggagag aaaaagttat gtttctaggg aaaacactaa 4500 agtacacctg ttattagatt gtagccctgt gcattgtttt caagtccttg ttatctgcct 4560 gtagactgga ctggatcctg aattctccta atttcctnca atatttggct acaactaaat 4620 cccgataaag tcccccggcc ctcttccccc aagcaagact agggatgctc cggggacatt 4680 caggggattt cccctnctta aanctaacca actaggggaa ttagatatta aaattggaga 4740 caaactagac ccataggata ctatggtccc cttgtctcaa agcagttgat gctgtctctt 4800 cctttgtaaa agccacagag aagatagtca cggggccacc tctcactgtc tscattccat 4860 actctgtcga ggctctcctc aattcacatc actggcagca tttgtaaaat ttgtccacaa 4920 tacaatactg gaaaaccatt acatgcctcc atggaccact tcccattacc gaatggtccc 4980 tttgaggtat ggcaacaaga ttttattcag ctccctgcct ctcaaggata ccagtatgtg 5040 ctagttatgg tttgcatgtt ttcacattgg gttgaagcct tcccctgtcg acaggccata 5100 gccatggcag tagctaaggc cctattggaa aaattatacc aacctgggga gtctctcaag 5160 agcttcacag tgactgagga actcatttta cagggcaaat tattnaaaat gtttgtaaaa 5220 tttggcctat ttatcaacat ctccattgtg cttaccaccc ccagtcctct ggggcggtgg 5280 aacagaccaa cggaataata aaagcccaat tggcaaagat ctgtgcggta tttagcctgc 5340 catggcccga ggccctttct ttagtcntcc ttaaccctgg catgctttca acgncccctc 5400 cccggagttc tgaattcatc cagatggtcg gggtagccaa ccagcctatg atggttccta 5460 aatctctacc tattcccttc caactaggac ccctcactgg cagtcattgc ttttcgcttg 5520 tcccatcggc ccccatacac ctcctggaaa gggacttctt agaaacctgc caggcccata 5580 tttccttctc ccaaaagggg gaaataatgc ttgagttatc ctcaccagga gattttgcca 5640 cagaaacggc ttttacccaa attcccatct attcagttag ccccaacact acccaccctg 5700 ctctccaaga gctacctgag agtctttggg cacaatccaa caccgatgat aacccctcag 5760 attatgaaga tgatagttgt ggacactctc aaggatgcga tttacctgga ggggttaacc 5820 ctagtgaagg agctagatta ggaaggtttc tggggtcctg gtttggacta ggccctgctt 5880 ggaatgaata tatggtcaga aacctttccc gcactgttaa cagaattgcc cgctccaccg 5940 cccgagccat cagggcacaa cagaggtccc tagattccct tgcttatgtg gtcctagaca 6000 accacattgc tttagactat cncctcgctg cacagggtgg tgtttgtgct gtcgctaaca 6060 cttcctgctg cacctgggta aatacttcca gtcaggttga attggaaaca tctaagatcc 6120 taaagctggc caaatctctg aaagggacac cttcagaaag cctcctggct ggacttactg 6180 ggttaaattt ccaatttcca gatattttca gctggcttcc cctggtatag gattccttct 6240 gcgttccgcc ctacaagtct taatgatcct cctcatattt gggctaagca tttggctcct 6300 ctttaaaatc gttctagcct gttttaacag atgtctgcaa gagaccccca ccaggatcgt 6360 gctgacccaa caccttgaga ctttaaactc actccagccg gaaacnggaa ccaacttaac 6420 ccaagagact ttgattcaaa tttaacaggt acctgagtgc ctctcgtaag taaatggctc 6480 tagttgctca gttggccact gccctgccac naggatccct gcgcgggact agatggaccc 6540 ggagcaggta gccaaccact ctggcaccat gatgggatgc aaccaaccta ttcgatcatc 6600 agtgctgtct gctgacaggt tttgatnaaa gggggggaa 6639 // ID MamRep1527 repbase; DNA; HUM; 969 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE Transposable Element from placental mammals. XX KW Transposable Element; LTR; MamRep1527. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-969 RA Smit A.F.; RT "MamRep1527 - Transposable Element from placental mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC Probably an LTR. TG...CA, there is a hint of 5 bp TSDs, and poly CC A signal (consensus was inverted from original for this). No CC matches to other LTRs though. > 30% in ancestor, but absent in CC both opossum and platypus, perhaps indicating a plethora of CC subfamilies. XX SQ Sequence 969 BP; 244 A; 251 C; 242 G; 227 T; 5 other; tgtagtagtc cgcaaggcct gtttcaaatg cttagcacac acacacacac acacaagctt 60 ggcatttgcc attntaaacg cctaggatgg cacgtccacc ctgccctttg ccctagtaag 120 tgggcctttg taaccaggga aatggccctg gttctcagtc caaagagata ttggggagat 180 gtctcagcaa aagataaaga acagggatgt attgttcccc cgaaatcctt ctgttctttg 240 gatatcttaa ctccctgctt cccatgcccg cttgtgacgc caaccaatgt tgcaatggca 300 gcagccaatc ccagactttc cctgctgcct gaagtccagc caatagctga cttcaccacc 360 ccctccttgc ttgctagcga ttggaggagc aattgtatca catgcttgga ctgaccaatg 420 aataagtggc caggggccat tttgagtggc agccttccag ttctgcagaa actataaaac 480 tgacccaaac aaagaaactg ttggagtcgc cggggtcagg gactatagat ccgtatgtca 540 cctcaccatc agagcaccag cctctgagtt ccctttcttg gctgcactcc gggggccgga 600 tgccggaccn ncgacgactg tgcagcaatg gcaagaagag aggggtgctc ggcgagaccc 660 tgacagtctg ccgaggccac cacaagctgg gaccctatct ttgctgacgc gtatagtatt 720 cctgttgtaa caagtgtcct tttggttaaa agtaataaat ctcctcttgt ttaagtgaca 780 ggtggttggg attgttactt ttgctttcgg caaacccata agaggaaaag tnaacccaca 840 tggtctggag gggagggaat aggtcaaata ctaagatcng gacctaatcc cttagcagcc 900 gggcaggagt taggagagga ggcccgtgct tttgaataga gacccctcta ggggccacga 960 acggacaca 969 // ID LTR22B1 repbase; DNA; HUM; 526 BP. XX AC . XX DT 14-AUG-2008 (Rel. 13.08, Created) DT 14-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR22B1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-526 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 835-835 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 526 BP; 131 A; 109 C; 140 G; 146 T; 0 other; tgtgggggtt cagtcaggct ggtgggaaaa attttaagat gaagttatag gaaatagaca 60 caaaccttct tggaaggccg gaaggttttg caaaagcttc aggatagggt tatggctgaa 120 ggcagcctaa tccttacctt gagttaatag cttaaagtag ataacaaagg aatgtagagg 180 agtttatcta aatagcttgt ttactcatgt ggtcctaaga ctaacctttg atcatccgcg 240 ggtgcatgat tgctctctac tcaggagtgg gggtgggcaa ttggcaacca ggttaattac 300 cctctagtgg tgtttactcg agacctttgt catttgtcat taaatctgta ctgaataaat 360 gccagcatcg ccggctagtc agggccgcgg ctgctactct ttacagcacc ctccttggtg 420 tctgtgagtg gcccagaccc ttagccggac tgacaagcag aatatctgtg tcagtgtacg 480 ttattcatcc gtcattgggt cagggtctgc gggacggacc cccgca 526 // ID SVA2 repbase; DNA; HUM; 217 BP. XX AC . XX DT 01-MAY-2001 (Rel. 6.04, Created) DT 01-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE SVA2 is a SINE-like retrotransposon - a consensus. XX KW MSAT; Satellite; Simple Repeat; SINE; SVA; SVA2; minisatellite; KW nonautonomous non-LTR retrotransposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-217 RA Jurka J. and Kapitonov V.V.; RT "SVA2."; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC There are 50-100 copies of SVA2 present in the genome; they CC are ~93% identical to the consensus sequences. Presence of CC a 3' poly(A) tail and ~15-bp target site duplications indicate CC that SVA2 is a SINE-like retrotransposon. Its 5'-portion is CC composed of a variable number of the 40-bp minisatellite unit, CC which has been found previously in the SVA SINE-like CC retrotransposon. The consensus sequence includes three units. XX SQ Sequence 217 BP; 39 A; 67 C; 61 G; 50 T; 0 other; caccgtctgg gaagtgagga gcgcctctgc ccggccgccg caccgtctgg gaagtgagga 60 gcgcctctgc ccggccgccg caccgtctgg gaagtgagga gcgcctctgc ccggccgccg 120 tgcaaccctc caagtgtgaa gtgacagcct tgtgtgtgat ctttctgccc tccccaagtt 180 tgcattttcg acattaaagt ttacttttta attaaaa 217 // ID REP522 repbase; DNA; HUM; 1817 BP. XX AC . XX DT 13-SEP-2000 (Rel. 5.08, Created) DT 04-AUG-2008 (Rel. 13.07, Last updated, Version 2) XX DE Human DNA repetitive subtelomeric-like sequence (a consensus). XX KW Satellite; Simple Repeat; REP522; Repetitive sequence; KW subtelomeric sequence similarity; telomeric. XX NM REP522. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-1817 RA Roschenthaler F., Schable F.K., Thiebe R. and Zachau G.H.; RT "Of orphons and UHOs. Delimitation of the germline repertoire of RT human immunoglobulin kappa genes."; RL Biol. Chem. Hoppe-Seyler 373(4), 177-186 (1992). XX RN [2] RP 1-1817 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [1] (Consensus) XX CC CC [2] (follows L1 fragment; includes palindromic 'MER122'). XX SQ Sequence 1817 BP; 259 A; 606 C; 523 G; 396 T; 33 other; atctacccaa aaactttttc ccccatcatt ntttccccgc cttcttttcc cgaccgcctt 60 cggccccctc cccctcgcca ccctctttct tcctccatct accccaaaac tttttcccca 120 ccatttttcc cccaccgtct tttcgcaaag ccttctctgc tcctcaaaac cttttcccca 180 ccgctttccc cctccctggc caccctcttt ccccctcccg ctctcgtcac cctcttttnc 240 ccctccatct acccaaaaac nttttcccca ccgtcttttc caaagccttc tccccactcc 300 tgctgctcac caccctcttt tccccctcca tctacccaaa aactttttcc ccccaccctc 360 tttccgcaaa accttctccc gctctccctc ctttctccct gctcgccacc ctctttcccc 420 ctccatctac ccnaaaactt ttttccccat cttctcctcg ctgccttttc gcaacgcctt 480 ctccgctcgc cactgccctc tttccccttg ncgctaacca ccctctttac tcccctccat 540 ctatcccgaa actattttcc ccctcctacc gctccagcca cgctgcngtc tccgtcgccg 600 ccaccaaccg cagcgaggcg agccgtggtg ccgcaggctc cagcctccag natgcggcng 660 gtggctnccc ttccggtctc ctctaagccg ggcacggagc agctcngcgg gcagacacag 720 aagaacctgg aacggcctga cnccccctca gcatcattta tatactgagg ttatgcanat 780 gaggttcctg gactacatgt tctgattgga tgagagaaaa gcctcnaggc ctactctgat 840 tggactttgt tatcatgttc tgattggatg agagcaagtc ttaggacaac caatcagagc 900 atgaaaataa agtccaatca gagtaggcct agaggttttc tctcatccaa tcagaacatg 960 tagtccagga acccacttgc ataacctcgt atataaagca tgctgaggng gcgtcaggcc 1020 attccaggct ctcctgtgtc tgccngccga gctgctctgt tcccagctta gaggacnagg 1080 agaggggaac cgccgcctgc tggaggctgg aggctggagc ctgcggcacc gtggctcgcc 1140 tcgctgcggt tggtggtggc gacggagacg gcagcgtggc cagagcggta ggagggcggc 1200 cngcggcggg agcttgnccn gcggcaggag gaggagggga gggccgcact gcccacggct 1260 ggaggctgga gcctgcgcca ccgcggctgc gctcgctgcg gttggtggtg gcgncggaga 1320 ctgcaggccg gccagagtgg tagaagggcg tggggtaggt gcgctatccg gggctgcact 1380 gcccgcggcn gggggcnggt tgggggcgct atccgaggcg gcactgcctg cgtcgggtgg 1440 cactggttgg gngcgctntc tggggctgca ctgcctgcgg ggcggtgggg gncgggttgg 1500 gtgcgctatc cggggctgca ctgcccgtgg cggggggcng gttgggggcg ctatcccaga 1560 ctgtactgct ggcggcagtg gggcgggtta ggggcgctat ccggggctgc actgcccgcg 1620 gcggggggcg ggttgggtgt gctatccggg gctgcantgc cggcggcggg gggnggttta 1680 ggggcgctat ngggtgctgc actgcccgtg gtgcggggag gcggggcggc ttgggtgtgn 1740 tgggtgcgct gtngcggggg ggcgacactg ctggtggcag cggncggggc gggttggggg 1800 cgctgtcaag ngctgca 1817 // ID LTR06 repbase; DNA; HUM; 476 BP. XX AC . XX DT 16-AUG-2008 (Rel. 13.08, Created) DT 16-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR06. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-476 RA Jurka J.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 828-828 (2008). XX DR [1] (Consensus) XX CC >300 copies; >80% identical to consensus. Related to CarLTR4_LTR, CC LTR6_EC and LTR6_BT. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 476 BP; 140 A; 137 C; 77 G; 122 T; 0 other; tgtgaaatgt gatatacaaa atggcgtcac tctggttcag agctctaaaa tggagtcggg 60 aagccattct aagaaggact acctgcacga cctgcaacct tgcaaaaaaa acaaaaacaa 120 caacaaaact tgccttgaac ctttgaactg ggccaaaccg ccacgaccac aacatcctgg 180 aaaacagctg aatttcgcca gcgctgcaac tcctgaacag cgacaaccaa tgaactatgg 240 actcatgtac taagccagcc gcctccacca atgataattc tttcaaaaca acttgtgtaa 300 tcaccctcag cttcctttta attttctctt aaaaatccct actcccctcc ctctcttcgg 360 aacacaattt ggcttctagc cgaatctgtg tctcccgaat tgcaattcct aagaccccaa 420 taaacgcctt gtcttactgc tttgcagtct ggtctttcgc ctcttcttgg ttgaca 476 // ID LTR23 repbase; DNA; HUM; 437 BP. XX AC . XX DT 01-OCT-1997 (Rel. 2.09, Created) DT 01-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR23; KW MER41I; MER4I; MER57I; MER65I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-437 RA Kapitonov V.V. and Jurka J.; RT "LTR23."; RL Direct Submission to Repbase Update (01-OCT-1997). XX DR [1] (Consensus) XX CC Putative LTR of endogenous retroviruses related to MER4I-MER41I- CC MER57I-MER65I group. CC 3'-end (80-100 bp) of LTR23 is similar to the 3'-ends of LTR24 CC and MER4C. CC There are a minimum of two subfamilies of LTR23. XX SQ Sequence 437 BP; 120 A; 91 C; 79 G; 140 T; 7 other; tgagaaaaga aaaaatagct yagagcagtc tgagctatgt gaggtatgca aaatttatca 60 ggcccagaga gacatgagta tgggacttca gtcatgtccc tactccccct crccatgccc 120 gggggcaatt gtttgaaggc attttgttcc tgactagctg cctcatccat tatcttcatg 180 ttcctggaat ttgtgataca aagaacaatg tatagccaat caatagcywa tgttatttta 240 atgtaaatty ytggtaaaca acttaaggaa ctscctcttc tttttttcct ttaaaaacca 300 cttgtaactg ctgctaattg gagtgtatat tcagggcaac ttgaatctat gctcccaggt 360 tgcagtcctc aagcttggcc caaataaact ctctacttat attaattttg cctcagcttt 420 ttccttttag gttgaca 437 // ID MLT1N2 repbase; DNA; HUM; 557 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 14-OCT-2008 (Rel. 13.11, Last updated, Version 4) XX DE Long terminal repeat - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR67; MLT1N2. XX NM LTR67; MLT1N2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 11-557 RA Jurka J.; RT "LTR67."; RL Direct Submission to Repbase Update (30-APR-1999). XX RN [2] RP 1-557 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [1] (Consensus) XX CC This LTR is unusual as it contains features of both MLT1 elements CC and viral LTRs. Individual LTRs are ~72% similar to this CC consensus which makes them likely links between MLT1 CC retroelements and "true" retroviruses. Renamed from LTR67 to CC MLT1N2. XX SQ Sequence 557 BP; 113 A; 157 C; 143 G; 138 T; 6 other; tgtggacatt tgtcattctt tttggccact cagcatctga acacccttcc tatgtttggg 60 gaattccccg cnttatgaat cccacctccc caaggtagaa gccagaaact cactttccca 120 gcctcccttg cagctagggc gcnggcacgt gacctaggct ccgccaatca gatgcgccca 180 cncgagactt cgaatcagaa gctagtgacg caaggaagca ggnaccgcgt ggaatccatt 240 ctctggcgag agtggcagca gctggcatcn agtttccaga ggcagcagtg gcagagntcc 300 tagcggtggc gtccagcgct catgtgtggt gcaagctgcg gtatctgtgc ccagcggtgg 360 cagcagtggt gtcctcactg gaccagttct gcagtgtgat ttgggcattg ttcctggctg 420 cgtagcctcc gagcctggtt ctccagccct cccggagatt ctgtgagcta cccaatatcc 480 tttaataaat tccttttctg cttaaatcag ccagagttgg tttctgttgc ttgcaactaa 540 gaaccctgac tgataca 557 // ID Tigger4a repbase; DNA; HUM; 236 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Mariner DNA transposon from primates. XX KW Mariner/Tc1; DNA transposon; Transposable Element; mariner; KW Tigger4a; ZOMBI_A. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-236 RA Smit A.F.; RT "Tigger4a - Mariner DNA transposon from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC (MER46A) 14% div. XX SQ Sequence 236 BP; 78 A; 55 C; 47 G; 56 T; 0 other; caggttgagc atccctaatc cgaaaatccg aaatccgaaa tgctccaaaa tccgaaactt 60 tttgagcgcc gacatgacgc tcaaaggaaa tgctcattgg agcatttcgg atttcggatt 120 ttcggattag ggatgctcaa ccggtaagta taatgcaaat attccaaaat ccgaaaaaat 180 ccgaaatccg aaacacttct ggtcccaagc atttcggata agggatactc aacctg 236 // ID LTR55 repbase; DNA; HUM; 548 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 06-FEB-2010 (Rel. 15.03, Last updated, Version 2) XX DE Putative long terminal repeat - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; KW Long terminal repeat; LTR55. XX NM LTR55. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-548 RA Kapitonov V.V. and Jurka J.; RT "LTR55."; RL Direct Submission to Repbase Update (31-JUL-1998). XX DR [1] (Consensus) XX CC Individual copies are about 80% identical to the consensus CC sequence. CC LTR55 family can be split into two minor subfamilies based on CC multiple diagnostic positions. XX SQ Sequence 548 BP; 122 A; 177 C; 93 G; 146 T; 10 other; tgttatataa atgagccaaa gatggcctct gtgtattggc ccctaggttg tttatttctt 60 cactgcaggc tgagacctgt tagctcaaaa gcccaccggc accaaactca aatttttaca 120 catccawatt gttttaaaaa tagcccaaac aagcagattt ttagccattt agagcctgcc 180 tgctttgcat accccgcgaa acytcaccca acatctgcta gccattgcac ttataagrcc 240 ccaargcgct gctgcycttt ggagctctct gacccagaga ctcccyaacc gtgctgctga 300 gaaacatcac ttagacacat aagccccctc tccgattccc ctctcccccg ggagttccct 360 tgccctcctc cccttctgga tggtggtccc astccctaaa cctctrgaca gtctcwtgct 420 gtgaggagct tccccttcat gcaaccctgt ccaagtgcca cccaataaag tttgttgtgt 480 ggtactgccc ctgcgtggtc atatcttttt ccttgatcag cccccaaatc ccttraaccc 540 ccttcaca 548 // ID MLT1E repbase; DNA; HUM; 593 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 4) XX DE Mammalian long terminal repeat (MLT1E subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1E; KW MaLR family; retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX RN [2] RA Smit A.F.; RT "MLT1E."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1E retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 21-22%. CC Pos 384-594 86% similar to MLT1D consensus 3' end. XX SQ Sequence 593 BP; 139 A; 153 C; 154 G; 133 T; 14 other; tgtggcagac agactctaag gtggccccca tgatccccgc ctcctggtgt tcacgccctt 60 gtgtaatccc ctccccttga gtgtgggtgg gacctgtgac ttgcttctaa ccaacagaat 120 atggcaaagg tgatgggatg tcactcctgt gattacgtta catgattatg taagattccg 180 tcttgncgnc antcttgctg agagnctctc ttgctggctt tgaagaagca agcngccatg 240 ttgtgagnng ccanatgaga gggccacatg gcaagggcct ctaggagctg agggcggcct 300 ccagccgaca gccagcaaga agctgaggcc ctcagtccna cagccgcaag gaactgaatt 360 ctgccaacaa ccnnagtgag cttggaagcg gatccttccc cagtcgagcc tccagatgag 420 ancncagccc tggctgacac cttgattgca gccttgtgag accctgaagc agaggaccca 480 gctaagctgt gcccggactc ctgacccaca gaaactgtga gataataaat gtgtgttgtt 540 ttaagccgct aagtttgtgg taatttgtta cgcagcaata ganaactaat aca 593 // ID MER90a_LTR repbase; DNA; HUM; 614 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER90; MER90a_LTR. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-614 RA Smit A.F.; RT "MER90a_LTR - a subfamily of endogenous retroviruses from RT placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 20% div, 4 bp duplications. XX SQ Sequence 614 BP; 175 A; 182 C; 111 G; 144 T; 2 other; tgagaaagag aaaagcagcc cctgacatcc gggagctggc ctggtactan cagctaggcc 60 ttggtgttgc taggagctgg cctggcactc acagcnaggc cttggtgttc tcctgttgaa 120 cataaacaat ttcacagaac atcaacatca gacaaggcca ctctgtgacc atgatggatc 180 aagacaaaaa caagaccact ccgtaatcat gtctgaacac agacaaaaca tgaacattgt 240 ccaagccaca aaaatgacca aacatccccc tatcctggct aatatgagtg actgctgctt 300 ctttaccaat tacagcttta gcctcgctct agtcttccct ccttctagat aagatttatt 360 aagataccca atcatagaat tacccccgct tcctgacagc atccaatcca gagcaaagcc 420 ccgcttcctt aaaccctccc ccaaatcacc taacacaagc ccaaatccta taataagtcc 480 tttctaacac cctcttactg agacgcccca cggttcccca tggtgtgcgt tctccctcgc 540 tgcaatgagc aataaaccca acttgttcaa ccacaggtgt gttcctggtg gtctttggct 600 ggagggcatt gaca 614 // ID LTR13A repbase; DNA; HUM; 966 BP. XX AC . XX DT 05-MAR-2001 (Rel. 6.02, Created) DT 05-MAR-2001 (Rel. 6.02, Last updated, Version 1) XX DE LTR from a HERVK-like endogenous retrovirus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK13; LTR13; KW LTR13A; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Pavelitz T., Rusche L., Matera G.A., Scharf M.J. and Weiner M.A.; RT "Concerted evolution of the tandem array encoding primate U2 RT snRNA occurs in situ, without changing the cytological context of RT the RNU2 locus."; RL EMBO J 14(1), 169-177 (1995). XX RN [2] RP 1-966 RA Kapitonov V.V.; RT "LTR13A."; RL Direct Submission to Repbase Update (MAR-2001). XX DR [2] (Consensus) XX CC LTR13A is a long terminal repeat from the HERVK13-like CC retrovirus. CC LTR13A is 80% identical to LTR13 [1]. Its solo copies are flanked CC by CC 6 bp target site duplications. CC This consensus represents a young subfamily, its copies are CC ~4% divergent from the consensus sequence. XX SQ Sequence 966 BP; 233 A; 238 C; 226 G; 266 T; 3 other; tgtgggcgga ggattaccya ggtgccgagg caagagactg aaggcacaaa ctgtttcagt 60 ataataaaga aaatagttag aataagaata gtcataatac aaattagata tagagatgat 120 catggacaat tatcaatcat tattataaac attattaatc attagctttt aatattactc 180 tttgttgcat tactaatata acctaggaat aaccggcggg tatagggtca ggtgctgaag 240 ggacattgtg agaagtgacc tagaaggcaa gaggtgagcc ctctgtcacg cccgcataag 300 ggccgcttga gggctccttg gtcaagcggt aacgccagtg tctgggaagg cacccgttac 360 ttagcagacc gygaaaggga gtctcctttc cttggaggag tcagggaaca ctctgctcca 420 ccagcttctt gtggraggct ggatattatc caggcctgcc cgcagtcatc cggaggccta 480 aacccctccc tgtggtgctg tgcttcaatg gtcacgctcc ttgtccactt tcatgttcct 540 cccgtactcc tggttcctct ttgaagttcg tagtagatag cggtagaaga aatagtgaaa 600 gtcttaaagt ctttgatctt tcttataagt gcatagaaga aaacgctgac gtatgctgcc 660 ttctctctct gcttcggcta cctaaaaggg aagggccccc tgtcctatga tcacgtgact 720 tgcttcacct tgtcaatcac ttagaagatt caccctcctt accctgcccc cttgtcttgt 780 atgcaataaa tatcagcgcg cccagccgtt cggggccact accggtctcc gcgtcttggt 840 ggtagtggtc ccccgggccc agctgttttc tctttatctc tttgtcttgt gtctttattt 900 attacaatct ctcgtctccg cacacgggga gaacacccgc taagccccgt agggctggac 960 cctaca 966 // ID L1MD2 repbase; DNA; HUM; 1106 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MD2) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M4; L1MD2; L1MD2 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1106 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1106 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 19%. XX SQ Sequence 1106 BP; 409 A; 185 C; 231 G; 274 T; 7 other; ctngtatcta gaatatataa agaactctca aaactcaaca gtaaaaaaac aaacaatcca 60 attagaaaat gggcaaaaga catgaacaga catttcactg aagaggatat acagatggca 120 aataagcaca tgaaaagatg ttcaacatca ttagccatta gggaaatgca aattaaaacc 180 acaatgagat atcactacac acctatcaga atggctaaaa taaaaaatag tgacaacacc 240 aaatgctggt gaggatgtgg agaaactgga tcactcatac attgctggtg ggaatgtaaa 300 atggtacagc cactctggaa aacagtttgg cagtttctta taaaactaaa catgcamtta 360 ccatacgacc cagcaattgc actcttgggc atttatccca gagaaatgaa aacttatgtt 420 cacacaaaaa cctgtacacg aatgttcata gcagctttat tcgtaatagc caaaaactgg 480 aaacaaccca gatgtccttc aacgggtgaa tggttaaaca aactgtggta catccatacc 540 atggaatact actcagcaat aaaaaggaac gaactattga tacacgcaac aacttggatg 600 aatctcaagg gaattatgct gagtgaaaaa agccaatccc aaaaggttac atactgtatg 660 attccattta tataacattc ttgaaatgac aaaattatag agatggagaa cagattagtg 720 gttgccaggg gttagggatg ggggtggngn gggggaaggg aggtgggtgt ggctataaaa 780 gggcagcacg agggatcctt gtggtgatgg aactgttctg tatcttgact gtggtggtgg 840 ntacacgaat ctacacatgt gataaaattg catagaacta aatacacaca cacacacatg 900 agtacacgta aaactggkga aatctgaata agatcggtgg attgtatcaa tgtcaatttc 960 ctggttgtga tattgtacta tagttwtgca agatgttacc attgggggaa actgggtgaa 1020 gggtacacgg gatctctctg tattatttct tacaactgca tgtgaatcta caattatctc 1080 aaaataaaaa gtttaattta aaaaaa 1106 // ID L1PB1 repbase; DNA; HUM; 898 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1PB1) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P5; L1PB1; L1PB1 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-898 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-898 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 8.5%. XX SQ Sequence 898 BP; 361 A; 170 C; 180 G; 186 T; 1 other; ctaatatcca gaatctacaa ggaactcaaa caaatcagca agaaaaaaac aaacaatccc 60 atcaaaaagt gggctaagga catgaataga caattctcaa aagaagatat acaaatggcc 120 aacaagcata tgaaaaaatg ctcaacatca ctaattatca gggaaatgca aatcaaaacc 180 acaatgcgat accaccttac tcctgcaaga atggccataa tcaaaaaatn aaaaaataat 240 agatgttggc gtggatgtgg tgaaaaggga acacttctac actgctggtg ggaatgtaaa 300 ctagtacaac cactatggaa aacagtgtgg agattcctta aagaactaaa agtagatcta 360 ccatttgatc cagcaatccc actactgggt atctacccag aggaaaagaa gtcattatac 420 gaaaaagata cttgcacacg catgtttata gcagcacaat tcgcaattgc aaaaatatgg 480 aaccagccca aatgcccatc aatcaatgag tggataaaga aaatgtggta tatatatacc 540 atggaatact actcagccat aaaaaggaac gaaataatgg cattcgcagc aacctggatg 600 gaattggaga ccattattct aagtgaagta actcaggaat ggaaaaccaa acatcgtatg 660 ttctcactca taagtgggag ctaagctatg aggatgcaaa ggcataagaa tgatacaatg 720 gactttgggg actcggggga aagggtggga ggggggtgag ggataaaaga ctacacattg 780 ggtacagtgt acactgctcg ggtgatgggt gcaccaaaat ctcagaaatc accactaaag 840 aacttattca tgtaaccaaa caccacctgt tccccaaaaa cctattgaaa taaaaaaa 898 // ID MER74 repbase; DNA; HUM; 624 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 24-OCT-2008 (Rel. 3.09, Last updated, Version 5) XX DE Putative long terminal repeat of endogenous retrovirus. XX KW Endogenous Retrovirus; Transposable Element; putative LTR; KW retroelement; MER74. XX NM MER74. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-624 RA Lee I., Westaway D., Smit A.F., Cooper C., Yao H., Prusiner B.S. RA and Hood L.; RT "Complete Structure and Organization of Three Mammalian Prion RT Chromosomal Regions."; RL Direct Submission to Repbase Update (30-NOV-1995). XX DR [1] (Consensus) XX CC Putative retroposon LTR; possible poly A signal at 537-743. CC Subfamilies exist. XX SQ Sequence 624 BP; 133 A; 194 C; 114 G; 171 T; 12 other; tgtgttctgt gttttcttag attctgtatt cgwctatttg gcatccgttc atcacagagc 60 armttgtatt aatcatgctt ttttattttc tgtattttat ratgytttga catcttgggg 120 ccttgctgay cccggagaga ctgcccctcc cagggctagc caattcttag agatagcgaa 180 ggactcgccc gggagcgcgc ctttcatatg caaaccaacc aatccagagc ccataccccc 240 aaccacctcc tctatttggc tcttacactc tgggccacta tccccctgcc ctaatcatcc 300 cagggccagg xaccaggcaa ctagggacar cccctatrcc ccagagcctg ctgaaattat 360 tcaaactagc caatcctaag cctgcttacc ctgcctcgcy cattccttcc catggaaacc 420 acaataaagg ctcttgccya cgttttcccg tcgctccttc tgcctcctga ccgaccccgg 480 tgcttccccg tggggctccc cgtggcgcgg catgccccct tctcttggga tctgtgagaa 540 taacaaactg tcttttcaat ggcagtcgtc tcctgatctg ttggcctyaa catacctaaa 600 taataaaacc tacattttaa aaca 624 // ID MER73 repbase; DNA; HUM; 644 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 25-OCT-2008 (Rel. 13.11, Last updated, Version 6) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; ERVL-74 group; MER73. XX NM MER73. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-644 RA Smit A.F.; RT "MER73."; RL Direct Submission to Repbase Update (30-NOV-1996). XX RN [2] RP 1-644 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [2] (Consensus) XX CC LTR of class III (HERVL) retrovirus-like element. Average CC divergence from consensus 18-19%. 5 bp target site dups. Belongs CC to a group also including MER74, MER88, MER54 and LTR53. CC Orientation reversed from [1] according to HERVL74 orientation. XX SQ Sequence 644 BP; 160 A; 205 C; 109 G; 170 T; 0 other; tgtcataaat ttgtttaata tagttgctgc ctcggcatcc atttttaggc ctgacataag 60 ttgtttgaaa cccagtcgta ccccgtcacc tttggcctag ttaaaacttc ccctccccgt 120 gtggttgttt gcgatatagc ccgcttgttc ctcatctcac tgacccaaaa cccaacacat 180 cccacagctg ctgaccacga taaaacctaa tggtcaacac cagagtcatg taaataagtt 240 ccccccttcg cgcgtgtttt ctttaaacta gccaatccac aacccccgtg ggaaagccta 300 agggataatg cccatggacc ttaataaagg catagtccca caggctctct cccctctctc 360 ttgctcccca cccactggtt gagctccctg ccgcctccag acttcccgtc ggcctcccgt 420 cggcacccct aacctctctg ggacctgtga gtaataaatt tcttctgttt catgcatttt 480 ggtttcacct cctcattgtg tctcacctga cacacacacc tgaacctaac tttcccccca 540 gtcagggctc tcctagagag tggctatctt ggcttatggc cactctcaag agagagacct 600 caagaccaaa ttagaaagaa accataacaa taaaaatcac aaca 644 // ID MLT1H1 repbase; DNA; HUM; 555 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Mammalian long terminal repeat (MLT1H1 subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MLT1H1; KW MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 243-555 RA Jurka J.; RT "MLT1H1."; RL Direct Submission to Repbase Update (MAR-1999). XX RN [2] RP 1-555 RA Smit A.F.; RT "MLT1H1."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1H retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 24%. Intermediate between CC MLT1G2 CC and MLT1H; 85% full-length similarity to MLT1G2. XX SQ Sequence 555 BP; 134 A; 156 C; 138 G; 122 T; 5 other; tgtggtagat taaagatggc cgcaaattwt ttgccactct tcccattgag aggtggggtc 60 tatgtcccct ccccttgaat ctgggctggc cttwgtgact gctttgacca atagaatgcg 120 gcggaagtga cgctgtgnga cttccgaggc taggccataa gaagncttgc agcttccacc 180 tnggtctctt ggaacactcg ctctgggagc cctgagccac catgtaagaa gtccgactac 240 cctgaggcca ccatgctgga gaggccacgt gtaggcgctc cagtcgacag tcccagctga 300 gcccagcctt ccagccatcc ccaccaaggc gccagacatg tgagtgaagc catcttggac 360 cctccagacc agcccatctg ccagctgaat accactgagt gacctcagtc aatgccacat 420 ggagcagaag aatcacccag ctgagccctg cccgaattcc tgacccacaa aatcgtgaga 480 tataataaaa tggttgttgt tttaagccac taagttttgg ggtagtttgt tacgcagcaa 540 tagataaccg gaaca 555 // ID Helitron3Na_Mam repbase; DNA; HUM; 486 BP. XX AC . XX DT 24-OCT-2008 (Rel. 13.1, Created) DT 24-OCT-2008 (Rel. 13.1, Last updated, Version -1) XX DE Helitron DNA transposon from mammals. XX KW Helitron; DNA transposon; Transposable Element; RC; KW Helitron3Na_Mam. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-486 RA Smit A.F.; RT "Helitron3Na_Mam - Helitron DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 29% subst in dog-human Non-autonomous element containing a short CC bit of a coding region (pos 322-438), encoding part of a CC helicase. rnd-3_family-430. XX SQ Sequence 486 BP; 136 A; 98 C; 131 G; 120 T; 1 other; tctatataaa taaaattaag tttctntctg tttgtctgtt accgcatcac acgaaaatgg 60 ctggatggat tttcaccaaa tttggagggt atgtttggga tggtctgact taaaatatag 120 gctatgtggc atacatgaaa ttcactttgg ggggccctgg ggggcacctc aaagagatag 180 gcagtcatcc tccagagcag ctgaaactga ggtacaacga gaggcccgtg tgactgccga 240 tcgggagaga catgccatac gtattaagat gccgtggaca gagaaaacaa acagtggttt 300 caaatatgag ccccaaatcg aaagtcacaa gggcagacgc tccgaattgc aggcgttgat 360 ttgcaatcga gctgcttctc acatgggcaa ctctatgtag cgtgctccag ggtgagtagc 420 agcagggatt tatttattta acgatggtta atgattctcc cgagcaacgc cggggaggcc 480 agctag 486 // ID MST_I repbase; DNA; HUM; 1651 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 07-AUG-2009 (Rel. 5.06, Last updated, Version 6) XX DE MSTa- LTR internal retrotransposon sequence - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MaLR family; KW gag; LTR retrotransposon; MstII; MSTa subfamily; MER10; KW MST-internal; MSTAR; MST_I. XX NM MSTAR. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL PhD dissertation, Univ Southern California, 1995. XX DR [1] (Consensus) XX CC Internal sequence consensus for MSTA retrovirus-like element CC (MaLR). CC The ORF from bp 48-1469 encoded a protein derived from an CC ERVL-like CC GAG protein (see MLT1CR). On average 12% diverged from consensus. XX SQ Sequence 1651 BP; 436 A; 353 C; 489 G; 371 T; 2 other; gaawattggt actgaggagt ggagcattgc tataaagata cctgaaaatg tggaagcgac 60 tttggaactg ggtaacaggc agaggttgga agagtttgga gggctcagaa gaagacagga 120 agatgaggga aagtttggaa cttcttagag acttgttaaa tggttgtgac caaaatgctg 180 atagtgatat ggacagtaag ggccaggctg acgaggtctc agatggaaat gaggaactta 240 ttgggaactg gagcaaaggt cactcttgtt atacattagc aaagagcttg gctgcatttt 300 gcccctgccc tagagatttg tggaagtttg aacttgagag tgatgatcta gggtatctgg 360 cggaagaaat ttctaagcag caaagcgttc aagatgtgac ctggctgctt ttaacagctt 420 acagtcatat gcgagagcaa agaaatcact taaagttgga atttatattt aaaagggaag 480 cagagcgtaa aagtttggaa aatttgcagc ctggccatgt gatagaaaag aaaaacccgt 540 tttctggaga gaaattcaag caggctgcgg agcgaccgtt tgctaaagag attagcataa 600 ctaaaaggaa gccaagtgct gatagccaag acaatgggaa aaaggcctcg aaggcatttc 660 agaaatcttc gaggtggtcc ttcccatcac aggcccagag gcctaggagg actgaatggt 720 ttcgtgggcc aggcccaggg ccccgctgcc ctgtgcagcc tcgggacact gctccctgca 780 tcccggctgc tycggctcca gccgtggctc aaagggcccc aggtacagct cgagctgccg 840 cttcggagag tgcaagctat aagccttggt ggcttccaca tggtgttaag cctgcaggtg 900 cacagaatgc aagagtgaag gaggcttggc agcctccacc tagatttcag aggatgtatg 960 ggaaatcctg ggtgcccagg cagaagcctg ctgcagggac ggagccctca cagagaacct 1020 ctactagagc agtgccaaag ggaaatgtgg ggttggagcc cccacacaga gtccccaccg 1080 gggcactgcc tagtggagct gtgggaaggg ggccactgtc ctccagaccc cagaatggta 1140 gagccactgg cagcgtgcac cgccagcctg gaaaagccgc aggcatcaga ctccaacccg 1200 tgagagcagc cacgtgggct gtgcccagca aagccacagg ggcggagctg cccaaggcct 1260 tgggagccca cccctcgcac cagcgtgccc tggatgcgag acacggagtc aaaggagatt 1320 attttggagc tttaagattt aatgactgcc ctgctgggtt tcggacttgc gtggggcctg 1380 tagccccttt cttttggccc atttctccct tttggaatgg aaatatttac ccaatgcctg 1440 taccaccatt gtatcttgga agtaaataac ttctttttga ttttacaggc tcataggtgg 1500 aaggaacttg ccttgtctca gatgagactt tggactttgg acttttgagt taatgctgga 1560 atgagttaag actttggggg actgttggga aggcatgatt gtattttgca atgtgagaag 1620 gacgtgagat ttgggggaac caggggcaga a 1651 // ID BSRa repbase; DNA; HUM; 142 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Satellite from primates. XX KW Satellite; Simple Repeat; BSRa; BSRb. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-142 RA Smit A.F.; RT "BSRa - Satellite from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX SQ Sequence 142 BP; 30 A; 44 C; 46 G; 22 T; 0 other; gctgggccca gcgatatgtc acaatgcccc ctgtgggcag ggcccaggca gaagagtcac 60 atcacctggg tgctgggccc agcgatatgt cacaatgccc cctgtgggca gggcccaggc 120 agaagagtca catcacctgg gt 142 // ID LTR47B repbase; DNA; HUM; 443 BP. XX AC . XX DT 17-JUL-1998 (Rel. 3.06, Created) DT 17-JUL-1998 (Rel. 3.06, Last updated, Version 1) XX DE LTR from human endogenous retrovirus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR47B; KW Long terminal repeat; subfamily LTR47B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-443 RA Kapitonov V.V. and Jurka J.; RT "LTR47B."; RL Direct Submission to Repbase Update (JUL-1998). XX DR [1] (Consensus) XX CC LTR47B sequences are ~83% identical to their consensus sequence. CC Solo LTR47B elements are flanked by 5 bp target site CC duplications. CC LTR47B sequences belong presumably to the endogenous retrovirus CC HERV47 CC related to the mouse retrovirus MERVL and human retroviruses CC HERVL and HERV17. 3' portion of LTR47B (position 292-410) is 70% CC identical to the 3' portion of LTR42 (position 297-423). CC Pol protein shows significant similarity to the Pol proteins CC encoded by MERVL and foamy viruses. CC Examples of HERV47 retrovirus are present in the GenBank CC sequences CC AL022164 (position 96500-100879) and Z98304 (position CC 34430-26682). XX SQ Sequence 443 BP; 100 A; 119 C; 83 G; 141 T; 0 other; tgtggaggct aaagtaactc catcttggaa gctaatccgc catgttgact tctgattaac 60 cccggttcca ggaatgcctc taagatttcc actttatcta ttgttccttg tgtaagaaca 120 tgtacttacc gtaaatcctg cctttagatc aaatcaacct tgataatctc atacttaccg 180 taaaccctgc ccttagcaaa tgtcctacac attctctctg gagcatgtat accctttccc 240 tatggtatat aatccctggg tctggggggt aacggtgtgg agatctacct gtcttgcggc 300 cacccaagac cacgcttctg tccgtaagtt ccccaataaa tcacccttta ctgacaaact 360 ggatttgtct gcctcgttct ttggtttctc ggctccttct gcgtttgggg gtcattttgc 420 atatacggcc ctttcacgaa aca 443 // ID LTR16D2 repbase; DNA; HUM; 572 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW LTR16D2. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-572 RA Smit A.F.; RT "LTR16D2 - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC 85% similar to LTR16D over pos 65-572, but 80 bp deletion before CC that. XX SQ Sequence 572 BP; 99 A; 190 C; 148 G; 135 T; 0 other; tgtattggac acaaaccttg tgcaccttct cagattccct cgaccgcctc cttctttctc 60 tctcttggct ggcgccccac ccgcgccggg tcgcccctcc acttttggac ttggatgaaa 120 caccacaccg cagggcatgg gatctggctt cctgagcggc cgccgaaggg gccggatgat 180 gcaacccgga agtgcagggg agttagctcc ccatggggtg aaccttgacc aatgggaaat 240 gggagacggg agggagccgg gcagataaat tccccctcct ttctctcttc cgtggactac 300 tccgaggtgc ggttcctcct tgcaaccctt ccggagaagt cccgcgtgcc gagtgaacac 360 gcctgctgag cgacctgctg tgtctcttcg cggctcgttg tgaagcggta gccagcgcgg 420 taacgcatcg catcgcattg cttcgcatct ttccttgcct cacttccctt tttcctcacc 480 ctcaccgccc tgggcttgca cctcccaaat aaagtgttag caccttaatc cttgcctcag 540 gctctgcttt ctagaggacc cgggctaaga ca 572 // ID CHARLIE8A repbase; DNA; HUM; 341 BP. XX AC . XX DT 28-JUN-2000 (Rel. 5.05, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE Interspersed repeat CHARLIE8A - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW CHARLIE8A; MER102; nonautonomous DNA transposon; hAT superfamily. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 332-4 RA Jurka J., Naik A. and Kapitonov V.V.; RT "CHARLIE8A."; RL Direct Submission to Repbase Update (JUL-1998). XX RN [2] RP 1-341 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Over 3000 copies in the genome. Present in Sus scrofa. CC CHARLIE8A has been reported as MER102 [1] and classified CC as a putative DNA transposon based on a week nucleotide CC identity to MER58B. Final classification of the repeat CC as a hAT DNA transposon has been done [2] base on identification CC of 15 bp terminal inverted repeats and 8 bp target site CC duplications CC with MER1-like NTCTAGAN bias. XX SQ Sequence 341 BP; 75 A; 94 C; 79 G; 90 T; 3 other; cagaggtcgc aaactggcgg cccgcgggcc gcatccggcc cgcagatgtg ttttgtttgg 60 cccgcacagt gttttnaaan atttttgaat tagttgccaa catttaaaaa tcgggagatt 120 tcacataaaa atctagattt ctggcttctc ttgaaaaatc agaagatctg gcaacactgg 180 gcccgcattc ccacatggca acaattggct ggagctgagt agcagctgcc ccctttagac 240 agggcatgtg ctctccagtt tgccacagtc cccacctggc ccncttcact catttatgtt 300 acctgcctgg cccctgtagg catttgagtt tgcgacccct g 341 // ID MSTB repbase; DNA; HUM; 426 BP. XX AC . XX DT 24-JUL-2000 (Rel. 5.06, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 1) XX DE Long terminal repeat (MSTB subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MER10; KW MSTA; MSTB; MstII; retrovirus-like MaLR element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jaiswal K.A., Gonzalez J.F. and Nebert W.D.; RT "Human P1-450 sequence and correlation of mRNA with genetic RT differences in benzo[a]pyrene metabolism."; RL Nucleic Acids Res 13, 4503-4520 (1985). XX RN [2] RA Lawrance K.S., Das K.H., Pan J. and Weissman M.S.; RT "The genomic organization and nucleotide sequence of the RT HLA-SB(DP) alpha gene."; RL Nucleic Acids Res 13, 7515-7528 (1985). XX RN [3] RA Mermer B., Colb M. and Krontiris G.T.; RT "A family of short, interspersed repeats is associated with RT tandemly repetitive DNA in the human genome."; RL Proc. Natl. Acad. Sci. U.S.A 84(10), 3320-3324 (1987). XX RN [4] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [5] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX DR [1] (Consensus) XX CC LTR of MSTB retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 14%. Intermittent subfamily CC between MSTA and MSTB1; 90% similar to MSTB1 over the entire CC length. XX SQ Sequence 426 BP; 81 A; 118 C; 105 G; 120 T; 2 other; tgatatggtt tggatgtttg tcccctccaa atctcatgtt gaaatgtgat ccccagtgtt 60 ggaggtgggg cctggtggga ggtgtttgga tcatgggggc ggatccctca tgaatggctt 120 ggcgccatcc ccttggtgat gagtgagttc tcgctctgtt agttcacgcg agatctggtt 180 gtttaaaaga gtntggcacc tcccccctct ctctcttgct cccgctctcg ccatgtgacg 240 tgcctgctcc cccttcgcct tctgccatga ttgnaagctt cctgaggcct caccagaagc 300 cgagcagatg ccggcgccat gcttcctgta cagcctgcag aaccgtgagc caattaaacc 360 tcttttcttt ataaattacc cagcctcagg tatttcttta tagcaacgca agaacggact 420 aacaca 426 // ID MER51B repbase; DNA; HUM; 371 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Putative LTR of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER51B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX RN [2] RP 1-371 RA Smit A.F.; RT "MER51B."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX SQ Sequence 371 BP; 89 A; 93 C; 78 G; 111 T; 0 other; tgaggcagga aaatagggtc tggaggcagg gaacataagg ccgattcaca cttcagctat 60 gacaggaaat atcctctcca tagggcatag gccgagtaaa tgactttgta actttacttc 120 gtcctcttca tttacatagg gcgtacccca agtaaccaat ggaatcctct agagggtatt 180 taaactccca aaaattctgt aatggggctc ttgagcccct atgctcgggc ccgctcccac 240 cctgtggagt gtactttcgt tttcaataaa tctctgcttt tgttgcttca ttctttcctt 300 gctttgtttg tgcgttttgt ccaattcttt gttcaagacg ccaagaacct ggacaccctc 360 caccggtaac a 371 // ID MER97A repbase; DNA; HUM; 894 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE MER97A repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; MER108; KW MER97A; nonautonomous DNA transposon; hAT-like superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-642 RA Jurka J.; RT "MER97A."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-894 RA Smit A.F.; RT "RepeatMasker release June 11 1998."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC The repeat has been classified as a hAT-like DNA transposon [2]. CC A portion of MER97A has been independently deposited in Repbase CC Update CC as MER108 [1]. To avoid a confusion, MER108 is deleted from CC Repbase CC Update (June 2000). XX SQ Sequence 894 BP; 283 A; 146 C; 169 G; 286 T; 10 other; cagtggcgta ccaagggcgg ggcggtggga gcggtccgcc ccaggtgcag gcaataaggg 60 ggtgcattgt ctgtagagaa tttaaaaaca ataataaaac tgactaaaag tcggtctgct 120 ttttattatc accatgcgcc ggcaattcta aacaatgtca gtgataaaat actcctcccn 180 naaaaatctt ttgttggtct aagttctaaa caattgctgc ggttactgtt gagttttaat 240 aatatatata tgtaaacttc aaattagcac atttttatta cttatccttt aataaacatt 300 gtattctaca tggaagttaa ttcggagaac tcccagttat acagtcggcc cccgacacac 360 gcggactcag ctacacgnat tcgtttcgag agtaagttca taanggttcg gaatcattcg 420 agctcgcttc gggtncagtt cntgtctcca acccctgtgg tactacatat tcctgcgttt 480 aaacagtaga tttnaaataa acaatgatag cacagtgatt gtaaagacga agaaacagaa 540 cttgagttac ttcaattctg tcattctatg tgaccacttg gagtttttat ttgtgtttaa 600 aatttaaaac agtgaaacag agtgcgaact gcgaggtgta atatttttgt ttggtaagtg 660 caaattttag ttcatacatg aaatatttta ctgaatttga ataatatctt taaaatngaa 720 atttattctt cttnaaattg ttaattattt gttttaaaac taaagaacaa aatcaaaaaa 780 atgattatta ctgattatta catgattatt actgaaaata attttgtcat atagaggaag 840 ggngtgttaa aaaatgatcc gctctgggtg tcgaatacgc taggtacgcc actg 894 // ID HERVL68 repbase; DNA; HUM; 3037 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 21-NOV-2000 (Rel. 5.1, Last updated, Version 3) XX DE HERVL68 repetitive element - a consensus. XX KW Endogenous Retrovirus; Transposable Element; HERVL68; MER68; KW Noncoding foamy-virus-like endogenous retrovirus. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-3037 RA Kapitonov V.V. and Jurka J.; RT "HERVL68."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC HERVL68 is an internal portion of LTR retroelement flanked by CC MER68 LTRs. It has patchy 70% DNA identity to HERVL_40 including CC its portions that encode Pol. However, HERVL68 consensus does not CC code protein sequences similar to any retrovirus. CC It is difficult to say now whether HERVL68 has been proliferated CC in CC the genome as a nonautonomous LTR retroelement related to one of CC HERVL-like active retroviruses, or it was an active HERVL-like CC retrovirus which lost the coding potential because of the CC multiple mutations. XX SQ Sequence 3037 BP; 833 A; 581 C; 683 G; 829 T; 111 other; gcactrtntg ggannnttnn tggaanggaa gaagagggaa gatggatgac aaaattatgc 60 ctgggtvgct atggagttat tcatggtatr aaayagcagc tragctgctg tctgttatga 120 gaggtaaaag ttacctgtgr aatttgaaaa tgatagatcc aatcacagag agttggcnys 180 ctggatcccy tggctgcttt tggccwtkct ggctaaagtn aggaaraarc acancycarr 240 tgatgtcttt ggtttttgtt ctytcctcca rktgggagga gaaagggccc aaacattccn 300 aaangtgagc ttnntwtgsa swaaagwyaw waacaktwnn ttgnagttnt cttctccagg 360 tggnaggngn aangrtcnga aaantnctnn aggcnngnwt tgagtgrrcc aaraatgtta 420 aaagtttgca ttgctctctc ctccaagtgg aagraaaaar gttaaatcag ttcccagggc 480 tggagyaang ctttagataa accagaggag gagaaaaagt aaaaaaaaag cccnccaaac 540 aagwaaacca ctctagccnt ttctacagct tagctgctgc yacagcaact caacnccctc 600 ctttcmctac aaccttcanc tccagcanct gtaatgttaa ccytgtaaad tgctnaattt 660 actgctaggg gtttgantaa acatghaatg agtaaaaaga aggaaatnat tatwgaatsr 720 ctttgtattt tgtggctatt gcatctggat gtatgataaa aattratgta aaatgttata 780 tgcttgtaat ttcataaatg ctagaggaat catcctaatm gggaaagctg caaagaaaaa 840 aaagttagtg gnawcacaac tcccttgctt tytgctgcyg gtgggtggat tggaatttaa 900 actctttgag tattggaaas agaacaagtc tccataactg atgatttttg cctattggar 960 cctctgnaaa aagggagaca acatnaaaag agaggcaatc tccagatgga gatacacttt 1020 tggagtttta aaaanyagtt tttagtttgc taatgwgctc ttgytgaaat gagatgtctg 1080 acccttagag gctgatgatt ttcagcctga tgtgcatgat ttttgagggg gtcaatttgg 1140 actctaarac tgacaagata aaaaggmcty ttagaaaagc cttgcttgtc acttggactt 1200 ggaatacagc tgtctggntc ttcagtntct cagctttgct gctgctgaag aaaagccact 1260 ggcttttttg gaatcctgaa ttcacagatc ctaattgcct gtacctgact ctaagctgaa 1320 acctcatact gtctgctgtg rgctgtttca gcctcgngnt gagctgtgct gaactgaaat 1380 nngntgaaat ggctcgactc aatgaacaga actcagactc tgggactgtt gcagatttag 1440 gaccaccctc tgtggggcca taaactatga aaacatcacg gatgctggct ggactgtctg 1500 ggtcacatac agatgcccac aggaaagggc ttgttctctg atgggaccat ctaaaattga 1560 gctgctgatt ggctctatat ttctgataca gagactaatt gcattcttaa cttgtgattt 1620 ctgtcgaaag ctgcaagttg ggggagggca cattacaaga agtgtgaccc ctccacccac 1680 tcctgacaga ttggacttga ccccctctcg gggatgtctc actgctattg acttgttgtg 1740 ttcggctttc tggattagtt gcagtttgca acaatggact gacagcctga gtctacttcc 1800 ctcacctttc tcctggtaca cacatcttag tgagacagtt tgattattaa atgcagctgt 1860 ccccagaaag ggattgatct tttttttcct aggctgctca ccggataaat gatcaggacg 1920 aaaagggtgg gaaggttatg taaactcatt ttgaaaaatt ttgaaaattc agaattcatc 1980 ctgaccaatt tctgaacatg atgtgtcttt ccggttaagt tgtataaaaa tgtttttcta 2040 taaaaatgtt tttgtccctc ttgcatacaa cccttccaga caaaaggtct gggtgagagt 2100 aagagatgat tggagaaata tgaagttaag attgtaagtt atgaatattg ctgaatggga 2160 cacactgatt ttgtaacaac ggagaaaaaa gaaaaaccta tggaggcacg gggtgtgaga 2220 gagggcatta atgatctttg tttttcagaa ctgctcctgg aagctttccc ctcttcctga 2280 agaaaaattc cccatgctgc ctttccaagc tgctgcgagc gctttgaatt caaactgact 2340 gctgagccta agatcacacc tgacagcgct gactatgaga cagcaggggg tggccccagc 2400 tcctgcactt tccacgaaga acacctccag atgtcatcca cacacatgag acggatgaac 2460 tggtgtcatg gacaagcaaa actgtttgga actgactgcc tttaggcagt ccctctgaaa 2520 ccaaggacta aactgaatta attggactag actctttggg agtagtcccc gtggtaagag 2580 gccacactgg ggaccctgtt aacctgtact gcctgactaa tgtatgtcct gcttggggta 2640 ccctaacaat tgtaaactct ttgtttccag gggtaccacg tgtgccctct gggattgtac 2700 ttttatgtgt accctgacta tcatgacact gcctcagccc tggaaggctt tcaggtcagc 2760 ttcaacttac tggccagagt tgtgctgtgc ctgaattgat gcctcaggcc araaaaaaaa 2820 aggttaatac agaaacttaa ggaggaagcc acctggcttt ctaagataga cctttatggt 2880 taatgggatt tgttttaact ggctaaattc aggaccccta aagggcataa actgagatca 2940 atactgcagg ttggtctcac cctgctgcgt ggggtcctac tgataataat tttgctgtaa 3000 agatgccttg gccaaggggg tggactgtgc agaagag 3037 // ID LTR22C2 repbase; DNA; HUM; 496 BP. XX AC . XX DT 04-JUN-2009 (Rel. 14.06, Created) DT 04-JUN-2009 (Rel. 14.06, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR22C2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-496 RA Jurka J.; RT "Primate long terminal repeats."; RL Repbase Reports 9(6), 1179-1179 (2009). XX DR [1] (Consensus) XX SQ Sequence 496 BP; 120 A; 111 C; 137 G; 127 T; 1 other; tgtgggagtt cagtcagggt ggcgggagaa attataggat gatagaaaaa agcaaacctt 60 cttggaaggc cgggaggttt tgcataactt cagataggtt tggctgaagg cagccagatt 120 ctcttttcag gagccagaga gcttagggcg cagatacaaa ggaatgtaga gtagtttatc 180 taaatagctt gtttactcat gtggtcctaa aaccaacctt tgatcattcg cgggcaggat 240 ggctctctcc ggggtggggg cgaccaggtt aattacccac aggtgtgttg actcaaagcc 300 tttgtcaatt aaatctgtac taaataaatg ccagcattgc cagctagtcg aggccgtggc 360 tgcaaactct ttacagcacc ttccttggtg tctgtgagcg gcccggmccc ctagccggac 420 tctttcactg aatatcggtg tctgagtacg ttattcatcc gtcgtgcagc cggggtctgc 480 aggacagacc cccgca 496 // ID L1MEg_5end repbase; DNA; HUM; 2101 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1MEg_5end. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-2101 RA Smit A.F.; RT "L1MEg_5end - L1 Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC rnd-2_family-348 22%/26% subst in dog/human. XX SQ Sequence 2101 BP; 865 A; 353 C; 453 G; 407 T; 23 other; ttccgcttcc ggcaatggcg gactagnttg ttcagaccaa ccctcccgct gagaacaact 60 agaaaagctg gacaaaatat aaaaaacatc tgtttgaagg catcggagag ctaccaaggc 120 agcgaggaat ttgaggggcc aagatcccgg agagaaggga agcccagaga ggtgagcccg 180 acattcggng ccgcttttcc cctcgaggca tttgccgatt ccgaaagcgg cggctgagag 240 gctgagaagc tgagcagagc tttcggcagt ctcacggggc tggggagaca aaaattggag 300 ttcagggccc gccaaggagg aggggccctg gtaaacccca gctttcagtt gggaccccga 360 agggctacac cctaggagta agggcgaacc ggaaatagac cagccctcac aaagactgaa 420 gcccagcttc gaatcanctc aatccctgat tggattaagg tgatctgatt gctagtgccc 480 ctagctgcct gccagaagca aaagtaaatc ctctctggag gaagataaca tcatccagag 540 cctcaaatta tctctacaat ttttcatata caatgtctgg cattcaatca aaaatnacca 600 ggcatacnag gagacaagac aaatgaccga aaancaagag aaaaacagac aatagaaaca 660 gacccacagg ngatccagat attggagtta tcagacacgg actttaaaat aactatgatt 720 aatatgttca agaaantaaa ngacaagatg gagaatttca gcagagaact ggaanctata 780 aaaaagaatc aaatggaaat tctagaactg aaaaatatac aataactgaa attaagaact 840 caatagatgg gtttaacagc agattagaca cagctgaaga gaggattagt gaactggaag 900 ataggtcagn agaaaatatc cagactgaag cacagagaga naaaaaaatg gaaaatacag 960 aaaagagcgt aagagacata tgggacacgg tgaaaaggtc taacatatat gtaattggag 1020 tcccagaagg agaggagaga gagaatgggg cagaagcaat atttgaagag ataatggctg 1080 agaattttcc aaaactgacg aaagacatca agccacagat tcaagaagcn ctacgaaccc 1140 caagcaggat aaatacaaag aaaaccacac ctaggcacat catagtaaaa ctgctgaaaa 1200 ccaaagacaa agagaaaatc ttaaaagcag ccagagaaaa aagacacatt accttcaaag 1260 gagcaacaat aagactgaca gctgacttct caacagaaac aatggaagcc agaagacaat 1320 ggaatgacat ctttaaagtg ctgaaagaaa ataactgcca acctagaatt ctatatccag 1380 gaaaatatcc ttcaaaaatg aaggcgaaat aaagacattt tcagacaaac aaaaactgag 1440 agaattcgtc accagcagac ctacactaaa agaaatacta aaggaagttc ttcaggcaga 1500 aggaaaatga tcccagatgg aagcatggaa atgcaggaag gaatgaagag caacagaaag 1560 ggtaaatata tgggtaaatc taaatgaata ttgactgtat aaaacaataa taataatgtc 1620 ttgtggggtt taaaatatat anagaattaa aatacatgac aacaataaca caaaagggaa 1680 gagagggtaa atggagttaa agtgttctaa ggtccttgca ttgtccggga agtggtaaag 1740 tactaattta tattagactt taataagtca aggatgcatg ttgtaatctc tagggtaacc 1800 actaaaagaa tagtaaaaga atgtataact aacaagctaa tagagaggga aaatggaata 1860 ataaaaatat tcaattaatn caaaagaaag caagaaaaaa ggaaaaaana gaaagaaaaa 1920 cagaggggac aaatagaaaa caaataataa gatggtagat ttaaanccaa atatatcngt 1980 aattatatta aatgtaaatg gactaaatgc ttcaatttaa aaaaagagnt tatcagattg 2040 natttaaaaa caaaacccaa ntatatgctg tttacaagag acanatctna aatataagga 2100 c 2101 // ID MER122 repbase; DNA; HUM; 603 BP. XX AC . XX DT 18-SEP-2000 (Rel. 5.08, Created) DT 18-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Human interspersed repetitive element - a consensus. XX KW MER122. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-603 RA Jurka J.; RT "MER122."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC A palindromic structure, putative non-autonomous DNA transposon. XX SQ Sequence 603 BP; 139 A; 162 C; 155 G; 143 T; 4 other; ccctcctacc actctggccg agctgcagtc tccgtcgcca ccaccaacca cagcgaggcg 60 agccacggtg gcacaggctc cagcctccag ctcccccttc tcctggtcct ctaagccggg 120 cacagagcag ctcggcagga gatacagaag agcctraaat ggcctgasgc ctcctcagca 180 tgctttatat atgaggttat gcaaatgcgg ttcctggact acatgttctg attggatgag 240 agaaaacctc taggcctact ctgattggac tttattttca tgctctgatt ggttgtccta 300 agacttgctc tcatccaatc agaacatgat aataaagtcc aatcagagta agcctggagg 360 ttttttctca tccaatccta gaacatgtag tccaggaacc gcatatgcat aacctcagta 420 tataawtggt gctgaagaag agtcaggcta ttccaggttc ttctgtgtct gctcacngag 480 ctgctccgag cccggcttag aggaccagga cagactggag gctgtagcct gcagcaccgt 540 ggcttggcct ccctgcagtt ggtggcgaca gagactgtag tgtggctgga gtggtaggaa 600 ggg 603 // ID CHARLIE6 repbase; DNA; HUM; 3500 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Primate CHARLIE6 repetitive element is a hAT-like DNA transposon. XX KW hAT; DNA transposon; Transposable Element; CHARLIE6; KW DNA transposon fossil; hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 220-3089 RA Smit A.F.; RT "CHARLIE6."; RL Direct Submission to Repbase Update (APR-1998). XX RN [2] RP 1-3500 RA Smit A.F.; RT "CHARLIE6."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC A member of the MER1-group of hAT-like DNA transposons. The ORF CC at CC pos 607 to 2496 encodes a peptide at least 39% identical (56% CC similar) CC to the Charlie1 transposase. Charlie6 is unusual in that no CC common CC deletion products have been amplified. Like other MER1-group CC members it CC has 16 bp imperfect terminal inverted repeats and 8 bp target CC site CC duplications (NTCTAGAN). The 100-200 copies are 20% diverged from CC the CC consensus sequence. XX SQ Sequence 3500 BP; 1127 A; 598 C; 697 G; 1036 T; 42 other; caaagtttct caatttgggt ttctacggaa cctagagttc cgcgagatgt cgctagggct 60 ccacgagaaa ttgtgattga aaaaaacnca gtttttgaac ttcgcatacc gcgtgatgct 120 ggtgctcgca gtgatgggca gtgaccgagc agccccgtta gcaatttcat taggggtctt 180 tcagccctgt atggcagtgt gcagtaggac tgtgctcatt tggttgagtc cattctcagt 240 ttttgatgca agatagggga ggctactgat aantggtgag cgctgtattg cacagagggg 300 aggacggtag gctgatgacg tcagcttctc ccctccaatt acctccccca acctcccctt 360 atacgccacc gactgactta ngggagcgaa caagctctac cggtgtaata gaaaatcgga 420 gggaantttt cattctaaag aaggnatttt tacgtgccac gactcagctg cccccctgcc 480 gctttgctgt tgttataaac gttgcaaaac gtggattatg taggttagaa gtgaattgta 540 ttgtgaagtt tttgtatttt tgtgattttc ttatttatta tgcccttctg ttttatattt 600 tattagcgtt tgtgttttat aaacatgtct ganagtccag tgtggcgatt tttgaagatg 660 aggtgtgaga tggaagagga gnattctagg cctaggccta tggacaattc tgataaggtt 720 agtgatgaag aattacaatc ttctgagtca tttcactgca ctagtgcaac aagggacaca 780 aanaaagtct atctttacaa tgaaagctac ttatcaatgg gttttacatg ggctggtaat 840 ccaagctgtc ctattccatt gtgcatcgtc tgtgncaaac aacttanaaa tgcagcaata 900 gctccagcaa aattgaaaag acacttaact acaaatcaca gccatttgac aagtaaaggt 960 gctgattatt ttaaacggct attggaatct caaaacaaac gaagtaaagc ttttgttnaa 1020 aaagtcacat tcagtgaaaa ggctcaggaa gcaagttatt tagtagcaga acttattgcc 1080 cagaaaagga aaagtcacac agttggtgag aacctaataa tgccagcatg taaaattata 1140 gtgagtaaaa tgctaggaca agatgcagta cgagaaattg aaaaggttcc actctcaaac 1200 agtataataa gtcgacgtat tgatgacatg tcacatgatg ctgaagaggt tttgtgtaat 1260 aaactgaaaa acnacagctt ctctatccag gttgatgagt caacagattt caccaatana 1320 tgtcatgctg tagcatttgt aagatttgta aataatggtg aaattcaaga aaacnttttc 1380 tgctgcaaag agctgcccaa aacaagcaaa ggccaagata tatttaatgt tttgtcttca 1440 tatctggaaa caaaaggtct gtcttggagg aactgtgttg gcatctgcac tgatggtgcc 1500 ccatcaatag ttggctccat gagagatttt acctcttntn naaaaaaaga aaatcctgat 1560 gttgtcatca caacacactg ctttcttcac agagaggtgc tggtgtcaaa aactcttgga 1620 gatgaaatga aagttctgaa tgatgctaca aaaatggtta actttattaa acaaagacca 1680 gttcactcga gaatgtttna aaaantgnat gaaaacctgg acaaacagca cataaatctc 1740 ctgctacata cagaaatccg gtggcttagc agaggaagag ttctcaacag ggtgtttgag 1800 ctgaaaggtg aattgnagga gtactttcaa gaaaatagta ggccagattt tgctgagtgc 1860 tttgaagatg aagaatggct gcagaaacta gcctacttag cagacatttt tcatcacatg 1920 aaccagttga acaagtctct gcaaggccct ggagaaaatg ttttgacttc aagtgacaag 1980 attcttggat ttaaaaggaa actgaatctt tggaaaaatc atgttgcaaa aggaaatctt 2040 gaaatgtttc cacngctgct tgggcttgag agtgaggaag gatatcagca agtctcaagt 2100 cttattgaaa accacctgga agaactgcag aacaaaactg aacggtattt tccctccctt 2160 tcaacacaag tgtatgactg ggtgagggat cctttctctg aatcttctgc tcagcctgag 2220 aacttgactt tgagagaaga ggaagaactt tgtgagctgc agtctgatca tacactcaag 2280 atgagattta ctgntctgcc cctagacaag ttctggattt ctgtgaaaga agagtatcct 2340 gccattcata ggaaaacagt gaacattttg ctgcggtttt caacttctta catgtgtgag 2400 caacagtttt cttatttaac aagcatcaag agcaaggaca gaaatngtct catctcagtt 2460 gaaaatgaaa tcnntgtgtg cttatctcaa gtttgaccca gaattgagta tctgtgcagc 2520 aaaaaaacta agcacaggtt tcacgtgaag aantaacata tttttatttt tagnttcaaa 2580 aatagcattt taatgcatat ataggcctat aaaaaagatc angaaaccaa cgcatgtgta 2640 taatantttt gtaactgcta ggcctatatt tgagcctgat catgtcactc agwaagaaaa 2700 tgttttttca aagtcttgta taaaattttg tcttaggcta tatttttatt cacattgctt 2760 tggcttacgg ttttagtagc tttactattc aacattgtca ataaattttc atgttgtaat 2820 aacattaatt aaaatcaatt tacaaccttt atttaaatta aatctactga gcntancttt 2880 aaaaaattaa atcccatttt ggcttaagcc agttatttaa cagaaattta ttatgtttgc 2940 cttatgagtt tttaaaattt atgaaaagaa agaaattaat ttcaagaaag gtaagctaag 3000 cttantacct tacttttttc aagaaaggtt ggctaaaaag tcatttttag ttttaaanaa 3060 ggaaaaagnt actcttgcac acaccatgta ccacatacca tacctcatta gcatcttgta 3120 tagtagaaat ttgtgataag actttnaggc ctacttggat aaagttttaa aaatcaagta 3180 ggaaatttat taaaaaaaaa aaactgaagt ttcctttacc tacactactg acttgcatta 3240 gagttgatat cctttgtggg gaggggnaac cacacaaaaa gagnaggcta ataagttggc 3300 caaaataagc agatccacag aaaaaaatca ttctctactc aaaanagcat tgacaattat 3360 tattggatta ttatatctac aacttactgn tcacgctaat ataccatgag ctgtagatat 3420 aacatnttta tgcaggggtt ccctgagacc tgaaaattat ttcaagggtt cctccagggt 3480 aaaaagattg agaaaggctg 3500 // ID HAL1 repbase; DNA; HUM; 2510 BP. XX AC . XX DT 31-MAR-1998 (Rel. 3.02, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE HAL1 repetitive element - a consensus sequence. XX KW L1; Non-LTR Retrotransposon; Transposable Element; HAL1; KW LINE1-like element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 737-2510 RA Smit A.F.; RT "HAL1."; RL Direct Submission to Repbase Update (MAR-1998). XX RN [2] RP 1-736 RA Jurka J.; RT "HAL1."; RL Direct Submission to Repbase Update (JUN-1999). XX RN [3] RA Smit A.F.; RT "Interspersed repeats and other mementos of transposable elements RT in mammalian genomes."; RL Curr Opin Genet Devel 9(6), 657-663 (1999). XX RN [4] RP 1-2510 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [4] (Consensus) XX CC HAL1 resembles Half A Line1 element, as it encoded a protein CC closely CC related to the LINE1 ORF1 product (the LINE1 mRNA binding protein CC p40), CC but has no similarity to ORF2. The open reading frame from pos CC 830 to CC 2002 encoded a protein > 69% similar (48% identical) to the ORF1 CC products CC of L1M4 elements. The 3' end (pos 2300-2510) matches 3' UTRs of CC the CC oldest L1 subs (much more obvious in the HAL1B subfamily, see CC there). CC This structure either suggests that HAL1 is a non-autonomous CC derivative CC of LINE1 (after deletion of ORF2), or that the modern LINE1 CC structure CC arose from a single-ORF LINE insertion into the 3' UTR of a HAL1 CC element. CC The presence of an ORF1 gene in a LINE1-like element in teleost CC fish CC (SWIMMER, see vrtrep.ref) best matching the HAL1 and L1M4 ORF1s CC makes the CC latter hypothesis less likely, as horizontal transfer appears CC required. XX SQ Sequence 2510 BP; 944 A; 466 C; 605 G; 473 T; 22 other; gacttccggt taaagatggc ggattgaaca cacgcatcta nttttgctcc ctcccgaaac 60 cccactaaaa tnacagtaaa ggaatttttt aanaaaggca taaacccaca aggacaaaga 120 gaacaggaga ggagacaaca gcaacaaaat tttggaagct ggaaagcaga tggacaagtg 180 gtaactgact tagcagaccc gagaaagctg aatcctaagc cagcagtggg gaaagccgag 240 aancaaccca atttacaccg cagaatcccc aaaaggctca ggaattggcg gcaccaggta 300 cctctggaag tgggggtgaa ggtgaggcta aaaacaggga ggattggttg aaagtctgtt 360 taagaagcag ttagaccccc agattccctc ccccactcta tngcagccag gcgactgctc 420 ctcccccacc ctagcagaag actggaggtt tattctctgg agagggtaaa acagagggtc 480 tctggactgg gggacaccag gcacagttga gggcagaggg gtaccgtact gaaaacaggg 540 ggattaagtg aaagtttaca tactgaatgn cgagagaccc ccagccctct tcccccactc 600 ggctcccaga acgctggcag ccaggcctat accctccagg caggagattg gaagagtctt 660 ctctggggaa tctgaccagc ccaagaggaa agacctaaag atactgacat taggggttcc 720 ccaagcaaaa cagcccagcc agatcaccct acagtgaagc ccacagtcga caagccccac 780 ccacgcgcnc agagcttcca atcagctttt tagtgcctca ctcttaaata tgagcagaca 840 gccaaggatc accagacatt tgaggaaagc ctctaacatg aaagacagag accaaaacaa 900 acagaaaaan gcaacttgga ggaaacagaa gantatgcag agaggagaag aaaacttcaa 960 aaaaactatc attaatatcc tcagagagat aagagaagat attgcatcca tgaaacaaga 1020 acaggatgct ataaaaaagg aacattcaga gaacaaaaag aagctcttgg aaattaaaaa 1080 tatgatagca gaaatgaaaa actcaataga agggttggaa gataaagttg aggaaatntc 1140 ccagaaagta gaacaaaaag acaaagagat ggaaaatagg agagaaaaga taaaaaaatt 1200 agaggaccag tccaggaggt ccaatatccg antaatagga gttccagaaa gagagaacag 1260 agaaaangat ggaagagaaa ttatcaaaga aataatncaa gaaaatttcc cagaactgaa 1320 ggacatgagt ttccagattg aaagggccca ccgagtgccc agcacaatga atgaaaaaaa 1380 tagacccaca ccaaggcaca tcattgtgaa atttcagaac actggggata aagagaagat 1440 cctaaaagct tccagagaga aaaaacaggt cacatacaaa ggatcaggaa tcagaatggc 1500 atcggacttc tcaacagcaa cactggaagc tagaagacaa tggagcaatg ccttcaaaat 1560 tctgagggaa aatgatttcc aacctagaat tctataccca gccaaactat caatcaagtg 1620 tgagggtaga ataaagacat tttcagacat gcaaggtctc aaaaaattta cctcccatgc 1680 accctttctc aggaagctac tggaggatgt gctccaccaa aacgagggag taaaccaaga 1740 aagaggaaga catgggatcc aggaaacagg ggatccaaca caggagagag gtgaagggaa 1800 ttcccaggat gatggtgaag ggaagtccca ggatgacagc tgtgcancag gcctagagag 1860 caaccagtcc agattggagc aggaggacag aaggctccag gagagatntc tccaagaaaa 1920 tgaaactgat agantacctg atgtgtttga acatattgag aggagattta tacaattggc 1980 ggagagtttg gggatgaatt agtgataagt acatagaaaa ctaagcaaat gaaaagcgag 2040 acaattatta actccaggga aaacaaaaag ttgtacaaga aaggaaangt aatcatagta 2100 cactacatgg ctcagctgtg aataatattt acatagtcat aataatgtaa acactgaata 2160 ttgatttaac caaaattatg atataactat attgggagga tggggggatg ggaagtgtgt 2220 gtgtgntgag ggggaggtgt gaaagaagag ctaaatcctc atcttccata gtaggaagtc 2280 aacagataat gcctaaaatt gaaaaatcaa gaaatagcaa tataagcatg ttatttagaa 2340 atatggaggt aaataccaga agaaacagct aaaagagttg aaagtggttg cctctgggga 2400 gggagtgaag atggaagagg gnagggatgg ggactgcttt tcgtnataag ccttgtagna 2460 ctatttgact ttttaaacta tgtgcatgta tnactttgat aaaaataaaa 2510 // ID R66 repbase; DNA; HUM; 66 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE A 66bp tandem repeat - a consensus. XX KW R66; Tandemly repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Yang R., Fristensky B., Deutch H.A., Huang C.R., Tan H.Y., RA Narang A.S. and Wu R.; RT "The nucleotide sequence of a new human repetitive DNA consists RT of eight tandem repeats of 66 base pairs."; RL Gene 25, 59-66 (1983). XX DR [1] (Consensus) XX SQ Sequence 66 BP; 15 A; 12 C; 17 G; 21 T; 1 other; acagagtgct gattggtgcr tttacaaacc tttagctaga cacagagcgc tgattggtgc 60 gttttt 66 // ID LTR87 repbase; DNA; HUM; 624 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR87_LTR; LTR87. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-624 RA Smit A.F.; RT "LTR87 - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 19% subst in borEut13. Clear 5 bp TSD (NNNNC bias). Orientation CC unknown; no matches to other LTRs, no AWTAAA in either CC orientation. XX SQ Sequence 624 BP; 162 A; 178 C; 148 G; 135 T; 1 other; tgcagcgccc accagggggt cttcttaggt tcaactaaac attcagactc acaagactac 60 cataggccac acttggcacc agtctactca gaaggatata ggacaggaac cacagcttgc 120 cagcagggca gcgtcaggcg ttcctcttcc gcgggagtcc tcgcagcgtc catgcagcag 180 tccacacagc cgtccaggag ctattctctt tgccccccag gtgacagctc aggtgcgagg 240 agacgagatc cacatcgggc gggtgcggga gccgccctgg cttagaagcc tcatgcccca 300 caggagccaa tatctcttgt aacaactcca taggcatagc ttccagggtc cccgcaaggg 360 acatgcccag ttacaagagt caccgcactc agggaagccc aaagctatgg cntccccatc 420 aggtatttat agttcattta tagttcctcc cagtccagat gcaatttacc aatcaggggt 480 catttttacc ataagcaatg ttgcctagta acatagttga cattccacct ttatcaggtt 540 tccaggggaa cagagctaga aagttaaccg aaggtcaaat tctcatgcag aaggggaaag 600 ggttttgtta accctttacc caca 624 // ID ORSL-2b repbase; DNA; HUM; 508 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; ORSL-2b; Tip100. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-508 RA Smit A.F.; RT "ORSL-2b - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC rnd-4_family-686 8 bp TSDs 18/22% pos 1-187 & 396-508 match pos CC 1-187 & 229-341 of ORSL-2a. XX SQ Sequence 508 BP; 184 A; 81 C; 92 G; 151 T; 0 other; cagggccgtt ttatccatta ggcactatag gcacagtgcc tagggcctac gagcttttca 60 agggcctacg aaaatgtttg agacctgaaa aaaaaattat tggctccaaa atacgaaaag 120 aaaactgcaa aatcgaaatt aataaatgtt taattaaatg tctacaaaac gtaacattat 180 gtcaacttca ttaattgtta aatttagtat tcataaaaat ttcattacat ttgaaaacaa 240 tttgtaggtt agattttctc acttcgcaag aattcccgag tatgcacgat gattgccgag 300 aaatcatagc caatcgtaaa ttaaatgagt tactcgtagc caaataattt caaaagcaaa 360 attataaaaa tcctttcaaa aatttttaca gcaaaaaatt atatttaatg tgggatgtgg 420 gtgcatttta atatgtttga tatgatgtgg ggtggggcct ccaaaagtaa gagtgcctag 480 ggcctacgaa ggtcttaaaa cggccctg 508 // ID HERVS71 repbase; DNA; HUM; 8978 BP. XX AC . XX DT 27-JAN-1997 (Rel. 2, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE Internal sequence of endogenous retrovirus HERVS71. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Endogenous retrovirus S71; HERVHC2; HERVS71; KW simian sarcoma virus. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Werner T., Brack-Werner R., Leib-Moesch C., Backhaus H., Erfle V. RA and Hehlmann R.; RT "S71 is a phylogenetically distinct human endogenous retroviral RT element with structural and sequence homology to simian sarcoma RT virus (SSV)."; RL Virology 174, 225-238 (1990). XX RN [2] RP 1247-6913 RA Kabat P., Tristem M., Opavsky R. and Pastorek J.; RT "Human endogenous retrovirus HC2 is a new member of the S71 RT retroviral subgroup with a full-length pol gene."; RL Virology 226, 83-94 (1996). XX RN [3] RP 1247-7479 RA Blusch H.J., Haltmeier M., Frech K., Sander I., Leib-Mosch C., RA Brack-Werner R. and Werner T.; RT "Identification of endogenous retroviral sequences based on RT modular organization: proviral structure at the SSAV1 locus."; RL Genomics 43(1), 52-61 (1997). XX RN [4] RP 1-8978 RA Smit A.F.; RT "HERVS71."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [4] (Consensus) XX CC LTRs of HERVS71 are listed in REPBASE as LTR6A and LTR6B CC sequences. CC LTR6 (Z70664; position 5492-6069) reported by [1,2] is in fact CC an env-related portion of HERVS71 [3]. XX SQ Sequence 8978 BP; 2249 A; 2395 C; 2007 G; 2231 T; 96 other; taatggaggc cccagcgaga nattaacgcc accgggcgag agccggnctc gctccgggct 60 cccccggaag gacggccggc ttgnaggggg ggcgccacct gaggaaataa ttttcagggt 120 ccccgaagag tgaccgcctt ccggaggaga gcggatcgac caccgtgtca gtgcccataa 180 aattcaacat ctgagtcctc agcttctgac cccggggtca ggtaggtcgg atgtgacttc 240 gtttccggtg agaggggagc ggccctgacg agggcgtccc tcttttgact cngcccgtta 300 ctctaggacg ctagngggtn gagccttggt tttctgntag gcgcctttgt gtcttggttt 360 gggtgggaag tggccctgac gagggccctc ccctgactca gcccangncc caggacgctg 420 gaggactgag ccctggtttc tggcagaccg gactctcgat ctctctctct ctttctctct 480 ttctatctct catccttctc ttgttcaggt ttcttggaaa tctccgggaa agaaaaggaa 540 gaaaaaaaaa aaaaactgtt ataaactctg tgtgaatggt gcgtgaatgt gggaggacaa 600 gggcttgcgc ttgtcttcca gtttgtagct ccacggcgaa agctacggag ttcaagtggg 660 ccctcacctg cggttccgtg gcgacctcat aaggcttaag gcagcatcgg gcatagctcg 720 atctgagccg ggggtttata ccggcctgcc aatgctaaga ggagcccaag tcccctcagg 780 gggagcggcc aggcgggcat ctgantgatc ccatcacggg ancccctccc cttgtctgtc 840 taataaagaa ggtaaaaaag ggaaaactgt cataattgtt tacatgccct agggtcaatt 900 gtttgtttta tgtttattgt tttgttcggt gtctattgtc ttgtttagta gttgtcaagg 960 tnttacatgt caggacatcg atattgccca ngaggtctgg gtaaaaactt cttcaaggtc 1020 cttagtgctg attttttgtc acaggaggtt aaatttctca tcaatcattt aggctggcca 1080 ccacagtctt gtcttttctg ccataaacaa gtaaggtgtt gttacggaaa agagtgtgga 1140 gaacattcnc ctgattggga tttctggcac catgaaggtt gcaggtattt agattgtcat 1200 accccacgtc ctagtgattg gtcctcttnt aaactgaact ggtggtggat tcaaaacagc 1260 caccctgcag accttcttgc tgacctcttt tgtcattctg taacttttcc tgcgcccttg 1320 aataggacct cgtgtaggga aacctacgnc cgtcatgctt tacttcgttt agactcctat 1380 tctgttcccc tgtggctact ctctcacctt aaggatgatc cgagtggtcc ttttccccct 1440 cgtccctgcc ccctaccccg cacatctcgt tttccggtgc gacagcaagt tcagcgtctc 1500 caagacttgg ctctgctctc actccttgaa cccttaaagg aaaaagctga gtttgaactg 1560 tttgcctttg agtcgtggag acaccaaaaa tatttaggat gtaggtctag aagaagagga 1620 agagggagaa cgcctagatc gaactgnccc aggagacctc gggctggccc ctagtccccc 1680 tccctcaatc ttaaagctac agnaatgtgg caagtagtat tagctgttgt ggtttttctg 1740 cttctttctg gtcatgttaa ttctgttctt ccgacactcc agccccccag ggaangagtt 1800 tctctgcccg tgctgggtct gatatctctg ctcaagacct tgctaaattg cctttaaata 1860 ataaaaataa taataaaatg ggaaacactt cctcccggcc ccgtaaagnt tggagccctc 1920 tccagtgtat gctgnaaaan ttttctctcg gtttctcaga ggactatgga gtccgcctta 1980 gaaaaggcaa gctccggaca ctctgtgaan tagaatggcc aaagtttgga gtcgggtggc 2040 cccctgaagg gtcattgaat cccacnattg ttcaagccgt gtggcgggtt gttaccggaa 2100 ctcccggcca ccctgatcag tttccntaca tcgatcaatg gctaagtttg gtcaggaatc 2160 ctcctccatg gctccgttca tgcgccattc acaattccac ctccaaggtc ctcctgagcc 2220 aggccgcgtt tttgcctcga ccctcagccg gttcggctcc ccctgttctg cctccctctg 2280 aagaagagga gagtctccct cacccagttc caccgcctta caaccaacct gctcccttag 2340 cgtcntcccg tgtctcctcg acgacgtccc ctgtgggctg accgcccgtt gcctctcggc 2400 tgcgaccgcg gcaggaggaa gcagcccctc tactnccact gagagaggca caagtccctc 2460 cgggngatga gcgctcagcc cccttcctgg tttatgtccc tttttctact tctgacttgt 2520 ataattggaa aanccataat cctcccttct ctgaaaagcc ccaggctttg acctcactga 2580 cggagtccgt gctccggacc catcggccca cctgggatga ctgccaacag ctccttttaa 2640 cccttttcac ctctgaggag agggagcata tccaaagaga ggccagaaag cacttcctcg 2700 catcagccgg taggccngag gaggaagcta gagacctcct ngaggaggtc tttccctcca 2760 cccggcctaa ttgggaccca aattcctcag gtggaaggag agctttggac gattttcacc 2820 ggtatctcct cgcgggtatt aaaagagccg cttggaagcc cataaacttg tctaagacga 2880 ctgaagttgt ccaggggcct gatgagtcac caggagcgtt tttagaacgc ctccaggagg 2940 cttatcggat ttacacccct tttgacccgg cggctcccga gaatagccgt gctcttaatt 3000 tggcatttgt ggctcaggca gccccggata ttaggagaaa actccaaaaa ctggaaggat 3060 ttgctgggat gaatatcagt cagcttttag aaatagccca gaaagttttt ganaaccgag 3120 aatttgaaaa acaaaaacaa gcaacacagg cagctgaaaa ggccgctgat aaancatnta 3180 aaagacaagc aaaaatcttg gtggcggcta tccaagaggg cagaaaggaa aggcccccat 3240 tccagaanat tggccaagga ncctcgggtt cccgccagaa aagtnaaaga ggtgaacagg 3300 cccctctagg aaaaaccaat gtgcctattg caagcagact gggcattgga aaaaggagtg 3360 cccgttactg ccaaaagaaa aatcagaaaa caaaaaggtt ctcaccctgc ctgcaacaga 3420 ggagcctgat gattgatggg gccagggctc ccttactctt ggcccccagg agcccatggt 3480 aactgctaca gtggggggcc agcctgtacg tttcctagta gacaccgggg cagaacactc 3540 agtactgcag actcccctgg gcagtgtctc aaataaaaaa atggctgtac aaggggcaac 3600 tggagctatt caagaatatc ctgtcacaca ctcctgagaa gtaancttgg gacagaaaag 3660 agcgacacac tctttcctng tggttccaga gtgtcctttt cctctccttg gacgagacct 3720 gctccataag ttacaggcct caatctcctt ttcagctcag cangctcatc tcacgctagg 3780 aaacgcaact tccccnactg cccaactctt gctaactacc cctctgtcag aagaatacct 3840 tctggtttca ccgtcanaat caccggagga naatactaat actcttttgt tgganntaca 3900 gacacttttt ccccgagttt gggccgagtc aaaccctccc ggactggcta aacaccatcc 3960 gccagtggtc gtagaactct tggccaccgc cataccggtc caggtaaagc aataccccgc 4020 gagtcagcag gctagagagg ggattaatcc ccacattcaa cgactgttac aagctggcat 4080 acttacacca tgccagtcgg cctggaacac gccatttttg ccggtccaga aacccggaac 4140 aaatgattac cggccagtac aagacttaag ggaagttaat aaacggactg ttactgtcca 4200 cccaaccgtc cctaatcctt atactctact cagcctgctc ccaccagaac atacagtatg 4260 cactgtcctt gacctgaaag atgctttctt tgctattcct ctggccccca aaagccagcc 4320 tatttttgct ttcgaatgga cagatccaag atcaggagac actacccaac tgacttggac 4380 tcagttacct cagggtttta aaaattcccc cacccttttt ggggaggctc ttcagcaaga 4440 tcttatacct tccgagccag tcaccctaac tgtactcttc ttcagtacgt agatgacatt 4500 ttaatagcta ctgaaactat ggacggttgt ctacaacaca caagggacct gctctacctc 4560 cttcaggagc tcaggtatgg agtctcagcc aaaaaggccc agctttgtct tcccagagtg 4620 tcctacctgg ggtacgagat aaacaaagga aaaagggcac tcaccagtgc ccggaaagaa 4680 gccatcccgc gaatccccac tcccaccacc aagagacagg tacgtgaatt nctgggagcc 4740 atgggatact gtcgtctntg gatattgagg tttgcagaga ttgcaaagcc tttgtatact 4800 gctacaagag gtaatggccc actgatttgg acagacaccg aggaacaggc ttttcaaaat 4860 ctgaaaaagg cnttaactgn agcccccgct ttagccctcc cnaatatctc aaagcctttt 4920 catctgtttg tccatgagag ccagggagtt gctaaggggg tgcttactca gactttagga 4980 ccctggagac gcccagtggc ctatttatct aagaggctgg atcctgtggc ctcnggatgg 5040 ccaagttgtc tgcgagccat agtggctaca gcaagcctag tccaagaagc tgataagtta 5100 actctaggcc agaatttaac ccttacggct cctcatgctg tagagacttt actacgaagt 5160 gcttcnggca aatggatgtc aaatgctcgc atcttgcagt atcagagttt actgttggat 5220 cagcctcgtt tgactttctc tcccacaagg tgtttaaatc cngctacnct actcccngat 5280 ccagactcca ntactcctgt ccatgactgt caggagctgt tagaaactac cgaaactggc 5340 nggccngatc ttcaagatgt gcccctgaaa aaggcggacg ccaccgtgtt cacggacggc 5400 agcagcttcc tcgagcaggg ggtacgaaaa gccggtgcag ctgttaccac ggagacagat 5460 gtgctgtggt cccaggtgtt gccagcgagc acctcagcac agaaggctga attgatcgcc 5520 ctcactcagg ctctccgatg ggntaaggat aaacgtatta acatttacac tgacagcagg 5580 tatgcttttg ctactgtgca tgtacatgga gccatctacc aagaacgcgg gctactcact 5640 tcagcaggaa aaattatcaa gaacaaagag gaaattttag ccctgcttga agccgtgtgg 5700 ctccctcagc aggtggctgt aatccactgc aaaggacatc aaaaagaaaa cacggccgtt 5760 gcccgcggta accaaaaagc ngattcagca gctcgggaag cggcgcggcc ttcagtcncg 5820 cccntaaacc tgctgcccgc agtttccttt ccgcagccag atctgcctga caaccccgca 5880 tactcagcag aagaagaaaa actggcttca gatcttagag cnaataaaaa tcaggaaggt 5940 tggtggattc ttcctgactc tagaatcttc ataccccgag ctcttggaga aactttagtc 6000 agtcacctac attctaccac ccatttaggn ggggcaaaac tagcccagct cctccggagc 6060 cgttttaaga tccctcgtct ncaaagccta acagatcaag cagctctctg gtgcacagcc 6120 tgcgcccagg taaatgccaa gcaaggtcct aaacccagcc caggtcaccg tctccgagga 6180 aactcgccag gagaaaagtg ggaaattgac tttacagaag taaaaccaca ccgggctgag 6240 tacaaatacc ttttagtact agtagacacc ttctccggat ggactgaggc atttgctacc 6300 aagaacgaga ccgccaacac agtagttaag ttcttactca atgaaatcat cccccgatat 6360 gggctgcctg ctgccatagg gtctgataat ggaccngcct tcacctcgtc catagctcag 6420 tcagtcagta aggcattaaa cattcagtgg aagctccatt gtgcctatca accccagagc 6480 tctggacagg tagaangcat gaaccacacc ctaaaaaaca ctcttacaaa attaatccta 6540 gagaccggtg aaaattgggt aagnctcctt cctttagccc tacttagagt aaggtgcacc 6600 ccttaccagg ctgggttctc accttttgaa atcatgtatg ggcgggcgcc gcctatcttg 6660 cctaagctaa aagatgccca tttagcagaa atatcacaag ctaatttatt acagtaccta 6720 cagtctctcc aacaggtaca agagatcatt ctgccacttg ttcgaggagc ccatcccagt 6780 ccagttcctg accagatggg gccctgccat tcgttccagc ccggtgacct ggtgtttgtt 6840 aaaaagttcc agagagaagg actaactcct gcttggaagg gacctcacac cgtcatcctc 6900 acgacgccaa cggctctgaa ggtggacgga attcctgctt ggattcatca ctcccacatc 6960 aaaaaggcca acaaagccca aacagaaaca tgggtcccca agcctgggtc aggnccctta 7020 aaactgcacc taagtcgggt gaaaccgtta gattaattct ttttatttac ttcttttgtt 7080 tatccttgcc tgtaatgtct tctgtgcctt cctactcctt cctcctcacc tctttcacaa 7140 caggacgtgt tttcgccaat actacttgga aggccggtac ctccaaggaa gtcacctttg 7200 cagttgactt atgtatactg ttcccanagc cggctcatac ccacgaagan catcacaacc 7260 tgccagtcac gggagcagga agtgtcgacc ttgcagcagg atttngacac tccgggagcc 7320 aagccagatg tggaagctcc aaaggtgctg aaaaaggact ccaaaatgtt gacttttacc 7380 tctgtcctng aaatcaccct gatgctagct gtcgagatac ttancagttc ttctgcccgg 7440 attggacatg tgtaacttta gccacctact ctgngggatc aactagatct ccaactcttt 7500 caataagtcg tgcttctcat cccaaatcat gttctaaaaa taattgtaat cctcttaaca 7560 taattgtcca tgaacctaat tcagctcaat ggtattatgg tatgtcatgg ggattaagac 7620 tttatatccc aggattcgat gttggaacta tgttcaccat ccaaaagaaa attttggtct 7680 cctgaagccc acccaagcca atcgggcctt taactgatct aggtgaccct atgttccaaa 7740 aacgccctga caaagttgat ttaactgttc ctccaccatt ctcagttcct aagacccagc 7800 tgcaaagaca ncaactccaa cccagtcnga tgtctatact tggtggagta catnatttcc 7860 ttaacctcag ccagnctana ctagcccagg attgttggct atgtttaaaa gcaaaacccc 7920 cntattntgt aggattagga gtagaggtgg cacttaaagg tggtccttta tcctgtcacg 7980 cacgacctcg tgctttcaca ttaggagatg tgtctggaag tgcttcttgt ctaattagta 8040 ctgggcatga cttatctatt tctccttttc aggntgtctg taatcagtct ctgcttactc 8100 ccatgaggat ctcagtctct taccaagcac ctaacaanac ctggctggcc tgcacctcag 8160 gtctcactcg ccgcnttaat ggaactgaac caggacccct cttgtgtgtt ctggttcatg 8220 tccttcccca ggtatacgng tacagtggat cagaaggaca actcctcatc gctcccccgg 8280 aattacatcc caggctacgc cgagctgccc cactactgnt tcctctntta gccgntctca 8340 gcatagctgg gtcagcagnc attggcacgg ctgccctggt tcggggagaa actggactaa 8400 tgtccttgtc ccaacaggta gatgctgatt taaataacct tcagtctgcc atagatatac 8460 tacattccca ggtagagtct ctagctgaag tagtgcttca aaaccgccga ggcctagatc 8520 tgctgttcct ctctcaagga ggattatgcg cagctctagg agaaagctgt tgcttttacg 8580 ccaatgaatc tggagtcata aaagatacac tccaaaaagt tcaagaaaat ctagataggc 8640 gccaacaaga acgagaaaat aacacnccct ggtatcaaag catgttcaac tggaacccnt 8700 ggctaactac tctaatcact gggttagccg gacccntcnt catcntatta ttgagtttaa 8760 tttttggacc ttgtatatta aattggttcc ttaattttgt aaaacaacgc atagcttctg 8820 tcaaacttat gtatctnaga actcaatata acccccttgt tgtaactgaa gaatcaacga 8880 tttgattccc ctaaaacaca agtggggaaa tgaaatgcct aaccttgttt ttactctaac 8940 tcattacttt gaattttgtc ctgcttgtct ctttaatc 8978 // ID MER99 repbase; DNA; HUM; 828 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE MER99 repetitive element - a consensus. XX KW DNA transposon; Transposable Element; Nonautonomous; MER99; KW Putative non-autonomous DNA transposon. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 116-764 RA Jurka J.; RT "MER99."; RL Direct Submission to Repbase Update (JUN-1998). XX RN [2] RP 1-828 RA Smit A.F.; RT "MER99."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC A core of MER99 was reported by [1]. The repeat has been CC classified [2] as a putative DNA transposon based on the 10 bp CC terminal inverted repeats and 8 bp duplication sites [2]. CC Maybe only 100 copies. XX SQ Sequence 828 BP; 250 A; 167 C; 137 G; 266 T; 8 other; cagtgtttcc aaactcctga cagatnttaa tcttcgggat ttaggaacga gaaatcagaa 60 ttcctgggaa ttctcaggaa tttccnaaat cataagttat tcttaaanta cttccaacat 120 tcttcanact ncttactcat tatcatggat atctaaaatt tgtttcntta aaaagaaata 180 ttnagtttag tagtatttac aaagaactgt agcctatagt aaatattcaa acactggaaa 240 atgccagcga acattattgg gtagtattcg aataacgtaa cattcggatc tcctagcaag 300 gttaacggca ctacacagaa tcacatgtcg aaattgccaa tttaaggact tattttgctt 360 ccaaaacttg ttatttcttg gaacaccact cataggattt gtataaagta tactatgcat 420 ataaacntat taatatttat tttatttgca agaatgactc accgttagca gcagacaggg 480 ccatgaacac acacttataa catggcaaca gctacaagca aggctgactg attagatcgt 540 gaccacttct ctcctatgtg ctcctgtccc ggttcctaga aatgtcgacc ttaaccttcg 600 actccacgtg tcagcgtttc ctgctcttgc tttcaacttg atgtcagtgg attccttcga 660 atcagtaatg tctctatgtt gattgttaag ctttaattct cgcaggagaa ttataacatt 720 ttttcccatt ttcccgattt ctcgactgat ttttcttggg attcgggatt tagaaaaaca 780 tacatttccc gagaaatgct gggaaggaat tcccgcatgg aaacactg 828 // ID HERV1_LTR repbase; DNA; HUM; 508 BP. XX AC . XX DT 01-JUL-2005 (Rel. 10.06, Created) DT 06-JUL-2005 (Rel. 10.06, Last updated, Version 3) XX DE Long terminal repeat of Human endogenous retrovirus HERV 1 - a DE consensus. XX KW Endogenous Retrovirus; Transposable Element; Long terminal repeat; KW HERV1; Human endogenous retrovirus; HERV1_LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-508 RA Polavarapu N., Bowen N.J. and Mcdonald J.F.; RT "Consensus sequence of human endogenous retrovirus HERV1."; RL Repbase Reports 5(6), 146-146 (2005). XX DR [1] (Consensus) XX SQ Sequence 508 BP; 136 A; 126 C; 92 G; 154 T; 0 other; tgaagaagga attcatgaat tttaaagtat aatcaaagac caagaaattt tactttttcc 60 tcaaaagcta atgtattagc ccccacccat agtctaagtt aagaagaata ctaactgcct 120 gtttttcctt ctgtgctcag caagccttat ctgtactcac tagtttcaca ttccttgagg 180 ctcagcgagt tcctgcttca cctccctagc gcagctgcaa agttacaagg ttgataagca 240 tatgttacag aaacatagtt tcccaaggat gtagaacatg tagtataata aatgtaaaag 300 actgatcaac tgcctttgtt ctcgcttctg taagtacgct tcctgcatca cgtagctccc 360 ggccactgac tgcttaaaag gtggctgctt tctttgtccg gggctcagac tttcctggac 420 gctagtccta ctgagccagg tgatcacctt aataaaggcc tttcctgaac tctgttcggt 480 ctctcccatc tctgattgtc ccacaaca 508 // ID MER4D repbase; DNA; HUM; 872 BP. XX AC . XX DT 27-JAN-1997 (Rel. 2, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4-group; MER4D; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-872 RA Kapitonov V.V. and Jurka J.; RT "MER4D."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-872 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC MER4D, a subfamily of MER4 LTR, is characterized by a 192 bp CC insertion CC between positions 191-193 of MER4B (see there for earlier CC references). CC The old consensus [1] contained a chimaeric 5' end, including the CC 5' end of MER4E subfamilies. Average divergence from consensus CC 13%. XX SQ Sequence 872 BP; 250 A; 230 C; 157 G; 235 T; 0 other; tgtaaaccaa aaataaaatt ctaagccccc caaccgactg aatggacccc cctcttggcc 60 aaggggatcc caaagaaacc tgaaaaacta gttcaggcca tgacgggaag gggggggtcg 120 gacatgcctc attacaccct cctccctttg gagtttaggc acaactgacc agcattaaca 180 ttaaaacaga gatcttaaga ctgacaaaac agactctttg tagcaataag ataccaaatt 240 ccaacctgac tctggtatag catcacatga cagatagcag gccctgaagg aaatcaaagt 300 attttacccc aaaatatatt tctttgacat attttgaaat ggccctgcaa agctgtctct 360 tgtgggggaa atttgcattc tgtagagaat ctccttccct tactaggtct tttccggaga 420 gtctgacacc ttttaaggtc cgataagaga cattcaccat ctattctctc tgaagcctgc 480 tacctggagg cttcatctac atgacaagaa ccttggcttc cacaaccccc cttatcttaa 540 ctcaagctga cttcaactct tcaggcagag cttaactctt tcaaccaatt gccaatcagg 600 aaatctttga atccacctat gacctggaag cccccgcttc gagatgtcct gcctttccgg 660 gccgaaccaa tgtatacctt acatgtattg atttatgtct ttgcctgtaa cttctgtctc 720 cctaaaatgt ataaaaccaa gctgtaaccc aaccaccttg ggcacatgtt ctcaggacct 780 cctgaggctg tgtcacaggc catggtcctt aaccttggca aaataaacct ctaaattgat 840 tgagacctgt ctcagatact ttttggttta ca 872 // ID SUBTEL2_sat repbase; DNA; HUM; 87 BP. XX AC . XX DT 06-SEP-2005 (Rel. 10.08, Created) DT 06-SEP-2005 (Rel. 10.08, Last updated, Version 1) XX DE SAT Satellite from primates. XX KW SAT; Satellite; Simple Repeat; SUBTEL2_sat. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-87 RA Smit A.F.; RT "SUBTEL2_sat - SAT Satellite from primates."; RL Direct Submission to Repbase Update (06-SEP-2005). XX DR [1] (Consensus) XX SQ Sequence 87 BP; 0 A; 42 C; 27 G; 12 T; 6 other; gcgcctctct gcgcctgcgc cggcgcsscg cgcctctctg cgcctgcgcc ggcgcsscgc 60 gcctctctgc gcctgcgccg gcgcssc 87 // ID LTR86A1 repbase; DNA; HUM; 513 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR86A1_LTR; LTR86A1. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-513 RA Smit A.F.; RT "LTR86A1 - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSDs, with a bias for NNNNC. 28% subst in dog human. CC Orientation based on ATTAAA site conserved in other LTR86 CC consensuses. 90% similar to LTR86A2, <75% similar to LTR86B and CC C. CC rnd-2_family-25. XX SQ Sequence 513 BP; 115 A; 121 C; 141 G; 134 T; 2 other; tgcggggaaa tgggctttcc gggatgctgg aaagctggag gcagagatat tgttcaggga 60 cacctgggca ctgactctgc tttctccccc cggatgagga tgtggccttg ctgacgctga 120 gtttggttca agaaccagga gagcccgatg tttgtaaaca ttcccttaaa tggaagcaca 180 tagattgtta gtgtaagttc ttccngaatg gtgatgtaag ccctgagtat aaaagggcag 240 tggcatagca agaattgagc tttccagatc tggcaagacc ctaccttgca cggacagtgt 300 caccggcagc tgcatgcccc cgttagggac tctgggggcc aagggaagct acgctgagat 360 atgctgcatc tgctcctgct ctgtgtggcc acctcgcttc cgataagntt ctgtatcctt 420 ggctaattaa atcgggaact taatctaacc ttacagtgtg tgtgtgtgtg ttggtctctt 480 cctgccaatc catagcccac ctgaaatgct gca 513 // ID MLT1J2 repbase; DNA; HUM; 450 BP. XX AC . XX DT 03-SEP-1998 (Rel. 3.08, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 2) XX DE Mammalian long terminal repeat MLT1J2. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MLT1J2. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-426 RA Jurka J.; RT "MLT1J2."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-450 RA Smit A.F.; RT "MLT1J2."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1J2 retrovirus-like MaLR element. 5 bp target site CC dups. CC Average divergence from consensus 24-25%. CC 84 % full-length similar to MLT1J1. XX SQ Sequence 450 BP; 103 A; 119 C; 118 G; 106 T; 4 other; tgtggcagag actggctagg tgttcaccaa aacccgtttc cttttcctcc tgggcacaca 60 gctagactac atttcccagc ctcccttgca gttaggtgtg gccatgtgac tgagttctgg 120 ccaatggaat gtgggcagaa gtgatgtatg ccacttccag gcctggccca taaaaacctc 180 ccacgtgatc ctccatgctc tctctctttc cccgtctgct ggctggatgc agaggatcta 240 gnggagaact ccgaggncct aggaggatgg cggagccaca agatggaagg agcctgggtc 300 cctgagtcac tacntggagg agagccaccc acacccgacc agaacccnca ctggactgtg 360 acatgagtga gaaataaact tttattgtgt taagccactg agatttgggg gttgtttgtt 420 acagcagctg gcattaccct gactaataca 450 // ID MER50 repbase; DNA; HUM; 734 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 4) XX DE Primate MER50 repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER50. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX RN [2] RP 1-734 RA Smit A.F.; RT "MER50."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX CC 4 bp duplication sites. XX SQ Sequence 734 BP; 194 A; 199 C; 172 G; 159 T; 10 other; tgttagagta ggtagctagg cagrcatgag cagggcagga gagggcnccc cccacacaca 60 ccacgaatgt cgggtgacca tcaggtgatg gtcaggcggt tgttaaactg tctctctaaa 120 ataataattg gtcacagcca gcgccaggga aargcagtct cctaatagat agaaaacacc 180 tgaarctggt gatcagcagc ttcccgataa gatctcagga gttgggcgag tgagctcaag 240 catgcgcact aagaggcaaa atgrcggagt ttaaccggca tatgaccttc ctctaggaac 300 actccaatgg taagggaara atgcctcaar tgagcatgtg cacaactcca gtaaacacac 360 tgtgcatgcg gcccytccca agtgctggca ggccactgcg cacgcggaca gcccacccca 420 aggaaaaatc aagggaggag raacgcaaac cccggaagca tgccgatgta taaaacccca 480 agtcaaaggt caaaccgcgc acttggtctc tcaagtcgcc cgcttggccc tcttccaagt 540 gtacttcgct tcctttcgtt cctgctctaa aactttttaa taaacttyca ctcctgctct 600 aaaacttgcc tcggtctctt tttctgcctt atgcccctca gtcgaattct ttcttctgag 660 gaggcaagaa ttgaggttgc tgcagacctg tacggattcg ccgctggtaa ctcagatacc 720 ttccaccggt aaca 734 // ID HARLEQUIN repbase; DNA; HUM; 6896 BP. XX AC . XX DT 20-FEB-1998 (Rel. 3.01, Created) DT 20-FEB-1998 (Rel. 3.01, Last updated, Version 1) XX DE Internal sequence of mosaic endogenous retrovirus; mosaic element DE similar to HERVE, HERVI, HERV17, MER4I, MER57I, MER41I - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HARLEQUIN; KW HERV17; HERVE; HERVI; KW Internal sequence of endogenous retrovirus-like element; LTR2; KW MER41I; MER4I; MER57I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6896 RA Kapitonov V.V. and Jurka J.; RT "HARLEQUIN."; RL Direct Submission to Repbase Update (18-FEB-1998). XX DR [1] (Consensus) XX CC HARLEQUIN is an internal part of endogenous retrovirus-like CC element CC flanked by LTR2s. Its consensus sequence has been reconstructed CC based on eight full-length copies; they are ~92% similar to the CC consensus sequence. One copy has been inserted into Alu-Y repeat. CC HARLEQUIN built up from several different retroviruses including CC HERVE, HERVI, HERV17 and MER4I-group sequences. CC Similarity of HARLEQUIN consensus sequence to these retroelements CC is shown below: CC ------------------------------------------------------------------ CC sequence begin end sequence begin end similarity CC ------------------------------------------------------------------ CC HARLEQUIN 1 885 HERVE 1 879 0.90 CC HARLEQUIN 1051 1413 HERV17 812 1171 0.88 CC HARLEQUIN 1414 1588 HERV17 1219 1386 0.89 CC HARLEQUIN 1644 1715 MER57I 3887 3955 0.86 CC HARLEQUIN 1723 1804 LTR8 223 158 0.75 CC HARLEQUIN 1835 2026 MER4I 2935 3127 0.72 CC HARLEQUIN 2039 2481 MER57I 3956 4429 0.77 CC HARLEQUIN 2483 2543 MER41I 2156 2216 0.87 CC HARLEQUIN 2603 3152 HERVI 5465 6004 0.71 CC HARLEQUIN 3375 4147 HERVI 6454 7227 0.80 CC HARLEQUIN 4148 4717 HERVE 3534 4075 0.87 CC HARLEQUIN 4722 6896 HERVE 5653 7812 0.78 CC ------------------------------------------------------------------ CC We suggest that shuffling of non-homologous endogenous CC retroviral sequences may generate mosaic retrovirus-like CC elements. CC Presumably, the shuffling occurs in virions where RNA genomes of CC different retroviruses could be packed in together. CC Self-catalytical RNA recombinations or jumping of reverse CC transcriptase from one to another of non-homologous RNA CC molecules may induce the shuffling [1]. XX SQ Sequence 6896 BP; 2217 A; 1399 C; 1471 G; 1740 T; 69 other; tttcttggtt ccctgaccag gaagcgaggt gattaacgga cggtcgaggc agccccttag 60 gcggcttagg cctgccctgt ggagcatccc tgcrggggac tccagccagc ytgagtgacg 120 cggatcctga gagcgctccc aggtaggcaa ttgccccggt ggaacgcctc gccagagcag 180 cgcgtggcag gcccccgtgg aggatyaacr cagtggctga acaccgggaa ggaactggca 240 cttggagtcc rgacatctga aacttggtaa gactagtctt tggaacttgc cccactccat 300 ttgagtggaa gcgtggcctg atcacccayg gtgtgcctgt actggcactt tggtttttgt 360 ttttgacttg acttggattg cttgatactt tggttttggt tttgacctgg cttggatttc 420 tggatactct gattttggtt ttgattttgg tttggtgtaa actgtaaaag tgtgtgtgtg 480 ccctttttac ccgttctttg ttttgtggtg tgcatgtggt gtgagcgtgg tgttttgtct 540 cgaagaagca tgggtcaggc acaaagtaag cccaccccac taggaactat gttgaaaaat 600 ttcaagaaag gatttaaggg agactatgga gttactatga caccaggaaa acttagaact 660 ttgtgtgara tagactggcc agcattagag gtgggttggc catcagaagg aagcctggac 720 aggtcccttg tttcaaaggt atggcacaag gtaacctgta agccagggca cccagaccag 780 tttccgtaca tagacacttg gttacagctg gttttagacc ccccaccccc acagtagttg 840 agagaacagc agcataagcg gctggcagag gcaaggaaag accagcagag agavagagag 900 aggaaagaga cagagaggaa aagaggcaaa gagagagagg aaaagacaga gaggaagaga 960 caragagaca aagagrgagt caagaagaga gaaagaggga ggcagagaga gaggaagaga 1020 cagaggcaaa aggaaagtca gagagagaca gaaagtcaaa gagagaaaga aagagagaaa 1080 tatacaagta gttaagaaaa aaaacagtgt accctattcc tttaaaagcc aaggtaaatt 1140 taaaacctat aattgataat taaaggtatt ctccgtaacc ctgtaacact ccaataccac 1200 tttgttgtca gtgtaaacaa gggcgtatcc craaagcact gaggccttcc tatcaaaaat 1260 ccttaaccca gtaacccgcg gatggcccaa atgcattcaa tctgtagcgg caactgcttt 1320 gctaacagaa aaaagtaaaa aaaataactt ttagaggaaa cctcattgtg agcacacctc 1380 accagttcag aagtatccta aagaaaagaa aaaagaaaag gatgatttaa cattaaccac 1440 tgaaaattct cttaacccag cagktttcct aacaggggat ctaaatctta attaccatac 1500 aaaggtccga ccagacctag gaggaactcc cttcaggaca ggabgataga tggttcctcc 1560 caggtaatta aagrrrgaaa aaaagccatc tataccaatt ctaagttaat ttggactaaa 1620 caaggtctta ttaatagcaa aggataattg aaatcccaaa cttacaaggt tttcaacaaa 1680 agtaaagttt gctaaaagtt aacagtgtaa catgtattat agtaacttct aatcttgtgg 1740 ccttagacag tctagtccac agacataaag gaagttcgct ttggaaaaga atrgttatca 1800 tcttcgaaaa aaaaagagag graagagggg gcagaattta tgtaaaaaga gtgttatatg 1860 gtaaattctt gtcctgaaat aaattaactg gttgtttaaa gaaagaaatg tttgtaataa 1920 gtcagaaagt tgagrcatgt cgaagaattg tctgcgaaag tcgtgaaaga aaaaaatgtt 1980 ataaaaaaag aatttatgca araaatgttg tataatttaa aagtaatwag gcctcctgaa 2040 tgtaaaacta ttgaaaaaac agtttatgtg caaggtgtat aagaaaagta aaatatacct 2100 ttggtaaaag gattataagg aggcataaga atgtggattt ttacctacat taaaaggtta 2160 aaaaaattat tgttttgaag gtttaagcaa gttttaaaat gttaattgta aagaaaattc 2220 tgtgtgtaaa catattagct aaagttaaag aggtatcatc cagtttttct gtgaactgga 2280 cattaaagta aaaacgcaac gggtttttct taaagcacca acctgctctt taacaaaaat 2340 tataaaaggt taaaaagagt ctataaaaat cttaccttat ggtcaaacat taaaaattgr 2400 ataaatatgt ctacaaagtt ttattaaaay taagtttaac attaataaca cactaatata 2460 aaggtaaaat ttagcttatc tggtataaaa atcatacaag aagcattgty aaatataaaa 2520 tggtgtttgg ctttctttgg tctaaaaact aataaaaata ggtgctaaag gaaatttctc 2580 agtaaaaagg caccaaggac tataaagtcc actgctgatg ttcccacatt taaaacaaaa 2640 ggtcaatttc ttaaaaatta tatacttggt ttatcttcca ctttcctttc cctcaaaact 2700 aaaagtcttt tagcacatgt accaccccta gaatttccag taaaccagca ccagcctgaa 2760 gatcacgttc tcatcaaagg gtggaaagaa ggaaaacttg agccagccta ggaaggaccc 2820 taccttgtgc tgctaaccac cgagactgct gttcgtacag cgaaaaaagg atggactcat 2880 cacacccgag tcaagaaagc gccaccccct ccagagtcgt gggccatagt cccaggggaa 2940 aaccctacca aactaaagct aagaaaaatt taactctttc atctattcta ttactctttc 3000 ttctttcctc gctctattgc tgaccatcta gttattaaca taaccaagtc aatttcgcct 3060 caaactattg catttaatgc ttgccttgtt ataccctgtg gggacttgcc aagtcaaaga 3120 cagctctcta cttcagaaaa gtacctctgt ccctcctgac tctcctcaga ctgggcatta 3180 gtaaattagg accatttaat ccggggagat ttcgataaag accccagtgt caaccaggag 3240 tcttgccccc caatgtagag cttttatgcc atagttggtc caacgttctg tggaccacta 3300 aagagcaagg atggactgcc ccaaccggtt tttgtaattt cctaaaatca tacattcatt 3360 ttactagagg atcatagaag ttaaagactt aaaacaaact ttggcaatta agacaggata 3420 ccaagatgca aatgcctggt tggaatggat caaatattcc atccgcacgt taaacaaaag 3480 caattgttat gcttgtgcac atggcaggcc agaggcccag attgtcccct ttccactaag 3540 gtggtcctcc agtcgaccag gcgtgggctg catggtagct cttttccagg attctacagc 3600 ctggagtaat aagtcatgcc aagctctctc tgctatatcc cgaagtccag caccctgtgg 3660 gtcagccccc gagggccatc cagcttccgt ctcccaacac taagttcact tcgtgtctct 3720 cacgacaggg aggaaactta gcattccttg gagacctgaa gggatgcagt gagcttaaga 3780 attttcaaga gcttatcaat cagtcagccc ttgttcatcc ccgagcggat gtgtggtggt 3840 attgtggtgg acctttactg ggcactctgc cgaataactg gagtggcact tgtactttag 3900 tccaattggc tatccctttc accctggcat ttcatcaacc agagggagga aaaataagac 3960 atcgtaaagc gagagaagcc ccttatrggt ctttcaactc tcacgtctat ttagacgcaa 4020 ttggagtccc acgaggaata ccagatcaat ttaaagcttg aaatcaaata gctgcaggat 4080 ttgagtcaat attttggtgg gtgacagtta ataaaaatgt agattagata aactacatct 4140 attacaacca acagcaacga gcttttcatg agttaaaaga aaaactcatg tcggccccag 4200 ccctggggct acctgacctg acaaaaccct ttacacycta tgtgtcagaa agagaaaaaa 4260 tggcagttgg agttttaacc cagactgtgr ggccctggcc aaggccagtg gcctatctct 4320 caaaacaact agacggggtt tccaaaggct ggcccccatg tctaagggcc ctggcagcaa 4380 cggccctgtt agcacaagaa gcagataarc taactcttgg gcaaaaccta aacataaagg 4440 ccccccatgc tgtggtgact ttaatraata ccaaaggaca tcattggyta acaaatgcta 4500 gattaaccaa gtaccaaagc ttgctctgtg aaaatccccg cataaccatt gaagtttgca 4560 acaccctaaa ccccgccacc ttgctcctgg tatcagagag cccagttgaa cataactgtg 4620 tagaggtgtt ggactcagtt tattctagta ggcccaacct ccgagaccat ccttgaacat 4680 cagtagactg kgagctgtac gtggacggga gcagcttcgc caacccctgc aaagtgactc 4740 tgaagaagac gacaagccct gctccagtca cacccggaag ctgactggtc cacgcacggc 4800 cgaagcatga gaaaactcat cacgggactc attttcctta aaatttggac ttgtacagta 4860 aggacttcaa ctgaccttcc tcagactgag gactgttccc agtgtataca tcaagtcact 4920 gaggtaggac aaaargttgc tacagtccta ttattttatg gttattataa gtgtactgga 4980 actctaaaar aaacttgttt gtataatgyt attctataca aggtatgtag cccaggaaat 5040 gaccaacctg atgtgtgtta tgacccatct gagcctccca tgaycacagt ttttaaaata 5100 agattaagga ctgaggactg ctgggggttc ataaatgata caagtaaagt gttagccaaa 5160 acagaagaaa aaggggtgcc caaacaagtc accttaaaat ttgatgcctg tgctgttatt 5220 aatagtaatm agtataggaa taggatgtgg ttctcttaat tgraaaaaag aggctatacg 5280 gcagaaaata agtacatctg tcatgaatta ggactgtgtg gaaataartg taaatactgg 5340 tcttgtgtca tttaggctac ttagataaaa aatgaaaaga atcctgtcca ccttcagaaa 5400 ggraaaagtg gcccttcctg taccagtggw cagtgtaacc ccttagaact agtaataacc 5460 aacccccttg atcctcactg gaaaaaaggg gaacgtgtaa ccytaggaat cgatgggrct 5520 ggactggatc ctcgagtaaa tatcwtagtt tgaggagaag tttataaacg ctctcctgag 5580 ccagtatttc aaacyttcta tgatgaactg aatgtgccag taccagaaat tccaggaaaa 5640 acaagaaatt tgtttttgca attagccgag catgtagccc agtctctcaa tgtcacttca 5700 tgttatgtat gtggaggaac tgtaatrgga gatcaatggc catgggaagc ccgagaatta 5760 gtacctacag acccagttcc tgatgaattc ccggctcaaa agaatcaccc tgataatttc 5820 trggtcctaa aagcctcaat yattagacaa taytgyatag caagagwrgg raaggahttc 5880 acycwtcctg trggaagact yagttgcctt gggcaaaaac tgtataatag taccacaaaa 5940 acagtcacct ggtggagttc aaaccacacw raaaaaaatc catttagtaa attcccaaag 6000 ttgcaaaccg tgtggaccca cccagagtcc caccgggact ggacagcccc cactagatta 6060 tactggatat gtgggcatag agcttatgcc aaattacctg accagtgggc aggtagttgt 6120 gttattggca ctattaaacc atctttcttc ctactgccca taaaaacagg cgaactcctg 6180 ggcttccctg tctatgcttc ccgcgaaaag agaagcatag ctatagrwaa ttggaaagat 6240 gatraatggc cccctgagaa aatcatacaa taytatrggc ctgctacttr ggcacaagat 6300 ggctcgtggg gataycggac ccccatttac atgctcaacc gaatcatacg gttacaagct 6360 gtcttagaaa taatcactaa taaaaccagc aragccttga ctattctggc ccggcaagaa 6420 actcagatga gaaatgctat ctatcaaaat agattggctc tcgactactt gctagcagct 6480 gaaggagggg tctgtagaaa atttaacctt actaattgct gtctacacat agatgatcaa 6540 gggcaagtag ttgaagacat agttagaaat atgacaaaac tggcacatgt gcccgtgcaa 6600 gtgtggcatg gatttgatcc tggggccatg tttggaaaat ggttcccagc gctaggagga 6660 tttaaaactc ttataatagg agttataata gtaatagaaa cctgcttact gctcccttgt 6720 ttgctacctg tacttcttca aatgataaaa agcttcatcg ctaccttagt tcaccaaaat 6780 gcttcagcac aagtgtacta tatgaatcac tatcaatctg tcttrcaaga agacataggt 6840 agtaaraatg aaagtgagaa ctcccactaa tgagtgagat tctcaaaggg ggggaa 6896 // ID HERV49I repbase; DNA; HUM; 6331 BP. XX AC . XX DT 25-JAN-1999 (Rel. 4, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 3) XX DE Internal sequence of primate retrovirus-like HERV49I - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 type; KW HERV49I; Internal sequence of retrovirus-like element; LTR49; KW MER4I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 456-1245 RA Kapitonov V.V. and Jurka J.; RT "HERV49I."; RL Direct Submission to Repbase Update (JAN-1999). XX RN [2] RP 1-6331 RA Kapitonov V.V. and Jurka J.; RT "HERV49I."; RL Direct Submission to Repbase Update (DEC-1999). XX RN [3] RP 1-6331 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (AUG-2000). XX DR [2] (Consensus) XX CC HERV49I is a consensus sequence of an internal portion of the CC HERV49 nonautonomous LTR retrotransposon. Its long terminal CC repeat is deposited in Repbase Update as LTR49. CC It belongs to the MER4I group of non-autonomous elements without CC apparent matches to ERV coding regions. CC Average divergence of HERV49I copies from the consensus sequence CC is CC 11%. CC One copy of HERV49I, present on chromosome 22, is flanked by CC LTRs (U62317, positions 11281-10708 and 988-110) that are only 4% CC divergent from each other [1]. Presumably, such a low divergence CC between two LTRs from the old retrovirus (the expected divergence CC is >20%) is a consequence of gene conversion. XX SQ Sequence 6331 BP; 1765 A; 1172 C; 1206 G; 2125 T; 63 other; tttggtgctg tgagcaggat naccaaagcc gctctgctct tctggaagct gcagtnaagg 60 gaacccagga cctgacaagc cggcagaagg gtaagaattt cttaccagcc aggctcccgg 120 cctctctctg tggaatctgg tcgagcggat ggtaaaaatc actgtctctt tttcctctnc 180 aaaattttga ttaatgggag aaaaggattt gtgtgactag tcttgggtgt agcgactctg 240 gtgtactttt tggtactttg tggtatgaat attcatattg tttgatccct ttcctcccag 300 aaatagtttt tccttgtctt tgtctttctg tgttgttctg tcataaagag gggtactgan 360 tgaggttccc tctcgtcttg ttttatgtcc ttgagagctt gacttgtgac caagtgggag 420 cactctctct tggtctccac catccggggg gcatgatttt cgggtcacgt caggtggcca 480 gtctgaaant ggctgggaac ccgagacaca taagatttta agcagcactt tttgttccaa 540 atgtgtcaag ctctcaggag agtttgtctt aagaagtccc atccataagg ggcttttgtc 600 gtctcaacct ttgttgcctg gttagtnctg ggaaagtcca atcccaggag ggcctaccca 660 gtgtcacaga ttaacgggtc tgtgactggc ggccccccac aaatttgtgg gttaccggag 720 gcatcatatg canaaacacc atccttaact gtctgtggca acaagagtct tttgctatct 780 tagcctattt ctgggagtga attttttggg ggatcatngg gaccgcctct tctatgccct 840 ctctaaacct ggaaaattac ctcctgggct ttccatgaag aggcttattg gattgagtcg 900 ctattggaat aagtacacca ttggaaattc taattgtcaa tggccaaaag atggatcctt 960 taaattagaa agactcctaa attttaaaaa aaaaaagatt ttagagatct cttattctaa 1020 acaattgcct tatgtatcta cgagaagatc aaattttaga aagacacata atagtgtcat 1080 ggctagcctt agaaattctc ttgacaaaat taaagagcaa aaatctgacc taaaacaaag 1140 ttaaaatcct ttgtacgctc aaaccgcctg ctttggatcc ctgcgggatt cgcaatgaag 1200 gccgctccac cttgtagtct ggtggttaaa attccacact ttcaccgccg tggcctgggt 1260 tcgattcccg gtcagggaac cagtcccttt tggtttgata tttgtgtgac ttttgacttt 1320 tgggatacca attcgttatt gatccttttc ccttccatgg acagcttttg atttcctttc 1380 ttcgagctgt ctttggggat ggctctggat nttgtgagga ctgctttgcg cctctttgga 1440 gatgccttgt gcatccttgg ttaagtcata actttggtta aggcttattg gttttggtga 1500 gtcacttgga aggtaccttt ggtttaaaaa aaaagttcaa aagccaggaa tatcagctgt 1560 ttgtcccggc taaaatctga taataagaga tttgaaagga tttttnaaga gctctatggt 1620 taaaagtcag cttaattaaa aacgctgata ttcaagctac atatntacag ccttttctct 1680 tttggatcct gtttctggga atttttttca gttgactaaa acccttttaa attatgtgtt 1740 tggtccctct gtttgcttcc tttcttggta taatttttgc tgagaaaaat gtaaaanttc 1800 attggccttt tagaanctta acatctcccc aaattggctc ctctaagaat tgctctccca 1860 tttacttcta ttcctccctg ctcctccttc ctctttgcca tcttcggtac cacatgaaaa 1920 gatctagaag ggacttctaa tgactcagag accccttgag gaacgcagaa aaaggtgcca 1980 cgcaccccnt ttntgaggtc ttctgtcttc cttatggagc cccaggagtc atgggnagnt 2040 tcctctcagg tctaaagctc tgctgtcttt tgcantgcgt tacctgatct ctttggcttt 2100 gggggtacca ggggttactt tgtactgtga ganagnactt gacctttgtg tgtgcgatgg 2160 ctgncaggtc actggcgagg gctgacagtt ttggaggtgg ctgacagcgg ttacaatgaa 2220 tggttattac tgcaggaggc cactcgtttc tttgcgcgtt tagataagaa aggcgcagtt 2280 tgaacacttg gaggctatgg aaacactcgg caccaaggga taagactcct ggggtgggct 2340 gatcgctgtg ggtccccacc ggcctcaggg gaacgtcttc gtagcgagnt gcactgtgga 2400 aacattgtgt agccttgtcc cgtgtatttc cctntttagn ggganctnag attcagtgta 2460 aanacgggat ccttgatttt taaagatcta gatgctctgc cttccagctg cacctgcttt 2520 tccatattta aatattaggc cctaaactgc aaatgctttn tcggcctgtt cgttaatgag 2580 ctccgccctg agctcagtgg tccagttaga aaacggagac taaattagaa gctacctatc 2640 taaataaaat cgttctcctt ataaaatcct gtggtgaatt tctatgattt tgtgttacct 2700 cggcatccat ttttaatctt cctgctaaca nacctaaata aaaacttaaa ttctntctct 2760 gtgctttgag atgtaaattt gctaccctgt tttctctaaa acttagtaag ggctttggcc 2820 gtgtgggaca gataaactta acttgttcca tttacagagg cacaatttaa tcaactgtcc 2880 ttttaaacta gtgantttta ccngtctcat ggctaaaatt ttaaaatcaa agctataagg 2940 tcttnatttg tgtctgtatt tttatgtgta catgtctgtt tgtatattgt ccgcatggta 3000 ccaaattgac ttataaataa atgagtgctc atnaatnaag taaataagcc caaatacttt 3060 tcaagttcat angactttag taatctttgg taaataaann tagtctttaa aattgttggt 3120 aaaatagaat acgtcttaag aatataattt agacattttt gcctgggtct actggtcaga 3180 caggtttagg ctgtctctgc tagatgtttt aaggtcataa aantattgct tctgtaatat 3240 tttcgaatac ttgcttaatt tgtctgtgag cttatgtctt cggntttgag cctctagatt 3300 ctggggtcta gacaagtggc catggtgagg cctggggaca cccgtgngcc gcatcctccc 3360 tggcccagct gtgcctcccg gccatgctgg gaggggttgg atcctccagg cattgtcttt 3420 atagctctgt cctttgtcct gggctctgca tctntggtac atgattaaaa ttgcttactt 3480 cctaggtttt tcactagaaa ataagggtta ctgagagtta acattgtaat taatatacgc 3540 atattaaaac tactagatat aagaganatc tatatacaaa gcatataaaa aagtagaaat 3600 atttttgtaa aaaaagttat aaaagtggtt tttgttaaaa aataattttg cctagtttan 3660 angtttttaa agttgcttta aatnaaaaat aaaantaaat atagaaaant taaaaattat 3720 aagaggttat anaagagttt atnaaaatct tatgcgtata ntcaaaactg attaaaatta 3780 aatttattta taaggtttta ttaaaattag ctttagtatt aataatacac taatgcgaag 3840 ntaaaatctg gttttctctt tcgaataaga ttttcatgta atattaataa aagatttttg 3900 tttactttta aataaactnc aaaaaaagag ggagagagag acagattcag tttgcctcat 3960 gctgtcttta ttaggtcttt tgattatttg ggaaacagcc tcttctctat caaanagtaa 4020 aggtttttgc tttttaaaat ctttgaatta tcactttggc taaatgaatg accattattt 4080 tacagtgacc tgtgatccta ttttgagcaa gtgttttaaa cctttgatat ttgacanact 4140 tcccaaaatc aaatttcaaa ttctaaattn agtcttttga cctcaaatta acttttngat 4200 attagggccc ctggaagtcc aagagagaca tattaggctt atttggtatg ttaaaatcat 4260 atgaaacatt gtcaaataag aaatggtgct taactttctt tgggttatat ttgtataaat 4320 gtgttattaa tatgtgttcc aaaattgtat gagattccta aaattctgat gtgtcttagt 4380 atatgttatc agtaataatt atgattatta tgttaaattg ttgtatgcca cagaaataac 4440 caaatttcct tgtcaattgt gtctttaacc atggctattc taagactttt gtcatccaca 4500 gacaaattat tgttttactt tgatttttct caaaaagtan tttacaatcg gctacagtcc 4560 aaaatttgct ntttcttcaa ggaaattcat ggaaaggacc ctgacaagta ctcttaaata 4620 caggtttctg ataactttgg agatcatacc actggactag gtaaaaactt ccaggactct 4680 aattaaaaag ctgatgcgtt catgaggatt gctaacccaa catcaagcag aacaagaatt 4740 aattacatgg gactaaactg atagaggact gaaataattt tttnatgact tttttgtttg 4800 aaacattgct gattcttttt atgttttgtt ttccagagtc aagaaaactt tttttttttg 4860 agctatttat agcttacaac aattgggtaa agtatacttt tgtgagcaaa attgaaacat 4920 ttatctttct ctctacctga tttctccaga atttggaaac tatttgtgag tattcttaat 4980 ttatggcaat atagttattt gcataagttc aataagaatc tgttttcttt tgtaacagga 5040 cacaattgga gacactggtt attttaccaa ggctttgact ggaatggcat attttcagat 5100 atgaccagac tgctttgagg aattgagatt gactttatag agccgataaa aagcccttgg 5160 aaaagactgg cctggtacct tgtctacgca gttcctttac aaggttcctg accttgtggt 5220 aagtaaagaa tgtcactttc tgacaggccc aggaacctca agntattttg ggacctcgag 5280 aagagaggaa ttcacccaat tcgtacaggt attacaggca cagtctgatg gcaaatcctt 5340 ggcttggctt cctagcctcg agaggctttt aaaagtctaa tctgagattc cttatgaaaa 5400 agttccagca aagccaactt taaaagagcc tatatggcca atcactattc ttgctgcact 5460 ttatgcaaat aatcaggcca agtataataa gactaaaact tattttgcaa ataaattggt 5520 cctactatga tttatctttg gtaaaaatgg gggactggag agagaaaaat tatgtttcag 5580 aagaaaacta tagtacacct gttattagat tctagccttg tccattgttt ttgagttttt 5640 attatttncc tacaatttgg actgaatcct gaattctttc ctggctacaa gtctccaaac 5700 taatgttttc aaatttttct tccatttttc tgacttggaa tcactagaaa ttaaaactgt 5760 gcttttctta aagccctgca aactgaagct agacaacttg aataaacttt gggagaaatc 5820 actacagcaa cttatatata aacagccttc atgcctgttg atgtatngac tactcagaaa 5880 gttcacttga acacctgatt cgaactacaa tccagaaaaa tctgtcagat tgccactgca 5940 atctgaagat gcttcagaga ctctagaaaa actagtctat agactactcc agacattaac 6000 ctttgttttc ttctgtttcc atagaaatgc ctcttattaa agatctgttt gcctgcatca 6060 tatatagagg cctagctttg agagcccatc tgcaacgcca cctcctggaa tgggacacaa 6120 ctgtttaact gaactgatct attctcagga ctaagagact gattcaagaa gatatgagac 6180 aatatattta aatttgctct tttctgctta tctcaatttg ttttctcccc tcctttgcct 6240 atctctatct aacaacctct aacccaaatc tctccaaagc tatcaacttg actttaatat 6300 gtgaaacttt ttaaagtttc aaagtgggga c 6331 // ID L1PA13_5 repbase; DNA; HUM; 2278 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE Primate L1PA13_5 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1PA13_5; L1PA15_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1085-1975 RA Smit A.F.; RT "L1PA13_5."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-1975 RA Kapitonov V.V. and Jurka J.; RT "L1PA13_5."; RL Direct Submission to Repbase Update (1997). XX RN [3] RP 1-2278 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC This is the 5' end of L1PA13 (mostly) & L1PA15 LINE1 elements CC ORF1 starts at pos. 1667. XX SQ Sequence 2278 BP; 572 A; 732 C; 624 G; 322 T; 28 other; caagatggcc gactagacgc agccaggngg aacanctgcc accgagggac cgggacatcg 60 ggaagactgg cgcactccta gcagatcttc agagggaagg cactgagagt ggacggaggg 120 aagacacaga ngctgggctg aagggggagg aagctgggaa ccctgcacgg ggctaccgcg 180 caccgggact cgttcctggc ccccaacgac tccnggggaa ngggtgagtt gaacnggcaa 240 ggagcaaccc gctctcgcca tgggcctctg gaatcccggc aggaggagac ccctcgacca 300 ccacggacac ttgagttggc agggagagct gcttagagaa gtggtagggg cagnactcca 360 gccggtgcgg agcccagagg gtttggtgcg ggagcgtctg tagtggagca cggccaggga 420 cgcccatccc cctaggctcg acttgctccc ataggagact ttagccctag gggaactgtc 480 ggacctgaac tctgcagggc ggtcttgccc atgagacggg gccagtccga cctgagcacc 540 ccttggtctg ctggcctctc ccggggcccc agcctggccg cgcctgcttg cagtgcagcc 600 tcaggtgccc tgggggcccg catcatagct cctgcgctgg cggaccgcgc ctgaccggca 660 gagagctcca gcagggtggc ccccacggac acgcaccagc ccgcccgcnc cctccccnca 720 ctgcagcctc cccatgccgc tttgcctgca cgcactcgcc cacggcmacc ccccacatcg 780 ctttgccggc acgtgtgtgc acgggcgggc cttgccttcc ctkccccgcc agcgcgcgtg 840 tgcgcgtgca ccctgccntg ccactgctgc cggcgtgagt gcaccccgcc cccccntccc 900 ccgccgcact gccattgcmg tcggagcmtt ggcgggcaca gagcccgcca gccccacccc 960 cgccagcgcc ccgycccctg cgccgacact gccgcnggag tgaaactagg cacggagaac 1020 agcggaccct cccccgccct gagcggccac cnccgcccgc gtgaacgcgc acagagggtg 1080 cacacagncc tgcgcccacc agcgccccgc cccgtgctaa caccaccacc agcgcgancg 1140 cacgcacagt cgccggcggg ggcccctcgc cnccccgagc catgctgccn ccgccgctgc 1200 tgcgaacgcc cgcacggagg ccggcacccc ggcacccgct agcaccctgc tgcagccgat 1260 gagtgtgcac cccgccgtgc tgccgctgcc actgctgctg gcacgtgcga acgaggacgg 1320 atcccgctgc caccgcccta caaagcgctt tggctggcac cacccatcgg agtgttgtga 1380 ccagcggtcc gggagcacct cggcccctcc agcgcagcgg gttcctaacc ttgaggagcc 1440 agagaacaaa gccggggccc gatacnagtc ccccagagtt agagcacgca gtccaggagt 1500 cctgagctga gccttggccc cctaaaatct tccagaaatg aagccagtcg actgaaccca 1560 ccttatacca caatcaaacc cccaaggtca tcaaatagga taaaagaaaa aaaaaccatc 1620 caaaggncag caacttcaaa gattgaagga acatcagccc acaaagatga gaaagaacca 1680 gcgcaagaac tctgacaact caaaaagcca gagtgccttc tttcctccaa acgaccgcac 1740 tanctctcca gcaagggttc tnaaccgggc tgagatggct gaaatgacag aaatagaatt 1800 cagaatatgg ataggaacga agatcatcga gatncaggag nacgttgaaa cccaatccaa 1860 ggaagctaag aatcacaata aaacgataca ggagctgaca gacaaaatag ccagtataga 1920 aaagaacgta actgacctga tagagctgaa aaacacacta caagaatttc ataatgcaat 1980 cacaagtatt aatagcagaa tagaccaagc tgaggaaaga atctcagagc ttgaagactg 2040 gctttctgaa ataagacagt cagacaagaa tagagaaaaa agaatgaaaa ggaacgaaca 2100 aaacctccga gaaatatggg attatgtaaa gagaccaaat ctatgactca ttggcgtccc 2160 tgaaagagat ggggagaatg gaagcaactt ggaaaacata tttcaggata tcatccatga 2220 gaacttcccc aacctagcta gagaggccaa cattcaaatt caggaaatgc agagaacc 2278 // ID MER11C repbase; DNA; HUM; 1071 BP. XX AC . XX DT 24-OCT-1997 (Rel. 2.09, Created) DT 24-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE LTR from HERVK-related endogenous retrovirus HERVK11. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK; HERVK11; KW LTR; MER11; MER11C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-1071 RA Kapitonov V.V. and Jurka J.; RT "MER11C."; RL Direct Submission to Repbase Update (17-OCT-1997). XX DR [3] (Consensus) XX CC MER11 is a retroviral LTR [3]. It has been proliferated by CC HERVK-related CC retrovirus HERVK11 [3]. 6 bp target site duplications [3]. XX SQ Sequence 1071 BP; 280 A; 254 C; 220 G; 312 T; 5 other; tgttgcggga agtcagggac cccaaacgga gggaccggct gaagccatgr cagaagaacg 60 tggattgtga agattttatg gacatttatt agttccccaa attaatactt ttgtaatttc 120 ttatgcctgt ctttactgca atctctaaac ataaattgta aagatttcat ggacacttat 180 cacttcccca atcaataccc ttgtgatttc ctatgcctgt ctttacttta atctcttaat 240 cctgtcagct gaggaggatg tatatcgcct caggaccctg taataattgc attaactgca 300 caaattgtac agcatgtgtg tttgagcaat atgaaatgtg ggcaccttga aaaaagaaca 360 ggataacagc aattgttcag ggaataagag agataacctt aaactctgac tgccggtgag 420 ccaggcagaa cagagccata tttctcttct ttcaaaagca aatgggagaa atatcgctga 480 attctttttc tcagcatgga acatccctga gaaagagaat gcgcacctrg gggtaggtct 540 ctgaactggc ccccctgggc gtngcctgtc tcttatggtc gagactgcag rggtgaaata 600 gactccagtc tcccatagcg ctcccaggct tattaggaag aggaaattcc cgcctaataa 660 attttggtca gaccggttga tctcaaaacc ctgtctcctg ataagatgtt atcaatgaca 720 atggtgcccg aaacttcatt agcaatttta atttcgcctc ggtcctgtgg tcctgtgatc 780 tcgccctgcc tccacttgcc ttgtgatatt ctattaccyt gttaagtact tgatgtctgt 840 cacccacacc tattcgcaca ctccctcccc ttttgaaaat ccctaataaa aacttgctgg 900 tttttgtggc ttgtggggca tcacggatcc taccaacgtg tgatgtctcc cccggatgcc 960 cagctttaaa atttctctct tttgtactct gtccctttat ttctcaagcc agccgacgct 1020 tagggaaaat agaaaagaac ctacgtgatt atcggggcag gtcccccgat a 1071 // ID HERV4_I repbase; DNA; HUM; 6539 BP. XX AC . XX DT 01-JUL-2005 (Rel. 10.06, Created) DT 21-JUL-2009 (Rel. 14.08, Last updated, Version 5) XX DE Human endogenous retrovirus HERV4 - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW Internal sequence of human endogenous retrovirus; HERV4_I. XX NM HERV4_I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6539 RA Polavarapu N., Bowen N.J. and Mcdonald J.F.; RT "Consensus sequence of human endogenous retrovirus HERV4."; RL Repbase Reports 5(6), 147-147 (2005). XX RN [2] RP 1-6539 RA Smit A.F.A.; RT "Consensus."; RL Direct Submission to Repbase Update (21-JUL-2009). XX DR [1] (Consensus) XX CC LTRs of the element are deposited as HERV4_LTR in repbase. CC There is ~8-10% divergence between HERV4 elements and their CC consensus sequence.The HERV4 consensus sequence encodes CC reverse transcriptase, RNase H, integrase proteins. Pol CC proteins are 40% identical to baboon endogenous retrovirus. CC HERV4 intra-element LTR identity is 82% to 90%. XX FH Key Location/Qualifiers FT CDS 956..2509 FT /product="HERV4_I_1p" FT /translation="MGNSPSIPPDSTMGNSPSIPPDSPLGYILHHWNQFDP FT DNLKRKRMIFFCNTVWPHYELPSPEQWAVNGSLNYDTILQLDLFCKRQGKW FT SEIPYVQAFMALYQNLTICETPRTRPPKESPKAELDIIDDPLLQGPPVSQG FT EQQPPPYSPLPSAPEAKTQEQTPGTLLSPPHTRRGTPYSTLPPALLPLREV FT AGAEGPVLVQAPFSITDIQQCKEKLGSYSENPRKFADGFQTLTLAFDLSWR FT DVQFILATCCTPSEKERIFEAARREADXLFARNPQGNHPGPDTVPTTDPNW FT DYNTPVGMNNRAKFLEALLGGMRKGITKAVNYDKVREVTQGKEENPAMFYG FT RLEEAFKKYTNLDPSSPEGKILMAQHFISQSAPDIRRKLQKLQMGPQTNQN FT QLLDTAFMVYNNRDLEEGKREQSKEKRQAKIMAAIIGDALNAQRASKGNPK FT GHKDNASKGSCFKCKKTGHWAKDCTKPPPGPCRQCEGTSYDPWHWRIDCPR FT SHRGAQSGKTLAVQKEELDED*" FT CDS 2591..6055 FT /product="HERV4_I_2p" FT /translation="MGTQIQFLFDTGANYSVLTAYAGKLSSRSTSVMGMEG FT KPQTRFFTPPLICQFEKQIFQQEFLVVPSCPVPLLGRDIMVKIGALLQFKH FT HPVKLLIVKNTDNVPDHINKQVNPLAWYTGKPGKAKTAVPVKIQLKDPSYF FT PNRKQYPIKXEARKGLAPIVEVLLTHGLLKPCNSPCNTPILPVLKPSGEYR FT LVQDLRIINEAVIPVHPLVADPYTLLAQVPGDAKWFSVLDLKDAFFSIPLA FT PESQYLFAFEWENPNTREKQQYTWTVLPQGFRDSPHFFARALERDLRDLQL FT ENGSILQYVDDLLVCSPTQEASDQNTIKTLNFLADRGYKVSKKKAQITLQW FT VQYLGYVLTPGARQISPERVQAICGLGPPHTKQQLRSFWGMAGFCRIWVPN FT FGLIAKPLYEATRGPENELMEWTPEMREAFAKLKQALTQAPALGIPDLTKP FT FSLYVAEKKGIAVGVLAQKLGSEPRPTAYFSKKLDGVASGWPSCLRAIAAT FT AMLVEEATKITLGQPLEVLTPHQVKSVLEIKGHIWMTGERLTKYQAMLLDN FT PDVTLKTCNTLNPASLLPTGPITDHSCEQVIAHTYVSRPDLKDQPLPDSED FT DWFTDGSSFVSNGEHWAGYAVVNHNTIIEAQPLPPGTSAQKAEIIALTRAL FT MLGQGKKLNIYTDSKYAFLVVHAHATIWKERGLLTSKHSPIKHGPEILQLL FT EAIHLPKAVAIIHCRGHQRDLTPIAQGNRKADREAKAAALRVQSQQILALL FT PFYDSPIEPEYTLQEEQLIKEQGGQKQGSWWYMGSKIYLPQTAQWRVIKTL FT HDSFHVGRDATLAMVNRLFTGPNLASVAKQVCQACSLCALNNPGNKMPPLI FT EPVQRRGTYPGEDWQLDFTHMPACRGYKFLLVLIDTFTGWVEAYPTRTEKA FT NEVIKFLLKEIIPRFGLPQSLQSDNGPSFISQITQGVAKALGIKYYLHSAW FT RPQSSGKVERANQTLKRALAKLCQETSETWVSLLPIALLRIRNTPRAKINI FT SPYEMLYGRPFLTNDLITDPETAGLVKYLVNLGQFQQALQKFGTQRLPTPG FT TNQQPKIRPGDKVLVKTWKEGSPAQQLQPKWKGPFSVVLAMPSVVKVLGLD FT SWIHLSRIKPAIPEAPDXEPEVPISHYTCEPVEDLKYLFRRQPKDK*" XX SQ Sequence 6539 BP; 1882 A; 1652 C; 1481 G; 1514 T; 10 other; tattttggcg agccagccag gaggtaggcc caaagtttgg gatttatttt tctctttttc 60 ctctttctct ctctcttttc ctttccaact cgggaccctc ggtggacagc gcctaagcac 120 ggaggcaact gcaggtttct ggccagggcc actctctggt gaaactgaaa ggtttccatg 180 tggaagcgcc tgaccgccac cgcccggttc gggtgaggga cctgagtcct tttctttttc 240 agtctttcag cggccgtttc ctagtagctc cttggtaatt gagggcaact ggccggggcc 300 actctccggt gttncctgaa ggccaaggag tgaacgggga tggctgccct gcccggaagg 360 gggaaggact cttttctatc ttttccggtt atagtccctg atccctacgt gtgacgcaat 420 tggcagtggc agctcgtcca gggcgaactc acacacgttt caggcgactt aaaccttctt 480 tccttatgct aaattcttcc cttcccctac tcgactggct aaggacaagt cagagggtcc 540 gggcatgtcg tagatggtct gtgtgagtca tggggagggg attcatgaaa gggaatttat 600 gtacaattta atcttgccta aatttagaga gttaaagggt tgctttaagt gggataggaa 660 aaaaaatcca aaggtttgnc tgaaagttaa ttctagaagt cgaggccttc atccagggac 720 aagagggaaa gttcacagtg ggtcatcagt ggtggaggga accattccaa agcggtgccg 780 gcacccatct aaggtcagag acgtctgaca gactaagncg gggccctaaa ggggggacgc 840 ccccggggac cccagtcngg gcccagaatt tttccagggg gatgccccgg gtaaaatttg 900 ggtcacctaa tgagccctcc acttttcaaa gtcctcttct cttttccaga ccactatggg 960 caactctcca tctattccac ctgattccac tatgggcaac tctccatcta ttccacctga 1020 ttccccgctt ggctacatcc tccaccattg gaatcaattt gaccctgaca atctaaagag 1080 aaaacgtatg atttttttct gcaatactgt ctggccccat tatgagctgc ccagcccgga 1140 acaatgggca gtcaatggta gccttaatta tgacaccatc ctgcaattag acctattttg 1200 caagaggcag ggcaaatggt cagaaatccc atatgtacag gccttcatgg ccctatacca 1260 aaacctaaca atctgcgaaa ctcccagaac ccgcccccca aaggaaagtc ctaaggcaga 1320 actagatatt atagatgacc cccttttaca agggccacct gtctctcagg gtgaacagca 1380 accgccccca tatagcccct tgccaagtgc tcctgaggct aaaacccagg agcaaacacc 1440 ggggacccta ctaagtcccc ctcacactcg gaggggaaca ccgtattcaa ctctccctcc 1500 agccctgcta ccccttaggg aagtagcagg agccgagggg ccagtcctag tgcaggcccc 1560 cttctctata actgatatac aacaatgtaa ggaaaagcta ggaagctatt ctgagaatcc 1620 caggaaattt gcagatgggt tccaaacttt gaccttagcc tttgatctct catggagaga 1680 tgttcaattc attctagcaa cctgttgcac cccctcggaa aaggaacgaa tctttgaggc 1740 cgcccgccgg gaagcggacg anttattcgc ccgaaaccct cagggcaatc acccgggccc 1800 agacacagtc cccactactg atcctaattg ggactataac acccccgtgg gaatgaacaa 1860 ccgggctaaa tttcttgagg ctctccttgg aggaatgaga aagggaataa ctaaggcagt 1920 aaattatgat aaagtaaggg aggttacaca aggcaaggag gaaaatccag ccatgtttta 1980 tggcaggctg gaggaagcct ttaaaaaata tactaatctg gacccttcct ctcccgaagg 2040 caaaatatta atggcacagc atttcattag ccaatccgcc ccagacatta gacgtaagct 2100 ccaaaagcta cagatggggc cacaaactaa tcaaaatcag cttcttgata ccgcctttat 2160 ggtgtataac aatcgtgacc tggaggaagg aaaaagggaa cagagtaaag aaaaacggca 2220 agccaaaatt atggcagcca tcattggcga tgccctgaat gcccaaagag cgtccaaggg 2280 aaacccgaag ggccataagg ataatgccag caaaggctct tgcttcaaat gcaagaaaac 2340 tgggcattgg gcaaaggact gtactaagcc cccgccaggc ccctgccgnc aatgcgaggg 2400 caccagttat gacccctggc actggagaat tgactgcccc cgctcccacc gaggggctca 2460 gtcaggcaaa actctagcag tgcaaaagga ggaattagat gaagactgaa ggggcccggg 2520 gtcttcctca ccgcccctgt ccaggaacat cgtaattact actgaggagc cccgggtaac 2580 tctggacgtc atgggcaccc aaattcagtt tctttttgat acaggggcaa attactctgt 2640 ccttactgct tatgcaggaa aactttcctc ccggtccacg agtgttatgg gaatggaagg 2700 aaagccacaa acaagattct ttactcctcc tttgatttgt caatttgaga aacaaatctt 2760 ccaacaggaa tttctagtag taccaagctg cccagtcccc ctgttgggaa gagatattat 2820 ggttaaaata ggggcactac tacaatttaa gcatcaccca gtgaaattgc taatagtcaa 2880 aaatacagac aatgtcccag accacattaa taaacaggtt aacccgctgg catggtatac 2940 tgggaaaccg gggaaggcta aaacagcagt gccagtcaaa atacagctta aagaccccag 3000 ctattttccc aatcgaaaac aatacccaat taagcnggaa gcaagaaaag gcctagcacc 3060 catagttgag gtattactta cccatgggct cttaaaaccc tgcaattctc cctgcaacac 3120 ccccatctta cccgttctaa agccttcggg ggaataccgg ttagtacagg acctcagaat 3180 aattaatgag gctgttatcc ctgtccaccc attggtggcg gatccatata ccctcctggc 3240 tcaggtgcca ggggatgcaa aatggttctc agtcctagac ctaaaagatg ctttcttctc 3300 cattcctctg gccccagagt cccaatacct ttttgccttt gaatgggaaa atcctaatac 3360 cagagaaaaa caacaataca cttggacagt gctccctcag ggctttcggg atagccccca 3420 tttctttgcc cgagccttag agagggatct gagggatctg caattggaga atgggagtat 3480 actccagtat gtggatgacc ttcttgtgtg tagcccaacc caggaggctt ctgaccaaaa 3540 tactataaaa actttgaatt tcctggcaga caggggatac aaagtgtcca aaaagaaggc 3600 tcagattacc ctccaatggg tccaatattt agggtatgtc ttaacacccg gagcccggca 3660 aatatcccca gaacgagtgc aagccatatg tggtttgggg cccccccaca ccaagcagca 3720 gcttcgttct ttttggggaa tggccgggtt ttgcagaata tgggtaccaa attttgggct 3780 catagcaaag cccctatatg aagcaacaag ggggcctgaa aatgagctaa tggaatggac 3840 cccggaaatg agagaagcct ttgccaagct aaaacaggct ctcacccagg ctcccgctct 3900 tggcatccca gacctaacta agcccttctc cttgtatgta gcagagaaga agggcatagc 3960 tgtgggagtg ctagcccaga aattaggatc agaacccaga ccaaccgcct acttttcaaa 4020 gaagttggac ggagtggcct cgggatggcc aagttgcctg cgggcaatag cagccactgc 4080 tatgttagtg gaggaagcca ctaaaatcac cctgggccaa ccactggaag ttctaacccc 4140 ccatcaggta aagtcagtct tagagataaa gggacacatc tggatgacgg gggaaaggtt 4200 aaccaaatac caggccatgc tcctagacaa tccagatgta acccttaaaa cctgtaacac 4260 tttgaatcca gcttcattgc tgcccacagg cccaataact gatcattcct gcgagcaggt 4320 cattgcacac acatatgtta gccggcctga tttaaaagat cagcctctcc cagattctga 4380 ggatgactgg ttcacagacg gcagtagttt tgtgtcaaat ggggagcact gggctggata 4440 tgcagtagta aatcacaaca ccattattga agcccagcca ctgccccctg gcacatcagc 4500 acaaaaggct gaaatcattg ctcttacccg agcattaatg ttgggacaag ggaaaaagct 4560 taacatctat acagattcta aatatgcatt ccttgtggtt catgctcatg ctacaatctg 4620 gaaagaaagg ggactactaa ctagcaaaca ctcccctata aagcatgggc ctgaaattct 4680 tcagctattg gaagcaatac acctgccaaa ggccgtagct ataatccatt gtagggggca 4740 tcaaagggac ttaaccccta tagcacaagg gaacagaaag gctgatagag aagccaaagc 4800 cgcagccctc agggtgcaat cccaacagat cctagcactg cttcctttct atgattcccc 4860 aatagaacct gaatacacac tacaggaaga acagttaata aaggagcaag ggggacaaaa 4920 acaaggatcc tggtggtata tgggatcaaa aatatatctc cctcaaacag cccagtggag 4980 agttataaaa accctgcatg actctttcca tgtggggaga gatgccaccc tggccatggt 5040 naacaggctc ttcactgggc ctaacttagc ttcggtggct aagcaggtct gtcaagcctg 5100 ctcactgtgt gcacttaaca acccaggaaa caaaatgcct cctctaatag aaccagtcca 5160 gaggagagga acttacccag gggaagactg gcaattagac ttcacccata tgccagcttg 5220 cagaggatac aagtttttgt tagtgctaat agataccttt actggttggg tcgaagctta 5280 ccctaccaga acagagaagg ctaatgaggt tataaagttt ctcttaaaag aaataatccc 5340 ccggtttggg ttacctcaga gcctccaaag tgataatggc ccgtccttta tctcccaaat 5400 aactcaaggg gttgctaagg ctctcggaat caaatactat ttacattcag catggaggcc 5460 tcaatcctcc gggaaagtag aaagggctaa ccaaactcta aaacgagcgt tagctaagct 5520 atgtcaggaa acatcagaaa cttgggtcag cttactgccc atagccctct taaggatccg 5580 taatacccct agagcaaaaa ttaatataag cccatatgaa atgttatacg gaaggccatt 5640 cttaactaat gatttaatta ctgatccaga aacagccggt ttagtaaaat acctagttaa 5700 cctaggacaa tttcagcagg ctttacaaaa gtttggaact caaaggctcc ccacaccggg 5760 aactaaccag caacccaaaa tcaggccagg agataaggta cttgttaaaa catggaagga 5820 gggatcacct gctcaacaat tacaacccaa atggaaggga ccgttttcag tggtactggc 5880 catgccttct gtggtcaaag tactaggatt agatagttgg atacatcttt caaggatcaa 5940 gcctgcgata cctgaagccc cggaccngga acctgaagtt cccatcagcc actacacctg 6000 tgaacctgtg gaagacctga agtacctgtt tagaagacag ccaaaagata agtaaatgcc 6060 taccaacttt ccttggtgtc tttgttgcat agttactgta ggctggataa tagtagccat 6120 ttttaatttt atttttgcag tttaattgcc ttcttccaaa tggatggaat cacttccttt 6180 gtagtaatta agcagaatgt tttaattcat ttctataaca aacattcctg acagcatagg 6240 tatccacccc ctgaagttcc cattaaatct tttaaccaaa ttcatttcct ctcgcctaga 6300 gaccatcaag cttcagatga tcatgcgaca aggtttccag ccagttccag gtgaagacac 6360 cacccccggc catcaagaag ctaccctgtc tccactagac agagcagggn gagagttccg 6420 tgatccccaa taggtaggga ctacgcccca agtcagcatg aagcagttac agaagaaaga 6480 ccatcagtcc ctctgcctcc cataaagatt tatggggatc acgtctctca ggggggaga 6539 // ID MER68C repbase; DNA; HUM; 419 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 27-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MER68C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-419 RA Jurka J.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 949-949 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 419 BP; 93 A; 102 C; 103 G; 121 T; 0 other; tgatttgcac ctggtctcag tgagaccccc gagagggctc tgccattggg gctggttacg 60 tagcaagaat atgcctacgt gaccagcagg atataagaag taaaacccca gctgagactc 120 cattttgggc tccctggttc cgaggtgttc tgtgcacaca tcagtggttc ctgatccgag 180 agagaaagtg catcctgcca tggcccttac agagggaaga aaattggagc tcgcacctgg 240 cctctccgga ccccttgctg tgaggcagcc tttggctgtg atgcatatcc ttactttaat 300 gctgttgcta tattgtatcc ttttcctgca ataaactgta gatttgtaag cattgtcatt 360 ttgggtcctg tgagtcttct ttagcaatcg aaccctgttt aactgccact attagtgca 419 // ID L1MEA_5 repbase; DNA; HUM; 1089 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate L1MEA_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1MEA_5; KW LINE1 repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1089 RA Smit A.F.; RT "L1MEA_5."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC 5' end of LINE elements with L1ME1-2 subfamily 3' ends, CC comprising CC the 5'UTR and part of ORF1 (from pos. 612). Average divergence CC from CC consensus 26%. XX SQ Sequence 1089 BP; 438 A; 208 C; 229 G; 194 T; 20 other; cagacttccg attccggtaa tggtggagta agcccctacc ggaccaaccc tcccgcagaa 60 aacaactata aaacctggac aaaatacaaa aaacaactac ttgaaggcac tggagagtga 120 acaaaagcag gcagaaactg gaggggagtc gacacttgga agaagggagc wgcacggagt 180 gagttcccat ttctgtggct tttagcctga gagcaggccg cagttggtgc ggcgtacaga 240 tggctaaaac wtcagtagaa aacccgcggt ctttctggcc tggagaacca gagaantgaa 300 tctagggcaa ccacagccac tggaaagagt ggggaaaatc ccggaaagga gagagccaga 360 gagaggatcc ccaaattctg tgtataaact ctgcccaaat ctctggctga cccctgaacc 420 acgcatgcgc ggagcagact caaagcagcc cagctaaaga caaaagatct gaactgagac 480 tggagctgcc gcccaagaaa cagagtttgc agttcgagtc cagccaagat aactgcctac 540 taaaacaaaa gaaacaacac tcattagaga aaaataacag aatccagaat ctccacaatk 600 taacattcat gatgtccagg atacaatccc aaaattatac macataagaa gaaacagraa 660 aaatggaatn catccttaag agaaaagaaa atcaaatccg accctgagat raaccagatg 720 ttggaattaa cagacaagga ttttaaagca rctattataa ctatnttcaa tgaaataaaa 780 caaaatatgc tcacaatgaa taaaaggata ggaaatctca gcagagaaat agaaacgata 840 aaaagaacca aatggaaatt ctagaamtga aaaatataat atctgaaaca aaaaattcac 900 tgaatagact taacagcaga atggagatga cagaggaaag agtaagtgaa cttaaagata 960 gatcaataga agttatacaa tgtgaagagc agagagaaaa awnatttawa aaaaaagwgm 1020 akagtctcac aaacatgttc gacaatatca aatggtcnaa catanatgta attggaatcm 1080 cagaaggag 1089 // ID L1PBB_5 repbase; DNA; HUM; 945 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 1) XX DE Primate L1PBB_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; IN25; KW L1 repeat; L1PBB_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-847 RA Jurka J. and Kapitonov V.V.; RT "L1PBB_5."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-945 RA Smit A.F.; RT "L1PBB_5."; RL Direct Submission to Repbase Update (1997). XX CC Consensus of an insertion just upstream of ORF1 in L1PBa (at pos. CC 1620-1621). XX SQ Sequence 945 BP; 281 A; 258 C; 204 G; 180 T; 22 other; kggtgggaag tttctttcag cagaggcaca gktgcagtgc tgggctcagt ggggaaagtc 60 tgcgcctcta ccccaacagt caggcagccc tggtgmttgt gaagggtctt ggagaaggga 120 ttccttctcc ccctcaccca ccactgcaga cacagctggg gcttctccca caggaackca 180 gcatgggtgc acctatagac agcctttctg gaacaattca gggtgantgc atccccacag 240 gaggagcgcc ctccaggttc aggcttgcac gagaggcaga gtcacaattc ctctctactt 300 ggaacatcaa cattcctgca gatgaaaaga ggtgcctgtc tgatctgaat agctggaaca 360 ctgggacagg agtgwggctg kgaggtggat mgctttcctg ctggcctggc aggggagctg 420 aggtggctcc cacccttcmc cctgaaaaaa cctcagcgca tctmactgag agctccccca 480 gccaccyccg tcaaggctgg gacctctgcc caccattggg tattaaatct acccacctgc 540 tttagccaca rctggtkyyt acccakggay acctccctta ctggcctgaa gcctgaaccg 600 tcaacccagt aaataaaata ctggggaaaa attaaataaa taaataaata aagtgcacac 660 cactggggaa cgagataagc ttcaagagac ctctgccatt ccaaccccac aggagacagt 720 gaacycgctc acacaccaag cacattacta ctacaaccag catctgagaa agccakcaca 780 caaagactct ctataaccaa ggaactcata cagagtcttc acccctgaaa gcacccagaa 840 ccaaattagg ctacaataaa ctatawwcat taaagtcaca tcctcaaggg gaaaaaaaat 900 taaaaagcac agtccaatca aaaataaatt caaaaataat twgaa 945 // ID L1M2A1_5 repbase; DNA; HUM; 1842 BP. XX AC . XX DT 22-DEC-2000 (Rel. 5.11, Created) DT 26-FEB-2001 (Rel. 6.01, Last updated, Version 2) XX DE 5' end of the primate L1M2A1_5 sequences - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M2A1_5; L1M2_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1338 RA Jurka J.; RT "L1M2A1_5."; RL Direct Submission to Repbase Update (DEC-2000). XX RN [2] RP 1-1842 RA Jurka J.; RT "L1M2A1_5."; RL Direct Submission to Repbase Update (FEB-2001). XX DR [2] (Consensus) XX CC This sequence is distantly similar to L1M2_5, except at CC positions ~505-1320 where similarity is less obvious CC due to multiple internal duplications of a gc-rich region. XX SQ Sequence 1842 BP; 467 A; 554 C; 466 G; 347 T; 8 other; atcaagatgg ctgactagat gcaggtagta tgtgcctcct ccatggagag gaaccagaat 60 agttaagtag atactcacat ttyraacaga tcgtctagga gagaatgcta ggattcacca 120 gagaagagay aggaagcacc agaagtaagt aaggagaggg tttgaggcag cttgcccagc 180 caggaactga ctgagagctg ggagaggctc ctggatgtgg ggaaacagta agagagaaac 240 ccccagggct ccacactctg aaayaggctt ttatgatctt ggctatggga gaaacccttg 300 acccactagg gcctcgggcc tgacatatgg agctgcctaa agattgcaca gagacattgc 360 tccagaaagg gaacccacac agaatcccac aggcatctga gcctggagca gcctcagctg 420 ggtgccattt tgagagccta gataccaggg atctacagac atggctgcag ccactgcact 480 gctccaagga gggagagggg agaccaggca ctcccatgca cccctaggag ggtacctgct 540 gccctgctat gggctgctgt gagactgaga catgagtnga ccacactccc cacagcttct 600 tgcccatgct gcttgcctgg gaggtgcccc accctctctg gntcccaggc ccaaggtgnn 660 tgccattttg agagtttaat gctgggctgc accccaccct tggcctgagt ttgggctgac 720 gtggctgcag ctgccaccca gccaaggagg gacagggaaa ccaggctctc ctatgcatat 780 ctaggacaat acccactgcc ctgcaatggg ctgctgtgag actgagatgt gagtggacca 840 cactccccac agcttcttgc ccatgctgct tgcctgggag gggccccacc ctctctggtc 900 ccaggcccaa ggtgccattt tgagagttta atgctgggct gtgccccacc cttgggctga 960 gtttgagctg acatggctgc agctgctgcc cagccaagga gggacaggga aaccaggctc 1020 tcctatgcat acctaggaca atacccactg ccctgctatg ggctgctgtg agactgagac 1080 ttgagtagac cacactcccc acagcttctt gcccatgctg cttacctgag aggggccccc 1140 accctctctg gtcacaagcc cacagctggc accattttga gagtttaatg ctgggctgtg 1200 ccccaccctt gggctgagtt tgaggtgatg tggctgcagc tgccacccag ctaggggagg 1260 gacaggggag accaagctct cctaagcaca cttaggacaa tacccactgc cctgctacag 1320 gtggctgtgg gactggggac tagcccaccc aacccatcac agcttccagc aacaccaaca 1380 tggactgctt gggtcccagt gggttgctcc accactgcta ctgccatcac ccacatcaca 1440 ccagctgccc aggggcctga gaacctgccc acacacctgg cccaccactc ccactactag 1500 cttctaagca agccacctgg aggcccaaga atcagccctc caggacccac taacaccaga 1560 gccagtgtaa gctgctctgg ggcctaaaaa caggcacact caccccactg ctgccaccac 1620 tggggcctaa agactggctc agttggcgtc caagtcccca gcaaaacttc accacaacct 1680 caactaataa ctgtacccta agccactgag gaaatcacag ataccactga ccctgtgtac 1740 tgccaaagaa gtcatacaaa gatcacacta ccacaggcac ccaaaatcaa agccaaagta 1800 tcctaactca atcaacaaca tatatacatc ttcaggaaaa aa 1842 // ID LTR27C repbase; DNA; HUM; 767 BP. XX AC . XX DT 11-AUG-2008 (Rel. 13.09, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR27; LTR28; KW LTR27C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-767 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Direct Submission to Repbase Update (11-AUG-2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 767 BP; 172 A; 225 C; 189 G; 170 T; 11 other; tgatagtggc aggaggcaga caaatcccta ggcagacagg ggcaggtccc trgtgaaacc 60 ccaccttcaa accaaagaca gtttaaagcc tgaaagccaa gctacaagtc ttagataaat 120 ccacggactg gattgagaac ctctcttcct rtttggtgtg ctttcctctg attgatctcc 180 cacccttcac ctattttaca tatacctacc cttccctaat tgggyttttt tacactgtca 240 tgcccacctt tgagtggtgc ctttgtttta gccttttttt gcatactcac aaaccaatca 300 gcacrcactc ccccattctg agcccataaa agccccrgac tcagccacac tgggggagac 360 cgaccacccg acttcgggtg ggggaccacc cttgtgtccc ctctctgctg agagctgttc 420 tgtcactcaa taaaattctt ctccaccctc ctcacccttc aattgtcagc gtaacctcat 480 tcttcttgga tgcrggacaa gaactcrgga cccgccgaat gtrggtacaa aaaaggctgt 540 aacacaggtg ggctggggca tgcccggccc agccacaggc tgagtgcgga ycctgtrgtg 600 agcatgggat ccagaccagt gcacaagcca ggcatggccc agtgggccga gtgggcaggg 660 tgcctcctgc agcawggctg ggggccgagc gaggcctggg tgggggcgtc gctggccacc 720 agtggaggtc cccagctggc aaagtgactg agaaaaatcc tgcatca 767 // ID HERV52I repbase; DNA; HUM; 3556 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE HERV52I is an internal sequence of retrovirus-like element HERV52 DE - a consensus. XX KW Endogenous Retrovirus; Transposable Element; ERVL type; HERV52; KW HERV52I; Internal sequence of retrovirus-like element; LTR52. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-3556 RA Smit A.F.; RT "HERV52I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of retrovirus-like element with LTR52 LTRs. CC Pos 1049-3493 is 85% similar to pos 1127-3262 of the HERVL74 CC consensus CC Despite shaky consensus, the element appears to have been non- CC autonomous, as part of the pol gene is missing. CC Average divergence from consensus 20%. XX SQ Sequence 3556 BP; 994 A; 893 C; 704 G; 885 T; 80 other; actggcacag tgagcaggat gtctaggcga tgaccaccac cacctggggg tctttcttct 60 cttgctttgg cttgctaact ggctctgctg cctgntggcn agcatgcact ttgagctgct 120 gcctgctggc tagcttgcac tttgagctgt gctgctttgt gctgcatttg ctgagtccta 180 ccgagcctct gttatagatt taaccgacct aagtcagaag tttnaataat tgacatttag 240 agacaggagt atgggattgg ggccctcctt aaagtggccc tgggtcgtgc gtcttggccc 300 ggacctatct gtgtgtctta gattgaatca tgtgtctcga ttccagcata agccgtgact 360 gacgctaggc tcaggggaan gacncttntg ccctgtgacc gttggttgtt atgtctcaac 420 caggcattgg cccccattct atagagtgct caggggaaag actgataccc tgtgcaatat 480 atgggcccac cgggtggtcg ctcatgtgga ggaagagcag tcactatttg gaatgttggg 540 gtccacactc cnaaaagcag atggctcact aggactctac aaaatgcctt tgctgctgct 600 gctactatgt ctctgtcatn taaaaagatn ctgatcctca gggtttaggg agaagcactc 660 catggcacac ccttataaaa cagncccaaa tgcttaccct atccttaaag gccagaggac 720 accatcgccc tatggaaact atgaaggacc acaaagatgg gtttaatcga gtgctgcaac 780 ttgcaacatg ccaagggatt aattcaaatc cgactgtaag cccagggtcc ttaaacccaa 840 taaagcaacc attgccatga gggaggcccc taaccctgat gatactgatt tgaggctctc 900 tggaggaaga aacttataaa tatgagtagg gtagagagga ctccctcccc ctgaagnata 960 tccagtaact cacccaaaaa caaaacgaaa actttgacaa gaggnnaagg aaacaaaaac 1020 tatgatttga ccaattggaa tccgaattta ctaaaaaact ataaaaaaaa agataaaaag 1080 ggtnctgatt ggcttttgta cctctacaac ataggttcta aattaacttt aacaatgctg 1140 acatgcgcca attggcaaac cttcatggcc ttaatcaaca ctggggctca aattacagtt 1200 atacctgggg atcgctgaaa tttaaacaag gtaccccgca tagtccaggg nggtgaactc 1260 gaaagacata aaacaaaagg cagacaagna tgcctcacct taaccactgg aactattgcn 1320 ttgcctaaat tccccatagt catagcgccc attgccctaa aatattccat agtgggcatg 1380 aatactctga cctaacgagt aataaacnga aataaaatta agtctttggc acttacaatc 1440 ggcttaacaa aatgggaccc catggacctt gctctcncag ttaaaatagt taanatggcc 1500 caatatanat taaaacaaga cctacaggaa ttaagaccca ttatacaaga cctatttana 1560 gaaggggcga tcgtccccac tntttctcca tttaatagtc caatttggcc ngtnctcaaa 1620 cctggnaaga atgaatggca cctaacggtg gattaccaca accttaatgc tgcggtncca 1680 ccgattaagg ctcccatacc tgatatgcta ctaaaattac tgactccatc caatcagcaa 1740 ctggnaaata ctttgctatt gtanatttgg ctaatatgtt ctattnagtn cctgtttcaa 1800 cagcctctca gcccagtttg ccttcacctt cgaagggaca caatatancc ttacctgact 1860 acccatgggg catcccaaca gncctgccat cgtacacaat cttcgctgtn naagatctta 1920 accacatcca actttctcca ggaacacagg tatgatatta natagatgac atcctcctcc 1980 aaggagattc atttaacaca ctcataccag acctaaaaat actcacanat gnagctctca 2040 taaaaanana tgggccattg attcacacga agtacagaat ttngacagnt aagtnaacca 2100 ttcnaactaa ttattggtca gcccatgaca tgctccatgt tctatcccta acactgcnca 2160 ggaagcacaa tactcaggca ntctttaata ttgaattaat tgaanttgna ctgttaggaa 2220 atccttgttg ctcttagcat cccgatgaac aagcccaaca tcttttagga ctctgngggt 2280 tctgaaggca gcatattcct catttacaaa ttttacttaa gcccatttat gctgctactt 2340 acaaactggc ccaccttgaa tggggtcccc tataacaaaa ggctctagaa tctgttcaaa 2400 ttgcaatcca taggcactgt tgttagtgcc ccccagagat tccttcactg tagaggcttt 2460 agcaacctcc tctcatgcct cctggagtct ctggaccacc tatgatggcc ataagttgcc 2520 cgtgggtttc tgatgcaaga aactgccctc ctcagcccca tgctacacac cattngagtg 2580 acagctgctg gccgcatact gggctcttct ggaaacggag gctctcacgg nccctgagcc 2640 cgtgactctc tgcacctagc tgcccattat gccttgggtc atggaagcng caccctgaaa 2700 actcgncatg gctncagagg cctccttact aaaatgaaaa tagtatttac agaatggagt 2760 caaacctggg ccccctggca tatccnacct gcaggaggna atggcctccc ctgtcctcag 2820 tcccttgcca gacgcnatgg tgctgaagga ggtcacccct ctcccggacc cnttggctac 2880 ctggggagcc ccttgggatc aaccgagtaa ncagcaaagg ganttcatac actttatgga 2940 tggcagtgcc accatngcaa gtgatggagc ctctagtgga gtgttgctgc tntccatccc 3000 ctaaccggga catccctgat naaggacggg acccaagggt cagcacaatt ggccgaactt 3060 cangcagtca tcttagcact aaggatgccc tgnccgacaa ncggccctat ctgtacattt 3120 ttacagactc ttgggccatt gccaatnatc tggtcanctg gtctgaccaa tggcaacaac 3180 agttccttat ccaaggtccc cnctttgggg taaaaaaaat ctctggaaat ttcttgcctc 3240 acagataccc aaaatataaa tnaangtcac acatatntct gcncacacta aagccanaat 3300 acaaggcctc accaagacac ttcttatccc cttcagagtt ccaganatta ttgatggtga 3360 ccaaggcatt catttcactt ctcaaaatac acancgntgg ncttttgaag aaggcattca 3420 acggaacttt cacctccctt actggcctca ngctgcaggc ctcatagagt accataacgg 3480 cttatttaaa caagttcaaa ttcaattnaa taagacatgg cacatttcag tcatccatca 3540 aacatcaggg gtgaat 3556 // ID MER57C2 repbase; DNA; HUM; 434 BP. XX AC . XX DT 22-MAY-2008 (Rel. 13.05, Created) DT 22-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER57C2. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-434 RA Smit A.F.; RT "MER57C2 - a subfamily of endogenous retroviruses from placental RT mammals."; RL Direct Submission to Repbase Update (22-MAY-2007). XX DR [1] (Consensus) XX SQ Sequence 434 BP; 125 A; 108 C; 70 G; 130 T; 1 other; tgttaaatta aattaaattt ggcctaaagc tgcctccgta ctttgaatcc ctacatagcg 60 aactgcaacc taanttagta tgtaaacaaa ctgcaaccta acttaagagt atattcttgt 120 aacaaatagc tgagtctcag ccaatcacag cagccgagct tcagccaatc acaggctgcc 180 aactgatcag accatgtcca tataaggcaa atgcctcatc acaccatgcc caaataaggc 240 aaatgctgag ctgtaaccaa tcaagctgtt tctgtacgtc acttcctttt tctgtctata 300 aatactgcct gcccacgttg ctgggtggag ctctctgaac ctctcctggt tctgagtgct 360 gcccgattca tgaatcgttc tttgctcaaa taaactctgc taaatttaat ttgtctaaag 420 tttttctttt aaca 434 // ID L1ME_ORF2 repbase; DNA; HUM; 3285 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 2) XX DE Primate L1ME LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1ME subfamily; KW L1ME_ORF2; LINE1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-328 RA Smit A.F.; RT "L1ME_ORF2."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 329-1639 RA Jurka J.; RT "L1ME_ORF2."; RL Direct Submission to Repbase Update (JUL-1999). XX CC L1ME_ORF2 is a consensus of the ORF2 region of the ancient LINE1 CC elements with L1ME subfamily 3' UTRs. XX SQ Sequence 3285 BP; 1507 A; 533 C; 470 G; 717 T; 58 other; atggcagacn taaancctaa catatcaatr mttacattaa atgtaaatgg attaaacact 60 ccaatcaaaa gatacagatt gtcagagtgg ataaaaaaac aacacccaac aatatacwgc 120 ctatmagaga cacaccttaa atataaagac acasataggt tgaaartaaa agaatggaaa 180 aagatatacc atgcaaatwg taaccaagag aaagccggag tggctatatt aatatcagac 240 aaagtagact ttaaaccaag aaatattact agagataaag agggacattt cataatgata 300 aaagggtcaa tctatcagaa agacataaca atcctaaata tatatgcacc caanatcaga 360 gcaccaaaat acataaagca aatactaata gaactgaaaa gagaaataga caaatccaca 420 ataatagttg gagacttcaa taccccactg tcagtaattg atagatcaac tagacagaaa 480 atcaataagg atatagaaga cttgaacaac actatcaacc aactggacct aattgacata 540 ttatagaaca ctccacccaa caacagcaga atacacattc ttytcaagtg cacatggaac 600 attcaccaag atagaccata tgctrggcca taaaacaagt ctcaataaat ttaaaaaaat 660 tgaaatyata caaagtatgt tctctgacca caatggaata aaawtagaaa tcaataacaa 720 aaagatactc tggaaaatnc acaaatactt ggaaattaaa caacatactt ctaaataact 780 catgggtcaa agaagaaatc aaaagagaaa ttaaaaaata ttttgaaata aatgaaaatg 840 aaaayacaac atatcaaaaa tttatgggat gcagctaaag cagtgcttag agggaaattt 900 atagcattaa atgcctatat taaaaaagaa gaaagatctc aaatcaataa cctaagtttc 960 caccttaaga aactagaaaa agaagagcaa attaaaccca aagtaagcag aagaaaggaa 1020 ataataaaga ttagagcaga aataaatgaa atagaaaaca gaaaaacaat agaaaaaatc 1080 aataaaacca aaagttggtt ctttgaaaag ataaaattga caaaccttta gctagactaa 1140 aaaaaagaga gaagacacaa attactaata natcagaaat gaaagaggag ayattactac 1200 agatyctaca gaaataaaaa ggataataag agaatactat gaacaacttt atgccaataa 1260 atttgataac ctagatgaaa tggacaaatt ccttgaaaca cacaaactac caaaactgac 1320 tcaagaagaa atagaaaatc tgaatagacc tataactatt aaagaaattg aatcagtaat 1380 taaaaacctt ccaacaaaga aaagtccagg accagatggc ttcactggtg aattctacca 1440 aacatttaaa gaattaatac caatcctact caaactcttc caaaaaatag aagaggaggg 1500 aatacttcct aactcattct atgaggccag cattaccctg ataccaaaac cagacaaaga 1560 cattacaaga aaagaaaact acagaccaat atccctgatg aacatagatg caaaaatcct 1620 caacaaaata ctagcaaanc aaatccaaca gcacatgaaa aggattatac accatgacca 1680 agtgggattt atcccaggga tgcaaggctg gtttaacata yaaaaatcaa ycaatgtgat 1740 wcactacaty aacagrntaa aggagaaaaa tcatatgatc atctcaatag atgcagaaaa 1800 agcatttgac aaaattcaac atccattcat gataaaaact ctcaataaac taggaataga 1860 aaggaacttc ctcaanataa taaaggnmat atatgacaaa cctacagcta acatcatact 1920 taatggtgaa aaactgaaag cwtttcccct aagatcagga anaagacaag gatgtctact 1980 ctcaccattt ctattcaaca ttgtactgga agtcctagcc agtgcaataa ggcaagagaa 2040 agaaataaaa ggcatacaga ttggaaagga agaagtaaaa ctgtctttat tkgcagatga 2100 catgattttn tatatagaaa atyctaaaga atccacaaaa aaacwactag aactaataaa 2160 taaatttagc aagntcncag gatacaaggt caatatacaa aaatcaattg tatttctata 2220 tactagcaac gaacaatntg aaaatgaaat taagaaaaca atwccattta caatagcatc 2280 aaaaaaataa aatacttagg aataaattta acaaaataya trcaagactt gtacgctgaa 2340 aactacaaaa cattgatgaa agaaattwaa gaagacctaa ataaatggag agatatacca 2400 tgttcatgga ttggaagact caatattgtt aagatgkcaa tactccccaa attgatctat 2460 agattcaata caatcccaat caaaatccca atggtttttt ttgtagaaat tgacaarctg 2520 attctaaaat ttatatggaa atgcaaagga tccagaatag ccaaaacaat tttgagaaag 2580 aagaacaaag ttggaggact cacattacct gatttcaaaa cttactayaa agctacagta 2640 atcaagacag tgtggtattg gtataaggat agacatatag atcaatggaa cagaatagag 2700 aacccagaaa tagacccaca catatatggt caaytaattt ttgacaaagg tgccaaggca 2760 attcaatggg gaaagaatag tcttttcaac aaatggtgct ggaacaactg gatatccata 2820 tgcaaaaaaa tgaasttmga cccctacctc acaccatata caaaaattaa ctcaaaatgg 2880 atyatagacc taaatgtaaa anctaaaact ataaaactyt tagaagaaaa cataggagaa 2940 aatcttcgtg accttgggyt aggcaawgat ttcttagata tgacacmaaa agcacaagca 3000 acaaaaggaa aaattgataa attggacttc atcaaaatta aaaacttctg ctcttcaaaa 3060 gacacyatca agaaaatgaa aagacaagcc acagactggg agaaaatatt tgcaaawcat 3120 atatctgaca aaggacttgt atccagaata tataaagaac tcttacaact caataataaa 3180 aagacaaata acccaattaa aaaatgggca aaggayttga acagacattt cwccagagaa 3240 gatatacaaa tggccaataa gcacatgaaa agatgctcaa catca 3285 // ID MER31_I repbase; DNA; HUM; 4936 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 25-OCT-2008 (Rel. 13.11, Last updated, Version 2) XX DE MER31_I repetitive element - a consensus. XX KW Endogenous Retrovirus; Transposable Element; KW Internal sequence of retrovirus-like element; MER4 group; MER31I; KW MER31_I. XX NM MER31I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-4936 RA Smit A.F.; RT "MER31I."; RL Direct Submission to Repbase Update (30-NOV-1996). XX DR [1] (Consensus) XX CC MER4-type internal sequence, related to MER4i, MER41i, MER57i, CC and CC MER65i. MER31i is flanked by either MER31 or MER67 LTRs. XX SQ Sequence 4936 BP; 1503 A; 944 C; 832 G; 1608 T; 49 other; gttgtggtgc cacaggcctc tgacccagaa cctgaagtat gcacctttga aacctttgtc 60 ttcactcttg gctgactgat cgggaatcca ttggtaagcc caactcttga gccagtgctc 120 cagatggcag tctgttgaag catggtgagg atacattttg attcttaagg tccaggcttc 180 ttttgaaagg tannatacct cctgggctgg aagwttttcc tcctggctct ttgtttcgag 240 tggggattca ctccctgact cctgggctgg magtcttttt ttggccctct gtgaggcctc 300 tctgttctct ctatctgatc cttctcctcc cataggaact tctcagtcga ctgaaacccc 360 tttctcgaac ccctgcwgac tatatgctcc gccaactctg tccacctcct tccttgttgg 420 cacgattttg ctgaggataa tttggaactt cagtggcctc tttgggaaac ttgagatctc 480 cccaaactgg ctcctctaag acctctccct tcccattgcc tctgctcctc cttctgccac 540 cttcgatctt ctcttcagtt tccttgaatc ctttgatatg tcccccttca agcccctacc 600 tcctccaccc ctctatccac ccctgccaga cctttycctt ctcactccag cccctcaact 660 ccctatagtc attagagctt taggcctcct gccmcawcag ggggcgckcg aggggctcag 720 ggacacccaa aagcaaccac ccgaggctga aaaggctarc tggaaacaga ctggatattt 780 tatccactca gatggacttt ggagacatcc agacgtccgc ttggtgtctc ctcagtccct 840 cacctaaaat ttagtccaca gcctctatcg gattacacat cagggcaaag aaaatcttaa 900 aggtctcctc cacaaatatt sgtrgaaagc tttagccctc atgttgagya ggtaacctca 960 acttgtccca tctgccagaa acacaattca gataaaaata taaagtgggg caaagataat 1020 gagccaactc tcttatatta accagtgagt tttgtattwc tgtgtttatg cctgattcat 1080 ggctaaaatt ttagaatkaa agctgtaaga tctctatttg tatctgtctg tatgtttatg 1140 tatgtatgtt atgtatatgt gatatttttc tacctccaga tggtattacc aaattaattt 1200 ataaaatccc ttaaggagct ctattcaaan tgacttagag ataaatgaga cttatataaa 1260 ttaaatattc ctaaaactcc cagaaatata rraactaacc caaatgcttt tcaatttcac 1320 atgatttggg taaatctttg gcaaataaaa ttagtttaat attgttggtt taattaaaaa 1380 agggtatgtc ttctgagtta tcagcattaa atataataca agcatacata tttattctac 1440 ytgggtttag cagtatgtta tctctactaa atatttaaag ttataaaaat tataaattta 1500 acctaagaat gaatgaagaa gtgcagtatc catcacttca tgcatatcaa gcagagcagt 1560 taaacaaaac ccatgtattt aacattttta ggtttttgtt ttgttgatgc ttgcctaaca 1620 tgaacatgct ataaaattag ttaacagaaa aataacttga agtgatgttt tagccttgta 1680 tgatgttata atatnatagc ctaaaaacag tttccaaata tttggtgatg tgaaacctta 1740 gagttatgct aagttaaatt aagtaataga tattcattaa ataactagat catttctaag 1800 gaagataaac tactaaaaca ctactaaatc taagtttatg tttatatact ttttggttct 1860 tatttttata tggtacagag aggctaaaat atattcgagc ctcttaataa acatgaaaaa 1920 ttgtattata aaaagtagnn tatacctnta aaaattatga gatggtatat tcataaaatt 1980 tgctaatgtg cacatacaga atcctggtat atgacagaca gttcacaatt gcctacttcc 2040 cagttttttt ctgtaaaaga aaagttattg atggttaaaa aatattatct atctatctat 2100 atatataatt aaaactacta gaaacaataa gactgaggga aacaactttg tatgcaaaat 2160 atgcnagggt agtaggttag atttttaata aagtatataa aatatgaaaa atgtgttttc 2220 gttaaggaaa aaaagagtaa ttttgtccta aagtaaaatg agtgattgtt caaaatgaga 2280 aaggggaaaa gtgtaggact aaagctaaat anatattttt taaaagttgt aaaagttgtg 2340 gaaaaggaat tttatgtgta gtcaagatgc taatntattt ataaggattt tttaagctca 2400 awtantgtac taatncanaa ctataatttg gtttccgctc tgttgaaagg acaaagtttt 2460 cttaaantat tgtaaaagat ttttctttac cttttnaata attnacctag gaagcaaaga 2520 ttttgtgtct tatcaagata aattccctgt gcttcatgtt gtctttatca tatntttaat 2580 tacttttgaa agcaaatctt ttcaatttta aaaaagctag ggttattttt ctcgagtatg 2640 ttacttccta tatttacctc tggaatcttt tattgccact ttgattaaat ggataaccaa 2700 gtatatttca tagcgacccg taatcctatt taatcaagcg ttcaaacctt ttgacatttt 2760 tgacaaactt cccaaaatca caattttaaa tgaagtcttt ttgacctcca acctaacttt 2820 ganattttcc ggagggcctc tgaaaaatct ctaaagaact tgttctttca ccttgtaaaa 2880 gagagatatt aaactaatta ggcttatttc atatgttaaa ttacatggga agcattgtca 2940 aataagaaat ggtgcttaac cttctttgag ttatatttgt atgggtacct gttattaata 3000 taagtgttcc agaaattgta tgaggttcct aaaaatttgt caataccctt gctcttnatg 3060 atatgtccag cataattatg ttatcagtca taattgcagt tattatgtta aaatgytgta 3120 tgccacagaa mtaaccaaat ttgcttgtca agtgaactct catcagatct ttaaccatga 3180 ctattttaag tcttttgtca ctcacagaca gtttttgttt tactctgatt cttctctgaa 3240 agcatcttac aakcagctac agggcaaagt gcttcatctt caaagaagct catgagaaag 3300 acaggtactc tgaaatataa acctctgata ctttgcagac catgccactg gactgagtaa 3360 gaatttccag acttgaatga agaaactgac gggttcatga aactgctaac ccaagatcaa 3420 gcagaacaag aattaattac atgggactga atnaaccgat gaggatgatt tatagttttt 3480 tatgtttttt gtttgaaaca ttgctggttc tttaatgttt tgttttccag attcaaggaa 3540 actttttctt ttcttttaag ctatctataa cttacagcaa tttggtaaag tatacttttg 3600 tgaacaaaaw tgaaacaatt acttttctct ctacctgatc cctccagaat tcggaaacta 3660 ttagtgagta ttcttatttt catggcaata tagttatttg cataagttca gtaagaatct 3720 gttctccttg taacaggaca caattggaaa cactggttat attaccaagg ctttgactag 3780 aatgtcatat ttgggaatga tgggcataga attagcttta aggaactaaa gttgacttta 3840 tggaaccaat gcttacaaag ccctcttgga aaaatcggcc tggtacctgg cttacasggt 3900 tcccggcctt ncaggtgagt aaggaaagtc actttctggc aggcccaagg acctcaggat 3960 attttgggga cctcaagaag agaggaattc acccaaatct atagatattg caggtgaagt 4020 ctgatggcga aatccttggc ttggcttcat agccttgaga agcttttaaa agnccaatct 4080 gagattcctt attaaaagtt ccagcaaagc aaaccttaaa agagcctatg tggtcagtca 4140 ctattcttgc tgcatttatg taaataatca ggccaagtct aatgagatca gacttatttt 4200 gcaaacaagt tagtcttact ntgattatct ttggtaaaaa ggggagtgag gtgactatag 4260 agagaaattt tatgtttcag tggaaaacta tagcgcaccc attatcagat tctagtcctg 4320 ttcattgttt ttggttttat tatctacctg caaactggac tggatcctga atttttctag 4380 ttttctccaa tatctggcta caactctcca aactaatgtt tccaattttt ctcccaccct 4440 tctggcttgg aatcactgaa aattaaaact gcccttttcc tgaagccctg caagctgaaa 4500 ctggacgact tgatataaac ttcagagaaa tcaccacaac agatcatgtg tgggcagcct 4560 tcatgacacc caaactgcaa accaggaaag cctgccagct gccactgcct acctcactcc 4620 agctgaagat gcttcaagcc cagcatctag aaatcttatt gaccggctgc cctctggact 4680 cagaaactga gtttccaant gttaaccttt gtttttattt tattttcata gaaactaaac 4740 tcccctcatt aaaggcctga tggctcacac catccagsaa atatcctctg ctaccaagtc 4800 ccagcagatg attcagctgg tccttaatga acaaaaggcm acccaacaag aaaatggact 4860 tatattgttc aaaggaaaga agaatgtctc ttctttcctt raacaagagg agggactgac 4920 aaagattctc tgcttg 4936 // ID MARE3 repbase; DNA; HUM; 180 BP. XX AC . XX DT 25-AUG-2006 (Rel. 11.08, Created) DT 01-AUG-2007 (Rel. 12.09, Last updated, Version 3) XX DE Conserved mammalian SINE element. XX KW SINE; Non-LTR Retrotransposon; Transposable Element; SINE_SM; KW CYN-I; Rhin-1; conserved; tRNA; MARE3; CNE. XX NM MARE3. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-180 RA Jurka J.; RT "MARE3: Conserved mammalian SINE element."; RL Repbase Reports 6(8), 432-432 (2006). XX RN [2] RP 1-180 RA Gentles AJ., Wakefield MJ., Kohany O., Gu W., Batzer MA., RA Pollock DD. and Jurka J.; RT "Evolutionary dynamics of transposable elements in the RT short-tailed opossum Monodelphis domestica."; RL Genome Res 17(7), 992-1004 (2007). XX RN [3] RP 1-180 RA Jurka J., Kapitonov V.V., Kohany O. and Jurka MV.; RT "Repetitive sequences in complex genomes: structure and RT evolution."; RL Annu Rev Genomics Hum Genet 8, 241-259 (2007). XX DR [1] (Consensus) XX CC Present in >500 copies in the human genome. Similar to 5'-ends CC of CYN-I, Rhin-1 and SINE_SM. Reconstructed from human genomic CC sequences. tRNA-derived. XX SQ Sequence 180 BP; 54 A; 39 C; 43 G; 42 T; 2 other; gctcagttgg ttagagcata gtgctaatga ggccaaggtc atgggtttaa tccccatatg 60 ggccagttag cttcacacag agaaaaacat tgtgttccct ggctatagac tgcaccccta 120 aycctagcca gctgtttcat aaatgtatgc caytggtcac aagaggaaca agggaaagaa 180 // ID LTR75B repbase; DNA; HUM; 608 BP. XX AC . XX DT 22-JUN-2008 (Rel. 13.06, Created) DT 22-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like element. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; LTR75B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-608 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 665-665 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 608 BP; 118 A; 177 C; 157 G; 156 T; 0 other; tgtagggaac ggctctgcca tggcgccctg gcgaccttgc acatctccac ataggccata 60 taggcaaggc tcgaccgcag tctgacccga gtcttggcgg aataccctgt gattcctcct 120 ggagcaaggg aagataagca gccttgtgag gagctgccac gaggcagttt ctcatctacc 180 tccctatctt gcgggagact gaccacaagg ccatttctca tccatctccc tagtttcagt 240 tgagcacggg actttccacc ttgcaaaccc ccttcccctt agggtacagc tgcagacttc 300 tgtgtctata aaactgcttg gctgtagttt agagttggct cctcaacggc agagtgaccc 360 accgctcgtg ccgtctgtca tctggcccct ctggttcggt gtcatcctgt gtgtgggact 420 agggacgcgg ggagctgaca ccatgctgat cttgcttttg ctgtctgtgt aagtaataaa 480 ctgtctgaat ccatttgggc tcattgtctc cttaccggcc gaatctatgg aagtgtggca 540 agccaaccta gcagctgccc tgttagccac cgcgctgctg cttagggact gcttgaccgc 600 ttgacaca 608 // ID LTR9A1 repbase; DNA; HUM; 728 BP. XX AC . XX DT 11-AUG-2008 (Rel. 13.08, Created) DT 11-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR9A1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-728 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 830-830 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 728 BP; 187 A; 208 C; 157 G; 175 T; 1 other; tgatacagga gctagaaaga aattatttag gcagatagtg agggtaaaag agtcctcggc 60 ggagcttccc ttttaacaaa aagcagcccc caaaatcatt tcttttctaa caaagagcag 120 cctgaaaaat cgagctgcaa acatagataa gcaagctgga agcttgcacg ggtgaatgcc 180 ggcagctgtg ccaatagaaa agggctacct gggggccagg catgttcaac atggaggctc 240 catcttccct tttctttgtc accacgtgta cagtaaagaa acgggcaaca tggcgccggc 300 caggtagaga acccgtctgc ataataaaag attagggtgg gggcggccag mttcttcgcg 360 ccctatgcaa atggcacacc tagtcctaac cagtttttca caccctatgc aaatggcaca 420 cctggtctga ccagtttttc atgccctatg caaatggcac acctggtcca accaatcttt 480 cgtgccctat gtaaatcaga caccgcctcc tcaccagctc atctataaaa ccccctgcat 540 ttcaccgcgg aaccggcaac ccgtttctcc gggacccctc tctctgcagc agagagcttt 600 tctcttctct ttctttcgcc tattaaactt ccgctcttaa cctcactctt tgtgtgtccg 660 cgtcctagtt ttccgtggcc gtgagacaac gaacctcggg tattacccca gacaacgatg 720 ccgcttca 728 // ID HERVP71A_I repbase; DNA; HUM; 7590 BP. XX AC . XX DT 03-OCT-2000 (Rel. 5.09, Created) DT 03-OCT-2000 (Rel. 5.09, Last updated, Version 1) XX DE Internal portion of HERVP71A, an endogenous retrovirus flanked by DE LTR71A - a consensus sequence. XX KW Endogenous Retrovirus; Transposable Element; C/D type; HERVP; KW HERVP71A_I; LTR71A; RNase H; endonuclease; gag; protease; KW reverse transcriptase; tRNA Pro. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7590 RA Kapitonov V.V. and Jurka J.; RT "HERVP71A_I."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC HERVP71A_I is an internal portion of the HERVP71A endogenous CC retrovirus. CC Average similarity between HERVP71A_I copies and the consensus CC sequence CC is 93%. Proviral copies and solo-LTRs are flanked by 5-bp target CC site duplications. LTR was deposited in Repbase Update as LTR71A. CC HERVP71A_I carries 3 ORFs. ORF1 (position 461-2017) encodes CC gagP71A, CC a 518-aa gag-like protein, closely related to gag proteins CC encoded by CC C-type leukemia retroviruses. CC gagP71A: CC MGNRNSRPRGQRKEGAKETPSDIPPDSPLGRMLQVWRDNPRTRDKEKQKMIKYCCFIWPKDPIRKPSVFW CC PKFGSDEDWVCQALILYVNDKTPSSQEEIGYALCWIKELAPMFPLKEEEKEPSKKPSPSEKPWDPLSCLP CC PPYVSQNRGQEDQGAAGGLEEERPGDHGGAEPTAPLNPYPNLRKELEQCKRDIENFPIPSTQQASSMFPL CC REVPMGQGEIGFVNAPLTSTEVRNFKKEMKPLLEDPLGLADQLDQFLGPSFYTWAEMMSIMNILFTGEER CC GMIRRAAMTIWERQHPPGQGVLPAKQKFPNVDPEWDNNDPRDRAQMQDLRELIIKGIKESTPRTQNVSKA CC FEIQQEKEETPSAFLQRLRDQMRKYSGLDPEDPVGQGLLKVNFVTKSWPDITKKLQKIDGWNEKPIEELL CC REAQKVFVRREEEKQKQKAKIMVSTVEEVVRKRLDQDPPRRRQGNDRFRHRERREMQGKAPKTMSGCYKC CC GKPGHFKRECPEWKKEEKVIPLMTIDED CC ORF2 (position 2018-5521) encodes polP71A, an 1167-aa polyprotein CC composed of protease (140-aa), reverse transcriptase (517-aa), CC RNase H CC (140-aa) and endonuclease (270-aa) domains, respectively. CC polP71A: CC GGQGFLLSRSHQEPLINLKVGPEGEEVTFLVDTGVARSSLIHQPRGTELSKEKLTVSGVKGEGFQVPIFK CC KMLIRLGPEQIEGSLLYVPEAGTNLLGRDLIVRLGLGLGIEEGQIKVMMGLLTEEEERKINPLVWVREGN CC RGGLKITPLQIELKQPGEVVCRKQYPISIEGRKGLQPVIEGLIKDGLLEPCMSPYNTPILPVKKPDGSYR CC LVQDLRAINQIVQTRHPVVPNPYTLLSKIPYEHKWFSVVDLKDAFWACPLDFRSRDLFAFEWENPITGRK CC QQYRWTVLPQGFTEAPNLFGQILEKVLEEFQPSRGTQLLQYVDDLLISGERRAKVSETTISLLNFLGERG CC LRVSKNKLQFVEKEVKYLGHLISEGKRRINPERISGIVGLPLPKTKRELRKFLGLTGYCRLWIDSYAQKT CC KILYLKLLEEEPDPLQWSPEEIQAVKELKQALITAPVLALPSLEKPFHLFVTVDQGVALGVLTQTWGGKR CC QPVAFVSKLLDPVSRGWPKCVQAVAATALLVEESRKLTFGGALIVSTPHQVRNILNQKAGRWLTDSRILK CC YEAILLEKDDLVVTTNTCLNPASFLWKGEENKETSDHNCLDIIEYQTKVRPDLREAPLHDGIRLFVDGSS CC RVIDGKRHNGYAVIDGNKHSLCEKGRLPNGWSAQTCELYALNQALKLLEGQEGTIYTDSKYAYGVVHTFG CC KIWTEQGLINSRGKELVHGELVKQVLESLLLPAEVAIVHVNGHQKGNTIEAVGNRLADEAAKQASLEEEI CC RLFSLIPDIPKVVLRPQFTREEKEELDRIGVTQTEDGKWVLPDGREMISKPLMRELMSILHKGSHWGPQA CC LCDAILRNYGCIGIYTLAKQVCGSCVTCQRINKKVIRKQATGGRPPGLRPFQSIQVDFTEMPKVGRLKYL CC LVIVDHLSGWVEAFPLPTATAGNVVKIILEQIVPRFGLVENIDSDNGSHFTSRVLRGIMEGLQIRWDYHT CC PWHPPSSGKVERMNQTLKKHITKLILETKMPWTKCLPIALLRIRTAPRKDLGLSPYELLYGLPYLGRATD CC LPTMETKDQFLRNYILAISSTLSSLRLKGLLTQTPPLEFTVHHFQPGDLVLIKTWKEDKLHPSWEGPYQV CC LLTTETAVRTAEWGWTHYTRVKGLVKEETPEGRGKKEKRPVESAWVT CC ORF3 (position 5553-7574) encodes envP71A, an env-like protein CC which is CC most close to env proteins encoded by D-type retroviruses SRV2 CC and SRV1. CC envP71A: CC MGWPHFWKLIWLGWATIQRAEGQNGNWQGTPPYPIRLVINVTKMVAPQTIRFDACQVLPCGNLENQRQLS CC QADKYLCPEPDTGYSRASPCPSWDDVWWTTQFQGWTVNMGWVTPSWRPLKNKLHLSKGSPPNNCQNLECN CC PILITIDNPAVLDQEPKVASRVYGLGADITGKDPLGRFVLKLIKNSTSHLPGTTPTPDPNKHFSPPNNDP CC KRVKIIEVKDLRQTLEIETGYRDVNAWVKWVKFSVQALNKSNCYACAAGRPQAQVVPFPLGWDTDPEGMR CC CMLALYQDKDAWGNETCKSLSLLFPALRRSDPRAIPSFSIGNMNHSSCLSRQGAEFNKPVGELSTCTHIL CC NVTGESGNGNYSALHIPRADVWWYCGKRNLRNLLPSNWTGTCALVQLAIPFTLAFHKIPENTHGHRNRRD CC LTNSFDPNIYVDSIGVPRGVPNKFKARNQIAAGFESALFWWSTINKNVDWINYIYYNQQRFISYTRDALK CC GVASQLDATSRMAWENRLALDMILAEKGGVCVMLGGKCCTFIPNNTAPDGTITKALQGLTTLANELAENA CC GIDDPFTGWLEGWFGKWKGMVASILTSLIIVAGVLTAVGCCIIPCVRGLAQRLIETAINKQMPMTYQQNN CC LLLLETKLNSLSYEEESKQLLERFEDQKGLDENETKGSK CC HERVP71A is related to both C- (gag and pol) and D-types (env) of CC endogenous retroviruses. There is ~63% nucleotide identity CC between CC the HERVP71A_I consensus sequence and HERVI copies almost over CC the CC entire length of HERVP71A_I (position 173-7415). However, both CC retroviruses have used different types of tRNAs as primers: tRNA CC Pro CC in HERVP71A and tRNA Ile in HERVI. XX SQ Sequence 7590 BP; 2392 A; 1605 C; 1894 G; 1699 T; 0 other; aacttggggg cccgtccggg atctctgtgc ctgcgtggag tgggactccg gccgagaggg 60 gagacgcgtc ccacccgatt taggtggccc gctctgtccg ggcatcccgg ctccccgcag 120 aggccataga caaacccgag actgttattc aggaggcagc ggaggcgaca cagggagaaa 180 agcaggcacc gcggcaacca ggcaacctcg tgcacgagcc aaggtaggaa aattggacta 240 taagtactgc cttggtggtt gggcattttc ggaggtcgag tgtgtgtgac tgagacgtat 300 cctagatatg aagcaagtgc ggagtcccaa tccgcggttc cgttctcccg tgagggaaac 360 ggccagagac ggacgaagcg attctcgggg tgtgcaagaa acctccagta gggggagttg 420 agtacacagg gaaaagctca gacacagaga ctgaccaaaa atgggaaaca gaaattctag 480 gcctagggga caaaggaaag agggagccaa agagactccc tctgacattc ccccagatag 540 tcctttgggg agaatgctgc aggtttggag ggacaaccct cgaaccaggg acaaggaaaa 600 gcaaaagatg ataaagtatt gctgttttat ctggcccaaa gaccccattc gtaagccttc 660 agtcttttgg cctaagtttg gctcagatga ggattgggtg tgccaagctt taattctcta 720 tgtgaatgat aaaaccccat cctcacaaga agagataggt tacgctctct gctggatcaa 780 ggaattagcc cccatgttcc ccctcaaaga agaagaaaaa gagcctagta aaaagccctc 840 gcccagtgaa aagccctggg accccctatc atgcttgccc cctccatacg tctcacaaaa 900 taggggacag gaagatcaag gggcagcagg agggttagag gaagaaagac ctggagacca 960 tgggggagcc gaaccaactg ctcctttaaa tccttatcca aatttaagaa aagaattaga 1020 acagtgtaag agggatattg agaacttccc tatcccttcc acacagcagg catctagcat 1080 gttccctctt agggaagttc ccatgggaca gggagagatt ggctttgtaa atgctcctct 1140 tacaagtact gaagttagga atttcaagaa ggaaatgaaa ccactcctag aagatcccct 1200 cggtttagca gaccagctgg accaattcct aggacccagc ttttacacct gggctgaaat 1260 gatgtctatc atgaatatcc tgttcacagg agaagaaagg ggaatgatta ggagagcggc 1320 catgaccatc tgggagaggc aacaccctcc cgggcaagga gtcttgccag ccaaacaaaa 1380 atttccaaat gtcgatcccg aatgggataa taatgatccc agggaccggg cccaaatgca 1440 ggacctcagg gaactaataa ttaaagggat caaagagtcc actcctagga cacaaaatgt 1500 ctcaaaggca ttcgagattc aacaagaaaa agaggaaact ccctctgcat tcctgcagag 1560 gctcagagat cagatgagaa aatactccgg attagatccg gaggacccag tagggcaagg 1620 ccttttgaag gttaactttg taactaagag ctggcctgac attacaaaaa aattacaaaa 1680 gatcgatgga tggaatgaga aaccgattga ggaattactg agggaagctc agaaggtctt 1740 tgtaaggaga gaggaagaga agcagaaaca aaaagcgaaa atcatggttt ccactgtgga 1800 agaggtagtc agaaaaaggt tagatcaaga tccccctcga aggagacaag ggaatgatag 1860 atttcgacac agagaaagaa gagaaatgca gggaaaagct cctaagacta tgagtggatg 1920 ttacaagtgt ggaaagccag ggcattttaa gagagaatgt cctgaatgga aaaaagaaga 1980 aaaggtgatc cccctcatga ccattgatga agactagggg ggtcaggggt tccttctgag 2040 taggtcccac caggaaccct tgataaattt gaaggtggga cccgagggag aagaagtgac 2100 atttttggtt gatactgggg tggctcgctc ctccctaatt caccaaccaa ggggtacaga 2160 actctctaag gaaaaattga cagtatcagg ggtaaaaggg gagggatttc aggttccgat 2220 attcaagaaa atgttaatta gattgggacc agaacaaatt gaggggtcac tcttatatgt 2280 tcctgaagca ggaactaacc tcctgggtcg agacctgatt gtgagattgg gtttaggatt 2340 aggaatagag gaaggacaaa taaaagtaat gatgggcctc ctaacagagg aggaggaaag 2400 aaaaattaat ccccttgtgt gggttaggga aggcaacagg ggagggttaa aaatcacacc 2460 cttacagatt gaactaaaac aaccaggaga agtagtttgc agaaaacaat atcccatttc 2520 tattgaaggg agaaaaggtc tccaaccggt aatagaggga ttgattaaag atggactatt 2580 agaaccctgc atgtcaccat acaatactcc aattctccca gtcaaaaagc ctgatgggtc 2640 gtatagattg gtgcaagatc taagggctat aaatcaaatt gtccagaccc gccaccctgt 2700 ggtgcctaac ccctacaccc tccttagtaa gataccctat gaacataagt ggttcagtgt 2760 ggtggatcta aaagatgcat tctgggcatg tcccctagac tttaggagta gggacctctt 2820 tgcctttgaa tgggaaaatc ctataactgg gagaaaacaa cagtaccgct ggactgtgct 2880 gccacaaggt ttcacggaag ccccaaactt atttggtcaa atcttagaaa aagtcctgga 2940 ggaattccaa ccttccaggg gaacccagtt gttacaatat gtagatgatc ttttaatttc 3000 tggggagagg agggccaagg tatcagaaac caccataagc ttgcttaatt tcctaggaga 3060 aaggggattg cgagtctcta agaacaaatt gcagtttgta gaaaaagaag ttaaatattt 3120 aggacacctg attagtgaag ggaagcggag aataaaccca gagagaatat cgggaatagt 3180 gggtctgcct ttgcctaaga caaagagaga actccgaaaa tttttaggtt taactggcta 3240 ctgtaggtta tggattgact catatgctca aaagacaaag attctgtatc tcaagttact 3300 agaagaggaa cccgatccct tgcaatggtc cccagaggaa attcaggcag tgaaagagct 3360 aaagcaggcc ctcattacag ccccggtcct ggccctccca tctttagaga aaccattcca 3420 tctgtttgta acagtagacc agggcgtggc ccttggggtg ctcactcaaa cctggggagg 3480 gaagaggcaa cctgttgctt ttgtctccaa gcttctcgat cctgtctctc gggggtggcc 3540 caaatgtgtg caagcagtag ctgccacagc cctgctggta gaggagagtc gaaagctaac 3600 ctttggtggg gccctaatag taagcacccc acaccaggtc aggaatatat taaatcaaaa 3660 agccgggaga tggttaacgg attctcggat tctaaaatat gaagccatat tactagaaaa 3720 agatgatttg gtcgtaacaa caaatacttg cctgaatcca gccagtttcc tatggaaagg 3780 agaggagaac aaagagacat cagaccataa ctgcttagat atcatagaat accaaaccaa 3840 agttagacca gaccttaggg aagctccact acatgatggg ataaggctgt ttgtggatgg 3900 gtcatcccga gtgatagatg gcaagagaca taatggttat gctgtcattg atggaaataa 3960 acactcctta tgtgagaaag gtagattacc taatggctgg tcggcccaaa cctgtgaatt 4020 atatgctctt aaccaggccc taaagctcct tgaaggccaa gaaggcacta tatatactga 4080 ttctaaatat gcctatgggg tggtacacac ttttggaaaa atctggacag agcagggcct 4140 aataaatagc aggggaaaag aattggtaca tggggaactg gtcaaacagg ttttagaaag 4200 cctcctgctt ccagcagagg tagccatagt tcatgtaaat ggtcatcaga aagggaacac 4260 tatagaagct gtaggaaaca ggcttgcaga tgaagctgct aagcaagcct ccctggagga 4320 agaaattaga ctatttagcc tgatcccaga catccctaag gtagtattaa ggccccagtt 4380 taccagagag gagaaggaag aattagacag gataggggtc actcaaactg aagatgggaa 4440 atgggtactt cctgatggga gagaaatgat aagtaaaccc ctgatgagag aactaatgtc 4500 tatattacac aaagggagtc attggggacc ccaggctctg tgtgatgcaa tacttaggaa 4560 ttatgggtgt atagggattt ataccctcgc taaacaagta tgtggaagtt gtgtaacttg 4620 tcaaaggata aacaaaaagg tgattagaaa acaggccacg ggaggaagac ctcccggact 4680 aagaccattt caaagcattc aagtagattt cacagaaatg cccaaagtag gaagactaaa 4740 gtatttactg gtgatcgtag atcacctttc cggctgggtg gaagcctttc cccttccaac 4800 agccaccgct gggaatgtgg tcaaaataat attagaacag attgtaccta gatttggcct 4860 ggtggaaaat attgattcag acaatgggag ccactttacc tcaagggtgt taaggggaat 4920 tatggaaggt ttacaaatta gatgggatta tcacacccct tggcatcccc cttcctctgg 4980 aaaggtagaa agaatgaatc aaactctcaa aaagcatatc accaaactaa tcttagaaac 5040 taaaatgcct tggaccaaat gtctcccaat agcactcctt aggattagga cagccccaag 5100 aaaagacttg ggattgtccc cctacgagtt attatatggg ctcccatatt tgggcagagc 5160 tacagatctt cctactatgg aaaccaagga ccaattctta agaaattata tactggccat 5220 atcctccacc ctgtcatccc ttaggttaaa aggacttctg actcaaactc cgcctcttga 5280 gttcacggtt caccacttcc agcctggtga cttggtgctg attaagactt ggaaagaaga 5340 caagctccac ccaagctggg aaggtcccta tcaagtgctc ctgaccaccg agacagccgt 5400 gcgaacagct gaatgggggt ggactcacta tactcgagtc aagggactgg taaaagaaga 5460 gaccccagaa gggaggggaa aaaaagaaaa aagaccagtg gaaagtgcat gggtcacctg 5520 aggaaccctt aaagttaact ctgagaaaaa tctaaaaaga aaacatgggc tggccccatt 5580 tctggaagtt aatatggctg ggatgggcta ctatacaaag agcagaaggt caaaatggaa 5640 actggcaggg gactcctccc tacccaatca ggttggtaat taatgtaacc aagatggtag 5700 caccccagac tataagattt gatgcctgcc aggtcttacc ttgtgggaat ttggaaaatc 5760 agagacagct ctcacaggcg gataaatatc tttgccctga accagataca ggttacagta 5820 gggcatcacc ctgccccagc tgggatgatg tatggtggac tacccaattt cagggttgga 5880 cagtaaacat ggggtgggta actccgagct ggagaccctt aaagaataaa ctacatctgt 5940 ccaagggctc cccgccaaat aactgccaga atttagaatg caatcctata ctcatcacca 6000 ttgacaatcc agccgttcta gaccaagaac caaaagtagc gtctcgggta tatgggttag 6060 gggcagacat cacagggaaa gaccccctag ggcgatttgt tctcaaacta atcaagaact 6120 caacctccca tttgcctggg actactccaa ccccagaccc taataaacac tttagtccac 6180 caaataatga ccctaaaagg gtaaaaataa ttgaggtaaa ggatttaagg caaaccttag 6240 aaattgagac agggtacagg gatgtgaatg cctgggtcaa atgggtcaaa ttttcggtac 6300 aagccctcaa caagagtaac tgctacgcgt gtgctgcggg acgacctcag gcacaggtgg 6360 ttccatttcc cctaggatgg gataccgatc ctgaaggaat gcgttgcatg ttggctctat 6420 accaggacaa ggatgcatgg ggaaatgaga cttgtaagag tctgtcattg ctctttcccg 6480 cattgcggag gtcagatccc agagcaatcc cctcattctc tatagggaat atgaaccact 6540 cctcttgcct ctctaggcag ggggcagagt tcaataagcc cgtgggagaa ctctcgactt 6600 gtacccacat cctaaacgtc actggtgagt caggcaatgg caattactca gctctccata 6660 taccccgggc tgatgtctgg tggtattgtg ggaaaaggaa cctccgtaac ctgttaccat 6720 ccaattggac cgggacttgt gctttagtcc aattggccat tcccttcacc ctggcattcc 6780 ataagatacc cgaaaataca catggccacc gaaaccggag agatttgaca aattcttttg 6840 atcccaatat atatgttgac tcgataggag tccctagggg ggtgcctaat aaatttaagg 6900 cccgaaacca aatagctgct gggtttgagt cagcactctt ctggtggtca actattaata 6960 agaatgtgga ttggattaac tacatctatt ataatcaaca gagattcatc agttatactc 7020 gggacgccct caaaggggtg gctagccagt tagatgccac cagccgaatg gcctgggaaa 7080 acaggcttgc gctagacatg atactagcag aaaaaggggg cgtatgtgtt atgctgggtg 7140 ggaaatgttg tactttcatt cccaacaata ctgccccaga tgggaccatc acaaaagctt 7200 tacaaggact gacaactcta gccaacgaac tggcagaaaa tgctggaatt gatgacccat 7260 ttacgggttg gctagaaggt tggtttggaa aatggaaagg catggtagct tcaatcctta 7320 catctctcat aattgtggca ggagtcttaa cagcagtggg atgttgtatt atcccttgtg 7380 tgaggggact agcacagaga ttaattgaaa cagctattaa taaacaaatg cccatgactt 7440 accagcaaaa taacctgcta ctattagaaa ccaaattaaa ctcactctcc tatgaggaag 7500 aaagtaaaca acttctagag cgattcgagg accaaaaggg tttagatgaa aatgagacca 7560 aaggaagtaa atagaaaaga ggagggaatt 7590 // ID MER106B repbase; DNA; HUM; 1059 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE MER106B is a nonautonomous DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; DNA transposon fossil; KW MER106B; hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-103 RA Jurka J.; RT "MER106B."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-1059 RA Smit A.F.; RT "MER106B."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC MER106B is a member of hAT-like DNA transposon fossils [2] . CC With this group it shares 14 bp imperfect, terminal inverted CC repeats, CC and 8 bp target site duplications with a preference of NTCTAGAN CC [2]. CC The 5' region has similarity with MER20. CC 20% divergence from consensus, about 500 copies of MER106 + CC MER106B. XX SQ Sequence 1059 BP; 346 A; 145 C; 198 G; 363 T; 7 other; catgcattct caacgggggc gatatcgccc ccaagggggt gaaaattggt tcttgggggg 60 agaaaaaatc ttagatatta caatggtttg tggccctcca aagctcaacc ctacccgaca 120 aaatcttatt ccttagtatt taatttctcn ttgggttttc ttgggtatca cacgagcagc 180 actgacattg agttcatgga agatacacga aatgtatgca agatcagtgc tacaaaacta 240 tggcgaatag atgactgtgg ttggaggact ttcttcgatt gattgctcga tctcgaagtc 300 atatngcgag aggtggcctg tgcgtgcctg ttggctgcca ctggctgcct tgtggatgtt 360 atttatgttt gatcctcagt gctttgtgtg acttgggctt tgagaattaa ataaaantag 420 tttatatttt attatttaat tctacaaaag ttattcaacc catcattaat tatgtcaagt 480 gctgaaaaga aaaaatgttg acaatatctg aatgaatatc tagcagctag ttaagttaaa 540 agttattttc tcatatcaag caaaagttaa aagttaactt caaaaataat tttnaagaaa 600 ttaatttaat tttttcaatt gttttacttt tgctggaaaa atcagttttg aatgaatttt 660 ttaagtattg attacattgc tattaatgta tttatataaa ttgctaattt gtatatgtaa 720 tttgacacan tagaatttat gtaagtaaat aaattacatt aaaagttact cagcaaatac 780 agttacaaag ttaaatttag atattaatag ctttttaatt tttaatttag cttttaactt 840 aaaattttat tcagtcattc ttaaccctnc attgaataaa aagagaggct ttatacttac 900 cctttttatg tataaagcac agatataggc gcagtacata aacagatata cagtatatct 960 gtggtattaa aatttcatgg nggggggggg tgattaggaa aaaaatgtct aaaaaggctc 1020 cttagggggg cgataatgaa aaaaggttga gaaacactg 1059 // ID LTR5 repbase; DNA; HUM; 969 BP. XX AC M12853; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE LTR from human endogenous retrovirus 5' LTR, clone HERV-K18. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR5; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-969 RA Ono M.; RT "Molecular cloning and long terminal repeat sequences of human RT endogenous retrovirus genes related to types A and B retrovirus RT genes."; RL J. Virol 58, 937-944 (1986). XX DR GenBank; M12853; Positions 32 1000. XX SQ Sequence 969 BP; 254 A; 234 C; 224 G; 257 T; 0 other; tgtggggaaa agcaacagag gtcagattgt tactgtgtct gtatagaaag aagtagacat 60 aggagactcc attttgttct gtactaagaa aaattattct gccttgagat gctgttaatc 120 tatgacctta cccccaaccc cgtgctctct gaaacatgtg ctgtgtcaaa ctcagggtta 180 aatggattaa gggcggtgca agatgtgctt tgttaaacag atgcttgaag gcagcatgct 240 cattaagagt catcaccact ccctaatctc aagtacccag ggacacaaaa actgcggaag 300 gctgcagggg cctctgccta ggaaagccag gtattgtcca aggtttctcc ccatgtgaga 360 gtctgaaata tggcctcgtg ggaagggaaa gacctgaccg tcccccagcc cgacacccat 420 aaagggtctg tgctgaggag gattagtata agaggaaagc atgcctcttg cagttgagac 480 aagaggaagg catctgtttc ccacccatcc ttgggcaatg gaatgtctcg gtataaaacc 540 cgattgtacg ttccacctac tgagataggg agaaaccacc ttagggctgg aggtgggaca 600 tgcaggcagc aatactgctt tgtaaagcat tgagatgttt atgtgtatgc atatctaaaa 660 gcacagcatt taatccttta ccttgtctat gatgcaaaga cctttgttca cgtgtttgtc 720 tgctcaccct ctccccacta ttgtcttgtg accctgacac atctccctct cagagaaaca 780 cccacgaatg atcaataaat actaagggga ctcagaggct ggtgggatcc tccatatgct 840 gaacgttggt tccccgggcc cccttatttc tttctctata ctttgtctct gtgtcttttt 900 cttttccaag tctctcattg caccttacga gaaacaccca caggtgtgga ggggcaaccc 960 accccttca 969 // ID L1PBA1_5 repbase; DNA; HUM; 600 BP. XX AC . XX DT 23-APR-2001 (Rel. 6.03, Created) DT 23-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE Primate L1PBA1_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; HGR; L1-25; KW L1M2_5; L1PBA1_5; L1PBA_5; MER25; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-600 RA Jurka J.; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC 71% similar to the 5' end of L1PBA_5 and 87% similar CC to individual sequences. XX SQ Sequence 600 BP; 162 A; 150 C; 182 G; 95 T; 11 other; atcatggcrg atgggaggca ggactagatt gcagctccag acagagcagc atgcggaggc 60 ttgcattgtg aattttagct ccagattgac tgcaagaaca aaccagcaat cccgagagga 120 cccacagacc ctctgaagga agcagactgc tcctgcagga cccrggagac accccaaata 180 ctgtgagtgc cccaactgcr gaagtgggaa agggagaccc tcctctcccg aacacacacc 240 cccactggag aagctgaagg tctgtttgcg ggagaagttt ctgactttac ctggagctga 300 gtcaakttag agagccgagc gaaaatacag gggtagagga agcagcagaa aggccctggg 360 agctcgctgg gtccccaagc agsccattcc tgcctggcac cacagggatc catcgggagg 420 gtggccagag gagcaggggg taaaactcca cagggagaag gaawtctcta gctgaacttt 480 gtaacaattt gaacggggyg agaagcctcc tggccagaac tcaggggagg gcgcraatcc 540 ggygtgcaga ctycacaggc aggggaagaa cyaaagccct tttctttcgc agctgggagg 600 // ID MER4A repbase; DNA; HUM; 660 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER4A. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER4A; KW MER4I group; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 103-660 RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [2] RP 1-660 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX DR [2] (Consensus) XX SQ Sequence 660 BP; 191 A; 157 C; 118 G; 173 T; 21 other; tgtgaaagga aaataaatct cgggrccccm aaatcactaa gccaaaggga aaagtcaagc 60 tgggaactgc gtyaggcaaa cctgcctccc attttattcc taaataagat agctacaaag 120 ataaaaggct acatacctct ctcacaattt ycyacaagga aattccttgc ggacctcaag 180 atctttaccc taaaacagtt ctgytgamyt tcaccttggc awtgyaaatg grtacaggac 240 aaaggtacag aactgaaagt catccctctg ctcacctgag acaaatgcat atctgattgc 300 ttcctctgcc ctattgttta tgtaaaaatg cagattcact gagccagact maattgtgta 360 ttcagtgaaa rgctgatcar rgactcaaaa gaatgmagcc wtttgtctct tatctaccta 420 tgacctggaa gcccctrctt cgagttgtcc cgcctttcca gaccgaacca atgtacatct 480 tacatatatt gattgatgtc tcatgtctcc ctaaaatgta taaaascaag ctgtrccccg 540 accaccttgg gcacatgtcg tcaggacctc ctgaggctgt gtcacgggtg cgtccttaac 600 cttggcaaaa taaactttct aaattgaytg agacctgtct cagatacttt tgggttcaca 660 // ID MER63A repbase; DNA; HUM; 211 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 28-AUG-2008 (Rel. 13.09, Last updated, Version 3) XX DE Primate MER63A repetitive element - a consensus. XX KW DNA transposon; Transposable Element; Nonautonomous; KW nonautonomous DNA transposon; MER63A. XX NM MER63A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-211 RA Smit A.F.; RT "MER63A."; RL Direct Submission to Repbase Update (30-NOV-1995). XX DR [1] (Consensus) XX CC Putative internal deletion product of DNA transposon. CC 15 bp terminal inverted repeats, subfamilies only differ by size. XX SQ Sequence 211 BP; 50 A; 54 C; 50 G; 54 T; 3 other; ccagtggtgt gctggagctg gctcgtatcg gctcacgaga gtcgattgtg tatatctttt 60 cccaactccs cattcagtga catcacgttg gtagcttgaa atcggccacg gtgggagtat 120 ttacaccacg gaaatcggca aacgctacaa atcagggttt tttcxytccc ccagagagcc 180 agttgttaaa catttaccag cacaccactg g 211 // ID L1PA16 repbase; DNA; HUM; 913 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA16) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P4; L1PA16; L1PA16 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-913 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-913 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 12.5%. XX SQ Sequence 913 BP; 364 A; 189 C; 179 G; 181 T; 0 other; ctaatatcca gaatctataa ggaacttaaa caaatcaaca agcaaaaaac aaacaacccc 60 attaaaaagt gggcaaagga catgaacaga cacttctcaa aagaagacat acaagcggcc 120 aacaaacata tgaaaaaatg ctcaacatca ctaatcatca gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagtcaga atggctatta ttaaaaagtc aaaaaacaac 240 agatgctggc gaggctgcgg agaaaaggga acgcttatac actgttggtg ggaatgtaaa 300 ttagttcagc cactgtggaa agcagtttgg agatttctca aagaacttaa aacagaacta 360 ccatttgacc cagcaatccc attactgggt atatacccaa aggaaaataa atcattctac 420 caaaaagaca catgcactcg tatgttcatt gcagcactat tcacaatagc aaagacatgg 480 aatcaaccta ggtgcccatc aatggtggac tggataaaga aaatgtggta catatacacc 540 atggaatact acgcagccat aaaaaagaat gaaatcatgt cctttgcagc aacatggatg 600 cagctggagg ccattatcct aagcgaatta acgcaggaac agaaaaccaa ataccgcatg 660 ttctcactta taagtgggag ctaaacattg ggtacacatg gacataaaga tgggaacaat 720 agacactggg gactactaga ggggggaggg agggaggagg gcaagggttg aaaaactacc 780 tattgggtac tatgctcact acctgggtga tgggatcatt cgtaccccaa acctcagcat 840 cacgcaatat acccatgtaa caaacctgca catgtacccc ctgaatctaa aataaaagtt 900 gaaaaaaaaa aaa 913 // ID KANGA2_A repbase; DNA; HUM; 885 BP. XX AC . XX DT 27-DEC-2001 (Rel. 6.11, Created) DT 27-DEC-2001 (Rel. 6.11, Last updated, Version 1) XX DE Primate KANGA2 repetitive element - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW DNA transposon fossil; KANGA2_A; Tc2 family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-885 RA Smit A.F. and Hubley M.R.; RT "A few more common, ancient interspersed repeats in the human RT genome."; RL Repbase Reports 1(4), 22-22 (2001). XX DR [1] (Consensus) XX CC KANGA2 was a DNA transposon distantly related to Tc2 in C CC elegans (part of the larger IS630-Tc1 grouping). It encoded a CC transposase closest related to the human gene KIAA1513 and CC KANGA1 (Pos. 261 to 627 can be aligned to KANGA1 with < 73% CC identity). KANGA2_A is an internal deletion product (deletion CC point around pos 480) lacking much of the coding sequence. CC Average divergence level of copies to consensus 22% (~27% CC substituted). There are about 2500 copies in the human genome. XX SQ Sequence 885 BP; 305 A; 132 C; 168 G; 273 T; 7 other; ccatatatgc ccgaatataa ggcaaggntt tnttttcccc aaaattatcc ctcagaaaag 60 agggagtcgc cttatattcg agtccttaca aagtctctca tattacgggg cactctctca 120 attactttat tttgaacaac aaagtactgt ttggggaaga cacattagcc tgaaatgacc 180 tcaatcaatg ctagttttgg atgcttatag aggtcacctg acggaatcgg tnaaaaagga 240 ggcaaagaaa tttaacacag atttagtaat tattcctggg gntatgacct cacaattgca 300 agtgttggat gtcgttgtaa acaagccttt taaagatcac tttaaaaagc aatacagtaa 360 gtggttacat tgtggagatc acgaatatac acctacagga caaatgaaaa aaacaactgt 420 cctaatgtta tgcgaatggg tacttgtggc ttgggataaa atttccagtg acagcatcat 480 acacggattc aaaaagtgct gtatctcaaa caacttagat ggaagtgaag atgatgtgct 540 ctggaaaact gtgttagatg actcaaaaag tggctctagt gatgacgaag acactgatgt 600 caaagatgca tgtgaagagt ttgaataaaa ttgtttcatg aaatgtgaga atggaaaaag 660 caatatttct aaattaatat attattttat aatatgtgat tttaaatatg tatgtgtaac 720 taaattaata aattaaacat tataagtaga catttgacta tttcatctat atccctaaaa 780 gtttatatat tcaagttggc canaaaactt ttnttgaatc ttctcattgg gaaaattggg 840 agatcacctt atatttggng ttaccttata tttgggcata tatgg 885 // ID MER31B repbase; DNA; HUM; 466 BP. XX AC . XX DT 09-OCT-1997 (Rel. 2.09, Created) DT 09-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE Human medium reiteration frequency MER31 repetitive sequence - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER31B; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 313-459 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 146-460 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-466 RA Smit A.F.; RT "MER31B."; RL Direct Submission to Repbase Update (1996), 1997). XX DR [3] (Consensus) XX CC MER4-type LTR. Duplicates 4 bp. Average divergence from consensus CC 22%. CC Fragments are similar to MER67, whose LTR flanks a similar CC internal seq. XX SQ Sequence 466 BP; 97 A; 145 C; 74 G; 146 T; 4 other; tgacaaagac tctctccttg accaaacttt agtcaggctc ctctgagccc tcttctcaac 60 taggcctcgn ccttgggccc tgtccttggc ctgcwtagcc cagttttagc aagaatcctg 120 ctaagtcagt ttagcgagaa tcccccaccc ttgatatctg atcaaattcc tcatcctcca 180 ccatccccca ggtgatgtct gatcaccttg gcctgccttc agcaagaatc ctgttaggtc 240 ggtttagcaa gaatccccct acccttgatg tctcctctta gtaattttcc atccactgac 300 ccctcactct gctccttggc tataaatccc cacttgtcct tgctgtattc ggagttgagc 360 ccaatctctc tcccctattg cagtggtctt tncacctatt gcaatagtcc tgaataaagt 420 ctgccttacc attttaacwa gtgtctgaat aattttttct ttaaca 466 // ID HERV-K14I repbase; DNA; HUM; 6096 BP. XX AC . XX DT 16-SEP-2004 (Rel. 9.08, Created) DT 16-SEP-2004 (Rel. 9.08, Last updated, Version 1) XX DE Internal portion of HERVK14, a HERVK-related endogenous DE retrovirus flanked by LTR14A and LTR14B - a consensus sequence. XX KW LTR Retrotransposon; Transposable Element; endogenous retrovirus; KW HERV; HERV-K14I; HERVK superfamily; HERVK14I; HML1; LTR14A; KW LTR14B; gag; pol; pro; internal portion. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Medstrand P. and Blomberg J.; RT "Characterization of novel reverse transcriptase encoding human RT endogenous retroviral sequences similar to type A and type B RT retroviruses: differential transcription in normal human RT tissues."; RL J. Virol 67(11), 6778-6787 (1993). XX RN [2] RA Kapitonov V.V. and Jurka J.; RL Direct submission (November 20, 1998). XX RN [3] RA Flockerzi A., Meese E. and Mayer J.; RT "The human endogenous retrovirus HERV-K14 families: status, RT variants, evolution, and mobilization of other cellular RT sequences."; RL J. Virol., 2004). XX DR [3] (Consensus) XX CC DT 06-JUN-2004 CC HERVK14I DNA CC DT 20-NOV-1998 (Rel. 6.7, Created) CC DT 20-NOV-1998 (Rel. 6.7, Last updated, Version 1) CC consensus CC HERVK14I is a consensus sequence of an internal portion of CC HERVK14 endogenous retrovirus flanked by LTR14A and LTR14B. CC Consensus encodes Gag, Prt and Pol proteins. CC Average similarity of individual HERVK14I copies to the CC consensus sequence is about 95%. CC HERVK14I consensus is on average 65% identical to the CC reported members of HERVK-superfamily (HERVK10, HERVKC4, HERVK3I CC HERVK9I, HERV11I, HERVK13I and HERVK22I). CC Small portion of HERVK14 pol (position 2790-3034) is 95% CC identical to the HML1 class of HERVK-related pol [1]. CC Ref [2] (Consensus) CC Ref [3] PBS for lysine: nt 9-28 CC Putative gag gene: nt 125-1798 CC Putative prt gene: nt 1657-2604 CC putative pol gene: nt 2535-5183 CC PPT: 6078-6095 CC Ref [3] Most HERVK14I copies lack an env gene, and display CC env-unrelated CC sequence downstream from pol gene. Note that some HERVK14I copies CC harbor an env gene starting at nt 5144. CC Key Location/Qualifiers CC gene 125..1798 CC /note="gag" CC gene 1657..2604 CC /note="prt" CC gene 2535..5183 CC /note="pol". XX SQ Sequence 6096 BP; 1979 A; 1211 C; 1294 G; 1611 T; 1 other; ttcctggcgc ccaacgtggg gcgacaaaga ccccggtgaa ggaacgctag agcatgtgaa 60 agcagaggac gcatcgtcaa aggacacccg aggacgtcta aaagaagctc ggcgggaaag 120 ctgagcactc ggaagaacca gggtaacaat gggacaaagt gaaagcaaac attctgctta 180 tttaaatttc ttaaggcatt tattacgaag agggggagtg aaagttagta ctcagaattt 240 gttatcactc tttagtacag taaagcagtt ttgcccatgg ttcccagaac aagggactat 300 ggagttggat gaatgggaga gaattggcag agattttaaa aaggcgtata aagatggagc 360 aaaaattcca gtttctgttt ggtcaatgtg ggcgctaata aaggcagctc ttgagccatt 420 tcaaacagat gatgaggcag attcagatga ggaagaggag gacgagtgta aaaaactaac 480 ttcagattct gaatgtgagg aacagcaacc ggaggaaatt aaagaaaaga aaggaaaact 540 gaaaaaagta tgttttacta gcccgtcggc tccacctgct gaattaagtg aatggccacc 600 tcctctctct ccccttaatg ggcgagaaaa tgaattagct gaaaaactta ctgctcctgt 660 agttgcaaca ttaaaacctg gagcaattgg tggtgctata caaaattcta ttcaaaaagc 720 tagagctgag ggagaccttg aagcatggca atttcccgtt actataatcc agcaaggagg 780 acagaatata gctaattggg ccacttttcc ttttaagtta ttaaaggaat ttaagcaagc 840 cattagtcaa tatgggccaa actctccttt tgtgcaaact ttattaaaaa atgtggctct 900 tgataataga ttaataccat atgattggga tactttaaca aaatctgttc tcactccatc 960 tcagtacttg cagtttaaaa cctggtgggc tgatgaagct caaactcagg caagggaaaa 1020 cacacaagca cagccacctg tgcctgtttc ctttgaacag ttaatgggag ttggccctaa 1080 ttggggtcga ttagagaatc aagcagtaat ggaggatgtt gccattgttc agctgtgctc 1140 tgtgtgctta caggcatggg aaaggataaa tgttacaggg gaaaaatatc cttctttcag 1200 ttctgtccga caaggaccta aagaaccata tattgatttt attgctcggc tccaagaggc 1260 tgtgtataaa gccataactg ataaaacagc tcaggatgtt gtaatacagc ttcttgcata 1320 tgataatgct aatgcagagt gtcaaactgc tattagaccc ctgagaggga aggctcattt 1380 agctgaatat attaaggctt gcgatggcat tggaggtaac ttacataagg ctactctttt 1440 agctcaggct atggctggat taaaagtagg aaaaaatatg ccccatttct caggctcttg 1500 ctttaattgt gggcaatttg gacacacaaa aaaggaatgt agaaaaggaa atcaaaaggc 1560 aaaaactact accatcaatc aacagaaaag tcccggtgta tgtccctggt gtaagaaagg 1620 caatcactgg gcaagtcagt gtcattctaa atttagcaaa gatggacaac ctctttcagg 1680 aaacrggaag aggggcccgc ctcgagcccc tcaacaaacc gaggcatatc cggcacagcc 1740 agtgccctta caaatgtaca acaattgtcc cccgccacag caggcagtgc tgccgtagac 1800 ctctgcagca caattcccat ctccttactt cctggggagc caccaaagaa ggtccccacg 1860 ggagttaggg gacccttacc ctcaggaaca gttggtctat tacttggaag gtctagtcta 1920 aatttaaaag gtgtcactgt acatacggga ataattgatt ctgattatac cagagaaatt 1980 caattagtta ttagttcctc aactccatgg tctgcttccc caggagaaag aattgctcag 2040 ttgttgctgt taccttacat aaaactagga agcagcacag tgaaaagaac aggaggcttt 2100 ggtagtacta atccagcagg aaaggctgta tattgggtta atcaagtgtc tgacaaaaga 2160 cctatttgta cagtaactat tcagggaaaa gattttgaag gactagtaga tactggagct 2220 gatgtctcta ttattgcttt aaatcaatgg ccccggcact ggcctaagca aaaggcatcc 2280 attggtattg ttggagtagg agctgcctca gaagtttttc aaagttcctt gattttacca 2340 tgtcaagggc cggatggtca ggaagggaca attcaaccta ttattacacc tattcctgtc 2400 aatttatggg gtagagactt attgcaacaa tgggatgctg aaatatctat tcctatggat 2460 caatatagta ataatagtag acaaatgatg aaaaatatgg gatatctccc aggaaaagga 2520 ctaggaaaaa ataaaaatgg ccaatcagaa cctttagaat taaaagggca aacagatcgg 2580 actggattgg ggtgtcattt ttaggagcgg ccattgttga gcctccggct cccattcctc 2640 ttgtttggct aactgccaaa ccggtttggg tggagcaatg gccactgaaa caggaaaaac 2700 tggaggcttt aaaagaactg gtgcaggaac aattgcaaaa gggacatata gagcctactt 2760 tctccccttg gaattctcct gtatttgtca ttaagaaaaa atcagggaaa tggagaatgt 2820 taacagattt aagggctgtt aatgctgtaa ttcaacccat gggtgcactg caaccagggc 2880 tgccctcccc aacaatgatc ccaaaatact ggcctctcat agtgatagat ctaaaggatt 2940 gcttttttac cattccttta gctgcccaag attatgaaaa atttgctttt actgttcccg 3000 ccataaataa taaagaacca gcggacagat accattggaa agtactacca caaggcatgt 3060 taaatagccc gactatttgt caaacttatg tcgggaaagc tattaagcca gttagagaac 3120 agtttaaaaa atgttatatt atccattaca tggatgatat tttatgtgca gctgaaacta 3180 gggaagaatt aatgttatgc tacaaacagt tagaaaaggc tgtaaatgca gcagggttaa 3240 ttatagcccc cgataaaatc caaacttcta ctccctttca atatttagga atgaaggtag 3300 aacaaagtgc tattaagcct caaaaggttc aaattcgaag agataattta aaaactttaa 3360 atgattttca aaaattatta ggagacatta attggattca tccaacttta ggcattccta 3420 cctatgctat gtctcacctc ttttctactt tacgaggtga ttctaacctt aacagtaaat 3480 gctccctgtc caaagaagca ttggaggaac ttcaattaat tgaagaaaaa attcaacaag 3540 cacaagtgaa acgaattaac cctatgcagc cattacagtt tttagttttt cctactaaac 3600 attcacctac aggagttatt gttcaacagg atgatctggt tgagtggctt tttctacctc 3660 acaatacaac caaaacgctc actctgtact tagatcaaat tgctgtgcta gtaggacaag 3720 caaggctgcg cacaacaaag ttaatgggat atgatccaaa tcagattata gttccattaa 3780 ccaaacaaca aattcaacaa gcttatatta attcccagga atggcaagtt aatttggcag 3840 gttttgttgg cattcttgat aatcattatc ctaaatctaa aatattccaa tttctaaaat 3900 taacatcctg gatattgcct tctattactc aaaaagcccc tattgaaggg gccattactg 3960 tttttactga tggatctagt aatggaaaag cctcatttgc aggacctcaa caacaagttt 4020 ttcaaactga ctttgcttct gctcaaaggg ctgaacttat ggctgtgata acagtgttaa 4080 aaacttttaa acagccagta aacattgttt ctgattcagc ctatgtagtg caagccacac 4140 aaaatattga atgtgcctta attcaaaatg tgactgatga acaacttaat cttttatttc 4200 attctttaca gcaagcagta caacaaaggc attccccttt ctatatcact catatgagag 4260 cacatactaa cctccctggc cctttaacta aacttaatca aagggcggat gcattggtgt 4320 ctgcagcctt tgctgatgca caaacattcc attctttaac ccatcttaat gctgcaggcc 4380 ttagaaaaag atatggtcta tcatggaaac aagctaaaga aattgtgcaa cactgttctg 4440 cctgccaagt cctgcatctg ccacatcaag gaacaggagt taaccctaga ggtttatctc 4500 caaattccat ctggcagatg gatgtaacac atattcctgc ttttggaaaa ttgtcctttg 4560 ttcatgtttc agtagatacc tattcacatt ttatctgggc cacatgtcaa acaggggaag 4620 ctacagctca tgttaaaaga catcttttat cttgcttttc agttatggga atcccagaaa 4680 aaatcaaaac tgataacggc ccaggatact gtagtaaagc catggctaca ttttttcaac 4740 aatggaatat tacccatact acgggtattc catataactc acaaggacaa gcaatagtgg 4800 aaagagctaa tcgtacttta aaaactcaaa tacaaaagca aaagggagga gaccaggaat 4860 ataaaacacc acatatgcaa ttgcatttag ctttattaac attaaatttt ttaaatttac 4920 aaaaagatca acccatgact gcagctgaac aacacctgac aggacaaaag gaaaataaaa 4980 aggctggaca agatatatgg tggagggatg cacatacaaa gagctgggaa aaaggaaaga 5040 caattatatg gggaagagga tttgcttgtg tctctccagg tgacaatcag gtgcctgtgt 5100 gggtgcccac caaacatctg aagatctatc atgagccaca gcatctagtg gacccacctg 5160 tacagtgcaa attgaaggtt taaggattgc ttttttgcta tactgttgca caagaaggat 5220 aagcctcgat ttgctttctc tgtgccttct gttaatcaga aggggcctgt ttctcattat 5280 cagtggtaag ttttacccca tggtaattaa ccaaagaggc agaagctgag ttacaaatgc 5340 ttcagcaatg gcaggcctcc cggctacagc cacaaaagtt tttgcttctg tttcagtaga 5400 tttactaacg tgggggtgag ggtatgcttg tgtttttgca ggagatgaac aaaccgtgtg 5460 gatgccctca agatgtgtac gaccatggaa caggagactg gagggaccca tggatcccaa 5520 ccatggaccg ggttccccca gtatgagcca tgagccagtt gaatctgaat gcgaagatgg 5580 aacgaggacc gaccagagtc actgctgaca tcaaccccca taacatgggg acagatcaag 5640 aaaaccacac aggaagctga gaaactgctg gagcaccaaa gttttaccta ttgctgggat 5700 tcagaggtac aatagatgct taacggacca atgctttctg actcagctcc tctctaccct 5760 gaatacaaga gaccctaata gttaggcagg aatatcatcg cccctattca gcatgaagaa 5820 gttacagaag acggaccttc atccttctgc aacccctagg attaagggtc ctcttgtaaa 5880 acgggaaagg ggagatatgt gggaagcatt caaaccagag cgactccatt ttgaataagg 5940 gctaagaaaa atgaagctgg atcaccaacc ggcaattaag ggctgcacag cctgcaattg 6000 ccttgctcaa ttaaaaagag gccaccttat gctagtaata atgatagcta gtaataatga 6060 tatgtggtct cttttacaaa aaagagaagg ggggca 6096 // ID Charlie24 repbase; DNA; HUM; 2450 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; hAT-Charlie; KW Charlie24. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-2450 RA Smit A.F.; RT "Charlie24 - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 14-16bp TIRs. 30% subst in dog-human. ORF 354-2162 encodes a CC transposase closest to Charlie11 transposase (>50% identical, CC >67% similar). XX SQ Sequence 2450 BP; 709 A; 485 C; 531 G; 720 T; 5 other; cagnggttct taaactgngg tctatggata ggcttttagg ggatccgtga accggataca 60 aaaatatttt tttctttgat ttctttcctg ttactttgaa aattgtcttt gtgaaaaaat 120 tatttttatg tcaaattatg ttattaaggt attgtttcac tccaaacaag tgtagggtgg 180 catgggatgc tactgtacat ggtcaggtaa tgtacaatta tcatcgttac catgttatga 240 tgtctagaat agtttcccat tgataggaat taaagaaaat ataccctgcc attatgatta 300 tggacatctg tctttgttta catcgggcct agcttaagtt ggaaaatgtc aaagaaaaga 360 aagtacaatg aagcttacgt atcctttggt tttactttca tcactgaacg tgatgggaca 420 caaaagccac ggtgcttctt gtgtggcaag gttcttgcca atggaagcat gaagccaaca 480 aagctgaagg agcaccttat atctgtccat cctgaaaata catcagacag tgtggatctt 540 tttcatgaga agaaggctca atttgaaaag gctggaactt taccaaaact tggatttgcc 600 ccaacacaaa agccttgtct tgaagcatcc tacaaggttg cttatcgcat tgccaagcaa 660 aagaagccac acacaattgg agagaccttg gtgaagccat gtgccctgga aatggtcgag 720 ctggtttgtg gcttggagca gaggaagaaa attgaagcag tgcctctgtc aaatgatgtc 780 atccactcca gaatcgctga catttcttct aatattttga agcaggtcat ggaggaattg 840 gcagctatgc catttccctt cagcatgcaa ctggatgaaa ctactgacgt ctctcagtgc 900 agccagctcc tggttttcgt ccgttatgtg cacgctgacg ccatcaaaga agaattccta 960 ttttgtgagc cccttttgga aactncaaag gccgtcgaca tcttcgaaat ggtgaaaagt 1020 ttctttgcca agcaaaactt cgactggaag aaaaatcttg gtactctgtg cacagatgga 1080 gcacctgcga tgcttggcaa cacatctggt tttgctgctt tggtgaagaa agaagctcca 1140 cacgtcatcg tgactcattg ctttctacat cggcatgcac tggcgtcaaa gactctgcca 1200 acaatcctga aagaagtctt gtctactgcc gtgaaagtcg tcaacttcat cagagccagg 1260 gccttgaatc accgcctttt caagaggttt tgtcaagaaa tgggagcaga atatgaagtt 1320 cttctctact acacagaagt tcgctggctt tccagaggac aagtcttgaa gcgcttgatt 1380 gaacttcggg cagaagtttc actttttttg agagaaaagg aaagcccact ctcagaacaa 1440 tttgacaggg aggagttcat tcatggcttg gcttacttgg cagatatttt tggccatatg 1500 aatgaggtaa atctttcnat tcaaggccct gcagtcacca ttatggatgc tgctgaaaaa 1560 ctacgagctc ttttggccaa gctgccactc tggaagagga gattggaggc agacaactat 1620 gcaaactttc caatgctgga ggaagtgctt ctgcaggctg gagtcgagag tgacaaagcc 1680 ttgtcaattt ctctgcaggc agaaatctgc agacacctgg aaacactgca gaactctttt 1740 gaaggttact tctgctcaga cgaccttaaa attgaaacat ggattcgtaa tcctttcctt 1800 gctgacatag acagcatcaa tgatgcagac cttgccaaag atgacctcat tgacttgagg 1860 acaaaggaaa tgatgcgaca tgaattcaac tcgaagagtc ttggagaatt ctggtgttcc 1920 ttgacacaag cctaccctca tctggcaaag cgagctatgg gagctctgat tccatttgct 1980 actacatacc tttgtgagtc agggttttca gcacttgttg ccatcaaaac gaaaagtcaa 2040 aatcgattgg atgtcaaaga tgacatgcat gttgccatgt caaagaccac tccacaattt 2100 caaacttcat tcaagccaaa caacagcagc cttctcattg aaatttactt ttgagcagaa 2160 ttaaagttta cttttgtttt atttgcacaa tttggattta tttccatttt tttcaggaag 2220 tggccattaa tttttgcatg aaaaatgaga gtgagagaca taattctttg taaagattgt 2280 ttttatattc tgtctatgtg aaggaaatna atttccaatg caataaaata aattgtatgc 2340 aaaatatttg tgtgtatgtg tttatgtgca tttttttctg gggagggagt ccatagcttt 2400 catcagattc tcaaaggggt ccgtgaccca aaaaaggtta agaaccactg 2450 // ID LTR51 repbase; DNA; HUM; 671 BP. XX AC . XX DT 05-AUG-1998 (Rel. 3.07, Created) DT 05-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE Putative long terminal repeat of an endogenous virus - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR51; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-671 RA Naik A. and Jurka J.; RT "LTR51."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC 3'-similar to MER49, MER72 and MER101 (70% or less). XX SQ Sequence 671 BP; 199 A; 170 C; 111 G; 185 T; 6 other; tgtgatctga gagaccaaaa tagangcccc tttatcaact aagacgggcc ctaaggttaa 60 ggaaacaaaa gttacctacg ggtcaagggt tcagggcctg gctggcatgg caaatttcta 120 aattcctaca agaaaaacca cactcttgct aaactcccta acacaatagg agctatcagg 180 caaattatca nanccctcct aactctgatt tacaacccag accactacaa ctctgattgg 240 acagaggact ggccttacaa acattctttt ctgataagaa actgcagacc ataagccagt 300 tttggccagt ttanagaggc tgcacacaaa ctgtctttgt gtcctatagt tcaccttttg 360 acgtaaagag ccaaattnta cttcatttta atgctaaaac tccaccccaa agtgaacatg 420 ggatgtatgt tacatatatg tttacccatt gcacatgtgc tcggctcccc tcataaatat 480 ttatagcttt tcccccaaac ctgctgaata tgtatgtctc cattgtgtaa taccaaccct 540 gtgaggcata aaacccaacc tgccctttcc ctctttgaag agagagcgcc tttggtctat 600 gccagagact atctcttccc agtttgcaaa ctgatattrc caataaagct ctcctttcta 660 ctatttagcc a 671 // ID MLT1H_I repbase; DNA; HUM; 1472 BP. XX AC . XX DT 19-JUL-2006 (Rel. 11.07, Created) DT 10-APR-2007 (Rel. 11.07, Last updated, Version 1) XX DE Internal portion of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MLT1H_I. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1472 RA Smit A.F.; RT "MLT1H_I - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC MLT1H ~29% subst (24% div). XX SQ Sequence 1472 BP; 428 A; 277 C; 422 G; 332 T; 13 other; gaaattggta cctagaagtg gggtgctgcc gtaacaaaaa cctaaaacat gtggcattgg 60 ctttgggact aggcggcggg tagaggctgg aaaagtagtg aggagactgt tagtagaggc 120 tagaaaagcg gtaaggaaac tgctggtaga ggctggaaaa atggcaagga gactgttagt 180 ggaggctgga aaagcagtga ggaaactgct attgnaggct ggaaaaaagg caaccnatgt 240 tatgtagtgg cgaaacantt ggcaaaactg ttgcctgcag taacttggaa gatagaaaat 300 gtacctaatg aacttgtgga tctggctaag gagatctcca ggcagaatgt tgaaagtgtc 360 aattggcttc ttttagctgc gtatgataag gtacngnaag agagagatga gctaaagaaa 420 gaactgttca gtttgcaagc agaatttaga ggaaatatag aggacccagg acttgctggg 480 ttggaaaata aaactgtttc tcatctccag tctctccagc cagcaaaana ttctcaaagt 540 aagaaatggc ctcagggtaa agatcaaatc aagggtgtgg ctgtaagacc ctttgttaag 600 acctctgaaa ganttaaggc ggtgcctagt agaccctctc agctagacaa aagagcttct 660 aagaatctta agggcattgt cccacagcag cctgacatgc agcccaaagt agagagaggc 720 ctgtctcgaa aanaattgtg ggtgtggctt ttggggnatg gagtggactn naatcagatt 780 cataggaaac ccacaaagtt tttaagagaa ttgtattggc aaaagcaccg ccagcttgga 840 ctaaaaggga cngagacngt tcaaaatgaa aagaggcctc tgggccccca actttctacg 900 ggcaggaagc aggctgagaa agctactcag ctgcaaacat gggccatttc ttatggaaaa 960 ggaaggacgt ctcagagggc agagccaaga gcccagagag cggagccaag agccgtggag 1020 aacaatggac tagggaacca ctcccaggga gcagaaccgg gccctaatca aggaacattc 1080 tctgccccca gagtagggga acctggcaac atgtgcccag ctggatttca gaattgctat 1140 ggaccagtga ctgctatgtg cctcccgttc tccccctttt tgaatgggag tgtctattgc 1200 agttatcctg tccctgtctc accattgtat gttgggtgtg tggggggcag ataacttgtc 1260 tttttagttc acaggtctct ggatcaagag gagctgcatg aggagctaca cctgaggagc 1320 ctcatccata tctggacctg atgcagatca tgagatcctg gacttcgagc ctgatgccat 1380 gattggatga gacttttggg ggtcctggga taggggtgag catattttgc atgtgggagg 1440 aatgtgaata atttgtggcc agagggcaga ct 1472 // ID LTR24B repbase; DNA; HUM; 576 BP. XX AC . XX DT 02-SEP-1998 (Rel. 3.08, Created) DT 02-SEP-1998 (Rel. 3.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR24; KW LTR24B; MER41I; MER4I; MER57I; MER65I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-576 RA Jurka J.; RT "LTR24B."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX SQ Sequence 576 BP; 165 A; 122 C; 92 G; 188 T; 9 other; tgtaaantaa aataaaattt caggaccctc taaatttatt atgccaaggg ggaagttaag 60 ccctggagac tgagtcagta gcatgtttgc aattctgttt cttagattat agattaactc 120 tcttcctcat tgttcttgtt ctgtaaatga ctaggagaga ccagagacca gacctcccnc 180 cagctyccnt tccaatcact gatctttgtt atagattaac tgcctccttt attgtcctgt 240 acctaactca gaccagatgg tgcaaaagac cccatgactg ttacatcttc agtgtggaat 300 gttaaatata cctttcccga aagaaaaaga ccaccttaac taatcagatt gttgtaacta 360 tgcattaagc cttatataga aagatgttga aattctgtta agcttcccta aactttgtct 420 atataaatga tcccaaactt ctacacttcg gaacactgac ttccattctt tggaatctgt 480 gyttccnggg tggnccatcn tcaaactttg cacttgaata aactctcttt aaactagatt 540 ctgacccttt tgattatttt aggttgacag tgcyta 576 // ID L1MB5 repbase; DNA; HUM; 921 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MB5) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M4; L1MB5; L1MB5 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-921 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-921 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 16%. XX SQ Sequence 921 BP; 351 A; 157 C; 189 G; 219 T; 5 other; cttgtatcca gaatatataa agaactctta caactcaaca acaaaaagac aaacaaccca 60 attataaaat gggcaaanga tttgaataga catttctcca aagaagatat acaaatggcc 120 aataagcgca tgaaaagatg ctcaacatca ttagtcatta gggaaatgca aatcaaaacc 180 acaatgagat accacttcac acccactagg atggctacaa ttaaaaagac aganaataac 240 aagtgttggc gaggatgtgg agaaattgga accctcatac attgctggtg ggaatgtaaa 300 atggtgcagc cactgtggaa aacagtttgg cggttcctca aaaagttaaa catagaatta 360 ccatatgacc cagcaattcc actcctaggt atatacccaa gagaactgaa aacaggtatt 420 caaacaaaaa cttgtacacg aatgttcata gcagcactat tcacaatagc caaaaggtgg 480 aaacaaccca aatgtccatc aactgatgaa tggataaaca aaatgtggta tatncataca 540 atggaatatt attcagccat aaaaaggaat gaagtactga tacatgctac aacgtggatg 600 aacctcgaaa acattatgct aagtgaaaga agccagacac aaaaggccac atattgtatg 660 attccattta tatgaaatat ccagaatagg caaatccata gagacagaaa gcagattggt 720 ggttgccagg ggctgggggg aagggggaat ggggagtgac tgcttaatgg gtacggggtt 780 tccttttggg gtgatgaaaa tgttctggaa ctagatagag gtggtggttg cacaacattg 840 tgaatgtact aaatgccact gaattgtwca ctttaaaatg gttaatttta tgttatgtga 900 atttcacctc aatttwaaaa a 921 // ID MSR1 repbase; DNA; HUM; 281 BP. XX AC K03500; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human 37 BP minisatellite repeats, specific to chromosome 19. XX KW MSAT; Satellite; Simple Repeat; MSR1; KW Tandemly repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-281 RA Das K.H., Jackson L.C., Miller A.D., Leff T. and Breslow L.J.; RT "The human apolipoprotein CII gene contains a novel chromosome 19 RT specific minisatellite in its third intron."; RL J. Biol. Chem 262, 4787-4793 (1987). XX DR GenBank; K03500; Positions 1 281. XX CC This is a periodic sequence with periodicity 37 bp. CC First 37 nt are equivalent to a consensus sequence. XX SQ Sequence 281 BP; 58 A; 147 C; 44 G; 32 T; 0 other; agtcaagacc cccagcccct cctccctcag acccaggagt caagaacccc cagcccctcc 60 tccctcagac ccaggagtca agaaccccca gcccctcctc cctcagaccc aggagtcaag 120 accccccagc ccctcctccc tcagactcat gagtccagac ccccagcccc tcctccctca 180 gacccaggag tccagacccc cagcccctcc tccctcagac ccaggagtcc agacccccag 240 cccctcctcc ctcagaccca ggagtccagg ccccacccct c 281 // ID HUERS-P1 repbase; DNA; HUM; 6263 BP. XX AC . XX DT 10-AUG-1998 (Rel. 3.07, Created) DT 31-JUL-2008 (Rel. 13.07, Last updated, Version 2) XX DE Primate HUERS-P1 repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; LTR8; MuLV; HUERS-P1. XX NM HUERS-P1. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-30 RA Harada F., Tsukada N. and Kato N.; RT "Isolation of three kinds of human endogenous retrovirus-like RT sequence using tRNA pro as a probe."; RL Nucleic Acids Res 15, 9153-9162 (1987). XX RN [2] RP 1-856 RA Kapitonov V.V. and Jurka J.; RT "Direct submission."; RL Direct submission (July 1998). XX RN [3] RP 1-6263 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [2] (Consensus) XX CC Originally, a consensus sequence of the 856-bp 5'-terminal part CC of the internal portion of HUERS-P1, an LTR retrotransposon with CC LTR8 long terminal repeats, was obtained [2]. It was reported in CC 1998 that the remaining portion of HUERS-P1 is related to the CC MER4I-group [2]. At that time only 10% of the human genome was CC sequenced and it was not enough sequence data for an accurate CC full-length consensus sequence, which was finally derived in 2008 CC from the completely sequenced human genome [3]. CC HUERS-P1 has Pro tRNA related PBS [1] analogously to MMLV, HERVR CC (BaEV), HUERS-P3 and HUERS-P2. It has 4 bp target site CC duplications like all the other members of MER4I-group [2]. CC Individual sequences are on average 90% identical with the CC consensus sequence (some subfamilies are only 5% divergent from CC the consensus) [3]. XX SQ Sequence 6263 BP; 1727 A; 1122 C; 1367 G; 2033 T; 14 other; aatttggggg ctcgtccggg attgcccttg tggctacctg cccgtggttc ggtagccccc 60 ctccggcgat ggatccagag gccagcccaa gtggccgcct agttctcttg gactgggggc 120 tgactctggt actctctcta ccggcggggc gctgccgacc caatgtgcat ggatttaatt 180 gcaatggaga aatagtcctg gggagacgtc ccntaactgt agccctatca cagggtgtct 240 gtctgtagcc ccatggcggg gtgtctgtct gtagccccat tgcggggtgt ctggattggt 300 gagtatccta ggcgctgcca acgcctcctt ccttctcccg actggtttgt agccctatgg 360 tggggtgtct gtagccccat cgcggggtgt ctgtttgtag ctccaccatg gggtgtctgt 420 gtctgtagcc ccattgcggg gtgtctgttt gcagctcctg gggggtctcg gttggctctt 480 cctaactagt aggaagagtc ttggtttggg agacttctcc tcaatcagga agatttcggg 540 gaggtttctc agacggagaa taggaggata gtttggaagg gatactcttg gagttcttgg 600 ttagggatct gatttggaag gccttctgtc cgtctcgtct ttgtgtgtgt ttgtatatgt 660 ggaggggatc tcagaaggag ttgctgatgg aagtccagca ggcctaactc agagaaccct 720 ccttatttgt ctggtcacat tcggtgagcc ctaaagaaag ctcaacaggc ctgtctcggg 780 gtgactatct gctcttcgcc ttgcccagag accccattgt gaattaccgt tcggaggtcg 840 tccctcccca cctggagtgg atcaaagaca acagggacca acgggaaaaa gtttgagctt 900 tgccaggttg atattgggtg ctgaacgagg tgactagtgt ctgttttgtt atgtgtattt 960 tgctgggatg gaaaatgtta attcggttcc ccatgcagcc cattgggcag catcttgcaa 1020 attaagaatc ttgcctatgg ttccataaaa cagnaaaggg tgattttctc ttgtaaagtg 1080 gcttgaaccc cacagctatg gcacaagcga gcagggtcat cagaagccgc tccgttcttc 1140 tggaagctgc agagaaaggg aacccggaaa cctggtatgc cagcaaaaag ggtaagaaat 1200 tcttaccagc caagtttctg gtctctctct ctctctttct ctgtctgngt aaaacagtaa 1260 actatttgtc tcctctgcaa gggtttgatt aatagaaaaa aggatttgtg agactagtct 1320 taggctgtag caaatctggt gtactttgtg ctaagaattt gtctttctgt gttctgtaat 1380 ggagagaggg gtatcacagg atagaacgtg ggtttaggac ccctataagc ctgcttttca 1440 agccagctcg gcaggctggt cagttacaaa ctttgctacg ggtccctgaa accaataccg 1500 tatgaaattt ctctgtcttg ttttgtgtcc ttaagagctt aaccttgtga ccatgtgggg 1560 atactttctc ttggtttcca ccatccagag gacaggaatt ttggggttca tgtcatagtt 1620 agccctaaaa atttttcttg agcagttaaa agcctttgca agcttgaaat tggcttctct 1680 aggctccttc tgggaaaagc aatagaaact gctcaatgct gtatagctca gtagctaagg 1740 ctttatcttt tgacagtggt ggcctgggtt caattgttgg cttctggaat gattcctttc 1800 tggtttgtta tttgtgtaac tttgccattt attgaggttt cttcccccca tanttagctt 1860 ctgatttcct ctcttgaatt ttcctttctc tgaactacct tgnggagatt ctaaatcttg 1920 taaaaaagaa actgcttacc atgtctttga agcacctggg aggttacctt tggtaaagtt 1980 cagaagccag aaatattggc cgcttggcat ggctaaagtc gggtaataag agatctgaaa 2040 ggatttcttt tttaaagagc actatggtta aaagtcagct taattaaaag tggataaaca 2100 agctatagat atatttaaaa ggcctttatg tttttctctt cttgganctt gtttttctgg 2160 aaaaaggttt tttcttctca gtcgactgaa ttatttttct ccattttttt gtcttgccac 2220 tcttaatgca cacatgagag gccctaagat aacttctggt agcctgggac tcattgggaa 2280 aaacagagga ggcgccacag accccgtttt gggaaaaaaa aaccctctgt tttcctcatg 2340 aaaccccagg aattaaaagc ggatagatcc ctctcaaaat caaaggctct gttctgtttt 2400 gcattgtgtt atctgacggt tttgagtttt gggggtatca gaaattactt cgcattatga 2460 gagagctttg gtgtgtaata actaggtagg aaatatactt taagggatgg ctaatagtag 2520 ttatggaggg atacttgact ctttgcacac ttggatcaga gaagcatgct cttggccacc 2580 tggaagataa ggaaacatcc ccacccccca ctgggagatg agactcccat gagggatggg 2640 ctgattacaa aatgggctga ttggctttgg gttgccttgc aatgaaatgc agggtagaag 2700 cactgcactg tcttctcccg tagtatttcc ctccttttgg ggatccagga tccagtataa 2760 aatggcaccc ttaattttgg ggatctgtct ttgccttcag ctgcttattt gctgcttatt 2820 tggccctaga aatgcatgct ttcctggccc tgttcctcca agggctccac cctgaagcca 2880 gtaatccaat taagaaactg gcaaatgaaa aatcttacaa gtgctgaatc ttctgtctgt 2940 gtgtatttat atgtgttgta tgtttatata taaaagagct ctgattaatt ggcttagaaa 3000 aataagcgct taaatcaaat attttgtcag aaaaatagaa actttaatgc ctttttgttc 3060 acatgacttt agtaatcttt tggaaataaa gacagtttta aagattattg gtaaaataaa 3120 atgtcttgaa aatgtagaca tttggtctaa attaaggtca gatatcagat ttgctaaatg 3180 ctttaaggtc aaactgtttc tttgactttt gaaaattgtt cgatttacct actttggagc 3240 attagattat agataaggcc tggggacata tggagagcca tgcccnctag ctatgctgaa 3300 aagagtcaga ccttatcttc acttctgtct gatgtcctag gctccacccc tagtacataa 3360 ttaaaatcgc ttacttatca ggtttttcac taaaaataaa agttgctaag agttaacatt 3420 gtaacatgta attgagacca ctggagaaac agttttacat acaaggtgtg tagggaatgt 3480 gtttttggta aaagattata agaaggcatg ggaatatggc ttttgttaaa gggaatgtaa 3540 ttttgtctag ttcagagggt tttaaagatt gtcttaacct aaaagagtaa tgggacaaaa 3600 ctgaaggttt aagcaaagtg aaaagggttt gtaaagggtt gatcttgtaa aaaaagttct 3660 gtgggtataa acaagttggc taagatttga aagaaattat ttagcttttt ttccataggt 3720 taaaacatta aaatcatact gatgtggggc cagaatctgg gcccatgtgt ccgaataaca 3780 gggttttctt agaaaattga tctgctgttt gatggaaaat tgtaaagggt tctaaaaagt 3840 ttatgaaaat cttaccttat ggtcaaacta attaaaactg gatagattta taaaatttta 3900 tttaaaaact agctttaaca ttaaagatgc actaatgcaa acatgaaatt tggttttctc 3960 ttttgaagan gatttttatg taatgttaaa agataatgaa agggttttgt tttccccttt 4020 gggtaaatgg cagggaaaaa agggaggaga gagagaagag acagattcag ttggcctcat 4080 gctatcttca ttgggtcttg tttggaaagc taagtctcct ctatcagagt aaaggttttt 4140 cttttttaaa aanatttttg gagttatcat tttggccaaa tgaatgactt atggtgacct 4200 gggattctat tttgtgatat ccagtgtttt aaacctttga tatttgacaa actttccaaa 4260 atcaaattat aaattatgtc tctttctaac ctaatatttt agatattagg tcctctaaag 4320 tccaaaaatg acatttggct tatttggtat aaaaatcata caggaagcat tgtcaaatat 4380 gaaatggtgt ttggctttct ttgggctata tttgtgtaaa tgtgttattg gtatatgttc 4440 caaaattatg taaaactcct ataattctaa tatgacttag tatatgttat cagtaataat 4500 tataattatt atgttaaatg actgtgtgcc acagaggtaa caaatttcct tgtcaattgt 4560 gtctttaact gtggctgccc taaaatgttt ttgtcatcca cagacaattg ttgtctcgct 4620 ttggtcctct ttaaaagatg gttttataat cagctataaa atttaacagg tgctcttaaa 4680 tgcaggtttc tgattaataa cttggagatt gtgacattag aatagaggaa aaaactttca 4740 aatagaagag tgaatggtgt ttggttttct ttggactgta tttgtataaa tatgttatta 4800 gtatgtgttc caaaattatg ggaaacttct ataatgctga tatgatttag tgtacattat 4860 taataattat aattgttatg taaaattgtt gtatgccaca gaagtaacca aaattcctag 4920 tcaattgtag ctttaatagt ggctatagac ttttgtcatc cacagacatt ttgtcttgct 4980 ttggtccttt tcaaaaggca gtttataatc agatataaga ctctgagtgc aggtctcaga 5040 taactttaaa aattgtgcta ttncaaactt ctaggactct catggagagc tgatgtgtta 5100 aacattgcta anccttttgt tttcagagtc aaganaactt atttctttag agctatttgc 5160 aacttttaac aagtgagtaa aatatactcc tgtgaacaaa atttggagca tatttgttcc 5220 tctctacctg atttctccag aatttggaaa ctatttgtga gtattctcaa tttatggcag 5280 tatagttaat tgcataagtg caataanaat ctgttttctt ttgtaacagg acacaattgg 5340 agaaattggt tattttacca aggctttgac tggaatggca tgcttccttt aaagaatcaa 5400 agttgactta tagagccaat taaagcccgt tggggaatct ggcctcatac cttgtccaca 5460 cagagtccct gtacaaggtt cctgacctgt ggtaagtaaa gaatgtcact ttctaacagg 5520 cccaggaacc ccaagttatc ttgggacctc aagaggagag gaatttgccc aactcatagg 5580 tatttgaggg tacaaaccca tggctgggct cggcttttaa aaagtcttat ctgagattct 5640 tcacggaaca gagttccatc aaagccaatt tnaaaagcct aagtgaaaaa taattattct 5700 tgctgcactt catgcaaata atcaggccaa gtacagtaag actaaagttt attttgtaaa 5760 caaatcagtt ctatcatgat ttgtttttaa taaaaatggg gactggagag agaaaaatta 5820 tgcttcaaaa gaaaaactat agtacacctg ttgttagctg ttcttgaggt tttttctgca 5880 gtttagacta aattctaaat tctttgtggg ttagaagtcc ccaaactaat gctttcaaat 5940 ctttgctttt aaaattggga attgtactcc tcatcctagg actcattatt taccttatag 6000 taggctgttc acttaaacac tgtagtaaaa ctatagatga gaatactaat gtttttgcca 6060 tgcaagcctt ggaagcccag ccaggcctgc atgagtacgc tcagacagtt gcaaagcggt 6120 tccactcttc tcaccttggg gttcactccc attcccacta cgtcccctgt cagcaggaag 6180 aagccagagc gatcgacggc cttttcccat cttcatagcc tacaccttaa gattaaggtg 6240 ttataaaacc caaagggagg gat 6263 // ID MER117 repbase; DNA; HUM; 197 BP. XX AC . XX DT 01-APR-1999 (Rel. 4.03, Created) DT 01-APR-1999 (Rel. 4.03, Last updated, Version 1) XX DE Putative non-autonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; MER117. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-197 RA Jurka J. and Kapitonov V.V.; RT "MER117."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC 15 bp terminal inverted repeats. Presumably hobo-superfamily, CC based on similarities in TIRs. 71% similarity to consensus. CC Present in mouse. XX SQ Sequence 197 BP; 43 A; 32 C; 65 G; 54 T; 3 other; cagggatggc aaataggttt catctcatgt gycaactctg atcgattggt agtggctgcc 60 tggagtgctg tgttgagaag gattctgagg ctgyatctgg gctcagtggg aaagagtgct 120 gtgattgatt agtgatgtct gccatgggca caggaggggg aagtagcagc anatatgcta 180 tgtatttgcc atccctg 197 // ID MamRep1894 repbase; DNA; HUM; 123 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; MamRep1894. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-123 RA Smit A.F.; RT "MamRep1894 - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC rnd-2_family-1894 8 bp TSD with preference for NNTATANN; 15 bp CC TIR Pos 1-71 & 75-123 match pos 1-71 and 247-295 of CC rnd-2_family-38 24%/31%. XX SQ Sequence 123 BP; 35 A; 36 C; 33 G; 19 T; 0 other; caggggtgat attcaaaata tttaacaacc ggtacggcac gggcaccgac caatcagaac 60 ggacgccggc cgtaaacaac cggtacggcc ataccggtgc gtaccggctg aatatcagcc 120 ctg 123 // ID L1ME3F_3end repbase; DNA; HUM; 990 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from placental mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1ME3F_3end. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-990 RA Smit A.F.; RT "L1ME3F_3end - L1 Non-LTR Retrotransposon from placental RT mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 94% identical to L1ME3E_3end. XX SQ Sequence 990 BP; 395 A; 154 C; 195 G; 242 T; 4 other; ttagtatcaa gaatatataa agaactccta caaatcaata agaaaaagac aaacaaccca 60 atagaaaaat gggcaaaaga catgaacagg catttcacag aagaggaaac acgaatggcc 120 aataaacata tgaaaagatg ctcaacctca ttagtaatca gggaaatgca aattaagacc 180 acaatgagat accattttat acccattcga ttggcaaaaa ttaagaagtc tgacaatacc 240 aagtgttgga gaggatgtgg atcaacggga actcttatac actgctggtg ggagtgtaaa 300 ttggtacaac cactttggaa aacaatttgg cattatctcg taaagttgaa cattcgcata 360 ccctacgacc cagcaattcc actcctaggt atatacccaa gagaaactct tgcacatgtg 420 caccaggaga catgtacaag aatgttcata gcagcattgt tcgtaatagc aaaaaactgg 480 aaacaaccca aatgtccatc gacgggagaa tggataaata aattgtggta tattcacaca 540 atggaatatt atacagcagt gaaaatgaat gaactacagc tacacgcaac aacatggatg 600 aatcttagaa acataatatt gagtgaaaaa agcaagtcnc agaagactac atacagtatg 660 ataccatttt tataaagttc aaaaacaagc aaaactaaac aatatattgt ttagggatac 720 atacatatgt gataaaacta taaanaaaag caagggaatg ataaacacaa aattcaggat 780 agtggttacc tctggggggg ggagggaaga gggggatggg atagggaagg agcacatagg 840 tagatgtaaa gntattggta atgttctagt tcttaagttg ggtggtgggt tcacgggtgt 900 tcattttatt attatgcttc aaactgtaca tatacgttac atatattctt tgtatgtatn 960 aaatatttca taataaaaaa acaataaaaa 990 // ID MLT1D repbase; DNA; HUM; 505 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 4) XX DE Mammalian long terminal repeat (MLT1D subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MER26; MLT1D; KW MaLR family; retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 334-465 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX DR [2] (Consensus) XX CC LTR of MLT1D retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 18-19%. Intermittent subfamily CC between MLT1C and MLT1E2; 83% full-length similarity to MLT1C. XX SQ Sequence 505 BP; 145 A; 101 C; 146 G; 112 T; 1 other; tgtggtaggc wgaataatgg ccccccaaag atgtccacgt cctaatcccc ggaacctgtg 60 aatatgttac cttacatggc aaaagggact ttgcagatgt gattaagtta aggatcttga 120 gatggggaga ttatcctgga ttatccgggt gggcccaatg taatcacaag ggtccttata 180 agagggaggc aggagggtca gagtcagaga aggagatgtg acgacggaag cagaggtcgg 240 agtgacgacg ttgctggctt tgaagatgga ggaaggggcc acgagccaag gaatgcgggc 300 ggcctctaga agctggaaaa ggcaaggaaa cggattctcc cctagagcct ccagaaggaa 360 cgcagccctg ccgacacctt gattttagcc cagtgagacc catttcggac ttctgacctc 420 cagaactgta agataataaa tttgtgttgt tttaagccac taagtttgtg gtaatttgtt 480 acagcagcaa taggaaacta ataca 505 // ID MER41G repbase; DNA; HUM; 885 BP. XX AC . XX DT 23-APR-2001 (Rel. 6.03, Created) DT 23-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER41G. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER41E; MER41F; KW MER41G; MER4I-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-885 RA Jurka J.; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC 3' similar to MER41 (particularly MER41E and F). XX SQ Sequence 885 BP; 283 A; 221 C; 188 G; 188 T; 5 other; tgagatagga atagcactgg gtggtcgcag gaggatggaa aaacccaaac aacagctaaa 60 acaagaacta ggcaaagaaa ccacaggata acagaaaacc caaaataagg gagagaaaat 120 ggccaaaacc ctggtcaggg tgacatgtcc atgactcttc caggcaaacc caaataaggg 180 agaaaggggg tggtaatcag gggnggggtc cctgaaatcc cctccttttc cagaatacct 240 aatgattatt ccacccccta attaaagaaa cacccataaa ataggaatgc tgggtggtca 300 caggagaagc aggaaaatat caagcagcaa tttcacatar cagcaagaaa ggagctgtta 360 aaattagcta caaggacaag gatgagcctg ggctgataag accctaacaa acaggatggg 420 ggctaagctg gctgaaactg gctrggtcca acatggcact ggatttgacc catgccctac 480 cccagaccta attatatgct cattaccaya ctaaatcaca cacccaccag tgccatgaca 540 gatctgagca tgcccatatt tagtataaaa atgggtggca cctcaattct aagaaatccc 600 cacctttttc ctagaaaacc taatgattat tccaccccct aattagaaga gcccataaaa 660 ttagaaaccc aaactccatt gtgcacgact cattctcccg agcacgcccg cacttctctc 720 ttaagtgtgt acttttgctt tgcaataaaa gcttcttgcc tttcgcttca ttctgactca 780 tccctgaatt ctttcttgcg atggtgtcaa gaacctggac actggctggg gctggggctg 840 gggtctcact ggcatctgga gacccacctn agccctccag caaca 885 // ID ERV3-16A3_LTR repbase; DNA; HUM; 422 BP. XX AC . XX DT 06-JUN-2008 (Rel. 13.06, Created) DT 06-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of endogenous retrovirus; ERV3-16A3_LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-422 RA Jurka J.; RT "A new ERV3-type subfamily of endogenous retroviruses."; RL Repbase Reports 8(6), 615-615 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 422 BP; 75 A; 149 C; 106 G; 92 T; 0 other; tgtggcagcc acggaggcgc gccgctcgga tctcccttca agaaagaact tgccgttcag 60 ccgcaaggag tgcggttagc tgacagcctc cagctgctag caccttcagg atccgcctca 120 gctttcgagc cgaggccacg ctcttcccgg gcagccccca gccaatgact gagcacggcg 180 ggagtactag ggcctggcca tttctgccca acgcgggact cctctaacgg gcaatctttg 240 ctctggaaga gctccccgtc gggttggccg agactttgtc agatctgcat cgcggtctga 300 ggctctccct gcccaatcct gcttcctctc cttttatctt tcacaggcgt taccccccaa 360 taaacctctt gcgctcctaa ctccgtctca gcgtctgctt cccggaggac ccaactgaca 420 ca 422 // ID MER83BI repbase; DNA; HUM; 4880 BP. XX AC . XX DT 16-JUN-2000 (Rel. 5.05, Created) DT 20-APR-2006 (Rel. 11.05, Last updated, Version 2) XX DE Primate MER83BI repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER4I-group; KW LTR retroelement; MER83B; MER83BI. XX NM MER83BI. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-4880 RA Smit A.F.; RT "RepeatMasker release June 1998;."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC Internal sequence of a MER4I-group retrovirus-like element CC flanked CC by MER83B LTRs. It is similar to MER83AI over pos 1-1358 (92%) CC and CC 4530-4880 (78%). At the protein level, pos. 881-1340 match the CC gag gene of HUERS-P3 and HERV17. CC Sequences are on average 15% diverged from consensus. XX SQ Sequence 4880 BP; 1355 A; 1061 C; 1040 G; 1385 T; 39 other; cacccgcaac attttggtgg cccgtacggg gactctctct ccttacgggg aactctctcc 60 cctgctctct cccttttctc tttcccaact cgggaccctc ggtggacagc gtctaagcac 120 ggagacaact gnaggtctct ggccggggct acactccggt ggactgaaag gtgtccgtgt 180 ggaagcatct gaccgccact gcccgntcgg gtgagggacc tgagtttntt ttctcttttc 240 agtcttccag cggccgnctt ctagtatccc tctggcaatt gatggtaact ggccagggcc 300 actctccggt gttgcctgaa ggccaggggg tgaacagggt tggctgcctt gcccggaagg 360 gaggaaggct ctctcctatc ctttctagtc aaaagtccct aatccctacg tgtggcgcga 420 ttggcagcgg aagctcgtcc agggcgaact cacacacgtt ttgggtgact cagaccccct 480 ctttctcact ctaaattctc ccatggagnc agccagccat cctgctctgg acgttgccaa 540 atcaggtgat ctcaagcggc ctcagagcgg tgagtctccc catncctgcc ccttctcctg 600 ggctggcacc aggcngagtt ctccctttac cctttttcct cgtacctggg ctgatcaccc 660 agcgtaagtg agtncctgga ctggccatcc agcgtaaggc ccccgagtgg ccgggaggtc 720 ctttctaata ggtgggatgc ccctttagaa agtgcacccg agtccctcag cggacgtaag 780 tggaaccctt ttcatctcgg cgggatgccc caagagaaag tgcggttcgt gtccccagca 840 gacattaccc ccnagcggct cattgttttc cagtcccacc atgggacaaa ccccatctat 900 tccttcagac tcacctctgg gctgcattct aaaacattgg gacaaatttg accctcagac 960 tctcaaaaag aaacatctaa ttttcttgtg taatacagca tggcccctat gcaggaaatc 1020 ctcaaattag cctcctcagt cttttataac cgagagcaga ataaggagga cagggctaag 1080 gagaaagaaa aacgcaggga caagaggcag gctcaactgt tggctgcttt acaagccccc 1140 agccccctcc aggttgccct aaggacactc ctccaggtaa ctgccatcag tgcagaaggc 1200 caggccactg gaaggcaaac tgccccaatg ggacaaatgg gaaaaagccc tacatggctt 1260 gccccctctg ccacaagctc ggccactgga aacgggactg ccctgagagc cgaagggccc 1320 ccgggacaga atcccaaccc ctgatggcct tgagctgagg agggctctct gctccggctg 1380 gcttccaaat caaacatcat catcaacaag acaaagccaa gggcaactct ggaggcggca 1440 agtaaaatna taaatttccc ttttgggttc aagagctgcc tgtcatggag atgcctcctc 1500 tacccctttc tggaaattac ctcttgctta taatggtaaa aacctggaaa attaccatct 1560 ggactttaaa aggcttttag attgagtcac tattggaact gagtacacca ttgaaagaaa 1620 aaggttaaat taaaagaagg atgcataata atgncgtggc tagccttaga aagttctctt 1680 gagcagttaa aatcctttgc aagctcgaaa atgactgctc tagantcctt ctgggaaaaa 1740 cagcagcagt caccttgtgc tgtagntcag tngctaaggc tttgcccttt cacaatgcgg 1800 tggcttgggt tcaattcctg gcttngggag tgagtccttt ctggtttaat acttgtggna 1860 cttttgccat ttattgattc ttttcccctc catggacagc ttctgatttc ctgtcttgaa 1920 ttttcttttc tctgagctac ctttggggcg attctagatc ttgtaaatca ctggccgtct 1980 ctttggagat acctcgtgcg tctgtgttta agtcatancc ttagttaagg cttattgatt 2040 tcacgtggga ggttaccttt agtaaaagat tcaaaagcca gaaatatcag ctgtttgtcc 2100 cggctaaaat ctggtaataa gagattttna aagaattttt ctcttgagag ctccatagtt 2160 agaaatcaac ttaattaaaa ctgatatttg gncttatgtg tacagatatt gttttaaagc 2220 ccctgctttc cctctaaaaa cttctcagtc aacggaattc tgtcttgatt ctctatttct 2280 gtctgtgtat ttatatgtgt ttatataaaa gagttctaat taattggctt aaagaaaaat 2340 aagcgcttaa accaaatatt gtcagaaaaa tagaaacttt aatgcctttt aggtcacgtg 2400 actctaataa tctttngtaa ataaagacag tttgaagatt attggtaaag taaaanaaaa 2460 atgtcttcaa agtttanaca tttggtctaa attaggcagg tcagatactg tttgctagat 2520 gctttaaggt cataaactgc ttctgtgact tttaataatt gtttgacttg tctgttttac 2580 agccattaga ttctaggtaa ggcctgggga catatggagt tagccnggtc ccctggctag 2640 gctgggaaga gtcagacgtt gtctgcagct ctatccttgt cctgggctct gcaatcttat 2700 acatggttaa aattgcttac ttaccaggtt tttcaccaaa aataaaagtt gctaagagtt 2760 aacattgtaa catgtacttg agactactgg agaaacagtt ttacatgcaa agtatagaag 2820 gaaagtagaa tgtgtttttg gtgggaggtt ataagaaggc atgggaatac ggtttttgtt 2880 aaagggaatg taattttgtc tagctcagag gnttttaagg attgtcttaa cctaaaagag 2940 taatgggaca aaactgaagg tttaagcaag ttgtagaggr tttgtgaagg gctgatcttg 3000 taaaagaagt tctgtgggta taagcaagtt ggctaagatt tgaagggaat tatttagttt 3060 ttccgtaggt tgaacattga aataaaagca cactaatgca gggccagaat ctgggcccgc 3120 gtgtctgaat aacagttttc ttagggaatt gatctgctgt ttaacagaaa attgtaaagg 3180 gttataagag gtttatggaa atcttacctt atggtcaaac taattaagat tggacagatt 3240 tgtttataag gttttattaa gaattggatt taacattaat aatacactaa tgcaaaggtg 3300 aaatttggct ttctcttttg aacaagattt ttatgtaata ttgaaaaata atgaaagatt 3360 tttgtttncc ttttaaataa acgacagaaa agggagggaa gaaaaaggag acagattcag 3420 ttggcctcat gctgtcttta ttgcgtcctg tttggaaagc tgagtctccc ctctatcagc 3480 gagtaaagat ttttgccttt naaaaatttt ngagttatca ttttggctaa aaaatgactt 3540 acagtgactc tgtactaatc tccttctctg agcaactctc ctccaaatcc tgttgggtaa 3600 tgggagcaaa tggcaccccc tccctccaaa agaaaaattc acacctcttt atgttattta 3660 agggaccaat taccattctc ccaccagtcc ctggtaatat ctaaataccc cacacccctt 3720 tggggcaaaa atatactttc caagatgggt gcctgcttna tatttgccca gcctctgaat 3780 tcatctttcc ctctaatagc cctatttctc ccaggaaagc tacctaaatc tttaacnaat 3840 aacttcaacc tagatagtcc tacctcaggg gtttaaaata gcccacactt attcagacaa 3900 gccctagcaa gaaatctaac cgagcaatct cttgaggggg ataacttcta cagtatgtag 3960 ataacctcct catctgctcc ccctccacag aactcacaca gcaacatgca gtacaaaccn 4020 taacttccta anaaaaggaa aataattttt gtctaattca aaggttattt aaaggttata 4080 tncaaaacaa gataaaagga accaggaaat aagagagaca taaagaaagt tataaaggta 4140 aagaggtatt tttggtaagg aaggttataa agaagaagat tttatatgag aaaggatctt 4200 gtatggtaaa ttcttgtcct aaagtaaaat gactggttgt ttaagaaaga gggatgttta 4260 ggacaagtca gaaagtctag gcgcgtcata gatggtctgc gtaagtcatg agaaaattta 4320 tgaagggaat ttataaaagg aatattatat gtaattaaga tataatagtc tttctaaaat 4380 tggttcccta tgctgtgtct aattaaattc aaacactttt tcatcgagtt caacttccag 4440 gttatctaaa tgggcttcca ataaggaaaa acagtcacac tgcaaaaggg ttttctttgc 4500 ctttttggta actggcttaa gaaacaaaat tttntcttct agaattcagc agtttcacct 4560 tcaaatgatg ctgcgaacgg gatatcggtc tctccccaan gatgcctgct acctttatga 4620 gtctcctctg gactcagctg gacaccagtt tcgcctngac atgctccccc tctccgatga 4680 gttctttcct ccagcaagat ccaatatcct aagtcccaca ntccgggaca atgacccaca 4740 gggtctcctg acagaccaac aatcntaggt agggccaact ctacgccccn ggtcagcagg 4800 aagcagttgg aagatgagac ctccgcccca atgccaaaga tttgtcattg ttgttctgtc 4860 aggggggaat gtggaatcct 4880 // ID L1PA3 repbase; DNA; HUM; 902 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA3) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P1; L1PA3; L1PA3 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-902 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-902 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 2%. XX SQ Sequence 902 BP; 345 A; 178 C; 186 G; 193 T; 0 other; ctaatatcca gaatctacaa tgaactcaaa caaatttaca agaaaaaaac aaacaacccc 60 atcaaaaagt gggcgaagga catgaacaga cacttctcaa aagaagacat ttatgcagcc 120 aaaaaacaca tgaaaaaatg ctcaccatca ctggccatca gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagttaga atggcaatca ttaaaaagtc aggaaacaac 240 aggtgctgga gaggatgtgg agaaatagga acacttttac actgttggtg ggactgtaaa 300 ctagttcaac cattgtggaa gtcagtgtgg cgattcctca gggatctaga actagaaata 360 ccatttgacc cagccatccc attactgggt atatacccaa aggactataa atcatgctgc 420 tataaagaca catgcacacg tatgtttatt gcggcactat tcacaatagc aaagacttgg 480 aaccaaccca aatgtccaac aatgatagac tggattaaga aaatgtggca catatacacc 540 atggaatact atgcagccat aaaaaatgat gagttcatgt cctttgtagg gacatggatg 600 aaattggaaa tcatcattct cagtaaacta tcgcaagaac aaaaaaccaa acaccgcata 660 ttctcactca taggtgggaa ttgaacaatg agaacacatg gacacaggaa ggggaacatc 720 acactctggg gactgttgtg gggtgggggg aggggggagg gatagcattg ggagatatac 780 ctaatgctag atgacgagtt agtgggtgca gcgcaccagc atggcacatg tatacatatg 840 taactaacct gcacattgtg cacatgtacc ctaaaactta aagtataata ataataaaaa 900 aa 902 // ID MER54 repbase; DNA; HUM; 902 BP. XX AC . XX DT 25-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Primate MER54 repetitive element - a consensus. XX KW Transposable Element; Interspersed repeat; MER54. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 4-902 RA Kapitonov V.V. and Jurka J.; RT "MER54."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-902 RA Smit A.F.; RT "MER54."; RL Direct Submission to Repbase Update (1997). XX DR [2] (Consensus) XX CC Putative LTR [1]. 5 bp target site duplications [2]. Orientation CC unclear. CC Average divergence from consensus 21%. CC Related to MER73, MER74 and MER88. XX SQ Sequence 902 BP; 210 A; 281 C; 188 G; 219 T; 4 other; tgtagtgaat tcttataatt ttatgttgcc tcggcatcca ttttgaatat aagtttaact 60 ttctcatacc agaagcaggg ctyagtcacc cttgacacgg tttccagttc tccacctcct 120 cccagttcct caatgtggtc gacccagata tctgccttat acmaccgcct cctggkgacc 180 acctccctat ggaacagctg gatacaacct acttgacttg ccccactgac ccccacaccc 240 cacatggact gtgcaggtat gccacagtga ccacctctca gtcacagcgt gaccccacgg 300 aactcgtgcc tgcttgctct aaacccacca attagaactc cccgcgggaa acctgcttgg 360 gtaacgccct ggaccccaat aaaggctttg gtcccacagg tctctctctc tctctctcgt 420 tctccccacc cgttggttga gcatgcgtgt cccggacagc ttcccccttc ccattggccc 480 tgcgaggcat gctgccctct tctctctggg atctgtaagt aataaactgc ttctgttatt 540 tcatgtgttt tgttgtgctg cctcctctgt gtctcacctg accgacacac ccaaacctaa 600 ctctcttcct ggtcagggct ctcctagaga gtggctatct tggcaggaat aaactggaca 660 caggtcagac aagagccaca agggcgtctg ccagtgtaaa caagtttcct gtgagaggga 720 cacctggtca cgggtcggac acctaggcat taggccgtcc gccaggataa agaagtatcc 780 cgtgaaagat acactgtaaa cacccacaac camcttccct ggagccccat cagggcaggg 840 ctagagttta tagccactct ccagagagag acctcaagac caaattagag gaaaatacaa 900 ca 902 // ID L1PA2 repbase; DNA; HUM; 902 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE 3'-end of L1 repeat (subfamily L1PA2) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P1; L1PA2; L1PA2 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-902 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-902 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 1%. XX SQ Sequence 902 BP; 346 A; 175 C; 186 G; 194 T; 1 other; ctaatatcca gaatctacaa tgaactcaaa caaatttaca agaaaaaaac aaacaacccc 60 atcaaaaagt gggcgaagga catgaacaga cacttctcaa aagaagacat ttatgcagcc 120 aaaaaacaca tgaaaaaatg ctcatcatca ctggccatca gagaaatgca aatcaaaacc 180 acwatgagat accatctcac accagttaga atggcaatca ttaaaaagtc aggaaacaac 240 aggtgctgga gaggatgtgg agaaatagga acacttttac actgttggtg ggactgtaaa 300 ctagttcaac cattgtggaa gtcagtgtgg cgattcctca gggatctaga actagaaata 360 ccatttgacc cagccatccc attactgggt atatacccaa atgactataa atcatgctgc 420 tataaagaca catgcacacg tatgtttatt gcggcattat tcacaatagc aaagacttgg 480 aaccaaccca aatgtccaac aatgatagac tggattaaga aaatgtggca catatacacc 540 atggaatact atgcagccat aaaaaatgat gagttcatgt cctttgtagg gacatggatg 600 aaattggaaa tcatcattct cagtaaacta tcgcaagaac aaaaaaccaa acaccgcata 660 ttctcactca taggtgggaa ttgaacaatg agatcacatg gacacaggaa ggggaatatc 720 acactctggg gactgtggtg gggtgggggg aggggggagg gatagcattg ggagatatac 780 ctaatgctag atgacgagtt agtgggtgca gcgcaccagc atggcacatg tatacatatg 840 taactaacct gcacaatgtg cacatgtacc ctaaaactta aagtataata aaaaaaaaaa 900 aa 902 // ID MER9 repbase; DNA; HUM; 511 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 09-SEP-2002 (Rel. 7.08, Last updated, Version 4) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE HERVK9I belongs to the HERVK-group. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK9I; LTR; KW MER9; PRE. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 510-195 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 510-1 RA Ricke O.D., Ketterling P.R. and Sommer S.S.; RT "PRE: a novel element with the hallmarks of a retrotransposon RT derived from an unknown structural RNA."; RL Nucleic Acids Res 20(19), (1992). XX RN [3] RP 1-510 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [4] RP 1-510 RA Kapitonov V.V. and Jurka J.; RL Direct Submission to Repbase Update (18-APR-1997). XX RN [5] RA Mayer J. and Meese M.; RT "The Human Endogenous Retrovirus Family HERV-K(HML-3)."; RL Genomics (80), 331-343, 2002. XX RN [6] RP 1-511 RA Mayer J. and Meese M.; RT "MER9: Long terminal repeat of endogenous retrovirus."; RL Direct Submission to Repbase Update (26-AUG-2002). XX DR [6] (Consensus) XX SQ Sequence 511 BP; 129 A; 132 C; 115 G; 135 T; 0 other; tgttggggaa caggccccca aaatctggcc ataaactggc cccaaaactg gccataaaca 60 aaatctctgc agcactgtga catgttcatg atggccataa cgcccacgct ggaaggttgt 120 gggtttaccg gaatgagggc aaggaacacc tggcccaccc agggcggaaa accgcttaaa 180 ggcattctta agccacaaac aatagcatga gcgatctgtg ccttaaggac atgctcctgc 240 tgcagataac tagccaaacc attcctttat ttggcccatc cctttgtttc ccataaggga 300 tacttttagt taatctaaaa tctatagaaa caatgcttat gactggcttg ctgttaataa 360 atatgtgggt aaatctctgt tcggggctct cagctctgaa ggctgtgaga cccctgattt 420 cccacttcac acctctatat ttctgtgtgt gtgtctttaa ttcctctagc gccgctgggt 480 tagggtctcc ccgaccgagc tggtctcggc a 511 // ID HSATII repbase; DNA; HUM; 170 BP. XX AC X03460; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 04-AUG-2008 (Rel. 13.07, Last updated, Version 3) XX DE Human satellite II DNA. XX KW SAT; Satellite; Simple Repeat; HSATII; KW Satellite repetitive element. XX NM HSATII. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 21-79 RA Prosser J., Frommer M., Paul C. and Vincent C.P.; RT "Sequence relationships of three human satellite DNAs."; RL J. Mol. Biol 187, 145-155 (1986). XX RN [2] RP 1-170 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR GenBank; X03460; Positions 1 59. XX CC CC [2] general. XX SQ Sequence 170 BP; 38 A; 42 C; 24 G; 66 T; 0 other; ccattcgatt ccattcgatg attccattcg attccattcg atgatgattc cattcgattc 60 cattcgatga ttccattcga ttccattcga tgatgattcc attcgattcc attcgatgat 120 tccattcgat tccattcgat gatgattcca ttcgattcca ttcgatgatt 170 // ID L1MA9 repbase; DNA; HUM; 1059 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MA9) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M2; L1MA9; L1MA9 subfamily; MER32; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 1-1059 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [3] RP 1-1059 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 15%. XX SQ Sequence 1059 BP; 410 A; 167 C; 214 G; 267 T; 1 other; ttaatatcca aaatatataa ggaactcaaa caactcaata gcaaaaaaac aaataacccg 60 attaaaaaat gggcaaagga cctgaataga catttctcaa aagaagacat acaaatggcc 120 aacaggtata tgaaaagatg ctcaacatca ctaatcatca gggaaatgca aatcaaaacc 180 acaatgagat atcacctcac acctgttaga atggctatta tcaaaaagac agaagataac 240 aagtgttggc gaggatgtgg agaaaaggga acccttgtac actgttggtg ggaatgtaaa 300 ttggtacagc cattatggaa aacagtatgg aggttcctca aaaaattaaa aatagaacta 360 ccatatgatc cagcaatccc acttctgggt atatatccaa aggaaatgaa atcagtatct 420 cgaagagata tctgcactcc catgttcatt gcagcattat tcacaatagc caagatatgg 480 aawcaaccta agtgtccatc gacggatgaa tggataaaga aaatgtggta tatatacaca 540 atggaatatt attcagcctt aaaaaagaag gaaatcctgc catttgtgac aacatggatg 600 aacctggagg acattatgct aagtgaaata agccaggcac agaaagacaa atactgcatg 660 atctcactta tatgtggaat ctaaaaaagt caaactcata gaagcagaga gtagaatggt 720 ggttgccagg ggctgggggg tgggggaaat ggggagatgt tggtcaaagg gtacaaagtt 780 tcagttatgc aggatgaata agttctggag atctaatgta cagcatggtg actatagtta 840 ataatactgt attgtatact tgaaatttgc taagagagta gatcttaagt gttctcacca 900 cacacaaaaa aatggtaact atgtgaggtg atggatatgt taattagctt gattgtggta 960 atcatttcac aatgtatacg tatatcaaaa catcacgttg tacaccttaa atatatacaa 1020 tttttatttg tcaattatac ctcaataaag ctggaaaaa 1059 // ID LTR10E repbase; DNA; HUM; 637 BP. XX AC . XX DT 07-FEB-2000 (Rel. 5.01, Created) DT 07-FEB-2000 (Rel. 5.01, Last updated, Version 1) XX DE LTR from a human endogenous retrovirus (LTR10E subfamily). XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR10E. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-637 RA Jurka J.; RT "LTR10E."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC 72% similar to LTR10D over the entire length. The highest CC partial similarity is to LTR10A (79%). Average similarity CC of individual copies to consensus ~89%. XX SQ Sequence 637 BP; 170 A; 130 C; 110 G; 223 T; 4 other; tgtagaaagt aaaaggtttc ctcttcaaag tttcccttct tgttaaagaa taaatcataa 60 gtgttagaaa taatagtttc ttttaaagac taacttcctt caagcctcct tgctttgtgc 120 taataactct ttgttaagcc ctatcctatg tagctgttag acataaggga ataagtacat 180 tctatgtcct tgtactttaa ccaagatatt tgtgctggac gtgctcacag gcatgtccca 240 gctcgcagcc tatgcccctt ccttatttgg raatattatt acttttctaa gtcctttcgt 300 aagcaacttc ctcttttcct ttgttctcca ttgcctttac ctatttagaa aagttttaaa 360 ttattagcca rtcgggtttt agtttagatt gtgaggtctg gctccagcca atggagacag 420 gacacagtag cagggacaaa ctgcgtaagg gataaaaatt gcttccctcc tttgttcagg 480 tgtgctcttg ccattgttcc atctgcgagg agcacccttt ctgcagaaag taaaattgcc 540 ttgctgagaa aattaaattt ttgtctgart gctaattttt ctttgcagca ccgaggaaca 600 agcattctgt ttctaaataa acattttacw tataaca 637 // ID RICKSHA_0 repbase; DNA; HUM; 1708 BP. XX AC . XX DT 09-JUN-1999 (Rel. 4.05, Created) DT 19-DEC-2001 (Rel. 6.11, Last updated, Version 2) XX DE RICKSHA_0 repetitive element - a consensus. XX KW MuDR; DNA transposon; Transposable Element; Nonautonomous; KW MUDR superfamily; Nonautonomous DNA transposon fossil; RICKSHA; KW RICKSHA_0. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1708 RA Kapitonov V.V. and Jurka J.; RT "RICKSHA_0."; RL Direct Submission to Repbase Update (JUN-1999). XX RN [2] RA Kapitonov V.V.; RT "RICKSHA_0."; RL Direct Submission to Repbase Update (DEC-2001). XX DR [1] (Consensus) XX CC RICKSHA_0 is a non-autonomous DNA transposon (it does not carry CC an external part of HERV-L virus found in RICKSHA). CC It has 70 bp-long terminal inverted repeat. CC Average identity of individual copies to the consensus sequence CC is CC about 86%. CC RICKSHA_0 can be preliminary classified as a nonautonomous CC DNA transposon related to the MuDR superfamily [2]. CC It shares important structural hallmarks with MuDr-like CC transposons: CC 9-10 bp TSD; the 5' GGG and 3' CCC termini; long TIRs. XX SQ Sequence 1708 BP; 511 A; 303 C; 322 G; 572 T; 0 other; gggtttggat cataatccca aaagacacaa tcccaaacgc cataatcccg aatgttgaaa 60 tcccgaaaga tcaaaatccc taaagtctaa aatccctaaa gtctaaaatc ccaaaaattc 120 acacaggatg gttgcatcat gttaggcaga actgttattt tcttattgtc tttatgcaga 180 aaaaatggat tttaattgaa tccccaaacc ataatgacag atttggaatt aggtgcgatc 240 aaggcttcta aaagtgaatt tcaaggtgtt accaataaag tttgtttttt tccattcagc 300 ccaatgcatt tggtggaaaa ttcagatgag tggattggcc atgcgatacg gcaacgacga 360 aaacttcagt ttaaaaatgc gtcatttgcc tgcattggca ttccttccag ctgatgacat 420 tccgggagct tttaatgaat taaagccgca tttgcctgaa gaagtcagcg aagttactga 480 ctggttcgaa aataattatg tgcacggtag gataagaaga cacttacaca acggtgttgc 540 cgttcgatta ccagtattgt ttctaccaaa tttgtggtct gtatatgagt gcatgcagaa 600 tggatttcta tatacccaaa acaacataga agcatggcac agaagatggg aaaatttaat 660 agggaatgct catgtcggtg tatatcgaat cagaagattc aaaaagagca gcgccacgta 720 gaaaatgaat gtgaacatat tctccgagga gagccatgtc ctaaaagaaa aaaaaaagca 780 gctattcatc gcgatgcaag acttcaaaat atagttaatg atcgtgaaag tcggccagct 840 cttatggact atctccgtgc aattgcccat aatctatccc tgtaatatac tttttcatat 900 gtcgaatttt ctttttagtt ttttttcact attttaaatt gtcagcatta ttttttacaa 960 ttcgctatgc tatgtatttc atcttcgcat catttccaat actggaggta taaattgtgt 1020 aaagactttt agagagttct aattcgtttt atgcattttt tgcaaatttg actccacgaa 1080 agtgcattat cacaacgttg actttgtgtg taagcattgt gcgtgtacgt aaaaacgttg 1140 aaacttcctc aataaatgaa gagatgtcct ttttgtacat ctgcatttgt gaaagataaa 1200 atttctcgag atctcggctc tttgggcgac tgcatatgca gtggtgaccc atcgcggttt 1260 ttgatcgatc tcgtcaaaag acttaggttg ttcgtcacgg tatttcagat gaccgcagtt 1320 ataaagctgg gtgcacacaa ttaccaacca tagtgatatg cgtttataca tttccctttt 1380 tgacctattt ctttatgaat acggttcgtc tgctcataac tgttataccc gtgcgactgt 1440 cattagtata cctgagtgtt tatgcttgca aaaatatgta tgttattatt gcctatttta 1500 ttgtgtaaag tggcctatga agtgttctgt catgttttta tatgtttctc aaataaatcc 1560 ccttttaaaa atgtaaataa atatctttta aaaaattttt aaattatttt ttccagaatt 1620 atatttttgg gattttgatc tttcgggatt tcaacattcg ggattatggc gttcgggatt 1680 gtgtctttcg ggattatgat cggctccc 1708 // ID MER83 repbase; DNA; HUM; 441 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 2) XX DE Putative long terminal repeat of endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER83; KW retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-441 RA Smit A.F.; RT "MER83."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Related to MER84. 5 bp flanking site repeats. XX SQ Sequence 441 BP; 113 A; 130 C; 81 G; 114 T; 3 other; tgtggagtcc taattaggga aaaggagtca ggctggcggg accaggggaa agcaaaggga 60 gaaagcaaat aagctataag tctgcctttc ttcatggtcc aggacacata gccctcctgc 120 gcaaataact cacaatcttc ctgcgcccaa ctattatcaa acacctcagc tgacagaaaa 180 atgcaagtta gctcmctgca accttggcat tatcagtact gcacgcagcm ctctgcagcc 240 caagaaccat cctataaaat ctccagcaag cctttgtctc cttgcagtca gctcctctct 300 tgctggtctg cctgttgctt ccttgcaaca tattttcata ctttctctaa taaatctgcc 360 tttctttacc tacaactgtc ttggtaaatt atttttacct cccgcgccac cggccccaga 420 tagtcgccgc tccccacgrc a 441 // ID MamRep434 repbase; DNA; HUM; 426 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Mariner DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MamRep434; KW mariner. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-426 RA Smit A.F.; RT "MamRep434 - Mariner DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 25 bp TIRs. 29% subst in dog-human. Shares TIRs with Tigger15. XX SQ Sequence 426 BP; 138 A; 77 C; 70 G; 138 T; 3 other; cagtaaaacc tcattaattc ggactccact aattcggaat ttgtgataat tcggacaggg 60 gctgggctga agtttacctt tgcactatct atgaaaaaag ggtttgctaa gcaaattaat 120 agtgtaaaca agattgcaag gggaatgttt aacctactta agagaacaaa ctgttttcaa 180 gcactttaga agcatccatt tgcatacaaa taattaatat gctaattaca aatnattctt 240 atctattcat taaagcaggt ccagcaggac ctctacttgg caacactttg ttagcctagt 300 tcgagttact gtatgtactt gaaagtaata aaactgcatt tctttnaaaa tattctataa 360 ttcagacttt tcactaattc anactggcct tccccccaat tagtctgaat tagtgaggtt 420 ttactg 426 // ID LTR15 repbase; DNA; HUM; 493 BP. XX AC L37793; M64936; XX DT 18-APR-1997 (Rel. 2.03, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE LTR from a human endogenous retrovirus HSRIRT. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR15. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kannan P., Buettner R., Pratt R.D. and Tainsky A.M.; RT "Identification of a retinoic acid-inducible endogenous RT retroviral transcript in the human teratocarcinoma-derived cell RT line PA-1."; RL J. Virol 65(11), 6343-6348 (1991). XX DR GenBank; M64936; Positions 2856 3309. XX CC Positions 2856-3309 and 1-78 Accession No M64936, GenBank 97.0. XX SQ Sequence 493 BP; 143 A; 117 C; 87 G; 144 T; 2 other; tggaacagga attaaaagaa attaaagaat gcataagcaa aaactcaatt gtatgtaggg 60 aaacccaatt cctcctgagg aagagaaaga ggtggagtcc tttaaaaatt cactgcctgt 120 ttttccgtct gtagctagtg agccttatct ctccctttcc caggcattgt gaagaccctg 180 tttctccagc tgtgcagctg catggtcact agacagataa actcaagttg taaaacatgt 240 ttttccttga aaagtaagaa atgatgtaat acatgtctca actgaataac tgtctttgtt 300 tctcacttct gtagtaagct tccccctgca cagatctccc ctctcacccc atgaaatgct 360 taaaaggtaa cctgactctt tgttcagggc tcagtccttt ggatgttaat ctgactgggc 420 tggtgcacct aaataatama tayatcctcc tcaaccccat cggtctctct gattcctaaa 480 tcatccccaa aca 493 // ID MER82 repbase; DNA; HUM; 653 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 3) XX DE MER82 repetitive element - a consensus. XX KW DNA transposon; Transposable Element; Nonautonomous; MER2 family; KW MER82; Putative non-autonomous DNA transposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-653 RA Smit A.F.; RT "MER82."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC MER82 has 20 bp terminal inverted repeats quite similar to those CC of CC Tigger2. It is flanked by TA duplication sites. XX SQ Sequence 653 BP; 200 A; 139 C; 132 G; 176 T; 6 other; cagttgatcc tcattatcca cagtagttat gttctataaa gtcaccgcga gcactgaatt 60 agcgaatact gaaccatcgc tcctagagga aatacagagt taggttcctg caagcctctg 120 gtcacaacat tttcatcaac cgatcaatat ataacyttgt tttatgtgtg tttctgttta 180 aagacnnctt atttaatata tattgttgat ttattaacac tgaactcaca gccaacagca 240 ctataactca tgcctgaatg aagcttatct aacacacata ttttctccat aaggtacatc 300 acagccttct tgtgcttagg aacaccagac agcacttcag cactatgctc ggggccattt 360 taaacggcga aatcaccaac aaaaagcaca aaaatgtgaa aaacgtggca ctaaatagac 420 ctcgaaaagg acgcttgttt acggtatgag agctgaaaca agaaggcaga gcgtcgcctt 480 gttcgacctc agctgggaac gtgcacgtcg ggcgactcga atttttcgct gctctgcgca 540 tgtntgcaaa tgaccgngaa agtgctncaa gtattgattt tggggttaca aataaatttt 600 agcgagtagg cgaattcgca aatacggaat ccgtggataa tgaggattga ctg 653 // ID MER115 repbase; DNA; HUM; 693 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 13-AUG-2010 (Rel. 15.09, Last updated, Version 4) XX DE Non-autonomous hAT-like DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW nonautonomous DNA transposon; MER115. XX NM MER115. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-634 RA Jurka J.; RT "MER115."; RL Direct Submission to Repbase Update (28-FEB-1999). XX RN [2] RP 1-693 RA Smit A.F.; RT "MER115."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [2] (Consensus) XX CC The repeat has been found by [1]. CC It has been classified by [2] as a nonautonomous DNA transposon CC which CC has 14 bp (imperfect) terminal inverted repeats and 8 bp target CC site CC duplication. It shares the terminal regions (bp 1-67 and 535-693 CC with CC Zaphod, which it probably was dependent on for transposition. CC >25% diverged, ~ 1000 copies in the genome. XX SQ Sequence 693 BP; 112 A; 213 C; 233 G; 135 T; 0 other; cagtaccgcc cttagacctg ggcaagaggg gcccctgccc tgggccctgc gctttagagg 60 gctccgctct ggccctcctc cggcgcggcc cttccccacg gggcgaggag tccgcggggc 120 caaggggacg tgcccacccg gagcccatgc ccccccttct agaccacgct ccgggtaccc 180 gggaccccgg aattccctgc ccaaatggcc ccgagcccgc ttccagggcc tgcgcgggcc 240 tcttccctgg gtccgtcctc ccaagggcgg accgcgccgc cggtgtgtgc acccctaggc 300 ccgaggggtg gccaaggggc ggctgtttgc ggggggtgtg gacggagctt ggacgtgcgg 360 gctggggtgt ccacatgcgt gcacgcgagg cccctcgcgg tgcaggacgg agccgggggt 420 gggaagagaa ggggagtagg ccacgggcca ggggctggct ctccccaggc cgccacgttc 480 tggcatggaa ctccgaggag tccgagaatt ctaaattcga acctggcctt ccaggtcgtt 540 atgaaggtat atttgtcaag gtaggaggat agaacatatt ttatttaaca gtttgttagc 600 ttgatttata acttttaaat atttagacat atggtatgtg ggcctccatt tgtactcttg 660 ccccgggccc cgcaaatgtt aggggcgggc ctg 693 // ID LTR41B repbase; DNA; HUM; 892 BP. XX AC . XX DT 17-JUN-2008 (Rel. 13.06, Created) DT 20-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like sequence. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of endogenous retrovirus; LTR33; LTR41; KW LTR41B. XX NM LTR41B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-892 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Direct Submission to Repbase Update (01-JUN-2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 892 BP; 155 A; 262 C; 201 G; 270 T; 4 other; tgtgccagtt atcaatttat tgcctctcag ctccaaattt acctttcaat acctgctctg 60 tgataatgga ctgaaytctt taagcatttc tcctttacag tgagcatgat gttaagcttt 120 ctcagtagag ggtgctggag ggacattgca ggargaaggg ggcttctctt cctggttcct 180 gtgtgctgca tttggctttt tcttgctcca gtgtcagggt ctgtcagcag tgtgtgtgtg 240 tggggacatc tagtggtgct ctgccccagc tgtgccccag agcgcacagt ctctcggtga 300 cctcgcagcc ccggcctggc ctagtgatca ccttcctgtg gccctcccga tatggacact 360 gtgtgctcca ggcctcctgc cagcagtgcc accctgattc cctctgcacg cctgtccact 420 agccttggct cgcctgcact ccagagggtt gtttctgtgg ccctcccaac gcggatagca 480 tgtgctccag rcctcgcaaa ccagcagcag tgattctctc tgcgtgyccg cctaccagcc 540 tcggcttacc tgtaccccag agggttgttt cctgcttgtc tagcgactgt agaccagctc 600 tggcctgggc aacccagcaa acttctccgc catccagtgg gctgcaacca caccttctcc 660 aacgaggtct gaaccccagc cttggggagg gagccctcct tccaagtttg tccttctttg 720 ggtattctct ctttcctttg gtattctcca tcagccctag agtactcttt agagttctct 780 ttacatcttt atagttactc ccctatcata gtttaataat tctttatatt aaactttccc 840 tgtttaaatt actgtgtggt ttctgtctcc tgattggacc cagactgata ca 892 // ID LTR6A repbase; DNA; HUM; 564 BP. XX AC . XX DT 18-MAY-1999 (Rel. 4.04, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE LTR from retroviral-like sequence S71. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVHC2; KW HERVS71; HSRVS713L; LTR6A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-564 RA Blusch H.J., Haltmeier M., Frech K., Sander I., Leib-Mosch C., RA Brack-Werner R. and Werner T.; RT "Identification of endogenous retroviral sequences based on RT modular organization: proviral structure at the SSAV1 locus."; RL Genomics 43(1), 52-61 (1997). XX RN [2] RP 1-564 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR6A is associated with older HERVS71 endogenous retroviruses. CC The copies are 7-8% diverged from the consensus sequence. XX SQ Sequence 564 BP; 130 A; 160 C; 111 G; 159 T; 4 other; tgtgataccc taccttgttt taacntgaat ngactctccc ttagctgaga aagccggacg 60 gactccattt ggctccttca tttgcaagac atcaagggct ccttacccac ccccttcctc 120 aaggacttaa cttgtgcaag ctgactctca gcacatcaaa gagtgcaatt aactgataag 180 gtactgtggc aagcnatgtc cgcagttccc aggaattcgc ccgggtgata gtaccctaaa 240 gcccccgcgt ttgtgtccgg cagatagcac ccagagcccc cgcacctatc accttgtgat 300 gaatttaaag cccctgcacc tggaactgtt tgttttcctg taaccatttg tctttttaac 360 ttttttgcct gttttacttc tgtaagattg ctncagctag gctccccctc ccctttctaa 420 accaaagtat aaaagaaaat ctagcccctt cttcggggcc gagagaattt cgagcgttag 480 ccgtctctcg gtcgccggct aataaaggac tcctgaattc gtctcaaagt gtggcgtttc 540 tctataactc gctcggttac aaca 564 // ID LOR1b_LTR repbase; DNA; HUM; 461 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LOR1; KW LOR1b_LTR; LTR retrotransposon; MER4 group. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-461 RA Smit A.F.; RT "LOR1b_LTR - a subfamily of endogenous retroviruses from RT primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC mer4 group; 4bp duplication. XX SQ Sequence 461 BP; 117 A; 130 C; 82 G; 131 T; 1 other; tgaaaccggc ccaattgtcc catagaactg atgtttatgg tttctttgaa taaacataga 60 aattgaccct cccagtctta aaacttgaga aagttacatt tgtcttatct gagttccttt 120 ctcaggaaac caaccatcag gcctcccaga tagtatcaag gaactgaaac ttaccagatc 180 actgcatccg gacaatgaga cgtcagaccc ctcacccatc atgattgctt ccttacccct 240 ccctaattcc tgttttcccg cacatggtta catttcttcc ctgctatata aacccctaat 300 tttagtccat cagggagatg gatttgagac tgatctcccg tctcctcggc tgcagcaccc 360 gattaaagcc ttcttccytg gcaatactca ttgtctcagt gattggcttt ctgtgcggcg 420 agcaacagga cctagaccga acccctggcg tttcggtaac a 461 // ID LTR14 repbase; DNA; HUM; 548 BP. XX AC U07856; XX DT 27-JAN-1997 (Rel. 2, Created) DT 27-JAN-1997 (Rel. 2, Last updated, Version 1) XX DE LTR of human endogenous retrovirus HERVK(C4); LTR14. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW LTR of endogenous retrovirus HERVK(C4); LTR14. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-548 RA Dangel W.A., Mendoza R.A., Baker J.B., Daniel M.C., Carroll C.M., RA Wu C.L. and Yu Y.C.; RT "The dichotomous size variation of human complement C4 genes is RT mediated by a novel family of endogenous retroviruses, which also RT establishes species-specific genomic patterns among Old World RT primates."; RL Immunogenetics 40(6), 425-436 (1994). XX RN [2] RP 1-548 RA Yu Y.C.; RT "LTR14."; RL Direct Submission to Genbank (19-MAR-1994)C. Yung Yu, The Ohio RL State University, Pediatrics, 700 Children's Drive, Columbus, OH RL 43205, USA. XX DR GenBank; U07856; Positions 7 554. XX SQ Sequence 548 BP; 139 A; 137 C; 118 G; 154 T; 0 other; tgttgggaaa aggacttgtg gggtgcctgt ataaactggc cataaaaata tgggacaata 60 agttgtggaa agccacaaga ggcctctgag gagaaaagcc tcctaattgc cacgctcaga 120 gcgagacctg ctctctctta tctgtaaaca ctgtattcaa ggagaaagac cctcctttga 180 agcattggaa tgtggacaga cgtgcaggct cctagttaag cccactccca ctagctactc 240 tccgataagt taaagatatg ctgtttgagc acaaaggaga ttcatttaaa gcgcttctgc 300 tgtagattat gcctgtgacg cactgctacc ctttcactgt tttgccctga acatctgctt 360 cttagatcta agttattgta ctcaataaat agtgtggaga ccagagctct gagccttttg 420 cagcctccat tttgcaattg gccccctggc ctccactctt tatgaactct taacctgtct 480 cttctcattc ctttgtcacc accagacttc aggtacccta caggtggtgt tgaggctggt 540 ccccaaca 548 // ID L1MA4 repbase; DNA; HUM; 1047 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MA4) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M1; L1MA4; L1MA4 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1047 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1047 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 12.5%. XX SQ Sequence 1047 BP; 425 A; 162 C; 211 G; 247 T; 2 other; ttaatawcca gaatatacaa ggaactcaaa caactcaaca gcaaaaaaac aaataatccg 60 attaaaaagt gggcaaaaga tctgaataga catttctcaa aagaagacat acaaatggcc 120 aacaggtata tgaaaaaatg ctcaacatca ctaatcatca gggaaatgca aatcaaaacc 180 acaatgagat atcatctcac cccagttaaa atggctatta tcaaaaagac aaaaaataac 240 agatgctggt gaggatgcgg agaaagggga acgctcatac actgttggtg ggaatgtaaa 300 ttagtacagc cattatggaa aacagtatgg aggttcctca aaaaactaaa aatagaacta 360 ccatatgatc cagcaatccc actgctgggt atatatccaa aagaaaggaa atcagtatat 420 caaagagata tctgcactcc catgtttatt gcagcactat tcacaatagc caagatatgg 480 aatcaaccta agtgtccatc aacggatgaa tggataaaga aaatgtggta tatatacaca 540 atggaatatt attcagccat aaaaaagaat gaaatcctgt catttgcagc aacatggatg 600 gaactggagg tcattatgtt aagtgaaata agccaggcac agaaagacaa atatcgcatg 660 ttctcactca tatgtgggag ctaaaaaagt kgatctcatg gaggtagaga gtagaatggt 720 ggttaccaga ggctgggaag ggtaggggga gggggggaat gaagagaggt tggttaatgg 780 gtacaaaaat acagttagat agaaggaata agttctagtg ttcgatagca cagtagggtg 840 actatagtta acaataattt attgtatatt tcaaaatagc tagaagagaa gatttggaat 900 gttcccaaca caaagaaatg ataaatgttt gaggtgatgg atatcccaat taccctgatt 960 tgatcattac acattgtatg catgtatcaa aatatcacat gtacccccaa aatatgtaca 1020 actattatat atcaataaaa aaaaaaa 1047 // ID HERVK9I repbase; DNA; HUM; 6021 BP. XX AC . XX DT 24-OCT-1997 (Rel. 2.09, Created) DT 09-SEP-2002 (Rel. 7.08, Last updated, Version 2) XX DE HERVK9I/HERV-K(HML-3) endogenous retrovirus, flanked by MER9. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERV; KW HERVK superfamily; HERVK9I; MER9. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5947 RA Kapitonov V.V. and Jurka J.; RT "HERVK9I."; RL Direct Submission to Repbase Update (17-OCT-1997). XX RN [2] RP 1-5937 RA Kapitonov V.V. and Jurka J.; RT "HERVK9I."; RL Direct Submission to Repbase Update (02-DEC-1998). XX RN [3] RA Mayer J. and Meese M.; RT "The Human Endogenous Retrovirus Family HERV-K(HML-3)."; RL Genomics (80), 331-343, 2002. XX RN [4] RP 1-6021 RA Mayer J. and Meese M.; RT "HERVK9I: The endogenous retrovirus."; RL Direct Submission to Repbase Update (26-AUG-2002)Direct RL submmission to. XX DR [4] (Consensus) XX CC putative gag gene: nt 123-1559 CC putative protease gene: nt 1421-2365 CC putative polymerase gene: nt 2257-5097 CC putative envelope gene: nt 4883-5694 CC nt 5689: 661 bp insert in some loci CC nt 5195: 206 bp insert in some loci CC consensus sequence derived from 73 proviral loci. XX SQ Sequence 6021 BP; 1869 A; 1224 C; 1308 G; 1620 T; 0 other; agtggcgtcc acgtgggggc tcgaatccag gtcgaagggt caccagagcg atggttggag 60 aatgtggaaa actaagctgg aggacacccg agtactctta aagcaatccc cgtggtgagt 120 aagaagggga gctcggaagc atcagggtaa caatgggaca agtgtgggct ctggttcgtt 180 ccaccttgga actttttcac actgatgatg aggaggaagg agagtataat gaagtaacag 240 aagaggttac agagcatgtt tatttgccag ctaaagctaa agcggcaaag gagggagagg 300 ttcatcccta cccttctgca ccccctcatt attattttga agaaaaagag tggcctgacc 360 ctccagatct ttcttttccg gaggacactg ggcgaaaagt agttgcccca gtgactgttc 420 gagcagcgcc tcgagcgacc gctctcagtt ctattcaggc aggaattcag caagctagac 480 gagagggtga tttagaggct tggcagttcc ctgttagaat acacccccca gatcaacagg 540 gaaatattat agctacattt gagccttttc cttttaaatt actcaaagaa tttaaacaag 600 ctataaatca gtatggacca ggttctcctt ttgtaatggg actgttaaag aatgttgctg 660 tttccagtcg gatgattcct actgactggg acgctcttac tcgagcttgt ctaactcctg 720 ctcagttctt acaatttaaa acttggtggg cagatgaagc ttccattcag gctgctcgca 780 atgcccaggc ccaacctcaa attaatataa ctgcagacca acttttgggg gttggcggct 840 gggctggttt agatgcacaa gtggtcatgc aggatgatgc catagaacag cttagaggag 900 tgtgcattag agcttgggaa aaaatcactt caggtggaga acaataccct tcctttagtg 960 ctataaaaca gggaccaaga gaaccatacg ttgattttat agctcggtta caggagtctc 1020 ttaaaaagat gattgcagat tcggctgctc aggatatagt gttgcagtta ttagctttcg 1080 acaatgctaa tcccgattgc caggctgctc tgcgacctat cagagggaaa gcacatttag 1140 ttgattatat caaggcctgt gatggtatcg gaggtaatct gcataaagct actctgttag 1200 cacaggcaat ggcaggactg agagtggata aaggaaatac tccatttcct ggagcttgtt 1260 ttaactgtgg gaagcatggt catactaaaa aagaatgtag aaaaaatcag cgagtcaggc 1320 cgccagatag gggaaaaaag aaaactgctg agcctgaaat atgtccaaaa tgtaaaaaag 1380 gaaaacattg ggctaatcag tgtcactcta agtttgataa agatgggaac ccgatttcgg 1440 gaaatgccat gaggggcccg tcccgggccc cattccaaac cggggcattt ccagctcagg 1500 ccattccctc acccctgtac aatgtctgtc ccccgccaca gccggtagtg ccgcagtaga 1560 tttatgctgc acaaaagctg tgagccttct gcctggggaa cccccgcaaa aggtcccaac 1620 aggagtctgt ggacccttgc cagcggggac aataggatta cttctaggaa ggtctagttt 1680 aaatttaaaa ggggtacaaa tacatacagg agtcattgat tcagattaca atggggaaat 1740 tcaaattgtt atatctactt ctgttccctg gaaagcagag ccaggagagc gcatagcaca 1800 gctcctgatt gtgccatatg tggaaatggg gaaaagtgaa attaaacgaa caggaggatt 1860 tggaagcaca aataaacaag gcaaagcagc ttattgggta aatcaaatta ctgataaacg 1920 tcctacctgt gaaataacta ttcagggaaa gaaatttaaa ggtttggtag atacaggagc 1980 ggacatttca atcatttctc tacagcactg gccgtccacg tggccaattc aacccgctca 2040 atttaacata gttggagttg gtaaagcccc tgaagtatat caaagtagtt atattttgca 2100 ttgtgaaggg cccgatggac aacctgggac tattcaacca attataactt ctgtacctat 2160 aaatttatgg ggaagagatt tattacaaca atggggagca caagttctaa ttccagaaca 2220 attatatagc cctcaaagtc aacatatgat gcatgaaatg gggtatgtcc ctggtatggg 2280 actagaaaaa aatttgcaag gtttgaaaga accgcttcaa gtggaaagac aaagttcccg 2340 ccaaagatta ggatatcatt tttgatggcg gccattgtta agcctccaga acctatacct 2400 ttaaaatggt taacagataa gccaatttgg atagaacaat ggccgctaag taaagagaaa 2460 ctggaggctt tagagaaatt agttactgaa caattagaaa atgggcacat agctccaaca 2520 ttttcccctt ggaattctcc agttttcgta attaagaaaa aatcaggtaa atggagaatg 2580 ttaactgact taagagccat caattcagtt atacaaccta tgggagcatt acagccagga 2640 ttgccttctc ctgctataat tccaaaaaat tggcctttaa tagtcataga tttaaaagac 2700 tgtttcttta ctatcccctt agctgagcaa gactgtgaat ggtttgcatt tacaattcct 2760 gcagtaaaca acctgcagcc tgctaagcgt tttcattgga aagtgttgcc acaaggcatg 2820 ttaaacagtc caacaatttg ccagacttat gtagggcaag caattgaacc tactcgtaaa 2880 aaattttcac agtgttacat tattcattat atggatgata tactttgtgc tgcccccact 2940 cgagaaatat tactccaatg ttatgatcac ttgcaaaatt cgatttctca tgctggttta 3000 attatagctc ctgacaaaat tcagactact actccttact cctacttggg gaccttagta 3060 aatgacacta ccattgtgcc acagaaagta accatatgta gggatcaatt gaaaacatta 3120 aatgactttc aaaaattact aggggacatt aattggatac gacctgctct aggcattcct 3180 acctatgcca tgagtaatct gttttctatc cttagaggag atcctagtct cactagccct 3240 cggcaattaa caaaggaggc tgaggcagag ttacagctga ttgaaaagca agtccataaa 3300 gctcaaataa atagaataga tccagagaag actctagatt tgctaatttt ttcaactcag 3360 cattcaccta ctggtgttat tgttcaagag caggacttag tagagtggct ttttcttcca 3420 catactaatt cacggactct aactccttat ttggatcaaa tcgctactat gataggaaat 3480 gggagaactc ggattgttaa attacatgga tatgatcctg gaaaaattat tgtccctctc 3540 acgaaggcac aaatacagca agcttttata aatagtctta cttggcaaac ccatttagct 3600 gactttgtgg gtattctcga taatcatttt cctaaaatga aactgtttca atttttgaaa 3660 ttaactaatt ggattctccc taaaataact aaatttaaac caattgaagg tgctgagaat 3720 gtttttacag atgggtctag taatggtaaa gcttcttatt ctggctcaaa aagtaaagtt 3780 ttccagacgc cctatacttc agctcaaaaa gcggagcttg tagctgtaat tgaggtattg 3840 actgcttttg atatgcctat taatgtgatt tctgattctt catatgtggt tcattccaca 3900 cagttaattg aaaatgctca gttacgattt catacagatg aacaactgat gactttattt 3960 acccaattgc aaacagcagt taggagtaga atgcaccctt tttacatcac tcacattagg 4020 gctcatacac ctcttccagg acctttgact gaagggaatc aaatggctga tcgcctagtt 4080 gctaatgcaa tatctaatgc tagacacttt cacaatttaa cccatgttaa tgcctctggt 4140 ctcaaacgca gatacagcat tacctggaaa gaagctaaag ctattatcca gcgatgccca 4200 acttgccaaa tggtacattc ctcatctttt acaggaggag ttaatcctcg aggattggaa 4260 cctaactctc tttggcaaat ggatgtcaca catgttccct cgtttgggag actagcttat 4320 gtacatgtat gtgtggacac cttttctcac tttgtctggg ctacatgcca atcaggagag 4380 tcttctgcct gtgttaaacg tcaccttttg cagtgttttg cggtgatggg cattccagct 4440 tctattaaaa cagataatgc cccaggctat actagccaag ctctagctac atttttctct 4500 atatggaata ttaaacacat tactggtatc ccatataatt ctcaaggaca agccatagtg 4560 gaaagaatga atctctccct aaaacagcag ttgcaaaagc agaaaggggg aaacagggaa 4620 tatgggaccc cacatatgca actgaatcta gcattattaa ctttaaattt tttgagcctg 4680 cctaaaggcc agatgttatc agcagctgaa cagcatctac agaaaccagc tgcaaagaca 4740 gaagcagaac aactggtttg gtggagagat ccaataacaa aaagttggga aataggtaaa 4800 ataataactt ggggtagagg ttatgcttgt gtttctccag gccaaaatca acagccgatt 4860 tggataccat caagacacct gaaaccttat catgagccag atgccgagga agagattccg 4920 ggaggatccc aaaggacccc cggttgcagc catgtcgaga ctgatgctga ggaggacccc 4980 aactgtcacg agcaacaccc gtcgaacaca gccacccacc tggggacaga tcaagaagct 5040 gtcacagatg gcggaagaaa acctgaggaa agcgggacaa ccagtcacaa tgagtaattt 5100 aatggtagct atgatagcgg tgatcaccac tgccatgagt attccttcaa caagggctga 5160 cacagagaac aattatactt attgggcata tttatcaatc ttggctggca ataatgcctg 5220 gatgtaatca ctctatgaca cagttacaca tgctttctga tctcagtatt taccataata 5280 aatctgctcc tataattgag gcatactgcc ctcaaaaacc tatttgtaaa cagaattgga 5340 cctggccaga aaaaatgaac gtacttgttt gggaagattg cattgcagaa caggcagagg 5400 tgctgcacaa cgattcctat ggaatcatta ttgattggtc ccctaagggg atgtttagct 5460 tgaattgcac ctctcagtct gcgtgccatg gccacactat gttcagctgg tctgaacaaa 5520 atggtcagat ggtagaaatg ataagaagta tggcaagagt tcctattatc tggaaccatg 5580 gcggtatagt ggcacctcaa cctcaaatga tatggcccgc tgtaggagct aaacataagg 5640 atttgtggaa actattaata gctcttaata agatcaaaat ttgggaaaga ataaaaaagc 5700 atctagaagg acactctaca aacttgtctt tggatattgc aaaattaaaa gaacaaatat 5760 ttaaagcatc ccaggcacac ctgaccttaa tgccaggaac tggagtgctt gaaggagctg 5820 cagacagatt agcagctagt aacccattaa aatggataaa aacacttgga agctctgtga 5880 tttcaatgat gattgtgctt ttaatctgtg ttgtttgtct ttgtatagtc tgcagatgtg 5940 gatcccgact cctgcgagaa gtagctcacc gtgacaaagc tgcctttgct tttatcgctt 6000 tgcaaacaaa gaagggggac a 6021 // ID LTR48B repbase; DNA; HUM; 676 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR48B; KW putative MER4I-MER41I-MER57I-MER65I group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-676 RA Naik A. and Jurka J.; RT "LTR48B."; RL Direct Submission to Repbase Update (24-JUL-1998). XX DR [1] (Consensus) XX CC Partially similar to LTR29, MER34 and MER39. XX SQ Sequence 676 BP; 190 A; 191 C; 100 G; 190 T; 5 other; tggggctcag aaaataatac cccaaaatat ggcactttga catgctgaac tgaagaagca 60 gcctcaaggt ctctctgacc tccccccccc ctcccnnctc ccgtctctca atcctctgtc 120 tctcccaaag cacaggatga agctgttctc tgaagttccc ttatctacct agaaactgga 180 cctgccaaag aagaacacaa ttgccttcaa tcccttccct gaaatttcat taactagaga 240 agattaaaac tcatatcaca ganaaaaaaa gactgaaaat taaacaccac acctagagcc 300 cagacaaact ttgtcacaaa ccattgtctg ttctctggtc ccattcaatt tccaaagaga 360 attatttaca agcyattgtc tgttctctgg gcccattcat ttccccccta aaaatcattt 420 actacccctc aaaaaattgg cctacaawtt tgcctacatt tcccccatct ccccttcccc 480 tatgaagaag ggtatataag catctgtacc ccattgggtt attgggtaat cattctcctc 540 tgtgattccc ccatgctatg cacgttaaaa taaatttgta tgcccttttc tcctattaat 600 ctgccttttg tcagttgatt ttcagtgaac cttcagaggg caaaggggaa gttttccctt 660 ggcccctaca agggca 676 // ID HSAT4 repbase; DNA; HUM; 105 BP. XX AC . XX DT 01-JUL-2003 (Rel. 8.06, Created) DT 01-JUL-2003 (Rel. 8.06, Last updated, Version 1) XX DE Human centromeric satellite. XX KW SAT; Satellite; Simple Repeat; 35-bp repeat; Centromeric; HSAT4; KW Satellite repetitive element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Schueler G.M., Higgins W.A., Rudd K.M., Gustashaw K. RA and Willard F.H.; RT "Genomic and genetic definition of a functional human RT centromere."; RL Science 294(5540), 109-115 (2001). XX RN [2] RP 1-105 RA Smit A.F.; RT "HSAT4: Human centromeric satellite."; RL . XX DR [2] (Consensus) XX SQ Sequence 105 BP; 18 A; 30 C; 30 G; 27 T; 0 other; tagaatgcct ggggtcgccc aggtgtctct accattagaa tgcctggggt cgcccaggtg 60 tctctaccat tagaatgcct ggggtcgccc aggtgtctct accat 105 // ID MER93 repbase; DNA; HUM; 397 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 02-DEC-1997 (Rel. 2.11, Last updated, Version 1) XX DE Primate MER93 repetitive element - a consensus. XX KW Long terminal repeat; MER93; Possibly MER4-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-397 RA Smit A.F.; RT "MER93."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative LTR of retroposon. 79% similar to MER57 over bases CC 318-397 CC and therefore potential member of MER4-group. 4 bp target site CC duplications. XX SQ Sequence 397 BP; 117 A; 102 C; 63 G; 102 T; 13 other; tgttaaaata attaawtggg aggccattag actgaggtgg ctctagcgcc ctgggttcct 60 acgtaagcaa accgaaacct aactcagncg tttcttanaa ataactatna agaraaaatg 120 aaacttaagc tyagccaatc acaarcsgcc aactaacctc tgattacata accagggact 180 tcccacctgg acagtccaaa traggngact gcncaactgt aaccaatcaa atactttatt 240 tgctctgctt cctcatncac cytataaaag cctttccttc aagcccctcc ggcggagccc 300 caaaccaccc gtggtctggg gctgcccgat tcatgaatca ctgtttgctc aaataaactc 360 tttaaaattt taatgtgcct cagtttatct tttaaca 397 // ID L1MB3_5 repbase; DNA; HUM; 2500 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE L1MB3 LINE1 repetitive element 5' end - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M4C_5; L1M7_5; L1MB3_5; L1P2_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-987 RA Kapitonov V.V. and Jurka J.; RT "L1MB3_5."; RL Direct Submission to Repbase Update (MAY-1998). XX RN [2] RP 1740-2328 RA Kapitonov V.V. and Jurka J.; RT "L1MB3_5."; RL Direct Submission to Repbase Update (MAY-1998). XX RN [3] RP 1-2500 RA Smit A.F.; RT "RepeatMasker release June 1998."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC 5' region of mostly L1MB3 subfamily LINE1 elements CC ORF1 open reading frame from pos 782 to 1765, ORF2 starts at pos CC 2346. XX SQ Sequence 2500 BP; 958 A; 460 C; 526 G; 552 T; 4 other; ataaaaaaan taatgaggag aggattctgg gaagatggca gagtaggaag caccaggaat 60 ctgtctcccc acctagacaa caattgcact ggcagaatct gtctgatgta actattttgg 120 aactctggag tctattgaag gcttgcaact tccaggggaa ggcttggacg gtaaattgcg 180 gttaatttcg gtcaatttca gctcttagca cagtagcagc tacccatccc ccacccccag 240 ccccatggca ggcagctgtg cacgtgttcc tggagcagct tgcacacagc ttgcgggagc 300 cagggtgggc aaaaaggacc ctgtcctcca aatatcaggg atctgtgctc tgatcgctga 360 ttgctgcttc tgatcacaga ggtgcagaca aagaggcggg cggccattgt tgttgcacct 420 ccccccattg ttgcaagccc ctccccctcc ggctgaagtg acttccaggg gatttaaagg 480 gccggcaccc tttctcccct ttatttttct tttttcccct tttgggagcc agacattaaa 540 gactaggaca ttcaaaagca actgcatata cggggaaaat tagaaagtga ccgtgcatgc 600 ccagggaaag gcacaggctc agaaaagacc tgagaagacc ttaagtttac acctcaggct 660 gatccttggc acagagacag cctacaacaa taaaaacaaa acaaaaaaat aacaaaaaca 720 cagcaaaccc tggggaaggg ggagaatctg atttccagag ttaccacatt attagattca 780 aatgtccagt tttcaacaac aacaaaaaat cacaaggcat acaaagaaac aggaaagtat 840 ggcccattca aaggaaaaaa ataaaccaac agaaactgtc cctgaaaaag acctgatggc 900 agatctacta gacaaagact ttaaaacaac tgtcttaaag atgctcaaag aactaaagga 960 agacgtggag aaagtcaaga aaacgatgta tgaacaaaat ggaaatatca ataaagagac 1020 agaaaaccta aaaagaaacc aaaaagaaat tctggagctg aaaagtacaa taactgaaat 1080 gaaaaattca ctagagggat tcaaaggcag atttgagcag gcagaagaaa gaatcagcaa 1140 acttgaagat aggacaacgg aaattattga gtctgaggaa cagaaagaaa aaagattgaa 1200 gaaaagtgaa cagagcctaa gggacctgtg ggacaccatc aagcggacca acatacgcat 1260 tgtgggagtc ccagaaggag aagagagaga gaaaggggca gagagaatat ttgaagaaat 1320 aatggctgaa aacttcccaa atttgatgaa agacatgaat ataaacatcc aagaagctca 1380 acgaactcca agtaggatga actcaaagag acccacaccg agacacatta taatcaaact 1440 ntcgaaagcc aaagacaaag agagaatctt gaaagcagca agagagaagc gactcatcac 1500 atacaaggga tcctcaataa gattatcagc agatttctca tcagaaactt tggaggccag 1560 aaggcagtgg gccgatatat tcaaagtgct aaaagaaaaa aactgtcaac caagaatcct 1620 atatccggca aaactgtcct tcaaaagtga gggagaaatt aagacattcc cagataaaca 1680 aaagctgagg gagtttgtta ccactagacc tgccctgcaa gaaatgctna agggagtcct 1740 gcagggtgaa atgaaaggac actagacagt aacttgaagc cgtatgaaga aataaagatc 1800 tcagtaaagg taaatacatg ggcaattata aaagctagta ttattgtaac aatggtttgt 1860 aactccactt tttgttttct acatgattta agagactaat acatttttaa aaattattag 1920 tctaaaagct agtattattg taactttggt ttgtaactcc acattttgtt ttctacataa 1980 tttaagagac taatgcattt aaaaaaatta ttagtttatg tttttgggca cacaatgtat 2040 aaagatgtaa ttttgtgaca tcaacaactg aaaggggtgg ggatggagct gtaaaggagc 2100 agagtttttg tatgttattg aagttaagct ggtataaatt caaattagag tgttataact 2160 ttaggatgtt aaatgtaatc cccatggtaa ccacaaagaa aatagctata gaatatacac 2220 aaaaggaaat gagaaaggaa tttaaacgtt tcactacaaa aaaatcaact aaacacaaaa 2280 gaagacagta atgcaggaaa tgagggacaa aaaagctata aggcatatag aaaacaaata 2340 gcaaaatgac agaagtaagt ccctccttat cagtaattac tttaaatgta aatggattaa 2400 actctccaat caaaagacag agattggcag aatggatnaa aaaacatgat ccaactatat 2460 gctgtctaca agagactcac tttagatcca aagacacaaa 2500 // ID CHARLIE1B repbase; DNA; HUM; 518 BP. XX AC . XX DT 09-OCT-1997 (Rel. 2.09, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE DNA transposon. XX KW hAT; DNA transposon; Transposable Element; Charlie1b; KW DNA transposon fossil; MER1_type family; MER64B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-518 RA Smit A.F.; RT "CHARLIE1B."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC Another internal deletion product of Charlie1. XX SQ Sequence 518 BP; 165 A; 89 C; 95 G; 167 T; 2 other; cagcggttct caaagtgtgg tccgcggacc cctgagggtc cccgagaccc tttcaggggg 60 tccgcgaggt caaaactatt ttcataataa tactaagacg ttatttgcct ttttcactct 120 cattctctca cgagtgtaca gtggagtttt ccagaggcta catgacgtgt gatgtcgcaa 180 cagattgaat gcagaagcag atatgagaat ccagctgtct tctattaagc cagacattaa 240 agagatttgc aaaaatgtaa aacaatgcca ctcttctcac taaatttttt tgttttggaa 300 aatatagtta tttttcataa aaatgttatt tatgttaaca tgtaatgggt ttattatttt 360 waaatgaatw aataaatatt ttaaaaattt ctcagtttta atttctaata cggtaaatat 420 cgatagatat aacccacata aacaaaagct ctttggggtc ctcaataatt tttaagagta 480 taaaggggtc ctgagaccaa aaagtttgag aaccgctg 518 // ID MLT2B3 repbase; DNA; HUM; 717 BP. XX AC . XX DT 20-APR-2001 (Rel. 6.03, Created) DT 20-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE LTR of a variant of HERVL endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; HERVL; KW LTR; MLT2; MLT2B2; MLT2B3; RICKSHA. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-717 RA Jurka J.; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC 84% similar to MLT2B2 and 80% to a cryptic LTR in RICKSHA. CC Bases 72-191 bp are MLT2B3-specific whereas region 1-71 CC is highly similar to the analogous 5'-region of MLT2B2. XX SQ Sequence 717 BP; 156 A; 172 C; 174 G; 207 T; 8 other; tgtgatggtt gattttgggt gtcaacttga ctggattaag ggatacccag atagctggta 60 aagcattatt tattctcaat cattgcatta attattctca atgcttcagt aggcactgag 120 cccatccctc ttctgctgaa agggaaaccc aggtggtttg gcatttgatt agaatgattg 180 ggctgcccca ggtgtgtctg tgagggtgtt tctrgaggag attggcntgt gagtcggtgg 240 actgagtggg gaagatctgc cctcaatgtg ggnaggcacc atccaatcag ctgggggccc 300 agatggaaca aaaaggyaga ggaagggtga attcttgnnc tctctcttct agagccagga 360 tgcccttctt ctcctgccct tggatgtcag aactccaggt tctctggcct ttggactcta 420 ggacttgcac cagcagcccc tgggctctca ggccttcrgc cttggactga gggactgaga 480 gttacaccat cagcttcctt ggttctgagg ccttcagact tggactgagc cacactaccg 540 gcttccctgg ttctccagct tgcagatgca gatggcctat tgtgggactt ctcagcctcc 600 ataatcaagt gagccaattc ccctaataaa tcccttctca tatatctctc tatatatata 660 tatatctctc tatgtatcct atcrgttctg tctctctgga gaaccctgac taaaaca 717 // ID MLT1B repbase; DNA; HUM; 390 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 4) XX DE Mammalian long terminal repeat (MLT1B subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MER15; MER18; KW MLT1B; retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX DR [2] (Consensus) XX CC LTR of MLT1B retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 16%. CC Replaces MER15 (acc.# X59019) and MER18 (acc.# X59024). XX SQ Sequence 390 BP; 123 A; 84 C; 92 G; 91 T; 0 other; tgttatgggc tgaattgtgt ccccccaaaa ttcatatgtt gaagtcctaa cccccagtac 60 ctcagaatgt gactgtattt ggagataggg tctttaaaga ggtaattaag ttaaaatgag 120 gtcattaggg tgggccctaa tccaatatga ctggtgtcct tataagaaga ggagattagg 180 acacagacac acacagaggg aagaccatgt gaagacacag ggagaagacg gccatctaca 240 agccaaggag agaggcctca gaagaaacca accctgccga caccttgatc tcggacttcc 300 agcctccaga actgtgagaa aataaatttc tgttgtttaa gccacccagt ctgtggtact 360 ttgttatggc agccctagca aactaataca 390 // ID MamGypLTR1a repbase; DNA; HUM; 784 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 02-JUL-2009 (Rel. 14.08, Last updated, Version 2) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; MamGypLTR1a_LTR; KW MamGypLTR1a. XX NM MamGypLTR1a_LTR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-784 RA Smit A.F.; RT "MamGypLTR1a_LTR - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSDs; 33% subst in dog-human. Associated with Gypsy CC internal sequence. Includes. XX SQ Sequence 784 BP; 174 A; 187 C; 257 G; 161 T; 5 other; tgtggcagga taatttnttg agatattaat ttgtgttttg ctctctgtat ttttcccttc 60 ccttcccatt ccaagcaggt agccaggccc ttngtatttc cttgcctcgg ggatttttgc 120 agggcagaaa gcagaagctg cttgaagtca acggctcttc ctgtcttttg taaaagccta 180 agctcattga agagattatg ctaggtgtcc cggaggggga ggggagagag gggagtgcct 240 ttgagggcaa gcgggagaag gagaaagagg aggagatttc ccaggactgg gaaggggaca 300 gaggtcngcg ggtcccgcga gcagcgggga cccgcgcccc gctccgtggc agcgcccggg 360 gaggtggcaa gacctcagag gggaatggct gcgtggtgca cctagggagg ctggaccccg 420 ggcacngggg ctcccagcct cgccaaagat tcccgtgccc caagcatggc acggaagcag 480 cagagccgcc ggacctgaag ggaccatgcg ggctgggaca atgggcatct cagcggtaac 540 cagtgtggac cgatgaccga tgaccggagg ggcctccccg atgctttggc gctgtgtaag 600 accccgggac ctttgcacaa ccctgggggn gggaggggga gccccaataa tgactgagat 660 tgaatttccc gccagcccgg taggatgggg gctcagagtc agatttaagt tgatttaaag 720 aaataaagaa atgtgatatt tcttgcacac ctgagtttgt ggactaagat tcatacccgc 780 taca 784 // ID MLT2F repbase; DNA; HUM; 661 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE Long terminal repeat MLT2F - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW HERVL endogenous retrovirus; LTR; Long terminal repeat; MLT2F. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-661 RA Kapitonov V.V. and Jurka J.; RT "MLT2F."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-661 RA Kapitonov V.V. and Jurka J.; RT "MLT2F."; RL Direct Submission to Repbase Update (SEP-1998). XX DR [2] (Consensus) XX CC This sequence is a subfamily of MLT2, mammalian HERVL LTRs. CC MLT2F 3' terminal portion is similar to MLT2C and MLT2D termini. CC MLT2F is most close to the MLT2E subfamily. CC Portion of MLT2F (position 177-366) is about 80% identical CC to the coding portion of apoprotein exon 3 (APO IV). CC Individual copies are on average 73% identical to the CC consensus sequence. There are two major subfamilies of CC MLT2F, MLT2F1 and MLT2F2. XX SQ Sequence 661 BP; 127 A; 185 C; 162 G; 181 T; 6 other; tgtggtggct ttgtaatgtg tcaacttggc taggctggaa ctacatttcc cagaattccc 60 ttccctgtat rkttccaggt tagggtgggc cacaagagac attctgtgtg agatttggaa 120 ggcggaagtg aagcagcagc cattttgttt tctgtgctcg gagaggtcag agtcagcagg 180 cgctgttgca gctcacacac gttgtcgctk atctgctggc tcacctcgtt ggcgtggggc 240 agcagccggg cccgcagctg ctccascttc ccctggatcc tccttcagct tctccgactc 300 ctgggccagg tgtgtgtkta gctccgtgac gaagggcgcc agcttctcct gcaggacacc 360 cacatcatcg aggtcggagg cagtgagaga ctgacatggg ttccagtttg tcctcgtggg 420 ttccagctca tgcttgtggg ttccagcttg tccttgctct cccccacttt atatccatct 480 tcccttcctg actgcctgcc ctgtggactt caagctccag catcagacgc aragacaaca 540 gccttacaga gactgcttaa ccagctccca caattgcgta aggtcaaatc cctataataa 600 atctcttatt atatatatct cctagtggtt ctgcttctct gattgaaccc tgactgatac 660 a 661 // ID MER21C repbase; DNA; HUM; 935 BP. XX AC . XX DT 23-APR-2001 (Rel. 6.03, Created) DT 01-JUN-2008 (Rel. 13.07, Last updated, Version 2) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER21B; MER21C. XX NM MER21C. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-935 RA Jurka J.; RT "MER21C."; RL Direct Submission to Repbase Update (31-MAR-2001). XX DR [1] (Consensus) XX CC It might have evolved from MER21B by partial duplication CC of the first 90 bp, or so, from the 5' end. Uninterrupted CC similarity to MER21B starts around position 115. XX SQ Sequence 935 BP; 238 A; 193 C; 245 G; 255 T; 4 other; tgtgatataa taagaaatat atatttggtc tctgcccctg gttcctggca cagagctcct 60 aaaacccttg taatttcctg agtgataggg gtgataggag catcttttgt tctaatattt 120 ggtctttgac cctagttcct gacacagagc tcctaaaacc cttggaattt cctgagggtg 180 ataggagtat cttttnttta tgctaatgag gtgactcgtg gctgggggct cctagatagc 240 ttcaggatgg gggctggtca ccagaaagac caagccatga ttagagggtt ggaactttca 300 gccccacccc cccatcctcc agggagggga gaggggcttg gagattgagt tgatcaccaa 360 tggccaatga tttaatcaat catgcctacg taatgaagcc tccataaaat ccctaaagga 420 cagggttcca gagagcttct gggttgctga acacatggag gtgctgggag ggtggtgcgc 480 ccggagaggg catggaagct ccgtgccccc cccatacctt gccctatgca tctcttccat 540 ctggctgttc atctgtatcc tttgtaatat cctttataat aaactggtaa atataagtaa 600 aatgtttccc tgagttctgt gagccattct agcaaattat tgaacctgag gagggggtcg 660 trggaacccc caatttatag ccagttgtta gttggtcaga agtacaggtc acaacctggg 720 acttgcaatt ggcatctgaa gtgggggcag tcttgtggga ctgagccctt taacctgtgg 780 gatctgatgc taactccagg gtagatagtg tcagaattga attaaattat aggacaccca 840 gttggtgtcc sccagagaat tggagaattg cttggtgngt gtggaaaaac cccacacatt 900 tggtgacaga agtgttgtga gagtagagaa aaaca 935 // ID X3_LINE repbase; DNA; HUM; 233 BP. XX AC . XX DT 19-JUL-2006 (Rel. 11.1, Created) DT 01-AUG-2007 (Rel. 12.09, Last updated, Version 2) XX DE A conserved fragment of RTE-like LINE element - consensus. XX KW Non-LTR Retrotransposon; Transposable Element; conserved; X3_LINE; KW CNE. XX NM X3_LINE. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-233 RA Jurka J.; RT "X3_LINE: A conserved fragment of putative RTE-like LINE."; RL Repbase Reports 6(10), 545-545 (2006). XX RN [2] RP 1-233 RA Gentles AJ., Wakefield MJ., Kohany O., Gu W., Batzer MA., RA Pollock DD. and Jurka J.; RT "Evolutionary dynamics of transposable elements in the RT short-tailed opossum Monodelphis domestica."; RL Genome Res 17(7), 992-1004 (2007). XX RN [3] RP 1-233 RA Jurka J., Kapitonov V.V., Kohany O. and Jurka MV.; RT "Repetitive sequences in complex genomes: structure and RT evolution."; RL Annu Rev Genomics Hum Genet 8, 241-259 (2007). XX DR [1] (Consensus) XX CC It is present in ~200 copies phg. Present in mammals, not found CC in chicken. XX SQ Sequence 233 BP; 80 A; 38 C; 61 G; 51 T; 3 other; acatgtgtag aaatataatg rcagcaggat accaaagcag ctgttgtata gtgagctgaa 60 gtggggtaat cacaagcagg gagggcagaa gaaatacttt aaggattcac tgaagcacar 120 cttcaaacaa tgttrgcata gctgtggact gctgggaaaa acagcagcag agaccagcct 180 ggcatgcagc aataaggaat ttttgaactt tttgagcaaa ggctttaagc tga 233 // ID LTR72 repbase; DNA; HUM; 519 BP. XX AC . XX DT 20-SEP-2000 (Rel. 5.08, Created) DT 20-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Long terminal repeat of HERVI-like retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR72. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-519 RA Jurka J.; RT "LTR72."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC Distantly similar to LTR58 (middle section) and LTR26 CC (3'-region). CC ~86% similar to individual copies. Over 200 copies per genome. XX SQ Sequence 519 BP; 127 A; 147 C; 99 G; 141 T; 5 other; tgatgtaagc agacagggag ggtctccagg gaytatagga atttaatcaa cttgagcaat 60 cagcctgttt tacagcctcc tgccttgcag cctgtttttt cccaaaccct gtgtggaatg 120 cagtcaccta gttggttgga accagctcct gacagacccc agcaacttat agatgaaccc 180 aagtgaactt tcctcattac catgctaaag tctccacccc ngggaggagc tatagcttca 240 ttaccataac atgcraccta tgtgctggca taatgactca ctgcatctgc gccactggga 300 cccctcctct acatgcgatg atgcaccctc tcccctctcc atcaccccat aaaaccctcc 360 tgtcactttc cctcggggag acactgcttt ggagaatact cccagtgttc tccttacttg 420 tgccaagtaa taaaactcct attgatcaaa acctgtattc tcatggagag tcgtttgtta 480 ctcaccaggy gaatraaccc tggttttttt tgggtaaca 519 // ID LTR1C1 repbase; DNA; HUM; 648 BP. XX AC . XX DT 18-FEB-2009 (Rel. 14.06, Created) DT 18-JUN-2009 (Rel. 14.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR1C1. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-648 RA Smit A.F.; RT "LTR1C1 - ERV1 Endogenous Retrovirus from primates."; RL Repbase Reports 9(6), 1173-1173 (2009). XX DR [1] (Consensus) XX CC 8.5% subst outside CpGs. 45 copies. XX SQ Sequence 648 BP; 134 A; 221 C; 177 G; 115 T; 1 other; tgatacagaa cggctgggct cccggctaaa ccccaccctt aagcctggaa ccgcggccct 60 aagtgaaaac agctgacccc gtttttccgc ccaaatgttg cctttttggc ctgccacgcc 120 cctatcctgt gcccataaaa agacttcagc tggcagagca acacaagcgg ctgagcgtcg 180 gggatacaag cggctgagcg ncggggatac aagcggctga gcgtcggaga ctacggatag 240 acgcggctaa cttcagacgg tgcggcttca gggaaagatc accttcttcc cgcaccatcc 300 cctttccaac tccccatccc gctgagagcc acttccatcg cccaataaaa tcctccgcat 360 acactaccct tcaatccgtt cgtgtgacct gattcttcct ggacgccgga caagaacccg 420 ggtgccgaga gggcaggggc ttggacgctg ctgcggggcc cgcacagagc ctgctcccgc 480 cagagaggag cgaccggccg gttccagcgt tcgttccctc cggttcccgc actcgcttgc 540 tcgcacgctc cctctcgcga ggagtggcca gcggcgggct gagtgaaacg agccactcca 600 gttcccgccc acgaaggggg tcaaggtcaa gggaacaatc ccgtctca 648 // ID LTR41C repbase; DNA; HUM; 701 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 20-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR41C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-701 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 945-945 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 701 BP; 136 A; 194 C; 146 G; 220 T; 5 other; tgtgccagtt atcaatttat tgcctctcag ctccaaatcc acctttgtcc tgctttgtga 60 tactggagct ggaccctgta aacatttctc ctttgccagc tggcacaatg ttaagctttg 120 tcagtagagg gcactggagg gacactgcag gaggaaggga cttcyttcct ggttcttgtg 180 tgcttttttg ctcctatggc acatgrttgc cagcggcatg tgggacaccc agtggcactc 240 accctccagc aagtttcgcc ggcacccctg taaagtcttg ttagctcccc agagggtggc 300 ttcccagtga gtttcaccag cattccagag gcctgcttcc cagtgagttt cactggcaac 360 cccagcaggc ggtttccagc cacccccggc ctgtggcacc tcagcaaact tctctgccat 420 ccastgggcc acaccatctc cacataggag tttagatctc agcgttggag agrgcctcct 480 tccaagtttg ttccttcctt gggtactctg cctcagccct agaggtagtg gctgctccct 540 atatctgcta ttcctgtatt ctttagagtt ctctttaccc cttcttagtt aatcctatta 600 ttaattaatt cttagttatt ataataattc tttatattaa amtttccctg ttcaaattac 660 tgttgtggtt tctgtctcct gactggaccc tgactgatac a 701 // ID LTR10G repbase; DNA; HUM; 523 BP. XX AC . XX DT 07-MAY-2001 (Rel. 6.04, Created) DT 07-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE LTR from a human endogenous retrovirus (LTR10G subfamily). XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR10; LTR10G; KW Long terminal repeat. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-523 RA Jurka J.; RT "LTR10G."; RL Direct Submission to Repbase Update (MAY-2001). XX DR [1] (Consensus) XX CC On average ~86% similar to individual copies and 68-75% similar CC to other LTR10 subfamilies. XX SQ Sequence 523 BP; 120 A; 153 C; 90 G; 159 T; 1 other; tgtaagatac aatgaatttc tctgagtttc tcttcaaaga tttagcctgc taacttcctt 60 gtcctttgtt ctcaaactca actttcttgt tcctccttgc ccctagttac tgtaaaacag 120 cctaccccct tcccatcagc tctaatcaat aactcacatc tgttcccttg gttacctgca 180 cccattgttc ccccgaaact gcacgtctca catgcttcac cactgtacct cacrtccccc 240 ttcccttcca tatttagaaa aatatttgca agtagccaat cgggtcagct cagattgtgc 300 agtccgaccc cagcccatgg gggagtgaca cagaggtagg gactacgcgt cagagataaa 360 aaccccctgc tctcctttgt tccgtgtgct cttgcgatct tgattgacgc gagtggcacc 420 cttctgcaga agtaaattgc cttgctgaga aaacttttgc ctgagtgctg gtttcacttt 480 gcggcaccaa gcatttattc ctagagcatt tttatatcca aca 523 // ID CHESHIRE_B repbase; DNA; HUM; 338 BP. XX AC . XX DT 13-AUG-1998 (Rel. 3.07, Created) DT 13-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE Nonautonomous DNA transposon; HAT superfamily - a consensus. XX KW hAT; DNA transposon; Transposable Element; CHESHIRE_B; KW DNA transposon fossil; hAT superfamily; MER58B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 338-1 RA Kapitonov V.V. and Jurka J.; RT "CHESHIRE_B."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 338-1 RA Smit A.F.; RT "CHESHIRE_B."; RL Direct Submission to Repbase Update (1996). XX RN [3] RP 1-338 RA Kapitonov V.V. and Jurka J.; RT "CHESHIRE_B."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [3] (Consensus) XX CC CHESHIRE_B is a nonautonomous derivate of CHASHIRE transposon. CC 8 bp target site duplication; 16 bp terminal inverted repeats. CC Original orientation [1] has been changed accordingly to the CC internal sequence [3]. XX SQ Sequence 338 BP; 101 A; 68 C; 70 G; 98 T; 1 other; caggggtcgg caaactatgg cccatgggcc aaatctggcc caccgcctgt ttttgtactg 60 cccgtaaact aagaatggtt tttacatttt taaatggttg gaagaaaaat caaaagaaga 120 rtattttgtg acatgtgaaa attatatgaa attcaaattt cagtgtccat aaataaagtt 180 ttattggaac acagccacgc ccattcgttt atatattgtc tatggctgct tttgcgctac 240 aacggcagag ttgagtagtt gcgacagaga ccgtatggcc cgcaaagcct aaaatattta 300 ctatctggcc ctttacagaa aaagtttgcc gacccctg 338 // ID MER4A1 repbase; DNA; HUM; 472 BP. XX AC . XX DT 07-MAY-2001 (Rel. 6.04, Created) DT 07-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER4A1. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4-group; MER4A; MER4A1; MER4B; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-472 RA Jurka J.; RL Direct Submission to Repbase Update (MAY-2001). XX DR [1] (Consensus) XX CC 90% similar to 3'-end of MER4A and MER4B. ~89% similar to CC individual repeats over the entire length. >100 copies CC per genome. XX SQ Sequence 472 BP; 126 A; 129 C; 89 G; 126 T; 2 other; tgtgaaagga aaataaatct tggggcccca aaatcactaa gctaaaggga aaagtcaagc 60 tgggaactgc ttagggcaaa cctgcctccc attctattca aagtcacccc tctgctcact 120 gagataaatg catatctgat tgcctccttt ggaaaggcta atcagaaact caaaagaatg 180 caaccatttg tctctcacct acctgtgacc tggaagcccc ctccccgctt cgagtcttcc 240 tgcctttgct tcaagttgtc ccgcctttcc agaccgaacc aatgtwcwtc ttacatatat 300 tgattgatgt ctcatgtctc cctaaaatgt ataaaaccaa gctgtgctct gaccaccttg 360 ggcacatgtc gtcaggacct cctgaggctg tgtcacgggt gcgcgtcctc aaccttggca 420 aaataaactt tctaaattaa ctgagacctg tctcagattt tcagggttca ca 472 // ID MER135 repbase; DNA; HUM; 228 BP. XX AC . XX DT 29-JUL-2006 (Rel. 11.07, Created) DT 24-JUN-2008 (Rel. 13.06, Last updated, Version 3) XX DE A conserved, interspersed palindromic repeat - consensus. XX KW Transposable Element; Nonautonomous; DNA; MER135; conserved; CNE. XX NM MER135. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 34-204 RA Jurka J.; RT "MER135: Conserved mammalian repeat, probably derived from a RT non-autonomous DNA transposon."; RL Repbase Reports 6(7), 388-388 (2006). XX RN [2] RP 34-204 RA Gentles AJ., Wakefield MJ., Kohany O., Gu W., Batzer MA., RA Pollock DD. and Jurka J.; RT "Evolutionary dynamics of transposable elements in the RT short-tailed opossum Monodelphis domestica."; RL Genome Res 17(7), 992-1004 (2007). XX RN [3] RP 34-204 RA Jurka J., Kapitonov V.V., Kohany O. and Jurka MV.; RT "Repetitive sequences in complex genomes: structure and RT evolution."; RL Annu Rev Genomics Hum Genet 8, 241-259 (2007). XX RN [4] RP 1-228 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (28-NOV-2007). XX DR [1] (Consensus) XX CC This is a relatively abundant repeat: ~500 copies in the human CC genome. Its palindromic structure suggests that this is a CC non-autonomous transposon-derived repeat. It shows distant CC similarity to microRNA ppa-mir-224. CC [4] Extended and improved consensus. Original matches pos 34-206. CC Yet another hairpin. TIRs do not match other DNA elements yet. In CC platypus, monodelphis, human. XX SQ Sequence 228 BP; 64 A; 55 C; 47 G; 61 T; 1 other; ctggaacata atgagccaga ttctcccagt gcgtaaacta ctccctggga gtaaattagg 60 cacttttgga agctgcatta actctttcag gccactaggg taccatttag taaattactg 120 ctccagtgca ctaaatggta ccctagtggc ctgaaagagt taatgcacct tcaaaagtga 180 gcaatttact cccttctcac cggtaggatc aggcccaata tgttncag 228 // ID MER54_EC repbase; DNA; HUM; 547 BP. XX AC . XX DT 27-MAY-2008 (Rel. 13.05, Created) DT 27-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE MER54 repeat family from horse: consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Interspersed repeat; ERVL-74 group; MER54 subfamily; MER54A; KW MER54B; MER54_EC. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-547 RA Jurka J.; RT "Long terminal repeats from horse."; RL Repbase Reports 8(5), 598-598 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 547 BP; 125 A; 152 C; 115 G; 155 T; 0 other; tgtgatgaga aaacagctat tttgagttgc tgcctaggca ttttacagta tgacaaccct 60 gctcacaccc agagtctgga catttagata aggacctgag cttaggattc ccgccacaag 120 ttcccgcttt gcttttcctg gggcaccttt taaaataacc acttagagtt gagcccatga 180 aaagttagtg acctctgccc caaccacctt ataagtaata ggtgcttgct accctgctct 240 ctatctcctg cttgctcgtg acctgggaca gaggactgcc cttcccccgg ctcattgcat 300 gccccctacc ccaccatttc tgggatctgt aagtaataaa tcttgtgact ttacttcctt 360 tgtgtgagtg tattgaaact gtgccttcaa tcaaaatgac cccggggttt tcacttcccc 420 aaagtgggag ctcggatgct gagggagcta cctgctgacc ccgtgtgggt ggcttgtgcc 480 tcctcattca gcaggtcata atctgcatat tcttaattta atacaccagc tacgggcccc 540 caacaca 547 // ID LTR22E repbase; DNA; HUM; 507 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 13-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR22E. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-507 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 836-836 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 507 BP; 128 A; 114 C; 140 G; 125 T; 0 other; tgtagggagt tcggtcaggg tggtgggaaa agttataaga aaaagttata gggaaagacg 60 caaaccttct tggaaggccg ggaggttttg caaaagcttc aggaaaagaa tttggctgaa 120 ggcagccgaa ttctcttatc cggagcctga gagcaaaggg tagataacaa gggaatgtaa 180 aggaacttat ctagataaat ttgtttactc atgtcgtcca gaaaccaacc tttgatcatt 240 cgcgcgcagg actgctctct acttgggggg tcgacaatgt taattaccca caaattgtgt 300 ttgctccaag cctttgtcat taaatctgta ctaaataaat gcgagcggcg ccggcttatg 360 ggggctgcac tctcttggcg gctgcagcac tctcgtcggc ggtgctgagc cgtgcagtcc 420 cctagcccgc gctgtcaggc aaaatacctg tgtcagcgta cttctttcat ccgtcgctcg 480 gccagagtct gcgggacaga ctcggca 507 // ID HARLEQUINLTR repbase; DNA; HUM; 463 BP. XX AC . XX DT 25-APR-2001 (Rel. 6.03, Created) DT 25-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE Long terminal repeat of the HARLEQUIN retrovirus - a consensus. XX KW LTR Retrotransposon; Transposable Element; KW HARLEQUIN endogenous retrovirus; HARLEQUINLTR; HARLEQUIN_LTR; LTR; KW LTR2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-463 RA Kapitonov V.V.; RT "HARLEQUINLTR."; RL Direct Submission to Repbase Update (MAR-2001). XX RN [2] RP 1-463 RA Kapitonov V.V.; RT "HARLEQUINLTR."; RL Direct Submission to Repbase Update (APR-2001). XX CC HARLEQUINLTR is a long terminal repeat of the HARLEQUIN CC non-autonomous endogenous retrovirus. Solo LTRs and complete CC proviral copies are flanked by 4-bp target site duplications. CC Copies of HARLEQUIBLTR are ~5% diverged from the consensus CC sequence. The "real" divergence is even lower than 5% since CC there are several subfamilies of HELITRON. Consensus sequences CC of these subfamilies are ~97% identical to the HARLEQUINLTR CC consensus sequence. Copies of these subfamilies are 3-5% diverged CC from their consensus sequences. Therefore HELITRON-like CC retroviruses CC have been multiplied approximately 15-25 Myr ago. XX SQ Sequence 463 BP; 116 A; 128 C; 105 G; 112 T; 2 other; taagggagga gaccacccct catattgtct tatgcccaat ttctgcctcc aaagaaagaa 60 raagtaaaaa ctaaaaggca gaaatgaaat ccacaggcag acagcccggc gccacaccct 120 gggcctggta gttaaagatc gacccctgac ctaatcggtt atgttatcta tagattacag 180 acattgtata gaaaagcact gtgaaaatcc ctgtcctgtt ctgttccgtt ctaattaccg 240 gtgcatgcag cccccagtca cataccccct gcttgctcaa tcgatcacga ccctctcacg 300 cggaccccct tagagttgtg agcccttaaa agggacagga attgctcact cggggagctc 360 ggttcttgga gacgtgagtc ttgccgawgc tcccggccga ataaagccct tccttcttta 420 actcggtgtc tgaggggttt tgtctggggc tcgtcctgct aca 463 // ID MER68_I repbase; DNA; HUM; 2990 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Internal portion of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; HERVL68; KW LTR retrotransposon; MER68_I. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-2990 RA Smit A.F.; RT "MER68_I - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC first 230 bp and MER68 LTRs are ERV1ish. XX SQ Sequence 2990 BP; 770 A; 635 C; 761 G; 792 T; 32 other; gttggtgtca gaagtgggat tcgctagaac gaccctgact cactgaaata tggcnaaagc 60 actgtttggg aaaaaggaag aatgagggag agtggatgac aaaaccttga tgcctgggtg 120 gctatggagt tatccatggt atgaaacagc agctgagctg ctgtctgttg tgagaggtaa 180 aagttacccg tggaatttna aaatgataga tccaaccccg ggagagttgg ctcnctggat 240 cccctggctg ctttcggcnn tgctggctaa agtgaggggg aaaagcacag cccgggtgat 300 gcctttggtt tttgttctct cctccaggtg ggaggagaaa gggcccaaac attcccaaag 360 gtgagctttg ggtgggccaa aaatgntaaa agtttgtgtt gctctctcct ccaagtggga 420 ggaaaaaggt taaatcagtt cccagggctg gagcaaagct ttggataaan cagaggagga 480 gaaaaagtgg ggaggggcgg ccaaaaccac tccagccttt cttcagccca gctgctgctg 540 cagctgctca accccctcct ttccctncaa ccttcatctc cgacagcngt aatgttaacc 600 ctgtaaatgc tgaatttact gctaggggtt tgagtaaact tgcaatgaga aaaaaaaagg 660 aaatttaaaa tggctttgtg ttttgtggct attgcatctg gatgtatgat aaaaattgat 720 gtaaaatgtt atatgcttgt aatttcataa atgctagagg gatcatcccg atcgggaaag 780 ctgcaaagaa aaantgttag tgggaacaca actcccttgc tttttgccgc cggtgggcgg 840 attggaattt aaactctttg agtattggaa acagaacaag tctccgtaan tgatgatttt 900 tgctatgatt tttgcctatt ggagcctctg gaaaaaggga gacaacatga aaagagaggc 960 aatctccaga tggagataca cttttggagt tttaaaaagc agtttttagt ttgctaatga 1020 gctcttgctg aaatcggatg tctgaccctt agaggctgat gattttccgg cctgatgtgc 1080 atgatttttg agngggtcag tttggactct aagactgaca aggtaaaaag gccttaggaa 1140 agccttgctt gtcacttgga cttggaacac agctgtctgg ccctgcagca tctcagcttt 1200 nctgctgccg aagaaaagcc tctggctttt ttggaatcct gaantcacag atcctaattg 1260 cctggacctg actctaagct aaaacctgat actgtctgct ntgggctgtt tcagcctcag 1320 nacgagctgt gctgaactga aagcaggcat agctcgactc aatgaacagg acttngactc 1380 tgggaccgtt gcagatttag gacacccctc tgtggggcca taaactatga aaacatcatg 1440 gatgctggct ggaccgtctg ggtcacntgc agatgcccac gggaaagggc ttgttctctg 1500 atgggaccat ctaaaattga gctgctnatn ggctctgtat ttctgataca gagactgatt 1560 gcattcctaa cttgtgattn ctgccaaaag ctgcangttg ggggagggca catcacaggg 1620 antgtgaccc ctctacccac tcctgacaga tcagactctn gaccccctct cggggatgtc 1680 tcactgctgt tgacttgttg ttcggctttc tggattagtt gcagtttgca acagtggact 1740 gacagcctga ntctacttcc ctcgcctttc tcctggtaca cacancttag taaggcagtt 1800 tgattattaa atgcagctgt ccccagaaag ggattgatct ttttttctag gctgctcact 1860 ggataaatga tcaggacgaa aagggtggga aggttatgta aactcatttt gaaaantttt 1920 gaaaattcag gatttcgtcc tgaccaattc ctgaacatga tgtgtctttc tggttaagtt 1980 gtataaaaat gtttttctgt gaaaatgctt ttgtccctct tgcatacaac ccttccggat 2040 aaaaggtctg ggtgagagta agagatgatt gaaaaaatgt aaagttatga ttactgaatg 2100 ggacacactg attttgtaac aacggagaaa aaacaaaanc ctggcacctg gggaggcacg 2160 gggagnggga gagggcatta atgatctttg tttttcagaa ctgctcctgg aagctttccc 2220 ctcttcccga agaaaaactc cccgtgctgc ctttccaagc tgctgcgagc gctttgaatt 2280 caaactgact gctgagccta ngatcacacc tgacagcgct gactatgaga cagcaggggg 2340 tggccccagc tcctgcactt tccacgnaga acacctccag atgtcgtcca cactcatgag 2400 gcggatgaac tggtgtcacg gacaagcaaa actgtttgga actgactgcc tcaggcagtc 2460 cctctgaaac caaggactga actgaattat ttggactgga ctgggaaccc tagggcagga 2520 ggccccacgg tgggaggcca cactgggggc cctgttaacc tgtactgcct gactaatgta 2580 tgtcctgctt ggggtgccct aacaattgta aactctttgt ttccaggggt accacgtgtg 2640 ccctctggga ttgtacttct tgtgtgtgta ccctgactat catgacactg cctcagccct 2700 ggaaggcttt caggtcagct tcaacttact ggccagagtt gtgctgtgcc tgaattgatg 2760 cctcgggcca gaaaaaaaaa ggttaataca gaaacttaag gaggaagcca cctggctttc 2820 taagatagac ctttatggtt aatgggattt gttttaactg gctaaatcca ggacccctaa 2880 agggcataac tgagatcaat actgcagntt ggtctcaccc tgctgcgtgg ggtcctactg 2940 ataataattt tgctgtaaag atgccttggc caagggccaa gggggtggac 2990 // ID MER4A1_LTR repbase; DNA; HUM; 600 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER4A; MER4A1_LTR; MER4A1__LTR. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-600 RA Smit A.F.; RT "MER4A1_LTR - a subfamily of ERV1 Endogenous Retrovirus from RT primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC mer4 group (differs mostly by a deletion). XX SQ Sequence 600 BP; 182 A; 151 C; 113 G; 153 T; 1 other; tgtgaaagga aaataaatct cgggacccca aaatcactaa gccaagggaa aagtcaagct 60 gggaactgcg tcaggcaaac ctgcctccca ttttattcct aaataagata gctacaaaga 120 taaaaaagct acatacctcc ctcacaattt gcccacaagg aaattccttg tggacaaagg 180 acagacagaa ctcaaagtca tccctctgag gctcacctga gacaaatgca tatctgattg 240 cttcctctgc cctattgttt atgtaaaaat gcagattcac tgagccagac taaattgtgt 300 attcagtgaa aggctgatca aggactcaaa agaatgcaac cttttgtctc ttatctacct 360 atgacctgga agcccccgct tcgagttgtc ccgccttncc ggaccgaacc aatgtacatc 420 ttacacatat tgattgatgt ctcatgtctc cctaaaatgt ataaaagcaa gctgtacccc 480 gaccaccttg ggcacatgtc gtcaggacct cctgaggctg tgtcacgggc gcgtccttaa 540 ccttggcaaa ataaactttc taaattgatt gagacctgtc tcagatattt tgggttcaca 600 // ID TIGGER8 repbase; DNA; HUM; 666 BP. XX AC . XX DT 21-SEP-2001 (Rel. 6.08, Created) DT 21-SEP-2001 (Rel. 6.08, Last updated, Version 1) XX DE Mammalian DNA transposon fossil - consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; TIGGER8. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-666 RA Smit A.F.; RL Direct Submission to Repbase Update (MAY-2001). XX DR [1] (Consensus) XX CC 29% divergence from consensus. XX SQ Sequence 666 BP; 198 A; 125 C; 128 G; 198 T; 17 other; caggtggtcc tcaacttttg tacgtttnac tttcananaa cccgcacttt tgtacattat 60 acattgacac ccctaaaccg cctttcntat gccgaattcg gacttncgta catcagctga 120 tnaacgaaca tttngagcta tcncacggtg gtgctgcctg ccagccaaca gttcagtttc 180 ggcagcatcg ccatctttgt ctgtacagca gtgtttgtgc aattatttga atattttatt 240 gcattttgcc cttattattt tataaaaatg agtggaaaat agaaaaatga aagtgctgat 300 actagtgata agaagcgtag gtctcataaa cttaatacaa ttgagacaaa gatggaaatc 360 attaggcatg ctgaaagcgg cgaatcttta gcctcaatcg gacgctcact ggacttaagc 420 cagtcgactg tgtgttcaat tgtgaaggaa aagaacaaaa ttaaagaaca tgtacgaaat 480 gctggaaata tatcatcgaa gactgtgtct aaaaggtgaa gtgtaattag ggattttata 540 ctatttttta gctctctggg aanaaatccn tccctacaac actnnangtc nattgtttga 600 ctttcacaca ttcgacttcc atacacgttt tcaggaatnt attangtatg aaantggggg 660 actggc 666 // ID LTR26B repbase; DNA; HUM; 531 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR26B_LTR; LTR26E; LTR26B. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-531 RA Smit A.F.; RT "LTR26B - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC <15% div. XX SQ Sequence 531 BP; 146 A; 148 C; 94 G; 143 T; 0 other; tgaagccatc ctcacagggt taacaagaat tctggacaga aatatagtta taattaagca 60 ttaatcaggc tgcactttga cccacttcct tgtaaccaaa agtcacataa cactagatac 120 tgaccatttg catccccatt gttcctatag ataggatttc tgacgttaga atcataaggc 180 ttttgtttaa gaattgctta agcagatcct gaattccagt ggaacagctg acgccaacca 240 gtttgaagac ccccacagag gaaccgaatc agcatgagaa tacagtttct tcatctccct 300 gtcccatgac ttcaccctgc actcttcgac caatcaatga tctccacact tcggcccact 360 ccaaaacctt taaaaaccct agccccaaac tcctcgggga gatggatttg aggtttcctc 420 ccatctcctc attcggcggc cctacgatta aacctctttc tctgctgcaa cctggtgtct 480 cggcgtattg acttgccgtg tgcatcgggc aacgaaccta ttacggttac a 531 // ID ZAPHOD repbase; DNA; HUM; 4023 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE hAT-like autonomous DNA transposon (a consensus). XX KW DNA transposon; Transposable Element; MER115; MER118; ZAPHOD. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 3865-4023 RA Jurka J.; RT "ZAPHOD."; RL Direct Submission to Repbase Update (MAR-1999). XX RN [2] RP 16-714 RA Jurka J.; RT "ZAPHOD."; RL Direct Submission to Repbase Update (MAY-1999). XX RN [3] RP 1-4023 RA Smit A.F.; RT "ZAPHOD."; RL Direct Submission to Repbase Update (FEB-2000). XX CC A 700-bp 5'-portion of ZAPHOD has been identified as the CC unclassified MER118 repeat [2]. The 3'-end (MER115) was CC also identified by Jurka [1]. CC ZAPHOD is a DNA transposon with 14 bp (imperfect) terminal CC inverted CC repeats and 8 bp target site duplications [2]. The transposase CC (pos <1926-3687) is related to hAT-like transposases CC up to 40% identity to gid 4538984 in Arabidopsis). CC Related transposases were encoded by MER69 and MER45. CC Copies are >25% diverged from consensus, ~ 1000 copies in the CC genome. CC Most copies are an internal deletion product missing bp 990-3586. XX SQ Sequence 4023 BP; 1470 A; 622 C; 656 G; 1214 T; 61 other; cagtaccgcc cttagacccg ggcaagaggg gcccctgccc tgggccccgc gctttagagg 60 gccccgcata tcacaaacac acacaaataa atttattaaa gaacacatgg gtgcctctgt 120 cactcgggat ccggcgctca gcgctggcac agcacgaccc gtaaccctaa acatccgctc 180 tcgtgactaa caccgttcag gccccaggga aatgcttctc cacatctctt gccctgtgtc 240 ctcgaaacaa aaggcgactg tgtccgaatg ccatgaaggt ttgtgggttg tgccgctgcc 300 gacgtcggag acggacactg cttcggagtg cagggaggat ttgagcggcg gaagcgctta 360 ggtaagagaa aagacaaatt aattaacttg tcaaatcctt cctctcagat agcatgaatg 420 caatagattc ttgcataacg aagtatcatt tcccagtagt gccgagcgtc cattttcttg 480 cttctcttcg tgttccaatt cgtggttccg gaggtactca caaattagcg cggtattcgc 540 aacagttgca catggcagct gaggaacatt ttgcaatatt aaacaattca tattactctt 600 aaatttgtat atatgtaggt ctagacgtaa catgcatgaa gcgtgatacc gattctttac 660 attggcaact agatggacat tgaacgctag aattgcgaat agttttattt ttataaaaat 720 atttaataag atttaattaa attttcaaaa attaaataaa aatttcagct ttatttaaat 780 aattttgatt taaaantttt atatttatta attataattt gtattttgcc ttttaatttt 840 aatagataat tttgaatatt ttagaaaaaa aaacatataa agtaaatatt taaattttac 900 atttacttta atttacattt ttgatgaaaa tatattcaaa ttttgtanac tttgaataca 960 attaatttta tttttaatcc tttagatcac cgagaatgag tacaagtcaa gatcntgata 1020 gaaatanaaa atacnaaagt ggagctcaga aaanaaaaaa gctgaaaaga aaaaatagaa 1080 aatcttcaaa gaggcggtct gcttaaattt ttnaaaactg naaacaatga aagtaagcag 1140 acttctgcng agcatgaccc acataaaatt cgcaaacaag acattacaaa ttctttattt 1200 aataaagatt taattactga tcaaaacaat gaaaatgagc aagaaaatta ttctnatcaa 1260 atccacaact tgaacaggtc agatgaaatc cctgcaactt cacgttcttc actaaatgaa 1320 gatttaatta ctgatcaaaa caatgagaat gagaaaaaga attatttata ncaaattcgc 1380 aactcaaaag aaacgaatgc aactccggcc tgcccattag aagatgaaga aagttacatt 1440 tatgaaancg gcaaattgaa tgacgaaaaa aaaaacctct agctttatta cgctttatta 1500 gatggcgatc ctagaaaatg gtnatcacat ccttctnaca gcatgagaat gtttctagca 1560 aaacgcaatt cgattcaaat taatgntnat acaattttcc actgaatgaa catggcagaa 1620 aatttagtat ttnattttat accaaaattn tttcnaatgg agaaagaata gagacwtttt 1680 tmatattcaa gtcagaagtc gaacattttg ttactattgt tacatatttc actcnatttt 1740 tacagtcagc tttgtccaaa gaagtaatct gtnactggaa acacttngat tttnaattaa 1800 aanaatacaa aatgtcattt acaccgcaaa aaaatacaca cgcaaatact agaatggaaa 1860 aaaanaggcc aaatnancaa tagtattcaa caaataaacg caaancaaat tanaatattg 1920 ntgtgatgtt cttaaagaaa atattangtg tccaatattt agccaagcat aatgatgctt 1980 tcacgtgnca ncaacagcnc aatgtttata gaaaacagtg gaaattttct aggtttagta 2040 gaaatnattt cgaanttgat gcnaaaatgg ccaaacatgt aatacagatt aaaaatgaac 2100 naaatgatca ctacntagaa tggagaattc aaaatgagat tactanttta atnggtanta 2160 aagtgagaga agaaatcata gacaacaatt tagtaagtaa atattactca gttcaactag 2220 attgtgctag ggacaaaaat catgttgaac anctaacatt tattgcatat tactgaacta 2280 tcagaggaag aaaacaagga tatcaaaatc aattaatatt tcattggttt tatacctaaa 2340 agtacaggtt ttganttaag tgaagaactg aaaagacaac tttcaatttt aggnattgat 2400 ttaaaagatt gtcgagggca agcctatgat aatggcgcta acatggttgg taaaggaaaa 2460 ggtgtacaag ccagaatttt ggccgaaaat ccagaagcat tctttgtgcc atgtacagcn 2520 catagtttga atttgttact aggagacgtg gcctcaactg tgccaanagn agtgatattc 2580 tttggaacaa ttcaaagatt atatacgata ttttctggat ctgcccaaag atggaacatc 2640 ttgatgaaan acatatcaaa tttgacctta caaccactct cagacacatg atgggaatgc 2700 cgactaaatg ctgttaaagc aattagattt aatttagaca agatanaaga tgcactagaa 2760 gagttaagcg aaacaacaga agatcctcaa ataaaaagta aatcgtggtc tttggnagaa 2820 aatgaaatta attttgaatt tgcgctatcc acagttattt ggtatgaact gttgnttgct 2880 attaataang ttagcaaaag cttatccaaa cagatccgag tttggctatt ttatcttttt 2940 aaangattaa aacntatttt tttaaatttt agagaaaatg gtttttcnaa atcaaaagaa 3000 actgcatgtg aaatatgcaa caaaagtgac attccaataa aatataagga aatcagaaca 3060 agaaaatgaa aacatttgca tgactntgaa ggaaagaatt cacatacaaa taatccccaa 3120 actaatttct atagagacta ttttctggcc attatagatc aaggtatagt ctcgattgaa 3180 gagagatttg aacaaattga gcaatatatt gctattttcg gttttcttta taatatccca 3240 gcattgaaaa atttgaaaga agaacttaag aaatactgta tggatctaga tattgcttta 3300 agagatggtg aaaatngcga tataagtgat agtgatttat atgatgaaat taaaatattt 3360 tgtaatattt tctgcgataa tgataattta tcatatgcga ccccattaca atgtttgaac 3420 atgatatgta aaatttatgg ttcatttcca aatctaagta ttgctttaag aattttattg 3480 acaattccag ttgctactgc ctcagcagag naaagtttct ccaaattgaa attaataaaa 3540 aactatctaa aaactacaat gactcaagaa aggttgtcta atttggcatt actgtcaata 3600 gaacacaaat tatgtgaaaa tcttgattat aacaacataa ttagtgattt tgctgaaatg 3660 aaggcaagaa aaataaattt tatggaataa atacataata atttatgaat tatgtatgtc 3720 tttattttat tactcatcca aacattgccg gcccatcaac agaacaccca gacatgtgca 3780 ataataatta aattcagtca tctttgatat tttgccaact ttcagtcata taaaaaccat 3840 agctttacac atatttttaa ttttgtcatt atgaaggtat atttgtcaag gtaggaggat 3900 agaacatatt ttatttaaca gtttgttagc ttgatttata acttttaaat atttagacat 3960 atggtatgtg ggcctccatt tgtactcttg ccccgggccc cgcaaatgtt aggggtgggc 4020 ctg 4023 // ID L1M2_5 repbase; DNA; HUM; 4191 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 20-OCT-2000 (Rel. 5.09, Last updated, Version 3) XX DE Primate L1M2_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M2_5; MER62. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1522 RA Kapitonov V.V. and Jurka J.; RT "L1M2_5."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-2904 RA Smit A.F.; RT "L1M2_5."; RL Direct Submission to Repbase Update (03-MAY-2000)(1997) Update. XX RN [3] RP 2690-4191 RA Jurka J.; RT "L1M2_5."; RL Direct Submission to Repbase Update (OCT-2000). XX CC 5' end of LINE elements with L1MA4A subfamily 3' ends, comprising CC the CC 5' UTR, ORF1 and part of ORF2. XX SQ Sequence 4191 BP; 1532 A; 1064 C; 879 G; 693 T; 23 other; aggaggggct tcaagatggc tgactagagg catctggtac tcgcctcctc cacaaagaag 60 aaccaaaata gcgagtagat aatcacactt tgaatagatc atctaagaga gaacactgga 120 attcaacaga gaagtgacag gaaacaccta aagcaaggaa ggagagggaa gcgaggcagc 180 ctgctcggcc gggatcggct gggagcctgg agaggctccc caatgcgggg aaagggtaag 240 tgagagaccc ccagcggtcc acattcccac cacggactcc tgcaatccta gccacgggag 300 agcccctcga ccctcgcggg ccctgagact aacataggga gctgcctgga gaccgcgcga 360 tggcattgct ccagagaggg agctcacgct gggtcccaca cacccccgag tcctaagcag 420 ctgcagcang gcgccatttt gagagcccag cccccaccag actgcatcct gccctggggc 480 ccaacagccc ctgcatctcc acatccctgg agccccantg acattccccg cccacagcca 540 ccgccactgc tggctgctgc caccagggcc gaagcacgag ccactggcag cgaccccgct 600 gcccccagca gcggggcngc cacgcatttt cacgcgccct gaggacaaac tcccctgcct 660 gcagctgcca ccactgcggg ctgccgcggg gccgaggcac gagcaaagcg cacgctcccc 720 agccgcctgc ctatggctgc tgccactgaa agcaaccccg ccctccccag tagcagggcc 780 gcagcgcagc cgctgctgcc cccacccgag cattccacca ggggcctggg gatcaccccg 840 cccctgccta ccacagccag cgcctgcacg caccaccggg gggcctgagg acaggtccgc 900 ccggcccggc tccgcccccc ccagtgccca agcacgccgt ccaggggcct ggggatcgcc 960 cagcccagtc caccaccgtt ggcacctgag cactcctccc gggggcctga ggtcgggccc 1020 acccaacctg ccactaccac cacagctggc acccacccgc atgcgccacc tgcgggcctg 1080 gggactggcc tgcccagccc gtcgcagcca ccgccaacac cagcgcggac cgcttgggag 1140 ccagagggtt gtcccaccac tgctactgcc atcgcccatg ccacgcccgc tgcccagggg 1200 cccgagaacc tgcccaccca cccggcccac cgctgccact nctggcaccc gagcaagcca 1260 cctggaggcc caagaatcgg cctgcctgga cccgctaaca ccggtgccag cgtacgccgc 1320 cctggggccc aaggacaggc acgctcggcc caccgctgcc accactgggg cccgaggact 1380 ggcccacctg gcatcccngt ccccagcaaa acttcaccac agcctccact aacaaccgca 1440 ccctaagcca ctgaggaaat cacagacacc actgatgctg tttacagccg aagaaatcat 1500 acagagacta cactactgca cgcacccaga atcaaagcca aagtgcccta cccaaccaac 1560 accatagata catcttcagg aaaaagtcct cccctacgaa agcaaattca aaaaattgga 1620 agaagcgact gttacaccag atgcgcagat atcaatgtaa ggacacaaga aacatgaaaa 1680 agcaaggaaa tatgacacct ccaaaggaac acaataattc tccagcaaca gattccaatg 1740 aaaaagaaat ttatgaaatc ccagaaaaag aattcaaaat aatgatatta aagaagctca 1800 gtgagataca agagaacaca gaaaaacaat acaaagaaat cagaaaaaca attcaggata 1860 tgaatgagaa atttaccaaa gagatagata tcataaaaaa gaaccaaaca gaaatcctgg 1920 aactgaagaa ttcantgaat gaaataaaaa atacattcga aagcttcaac aatagactag 1980 atcaagcaga agaaagaatt tcagaacttg aagacaggtc ttttgaaata acccagtcag 2040 acaaaaataa aaaaaaaaga ataaaaaaga atgaacaaag cctacgtgac atatgggaca 2100 ccataaagcg accaaatatt cgaattttgg gtgttccaga aggcgaagag aaggcnaaag 2160 gcatagaaaa cctatttaac gaaataatag ctgaaaactt cccaagtcta gcaagagatt 2220 tagacatcca gatacaggaa gctcagagat ccccaaatag atacaaccca aaaaggtctt 2280 ctccanggca cattatagtc aaactgtcaa aagtcaaaga caaagagaga attctaaaaa 2340 cagcaagaga aaagcatcta gtcacntata agggaacccc catcagacta acagcggatt 2400 tctcagcaga aaccttacag gccaggagag aatgggatga tatattcaaa gtgctgaaag 2460 aaaaaaaaaa ctgccagcca agaatactat acccagcaaa gttatccttc ataaatgaag 2520 gagaaataaa gtctttccca gacaagcaaa agctgaggga attcatcacc actagaccgg 2580 ccctacaaga aatgcttaag ggagtcctac acctggaagc gaaaggacga tatctaccat 2640 catgaaaaca cacgaaagta taaaactcac tggtagagca aacacacaaa agcagaagaa 2700 agaatctctg aacttgaaga caggtctttt gaaataactc agcagagaar aaaaaagaat 2760 aaaaaaaant gaagaaagcc tatgggactt aggacaccat taaataaawa aatatttgca 2820 ttataggaat tncagaagga aaagagatgg agaaargcac aagaaaacyt atttaayaaa 2880 ataatagctg aaaacttccc aagtcttggg agagatatga acatccagat caggaagctc 2940 aaagatcccc aattagattc aacccaaaaa gatcctctct gaggcacatt ataatcaaac 3000 tgtcaaaagt caaagacaaa gagagaattc taaaagctgc aagagaaaag catcaagtca 3060 catataaggg aatccccatt agactatcag cagatttctc agcagaaact ttgcaggcca 3120 ggagagaatg ggatgatata ttcaaagtgc tgaaagaaaa aaaaaatnaa aaaaaaaaaa 3180 ctgtcagcca agaatactat atccagcaaa gctatccttc agaaatgaag gagaaataaa 3240 gaccttccca gacaagcaaa agctgaggga attcatcacc actagasctg gccttacaag 3300 aaatgcttaa gggagtgcta caactggaaa taaaaggatg ataattacta tcatgaaaac 3360 atgtgaaagt ataaaactca ccagtagagg taaattcata atcaaactca gtaatacccc 3420 agtgctgtaa tggtgctatg taaatctttc acctctaaat cctctagtat gaaggtttaa 3480 agtcaaaatg gtcaaaaaca acaacagcta caattagtgg ctaaggaaca cataatagat 3540 aaagatgtaa attaaggcaa caaaaataca aattgtgggg gggagggaaa aagtctagag 3600 tatttttatg caaccaaagt taagttgtta tcagcttaaa atagtctatt ataactacaa 3660 gactctttat gttagcccca tggtaaccac aaagaaagaa attacagcag atacacaaat 3720 aagaaagaga aaggaaacaa agcttagcat cacagaaaac caccaatgaa ccacagaggt 3780 aaacaacaag agaggaagaa aggaacaaag gatctacaaa acaaccaacc agaaaacaat 3840 taacaaaatg gcaggagtaa gtccttacct atcaataata accttgaatg taaatggatt 3900 aaattctcca attaaaagat atagagtggc tgaatggatn nttaaaaana aaaaaaaaca 3960 agacccaact atatgctgcc tacaagagac tyacctcacc attaaagaca aacatagact 4020 gaaagtgaag ggatggaaaa agatattcca tgcaaatgga aaccaaaagt gagcaggagt 4080 agccatactt atatcagata aaatagactt taagtcaaaa actgtaaaaa gagacaaaga 4140 agnttattat ataatgataa agggatcaat tcaacaagaa gatataacaa t 4191 // ID Tigger14a repbase; DNA; HUM; 329 BP. XX AC . XX DT 21-JUL-2006 (Rel. 11.07, Created) DT 04-FEB-2010 (Rel. 15.03, Last updated, Version 3) XX DE Unclassified mammalian repetitive element - consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW conserved; Tigger14a; MER128; CNE. XX NM MER128. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-329 RA Jurka J.; RT "MER128: Unclassified, moderately repetitive element from RT mammals."; RL Repbase Reports 6(7), 381-381 (2006). XX RN [2] RP 1-329 RA Gentles AJ., Wakefield MJ., Kohany O., Gu W., Batzer MA., RA Pollock DD. and Jurka J.; RT "Evolutionary dynamics of transposable elements in the RT short-tailed opossum Monodelphis domestica."; RL Genome Res 17(7), 992-1004 (2007). XX RN [3] RP 1-329 RA Jurka J., Kapitonov V.V., Kohany O. and Jurka MV.; RT "Repetitive sequences in complex genomes: structure and RT evolution."; RL Annu Rev Genomics Hum Genet 8, 241-259 (2007). XX RN [4] RP 1-329 RA Smit A.; RT "Classified as Mariner and renamed as Tigger14a."; RL Direct Submission to Repbase Update (17-AUG-2007). XX DR [1] (Consensus) XX CC This sequence is present in >1000 copies phg. XX SQ Sequence 329 BP; 109 A; 54 C; 49 G; 115 T; 2 other; cagtaaaagc tcgtttatcc ggcattctat caaccagaac tctctattaa ctagcacttc 60 tgtacatcta tagtayaatg ataattgatg ttcataatga tgaccctgag gcactacaag 120 atcctgaagt gccttctgaa tcatcaaaga aagattaaat tatgttcagt atagttttag 180 tgttaagtgt attttattgt attctaattc tttgaaaatt ggtaatctat gtatggtata 240 tatgataact ctctattaac cagartattt gattaaccag aatacattat tcctgaccat 300 acccaatatg gataacagag agtttactg 329 // ID L1MC1 repbase; DNA; HUM; 1080 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MC1) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M4; L1MC1; L1MC1 subfamily; MER16; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 868-1017 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 1-1080 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [3] RP 1-1080 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 15%. XX SQ Sequence 1080 BP; 395 A; 196 C; 229 G; 259 T; 1 other; ctgttatcca aaatatacaa agaactctta aaactcaaca ataagaaaac aaacaacccg 60 attttaaaat gggcnaaaga ccttaacaga cacctcacca aagaagatat acagatggca 120 aataagcata tgaaaagatg ctccacatca tatgtcatca gggaaatgca aattaaaaca 180 acaatgagat accactacac acctattaga atggccaaaa tccagaacac tgacaacacc 240 aaatgctggc gaggatgtgg agcaacagga actctcattc attgctggtg ggaatgcaaa 300 atggtacagc cactttggaa gacagtttgg cagtttctta caaaactaaa catactctta 360 ccatacgatc cagcaatcac gctccttggt atttacccaa aggagttgaa aacttatgtc 420 cacacaaaaa cctgcacacg gatgtttata gcagctttat tcataattgc caaaacttgg 480 aagcaaccaa gatgtccttc agtaggtgaa tggataaata aactgtggta catccagaca 540 atggaatatt attcagcact aaaaagaaat gagctatcaa gccatgaaaa gacatggagg 600 aaacttaaat gcatattact aagtgaaaga agccaatctg aaaaggctac atactgtatg 660 attccaacta tatgacattc tggaaaaggc aaaactatgg agacagtaaa aagatcagtg 720 gttgccaggg gttggggggg agggagggat gaacaggtgg agcacagagg atttttaggg 780 cagtgaaact actctgtatg atactataat ggtggataca tgtcattata catttgtcca 840 aacccataga atgtacaaca ccaagagtga accctaatgt aaactatgga ctttgggtga 900 taatgatgtg tcaatgtagg ttcatcgatt gtaacaaatg taccactctg gtgggggatg 960 ttgatagtgg gggaggctgt gcatgtgtgg gggcaggggg tatatgggaa atctctgtac 1020 cttccgctca attttgctgt gaacctaaaa ctgctctaaa aaataaagtc tatttaaaaa 1080 // ID MER1B repbase; DNA; HUM; 337 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Nonautonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; KW Interspersed repetitive sequence; MER1b. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [2] RP 1-337 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [2] (Consensus) XX CC Described as MER1a in [1]. CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. XX SQ Sequence 337 BP; 70 A; 100 C; 102 G; 64 T; 1 other; caggggtccc caacccccgg gccgcggacc ggtaccggtc cgtggcctgt taggaacygg 60 gctgcacagc aggaggtgag cggcgggcga gtgagcatta ccgcctgagc tccgcctcct 120 gtcagatcag cggcggcatt agattctcat aggagcgcga accctattgt gaactgcgca 180 tgcgagggat ctaggttgcg cactccttat gagaatctaa tgcctgatga tctgaggtgg 240 aacagtttca tcccgaaacc atccccgccc cccggtccgt ggaaaaattg tcttccacga 300 aaccggtccc tggtgccaaa aaggttgggg accactg 337 // ID PABL_BI repbase; DNA; HUM; 7122 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Primate PABL_BI repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 class; KW Internal sequence of endogenous retrovirus; PABL; PABL_BI. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7122 RA Smit A.F.; RT "PABL_BI."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of an endogenous retrovirus with PABL_B LTRs CC PABL_BI appears autonomous with coding regions for gag/pol/env CC (imperfect in current consensus). Only 70% nucleotide level CC identity CC over bp 2400-4500 to HERVE and HERVR. Bp 1-505 and 6896-7102 are CC 85% and 89% identical to the terminal regions in PABL_AI CC Copies are on average 12% diverged from the consensus sequence. XX SQ Sequence 7122 BP; 1959 A; 1714 C; 1737 G; 1597 T; 115 other; aatttggtga gccagccagg agccgctggg acggtgntgc nttcagcggc cagcggcttg 60 tgacgagaca gtcttcagga gactcccagc agctgctggg tgagattntc cnggggactc 120 tcctgagggc tgtcccttgg acaaaaccac acatccctct cactactggg gaagaacgga 180 ggtcagganc ggacgtgctc aaggggtgag taaaactgna cctaataagg gacttattnt 240 tttcctatct gggcttgtta agccatttgt ccggtaccac cagggagaca atagggctca 300 tttgtacacc cgctttgcgt ttggttaaaa tcaggttttg agttggtttt gnntctgttc 360 tgcctgactg actcctctca tgtccttgtg tttgtccgaa atctgtctcc acttgtttgt 420 gtatctgtct tggcctttct gatacatata agctcgaaaa tgggaagtgc tgagtccgtt 480 cccgccggga gccctctggg aagaatcctg tcggattgga aacagtntgg gtatcctccc 540 atgactaaaa ggaaattagt ttactattgt aatanggttt ggccaatgta cgttttagaa 600 tctgagggga ggtggccgat tttngggacc ctgagctatt cnactatcta tnagttagag 660 ccgttttgtn agtgttcggg aagatgggaa gaaatgccct atgttnaggc atttatgtta 720 ctgcataatn aggatgtcaa agagaaggga gataagctaa tggtgcagca ctcagtcaag 780 gtttgtcctg actcccaggg agagaagata aggactcaga aagccaacaa ttgataaatg 840 tncttaaccc cgtaggaagt atcccaccta gccagtggga gctaatgccc caccaccgag 900 ctgcaggaaa ggggagagtc accaccccca gagtataagg aagcngcaaa gctagtctct 960 ccctctcgga ccagacaagg cactagtttn ggcnggggaa ccaccgaacc tggagcaggg 1020 caatttccac tttgacaata ccctgtaggg gttaatcagc agggggctcc ggcnggatat 1080 tattgggcct acagcccttt tccacatccg acttgttaaa ctggaaaaac tccaacccnt 1140 cctataggga ggacccccag aaaatgactg agctgtttac tactatnttt gctactcatc 1200 gccccacatg ggcagatgtg caagccctcc taaacattat gctcactgca gatgagaggn 1260 ggctagtatt ggataaggca aaggaggagg canaacacct tcatgatgaa aacccagacg 1320 ataccccaga ccctgacggg gcaatnccct atactgaccc naattgggac ccnaatgagg 1380 ctaatgnggg tggaatggcc cacctggagc actacaggag gtgcatctta aagggcatta 1440 agtcaggggt gcccaaacct aaaagcttaa acaaagtgca ggagctccag caaaggccta 1500 atgaggatcc ntccgagttt atggaacata tttgtcagac ntncaggaag tatacagatn 1560 tagacccaca ggaccctgaa aatgtcagga tggtgaacnt gacttttata gggcaaagtg 1620 cccctgacat taggaagaag ctgcagaaag tagaaggggc cgttgggatg aatgcctccc 1680 aactgatcga cattgcattc aaggtttacn acagcaggga ggcnaaggaa actaaagccc 1740 tgtggcaggc agcaatactc ntggcnacag caggaggaaa cccaagaggg aagggacccg 1800 naaagcggaa agggaaaata gaaaaggatc agtgcgcnta ctgctgggaa acggggcatt 1860 ggaaaaagga ttgcccaaag ttaagccaga angaaccnag gccantnatg gcngttaagc 1920 ccgggaatga atctgaggaa gattgagggt gcccaagact cccagcagct ccaactctat 1980 ctgacatcaa aatttcccca caggagcctc ggntaaagtt gacagtgggg aaacaaaaat 2040 tggacttctt agtcgacact ggtgctagtt attcggtagt taatacaccg atnactgaac 2100 tttctgacac ntctgtcaat atagtcggng taagcaggaa actgagatcg gagcagttcc 2160 tgtgtcccct ctcatgtaaa gtgggcaatg atttaataac tcaccaattc ctttatgtgc 2220 cagactgccc gattccttta cttggcagag atctgctatg caagttatag gctcaaatcg 2280 tcttcaaccc cgagaaacgt cagatgtgtc tccaagtgcc tccagaacat ggactgcagc 2340 tgcaagcact tctggcgagc gctgaggccc cacgccctaa ggtagaggcg gtccctcagg 2400 aagtctttga caaggtaaaa ccagaggtct gggcatgaga ccgacccggg agggcaatta 2460 atgtgagtcc ggtaaaaatc aaactgaagg aaggggccca acctatccgg aaaaaaaaat 2520 accccttaaa gagggaagcc ttggaagnca tccagccagt cttagtccag ttcttgcagt 2580 atggcctaat aaggccttgt cagtcttctt acaatactcc tatcttgcct gagtaaagaa 2640 gcctcactca catgagtata gatttgtgca agatctaagg gcaattaatg atattgtgga 2700 agacattcac cccactgtgg ctaacccata caccatgttt acctcactgc ctggggatca 2760 cgaatggttt acagtgctag acttgaagga tgccttcttt tgcataccag tggacgtaga 2820 gagccagcta ttgtttgctt ttgaatggac agaccctgag accgctgcnc agtttcagta 2880 ttgctggact gtgctccctc aagggtttaa gaactcccca antatatttg gagaggcttt 2940 ggctcaagac ttaagaagcc tacaattgga aaatggggtg ttgttgcaat atgtggatga 3000 tttgctaatt tctagcccct ctgagcaaga gtgccaggat aacaccatta aaaccctaaa 3060 ccacctggca gcttgtgggt acaaggtctc aagcaaaaag gcccaagtat gcaaacaaac 3120 tgtggaatac ttagggtttc tcctacagaa aggaaccaga gccctgaccg tggaaaggcg 3180 aaatgcaatt gcctccatcg ccacgcccac caccagaaag cagctgaggg gcttcctagg 3240 tatggcngga ttttgttaga tttggattcc taactatgga ctaatagtaa agccnctata 3300 tnaactgtta aaaggagccg accatgatcc tttcgactgg gaagcaaggc accaacattc 3360 attcgagcaa ctgaagtgta agttatctgt ctcccctgcc ttagggcttc caaatcctca 3420 caagcccttc caactttatg tgcatgagag actgggtcta gcactcgggg tcctaacgca 3480 aaggttaggn gaagtattac agcccgtagc ntacttttca aagcagctcg anactgtggc 3540 caagggctgg cccccttgtc ttagggcagt cgctgccacc tgcctgctgc tcaaggaagc 3600 tgagaagctg accttggggc agcctgtcac aatntatgtg ccctaccaag tgttggtgtt 3660 actggaacaa aagagaggct actggctgac agcaggcnga ttgggcagat atcaggccat 3720 nnttttagat gaccccacag tgaagctgca aaccaccgga accttaaacc ccgctacntt 3780 gctacctccc accggggagc cggaagaacc catgcataac tgtctagagg tcatngacca 3840 agtgttttcc agccacctgg acttgaagga cgcagccctc ccatgcgcag actggacntt 3900 gttcgtagac gggagcagcc tggtcactga taggaagaga aatgctgcnt atgctgtggt 3960 gacctcctca gaggtaacag aggcaagaac tttgccggca gggacctcng cacagaaggc 4020 ggagttaatc gccctcatga gagccttgca actgtcccaa ggtaagagtg ccaacatnca 4080 cactgactcc aagtatgcat tcatgatagt ccatgcacac ggagctatct ggagggaaag 4140 ggggctgctg aaggcggaca acactgaagt taaatacgct aagcaagtgt tagaattgct 4200 agaggcaata aaggccccac gggaaatagc tgtaatgcat tgccctggcc atcaacgcag 4260 caattccgaa gtggcaaggg gcaatgcttt cgcagaccgc accgccaggc acttagccag 4320 tgccagcatt gaatccgggc gcccttaatt ccccaaatag atttaacggc cttcaagccc 4380 cggtacagtc ttcggaagat gagaaagctg cagaagacaa gggattcaaa ctaaacaagg 4440 aagggtggag agtaaacagc gnaggcctag tctgggtacc agtgcatctc gtctacccan 4500 tgttaaagta cattcatgat agcacgnatt ttgggcgaga tgcttcactg gccttcgtac 4560 agaantattc gaaagggaaa ggactaaagg cccacttaga ggatataatc cagcgttgtc 4620 acctgtgtgc cagaaatgag cctaacaatc acagccgagg gcagcctggg caacaaggaa 4680 gagggaggca cccgctagaa aactggcaaa tagactttac ncaaatgcca ccngcccctg 4740 gggggtacaa atacctccta gttctagtgg acaccttctc tggctgggta gaggcatacc 4800 catgtcacac tgaatgagca accgaagtag ttaaagtttt gctaaaggaa atcataccnc 4860 aatatgggct ccctgacgta atccaaagtg ataatgggcc ttcattcacn tctgaaataa 4920 ctcaacaagt aaacaaagcg ctgggaataa aatggaaact acactcagcg tggagacctc 4980 aatcttccgg acaaactgag agaatgaacc acaccttaaa aacaatcatt gccaagctgt 5040 gtcaggaaac tcagttgaag cggattcagg tacttggtat tgcactgctc cgggtaagaa 5100 tagcccccag aagtgggatt aaantaagtc cctatgaaat tgttttcggg agaccctttg 5160 cngctaaccc gtctcgggtn actgaagtgc ccctagacag ggagttagct attaagaatt 5220 atgttgctca cttgggacaa actcttaacn ttttgcataa gtttgcttct aacaggagcg 5280 ctgtgaactc tgtagaagcc cgccacccgt tccagcctgg tgatcaagtg ctgctgaaag 5340 aatggaagga agccggtcct gcccaacaac tacaggagaa atggaaaggg ccctatgatg 5400 tgctgttgac caccggcnca gcactgaaac tggcagacat caagccttgg gtccatcaca 5460 tgtgagtgaa aagattcctg ccagccaaga accccgcggc agaggagtct ccggccanca 5520 gatgggaggc agaaccccta gaagacctga agtttctatt cagaaaacga taagactttc 5580 ttttatcata ttctttcttt ctacgcctnt tattgtttct gcncccacct ctaacctttt 5640 tctacaatgg gcacaggact atgcagacag cctncaacan ggctcctgct gggtctgtgg 5700 cctgttaccc ctttctagca ccacggngtt gccttggtgg gtctcaccta tncaagggaa 5760 agactggatt tatttgcaaa ctttnctggg aaatctaaaa cactggactg ggtcacaaat 5820 gacgggagta actagggcaa atgtntcaga atggcccata aacaaaactt taaatgaccc 5880 agggcatgaa aagccattct cggtnaacaa aacaagggat gangtaatag ctttagctac 5940 tcccttgctg gatncgaagg tgtncgtcca gacttccana ccncaaaatg tccagtataa 6000 aaatggcttt ctccaaattt gggacgggtt catttggcta accgcctcca ccggacactt 6060 aagccaagta gcccccttat gctgggagca atgaaaccac tcccttgacc actggcctaa 6120 tgcaactcga gttatgggat ggattctccc acacggacag ngccgacata ctatagtgct 6180 ncaacaaagg gacttatttg ccacngactg gtctcaacaa cctggccaaa attggtatgc 6240 tcccgacaga accagtggct ctgtggcacc aatttacggc cgtggctncc ctcgggctgg 6300 ttaggacgct gcactctagg tctcccagtn ggcacaggga cgctgggtaa aaaccatnca 6360 aaacccagct aatctnttac atatgnttaa caggcggacc aggtcagtct ttcactggta 6420 tgatcatctg gccgcaatct ttatgccctc agtaggctta ggaactgtca tatggcacat 6480 agaggcncta gctaatttca cgcaacgggc cctgaatgac agcctccaaa gtatttccct 6540 tatgaatgct gaaatgtatc atatgcagaa ggntatcttg caaaaccgaa tggccctaga 6600 cattctaacn gcagcccaag ggggaacctg cgccctcatc aaaactgaat gttgtgtgta 6660 tatncccgat aactctggga acanctccct ggcattaaag gatatgcacc agcagattca 6720 ggcnatctcc agccctgggc tgtcacttaa tgactggatc gcatcacggt ttagtggaag 6780 gccttcctgg tggcagaaaa tcctcgcggt cctggccatc cttgnaggca tgggcataac 6840 gttatgttgt ggaatgtatt gctgtcgcat gttgttccaa aacatccctc gagctcatac 6900 gttatgtttc agcaggcact gcccctaagc ccccgaaacg agagagtact accaggaaca 6960 aatngacctc ttccactcca gtgctaagtt cggcgccccn tgacgacgac ccctctcagc 7020 aggaagtagc cagaaagatt acgacacccc atctccctac aattctcatg ataataaata 7080 tacaagcatg acagaaanca tgcgcaaatt gacagtgggg at 7122 // ID L1MCA_5 repbase; DNA; HUM; 2647 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 5) XX DE Primate L1MCA_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L186; L1MCA_5; KW LINE1 repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F.; RT "L1MCA_5."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-1858 RA Jurka J.; RT "L1MCA_5."; RL Direct Submission to Repbase Update (MAR-2000). XX DR [2] (Consensus) XX CC 5' end of LINE elements with L1MC1-3 subfamily 3' ends, CC comprising the CC 5' UTR and part of ORF1. XX SQ Sequence 2647 BP; 1102 A; 458 C; 512 G; 562 T; 13 other; gaaagaaatg aaggaaccat taaaaaaata taataaagac ttctggtttc cagttcagca 60 tgtaaggagc ttagaagtcg ccactccatc ctaacaacaa gtaaaaagct gaacaaactg 120 aaaaatcaac aactcttctt agatccatca gagaagtgag gtcacagggc aaaccactgc 180 ccccaaaatt ggagagacag acaggtgaat acagagaatc acaacttacc agagcagaaa 240 cccacaagca gaaaccttcc acaggaacca gtgccagggt aggaaaacct gaactgtaat 300 tgatraattg ctggaggctc agtgtggaca agtctgagag tgagttaaaa actccagggg 360 gacccagtca tagggggggc cccccacact tttgtgagtt ttacctccag gagctctacc 420 aggttctcac agtgaatatc agagaaaaat ccccttgtgc ttcyngcagg gggaggggaa 480 aaggaaccat tttgaaatat gccagagcat tctgttcttc ttaacaaggc ctgccctcag 540 gagaaactat tttaccagag cctaacctgc tggggtttta tcagagccta actgacctgg 600 gggaagggaa atacccaact ccagctccct ctagccttcc acatggggga agggaaatac 660 ccaactccag cccactctag ccatcctgtc ccacctaaag ggggagaaaa aaactgagaa 720 gcacttgtga agttcacagt ccagaggcac aggctcacta aaagactgag acctaatcat 780 aggactatag aatgcttccc ctccccccmc caacacacag ccacacacct taccaccaca 840 ttaactaaag gcctatttac agcagttcct tttacccagt acatcatgtc tagctttcaa 900 caaaaaatta caaggcatac taaaaggcaa aaanaaaaac aaaaaaaaac aaaaacacag 960 tttgaagaga cagagcaagc atcagaacca gactcagata tggcagngat gttggaatta 1020 tcagactagg aatttaaaac aactatgatt aatatgctaa gggctctaat ggaaaaagta 1080 gacaacatgc aagaacagat gggtaatgta agcagagaga tggaaattct aagaaagaat 1140 caaaaaaaat gcagagagat ggaaattcta agaatcaaaa agaaatgcta garatcaaaa 1200 acacttgtaa cagaaatgaa gaatgccttt gatgggctca ttagtagact ggacatggct 1260 gaggaaagaa tctctgagct tgaggatatg tcaatagaaa cttccaaaac tgaaaagcaa 1320 agagaaaaaa gactgaaaaa aaaaagaaca gaaatatcca agaactgtgg gacaactaca 1380 aaaggtgtaa catatatnta atgggaatac cagaaggaga agaagaaaga gagaaaggaa 1440 cagaagaaat atttgaagca ataatgactg agaatttccc caaattaatg tcagacacca 1500 aaccacagat ccaggaagct cagagaacac caagcaggat aaataccaaa aaaaaaaaac 1560 aaacaaaaac tacacctagg catatcatat tcaaactaca gaaaaamaaa raaaaaattc 1620 aaagataaag aaaaaaatct tgaaagaagc cagaggaaaa aacaccttac ctatagagga 1680 gcaaagataa gaattacatc tgacttctcc tcagaaacca tgcaagcaag aagagagtgg 1740 agtggagtga aatatttaaa gtgttgagag aaaaaaacna accaacctag aattctgtac 1800 cctgtaaaat tatccttcaa aagtgaagga gaaataaaga ctttctcaga caaaaattaa 1860 aaaaaacccc accaacctag aattctgtac cctgtgaaat tatccttcaa aagtgaagga 1920 gaaataaaga ctttctcaaa caaaaattga gggaatttgt tgccagtaga cctgccttgc 1980 aagaaatgtt aaaagaagtt cttcagagag aaggaaaatg atataggtca gaaacttaga 2040 tctacataaa gaaaggaaga gcattagaga aggaataagt gaaggtaaaa taaaaacttt 2100 tatttttctt attcttaatt gatctaacag ataacagttt gttcaaaata ataatagcaa 2160 caatgtattt aattatgtat gcttatgtat atatgtgtga tatatatata tgcttatata 2220 tgcttatgta taagtgaaat gaatgacagc aatgatacaa gggataggag ggaggaatta 2280 ggattatttt gttattataa ggtacttgca ctacctrtga agtggtatag tgttatttga 2340 aagtggactt ggattagttg taaatgtata ttgcaaactc tagggcaacc actaaaaaaa 2400 gttaaaaaaa aaaaaagaag tataactgat atgctaagaa aggagagaaa atggaatcat 2460 ataaaatgct caattaaaac cacaaaaggc agaaaaagag tggaagacaa aaataggaac 2520 aaagaacaag ggcaacaaat agaaaacagt aacaaatatg gtagatatta atccaactat 2580 atcaataatc actttaaata tcaatggtct aaatanacca attaaaagac agagattgtc 2640 agagtgg 2647 // ID L1MC3 repbase; DNA; HUM; 2487 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MC3) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1MC3; L1MC3 subfamily; MER42A; KW Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1187-2487 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-2487 RA Smit A.F.; RT "L1MC3."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX CC Replaces MER42A. XX SQ Sequence 2487 BP; 938 A; 407 C; 481 G; 600 T; 61 other; cttgtatcca gaatatataa agaactctta aaactcaaca ataaaaaaac aaacaaccca 60 attaaaaaat gggcaaaaga tctgaataga catctcacca aagaagatat acagatggca 120 aataagcaca tgaaaagatg ctcaacatca tatgtcatta gggaaatgca aattaaaaca 180 acaatgagat accactacac acctattaga atggctaaaa tcaaaaacac tgacaacacc 240 aaatgttggc gaggatgtgg agcaacagga actctcattc attgctggtg ggaatgcaaa 300 atggtacagc cactttggaa gacagtttgg cagtttctta yaaarctaaa catacaatta 360 ccatatgatc cagcaatcay actcctaggt atttacccaa gtgaattgaa aacwtatgtc 420 cacacaaaaa cctgcacacg aatgtttata gcagctttat tcataattgc caaaacttgg 480 aaacaaccaa gatgtccttc aataggtgaa tggataaaca aactgtggta catccataca 540 atggaatatt attcagcgat aaaaaggaat gaactactga kacatgaaaa gacatggatg 600 aatctyaaat gcatattgct aagtgaaaga agccagtctg aaaaggctac atactgtacg 660 attccattta tatgacatty tggaaaaggc aaaactatag agacagaaaa cagattagtg 720 gttkccagrg gttgagagat gggaagtggg gatgrytgca aargtaaagc acargggatt 780 ttttagggtg rtaaaactat tctgtataaa ctattctgta tgatactatg gtggtggata 840 cacgacanta tgcatttgtc aaaacccaca gaacttgtca aaacccacag aactttacag 900 cataaagagt gaactttaat gtatgyaaat tttaaaaaat catttargag atcgggggat 960 cycaggatgg aatacagamt gtgacaaaag aatctaactg tattacaaat gtatgaaaca 1020 acctcactga agggratggg ggaaaaaggt gctgacctaa gtaactttgg aaatgagtgg 1080 agtctgtaag actaaaggca aaaggaactg cacataagca ctgtactcta gttrataaag 1140 ttgtttycca yaggggtaya ggttaacaat tctgawacya ctatatacgt atannaraat 1200 taaacaaata agtaaatgta tkgtagatga tgggagccag gtttctcact gtcggagtga 1260 ggagttacag ataagcaaag ggaggagrct agaatgaacc ctgtggtatt rgattagaat 1320 tggaggtatc agtatgaact catgrttttt aatatayryr yryryryryr tttcctagtt 1380 ctgtccgctg agagggccta gaagcaacga caccccagta gcaatgagca cacctagcac 1440 ccagatcttg gtttctaata ccattctcca ataaaaggaa ccagggctcc ttggagaaat 1500 ggctgattct aggactaggg caggaaatat acaagatgag cctggaacat cttgcartgc 1560 cagaaaataa ggaagtgctc aaaaacacaa tgatrggggt atgtcaaagg gacacagrag 1620 ccaactgaaa gagctcccaa tggccaaagc tggaacaatt tgagcaacaa aataaattat 1680 rgtagtattg gattataacy caaagtataa aataaatatc catgagtcca tactgatata 1740 aatgaatgat taaataaata aataaattga gaagataaat aagtctctnn tgcagaagaa 1800 tttcaaataa tttatgtaga tarcctnccc tcaaggaagt ggagcgtaac tccccactcc 1860 ttaagtgtgg gatggatata gtgacttcct tccagaaagc atagtatagg acggaaaaaa 1920 aagtaaattt acwgtagaga aacctgacaa acactacctt agccaggtaa tcaaagttag 1980 catcaacaat tgtaagtcat gttgatagya tatacccttg atatgatgtg ataagaatgg 2040 cacttcacct ccgtggtctt cctcccaaaa acccataacc ccagtctaat catragaaaa 2100 atatcagaca aattccaact gagggacatt ctacaaaata cctgaccagt actcctcaaa 2160 actgtcaagg tcatcaaaaa caaggaaagt ctgagaaact gtcacagcca agaggagcct 2220 aaggagacat gacaactaaa tgtaatgtgg tatcctggat gggatcctgg aacagaaaaa 2280 ggacattagg taaaaactaa ggaaatctga ataaagtatg gactttagtt aataataatg 2340 tatcaatatt ggtttattag ttgtgacaaa tgtaccatan taatgtaaga tgttaayaat 2400 aggggaaact ggatgtgggg tatatgggaa ctctctgtac tatttttgca actttcctgt 2460 aaatctaaaa ctatttcaaa ataaaat 2487 // ID MER58A repbase; DNA; HUM; 224 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE hAT DNA transposon from placental mammals. XX KW hAT; DNA transposon; Transposable Element; CHESHIRE_A; MER58A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-224 RA Smit A.F.; RT "MER58A - hAT DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 22% div. XX SQ Sequence 224 BP; 54 A; 61 C; 54 G; 55 T; 0 other; caggggtcgg caaactacgg cccgcgggcc aaatccggcc cgccgcctgt ttttgtaaat 60 aaagttttat tggaacacag ccacgcccat tcgtttacgt attgtctatg gctgctttcg 120 cgctacaacg gcagagttga gtagttgcga cagagaccgt atggcccgca aagcctaaaa 180 tatttactat ctggcccttt acagaaaaag tttgccgacc cctg 224 // ID MER57F repbase; DNA; HUM; 435 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 22-MAY-2008 (Rel. 13.06, Last updated, Version 2) XX DE Primate MER57F (former MER93B) repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER93; MER57; KW MER93B; MER57F. XX NM MER93B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-435 RA Jurka J.; RT "MER93B."; RL Direct Submission to Repbase Update (30-SEP-2000). XX DR [1] (Consensus) XX CC 3' similar to MER93 (76%). Remotely similar to MER57 CC and possibly to LTR23. XX SQ Sequence 435 BP; 135 A; 99 C; 75 G; 126 T; 0 other; tgttaaagta aattaaaatg gagaccgggc ctgaagaatc cctgagcaga caaagccagt 60 taggcctcgt aagtgacctt aaccttgctt gatttgcaaa cataagcgaa acttaacttg 120 agctatttct tgtaaatgcc tatattaaag aaaaacggaa cttaagctca accaatcaga 180 agcagccaac aaacttataa ttatataact agggactttc caacgggata gaccaaataa 240 ggcaactgta taactgtaac caatcaaata ttttctttgc tttacttccg cgttcgtcct 300 ataaaagcct ccccctcgcg ttccctcggt ggagctcccg aaccgcttct ggtttggagc 360 tgcccgattc atgaatcgct gtttgctcaa ataaactctt taaaatttta ttgtgcctca 420 gtttactttt taaca 435 // ID LTR30 repbase; DNA; HUM; 722 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 02-DEC-1997 (Rel. 2.11, Last updated, Version 1) XX DE LTR from human ERV9-related endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR30; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-722 RA Kapitonov V.V. and Jurka J.; RT "LTR30."; RL Direct Submission to Repbase Update (21-NOV-1997). XX DR [1] (Consensus) XX CC LTR30 sequences are ~93% similar to their consensus sequence; CC there are at least two subfamilies of LTR30 family and putative CC 4 bp target site duplications. CC LTR30 sequences belong to the endogenous retrovirus HERV30 CC related CC to the HERV9 and HERV17. CC An example of HERV30 retrovirus is present in the GenBank CC sequence CC Z98754 (position 84593 - 91371, both LTRs are included). CC LTR30 (position 284-530) is 67% similar to LTR15 (position CC 128-367); CC LTR30 (position 517-642) is 71% similar to LTR12 (position CC 480-603); CC LTR30 (position 337-518) is 61% similar to LTR4 (position CC 252-434); CC LTR30 (position 548-643) is 69% similar to LTR17 (position CC 252-339). XX SQ Sequence 722 BP; 179 A; 190 C; 130 G; 212 T; 11 other; tgagaggagg tkccagctgg gcttcctggg tcgagtaggg gctcagaaag ctgtgaaact 60 cactcatttc ctgcatcagg acttacttcg gtcctggatg aataatattg aagatatatg 120 cttaaaatat tcctaacayc aggatttgtg catgtgtttt cttccccaag aaagctataa 180 acagcaaaaa ttttgctgta agcttccctg tgtccttctc tccctctctc ccttccccct 240 cccctaaaac taaagtaaaa ggaatgttaa aagcccatta ttttctgtga ccagcagacc 300 ttatctatgc tcccaattcc aattccttgt aaacacactt tgtaaartcc tgtragatcc 360 tgtctccttt gccatgccgc tgcaaggtya taaagtagat aaaacytaag ttrcaattcc 420 ggttttcctc aagatctaag acatgtcmca aaataattta ctgyctttgt ttcttgctct 480 ggtaacatct tcccgccgca cgtatttccc gccttaaaga gtttaaaagg cgatcaaaca 540 aatctaacac tggctacccg ctcgggaccc cttccacgct gtggaagctt tgtactgtca 600 ctctgctcaa taaagcctac agcttttttt ctctcttggt ccgatccgtg tctctcwctc 660 gccgcgggcw gccgccacac caaatctttg gcgtggctaa ggcaagaacc tttggcgtta 720 ca 722 // ID MER34A repbase; DNA; HUM; 571 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from placental mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER34A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-571 RA Smit A.F.; RT "MER34A - ERV1 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC rnd-3_family-1251 mer4 group. MER34A and MER34 are the older CC elements in the MER34 family, opposite the usual schema (names CC had been given already) 15%/18% in dog-human reflects CC subfamilies. XX SQ Sequence 571 BP; 152 A; 152 C; 101 G; 164 T; 2 other; tgaaggggat cagaatatgc caccccaaaa tatgccactt tggcataagg attattttga 60 gctgaaggca attgagaaac agcagatgca ggaagagctc tctgccctcc ccctwtctgc 120 ctaaaagcag ggcataaatt tccctttgtg aaggtgccct ccctgtacca ggaagaggag 180 agcgactctt atcaccggag acggagagtc gacaccaaga tgagtctgca taaacaaacc 240 ttactaaaat aacccttatc ttccattagt tcccccatat atttcctagt caccttccca 300 caatttaccg cccctagaag cccaaacccc ttttcctttg tcttgtcact tctccacaat 360 ttatcgccct ttgttaaaat ggtatataag cccccaggtc taaccgcttc tttgggtttt 420 cacttctttt ctgtgaagct cccgtgcacg taaaatatta aataaaattt gtatgccttt 480 tctcctgtta atctgtcttt tgtcagttta attcgcaggc ccccagscac tgaacctaag 540 agggtagagg aaaagttttt cctcccctac a 571 // ID LTR18C repbase; DNA; HUM; 345 BP. XX AC . XX DT 19-AUG-2008 (Rel. 13.08, Created) DT 19-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR18C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-345 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 834-834 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 345 BP; 84 A; 99 C; 87 G; 75 T; 0 other; tgtaaggaac atggctgtgc tgcagccaag caggcatagg gcagcaggca taggccgagg 60 taaacagcct ggatgactca gcgggattgg ggcgcaggcg cacagtccca tgtcttatat 120 aatcatagcc atgtagacat aacatagaga agctcaccac ctggctctca gccactattg 180 tttgtgtagt gtataaatgt aacactgacc ctgtgaagga gctgctgaat aaagccatgt 240 ctcatctacc tgctgtctct cgagtgttct tccagctccc tgccccacgt ccacccactc 300 ccctcggacc tcagctgggg ctggaacccg accctgagca tgaca 345 // ID LTR7C repbase; DNA; HUM; 471 BP. XX AC . XX DT 05-JUN-2008 (Rel. 13.06, Created) DT 01-OCT-2008 (Rel. 13.11, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like element. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; LTR7; LTR7A; LTR7B; LTR7C. XX NM LTR7C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-471 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 661-661 (2008). XX DR [1] (Consensus) XX CC This is a separate subfamily related to other LTR7-type CC subfamilies. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 471 BP; 117 A; 155 C; 82 G; 117 T; 0 other; tgtcaggcct ctgagccgaa gctcagccat tgtaacccct gtgacctgca catatacgtc 60 cagatggcct gcaggagcca agaagtctgg agcagccgaa aaaccacaaa agaagtgaaa 120 cagccagttc ctgccttaac tgattaacca accttacgac attccaccat tatgacttgt 180 tcctgcccta ccctaactga tcaatcgacc ttgtgacatt cttctcctgg acaatgagtc 240 tcatgatctc cccaccatgc accttgtgac cccctcccct gctgacaata gataaccacc 300 tttaactgta actttccact gcctacccaa gtcctataaa gctgcccctc tcctatctcc 360 cttcgctgac tctcttttcg gactcagccc acttgcaccc aagtgaataa acggccttgt 420 tgctcacaca aagcctgttt aggtggtctt ctcatacgga cgcgcgtgac a 471 // ID L1M6_5end repbase; DNA; HUM; 2515 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1M6_5end. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-2515 RA Smit A.F.; RT "L1M6_5end - L1 Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC Pretty old 5' end, including an ORF1 from 1103-1852 (probably CC should start around 800-900) encoding a gag protein 72% similar CC to L1MC4_gag (likely to be much closer due to errors in CC consensus). Over this region (728-2015), best DNA level CC similarity to HAL1B (<75% ) , but L1M6 does continue into an CC ORF2, though it only starts at 2365, indicating an unusually CC long (700 bp) intergenic region or a gag coding region extending CC beyond that of later L1s. 3' UTR association still searched for. XX SQ Sequence 2515 BP; 969 A; 472 C; 541 G; 502 T; 31 other; aacttctggt ttaaaatggc atctggctag cagcccctga tgcagcctct cccaacttcc 60 cactaaaata cctatgaaga cacagaaaaa gatgaaaact cacaacaaca ctgaaaacta 120 agactgacag ncaacctatt gccagaatct gggaggaatt tccactaact acaaggccga 180 tggaactgga ttgagaaaaa ncaatcaggt cagcccatgg ccaccttgct tcatgaaaca 240 gaacgaaccc tgcgcctgaa agaagatagg aagacncttc gtccctcccc cactgtctgt 300 cccctggctc agagacncag ggtctgtacc aaccagaaaa ctgggcagcc gtccctctac 360 tgcatgggtg ctgctttttg aggcagccag agtgctgtcc ccatccctcc cacatctttc 420 tacatccatt cagagactgc aactcccaga aaacaacngg gcaggaagan ggggggggac 480 tggcgtggtg gcacattgca tcctgggagg tgtagtcccc acaagtaaag cgctgtaggt 540 gggggnaaga gacaggaaga gccctggtag cagtgcatgc tggggattgt agtttttcat 600 gtactccatc ggttcagagt gtcagagaac caggcagtgg gggtaggaga agatcccacc 660 tcagtccagc agagccgcac tagatgaang cctgctagac actgggaatt gggctaggag 720 ctgtgcacat caacctgccc tccagctgta gatctgagaa ggggatttaa ccagcaccca 780 agtggacagt gagtagggcc aagggcaatc cacacaccct gtctgttggc aaacaccggg 840 tctggataga tctctcctcg ttcgaggatg agtaaacaga aaaaaaanca acatggggcc 900 tatgaaaaat actgcagaac aagggaaagg gaacatcatc ctgaagactc agaggaagag 960 catacctctg aaaatgattt actacaggaa ccagaagaaa attttagaaa actgtttggc 1020 atcctcaata ggatgcaaga agacatggcc tctatgaaac aggaacagag aaagcgaata 1080 aaataaaaag caatgaggat gaaaaaanac aaatgagatg aaaagagaag atgaaannag 1140 gaaagantgc aaggaaacta aaaatgcaat agcagaatta aaatccacat tggaggcagt 1200 aaagagcaga attgacactg cagaaaatcg aatcagtgat gtggaggaca aacttgagaa 1260 gctctcccag aatgcagagg aaaagganaa agagatgaaa atgagagaga aaatgataga 1320 tatggaggac agagaacgga gatccaacct angaatnata ggtgttcctg aggaagaaac 1380 cagaacaatt ggaacagaag caataatcaa agacataatt gaagaaaact ttcctgagct 1440 gaaaaaagac ctgagtatgc agattgaaag ggctcaccat attccaggca aaatnaatga 1500 aaagagaccc acatctagac acatcctggc aaaatttttg aattacaagg ataaagaaaa 1560 aatcctacaa gcatccaggc agaaaaaaca ggttacctac aaaggaataa aaatcaggct 1620 ggcctcagac ttctctgcaa cactaaatgc cagaagacaa tggagcaacg tctacagagt 1680 tttgagggga aaaggttgtg acccaagaat tttataccca gccaagttgt cnttcatgtg 1740 tgaaggcaac agaaagacat tctcagatat gcaagggctc agaaaatata ccacccatgt 1800 acccttcttg aaaaaattac ttgaagatat actccaaccg actgagagat gaatcaaaat 1860 taagaactca agaatgggga agtcatggta taaaaggctg gcagtgagca ctgaaaccag 1920 ttaaacatag agttaagtct aaataattgt tgnaaatatg gttacaaaac tgaatgcaaa 1980 tgtcaaaaat aattcttgaa tgagaagata tataatataa aanataatnt aataactgga 2040 tctnaaatcc cagattatat taacaaagac caggaagtga gtgggaggaa atnagggaga 2100 aaataaagta tgctaaattc ttcatcttan atagggggga ntcaaaagat accatttcat 2160 tcttgacttt gataattaga gaaatatagg ttaaagaatg cttttgaaaa acttaaangt 2220 aaccactagt agaatttaaa aaacanaatg tatactttcc aaaacactgg agaagataaa 2280 ataaaacaaa atataagcca tatagcaaac aagagaaaac aaatgaaacc acaagaagca 2340 tntaaaaata aaagcanaaa gaaagatgac aaatataaga ccaaacatat cagttataac 2400 aataaatgta aatgggttaa actcccctat taaaagacaa agactctcag attgggttan 2460 aaaacaaaat ccaactatat gctgtttaca agagacatac ttaaataaan gatac 2515 // ID LTR37B repbase; DNA; HUM; 468 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate LTR37B repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR37B; KW Long terminal repeat; MER4-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-468 RA Smit A.F.; RL Direct Submission to Repbase Update (MAR-1998). XX DR [1] (Consensus) XX CC LTR37 is a putative LTR of the MER4 group of retroviral like CC elements CC It is found flanking sequences resembling the MER31 internal CC sequence CC 4 bp duplication sites. Average divergence from consensus 24 %. XX SQ Sequence 468 BP; 142 A; 77 C; 71 G; 173 T; 5 other; tgttaaagaa aaattatccm aaacttggaa ataaggcaaa aagatgacwg catgtccttt 60 caatgtcata ctggagcatt gtctaatagg ctcactcaag gattatttaa ttatctaggg 120 gaatgtacct ntgttgactt tgctatttac tatttgatta gggcccagat actatgaagt 180 tacatgttaa cttgtagatt tctgtccagt agaaaagata accycaaagg ttatagtttt 240 attgccctgt aggatattaa ccagttttgt atctaactta gcaatcttat tccarcattc 300 ttctttactg aatgcctata aatacctagt ttctcaaatg ctctttgaac cagttttacc 360 atcttactgg ttccctcatt aatgagttaa ataaaatctt tgacacgtgt tcattctata 420 tttgtatgag agtcatgttt ttaacttttt gaaaattata ctttgaca 468 // ID LTR10B2 repbase; DNA; HUM; 503 BP. XX AC . XX DT 14-AUG-2008 (Rel. 13.08, Created) DT 14-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR10B2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-503 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 833-833 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 503 BP; 110 A; 142 C; 89 G; 157 T; 5 other; tgttagatac agttaggttt cctcttcaaa cagcttatcc agtttccccg ttctttattc 60 tataattcca agtaccccyt tccccccttt gctgcgcccy aacttgtctr aatatgccta 120 gacatgcctg aacttgctac agccccagtc cacattcctt tccttatttg ggaataggtt 180 agctttctag tcccccgtag gtgaccccct ttctctctct tctctcctcc mttacgcgcc 240 taccttatct aagaaagttt aaatgtttag ccaatcggga ctagtttaga ttgtgcggtc 300 cgaccccagc caatggggga aagacacaga agcagaagct gcrttaggga taataaaaac 360 ccctactctc ctttgttctg tgtgctcttg ccatcgcgac atatgcaagc agcacccttc 420 tgcagaagta aatttgcctt gctgagaaat cctttgtctc agtgctggtt cttctttgcg 480 gcactgagca cttatttcca aca 503 // ID L1PB3 repbase; DNA; HUM; 901 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 3) XX DE 3'-end of L1 repeat (subfamily L1PB3) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P5; L1PB3; L1PB3 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-901 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-901 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 11.5%. XX SQ Sequence 901 BP; 356 A; 175 C; 178 G; 191 T; 1 other; ctaatatcca gaatctacaa ggaactcaaa caaatcagca agaaaaaagc aaataatccc 60 atcaaaaagt gggcaaatga catgaacaga catttctcaa aagaagatat acaaatggcc 120 aacaaacata tgaaaaaatg ctcaacatca ctaatcatca gggaaatgca aattaaaacc 180 acaatgagat accaccttac cccagccaga atggccatta ttaaaaagtc aaaaaacaat 240 agatgttggc gcggatgtgg tgaaaaggga acacttatac actgctggtg ggaatgtaaa 300 ttagtacaac ctctatggaa aacagtatgg agatttctca aagaactaaa agtagatcta 360 ccattcgatc cagcaatccc actactgggt atctacccaa aggaaaagaa gtcattatat 420 caaaaagaca cctgcacgcg tatgtttatc gcagcacaat tcacaattgc aaagatatgg 480 aatcaaccta agtgcccatc aaccgatgag tggataaaga aaatgtggta tatatacacc 540 atggaatact actcagccat aaaaaagaac gaaataatgt cttttgcagc aacttggatg 600 gaactggagg ccattatcct aagtgaagta actcaggaat ggaaaaccaa ataccgcatg 660 ttctcactta taagtgggag ctaagctatg ggtacgcaaa ggcatacaga gtggtataat 720 ggacattgga gactcagaag nggggagggt gggagggggg tgagggatga aaaactacct 780 attgggtaca atgtacacta ctcgggtgat gggtgcacta aaatcccaga cttcaccact 840 atacaattca tccatgtaac caaaaaccac ttgtacccct aaagctattg aaataaaaaa 900 a 901 // ID Kanga1 repbase; DNA; HUM; 1745 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 17-JUL-2008 (Rel. 13.07, Last updated, Version 2) XX DE Mariner DNA transposon from placental mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; HSTC2; KW Kanga1; TC2; mariner. XX NM Kanga1. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1745 RA Smit A.F.; RT "Kanga1 - Mariner DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX RN [2] RP 1-1745 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [1] (Consensus) XX CC (MER104) 25%. CC [2] Over 25% subst (26% in borEut13; 23% outside CpGs). The 72 CC CpG pairs is exactly the expected number given the number of G CC and Cs, so Kanga1 evolved in hosts that did not have VpG CC methylation. ORF from 240-1511 encodes a transposase closest CC (35% id; 58% sim) to the Fugu Tc2_FR5 protein. XX SQ Sequence 1745 BP; 552 A; 328 C; 386 G; 476 T; 3 other; ccatatttca tcgattctaa gacgcacatt tttttttcac attttaacat ctctgaaatc 60 gggatgcatc ttacaatcaa tggcgtctta caatcgctgt cggccaggcg gcagtcgcga 120 cgtagttgtc attgcctgtg catgcgcgaa cttggtcata gctgttcata ttgtcgtcac 180 ttcaattgag ttatgtgcat tgttggtact acacgtgttg agtttaattg ccgtttaaaa 240 tgtcttcaaa aagattacac tatgattcgg cattgaaacg aaaagttatt gtgtacgcag 300 aaaggcacgg aaacagagca gcggggcgta aatttgatat tagtgaagca aatattcgtc 360 gttggaggaa tgaccgcaat tccatatttt cttgcaaagc aacaaccaag tgctttacgg 420 gacctaagaa aggaagatac ccacaagtag atgaagctgt gttacgtttt gttactgaga 480 tacgtgcaaa aggattgcct atcacacgcc aagcaatgca actgaaggca ggagaaattg 540 ccaaatccct cggaatagat gaaagaaatt tcaaagcaac gagaggctgg tgtgaccgat 600 tcatgcgtcg cgcaggacta tcgttaaggc gtcgaacatc aatttgtcag aaacttcctg 660 ctgactttga acagaagctg cttaacttcc agcgacatgt gattcaattg aggaaaaaac 720 gaaactatga gtttagtcaa ataggaaatg ctgataaaac cccggtgttc ttcgacatgc 780 ctcaaaatta tactgtcaat gctaaaggtg ctaaagagat caagatcatg agcacgggtt 840 acgaaaagca gcacgtcact gtgatgctat gcataactgc cgatggccaa aagttgccgc 900 catatttaat tttaaaccgc aaaataatnt ctaagaatga aatcttcccc aaagatgtta 960 ttgtgcgtgc canaaaaatg gagatatgga tgacggctga gctgatggag gactggctaa 1020 aagtcgtctg gaatagacgt ccaggagccc tacgtaaccc accaagtatg ttagttcttg 1080 atgcatttcg tggacatgta tctgaacagt taaagaataa gctcgccgaa aagtgnagcg 1140 acttggttgt tattcctggt ggcatgactg gacaactgca acccctcgac atttcagtca 1200 acaaaccatt taaggaccat ttgaggaagg aatatgagtc ctggttgttg tctgaaaacc 1260 ttccgttgac accttctggt aagatcaaga aagcgccagc atcaaaactt gcagaatggg 1320 tgtcagcggc ttggaagaaa atcccggaga caatagtgga gcactctttt aagaaatgct 1380 gcatcaccaa cgctcttgat ggcacagagg acaatattgt gtggaaaaac acggacatcg 1440 acgactctga gtcgaaaagt gattcagaag agtcggactc tgaatgtgaa gaagttttag 1500 gaatacctta accaatttat ttcgcttata ttttcctttt tatgtatgca caagagtgat 1560 atatgataaa aatctatgtc taaataagtc taaaagagct ctttcaataa gtataaaata 1620 aaaattctaa gtgataagaa agcattgtgt catagtttaa ttggcagcgt tttttctttc 1680 ttagtggtac ataaaataat ggtgcatctt acaatcgatg gcatcttaga ttcgatgaaa 1740 tacgg 1745 // ID Charlie17a repbase; DNA; HUM; 219 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 19-MAY-2008 (Rel. 13.06, Last updated, Version 2) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; Charlie17a. XX NM Charlie17a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-219 RA Smit A.F.; RT "Charlie17a - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC rnd-2_family-343 Pos 1-30 match 3' termini of Charlie3a_Xt and CC Chaplin6_FR. XX SQ Sequence 219 BP; 38 A; 64 C; 70 G; 47 T; 0 other; cagagcttcc caactggtgt gccgcgaatg ggttacaggt gtgccgagat attgatcccc 60 tcagccctcg gggcggccgg gcggggcctg gggcagccgg agcccctggg ccggtcacct 120 cctcggccgt gagcagcctc gtccgtttac cccagtgtgc cgtacaaata ttatcatttt 180 ctatgtgtgc catgacgtga aaaaggttgg gaagcactg 219 // ID LTR33A repbase; DNA; HUM; 523 BP. XX AC . XX DT 17-FEB-1999 (Rel. 4.01, Created) DT 17-FEB-1999 (Rel. 4.01, Last updated, Version 1) XX DE LTR from endogenous retrovirus-like sequence (HERVL33). XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR33; LTR33A; KW Long terminal repeat; MER55. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-523 RA Jurka J.; RT "LTR33A."; RL Direct Submission to Repbase Update (FEB-1999). XX DR [1] (Consensus) XX CC LTR33A is 73% similar to LTR33. XX SQ Sequence 523 BP; 81 A; 160 C; 114 G; 160 T; 8 other; tgcctatttg ctctcagatc catccctgcc cttytcctgc tctgctctnt atcacaggaa 60 ctgcatttcc caggctcctt tgccacctgg cttctaggta ggtttggcca atnggaggca 120 ctggcngnag gagattagag ggcaggagga agggagaagc cagggtattt ctccccctcc 180 ctctctgcct tgggcagtan tctctctagc agcagttgca tgcatctcct ctgtggttcc 240 agctcctacc agacagcccc nccctctgtg gttccagctt ctaccaggtg gccctggctc 300 ctgggctctg gtaattccac ctcctccctc cctttgtccc tccagcccta ggggtggtag 360 tagcttcttg ctgttgctaa tctctgggtt gcctcaccat tgnttccctg tttggcttct 420 cagctctttc atcacctgtg taaccaattc cctgtattaa attccctctg tttgaaatac 480 ctagagtggt ttctgttttc ctgattggac cctgactgat aca 523 // ID LTR60 repbase; DNA; HUM; 586 BP. XX AC . XX DT 02-SEP-1998 (Rel. 3.08, Created) DT 02-SEP-1998 (Rel. 3.08, Last updated, Version 1) XX DE LTR from human endogenous retroviral-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR60; KW Long terminal repeat; MER50; TAR1; subtelomeric DNA. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-586 RA Jurka J.; RT "LTR60."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC 5' similar to MER50 and 3' similar to TAR1. CC Possible involvement in evolution of telomere-associated repeats. XX SQ Sequence 586 BP; 196 A; 123 C; 148 G; 104 T; 15 other; tgttagagta ggcagatagc cagacatgag caggagngga agcccctgrg aaaaggaagg 60 tctggaaaat ctcacacccs agagaccacc caaaanatac ataytagata tgagcagaga 120 ngaggggaaa tacctatgca gaaaaaaatg ccccttaaga tgcccagtaa tcattcactc 180 tgcagttaaa ctgtcagaat gttgctagct acatgctgat aagggaagag ggcaaaggag 240 aaattcctaa gagataygca ggtgcagtaa gtacagattt gaccactata caaccttcct 300 ggggtggcag taatgagcaa tgcmgccatt aggtagratt catatccaac accgggtccg 360 tgcatgcgca tcaaccaaca gtaagggagg vtcccacaag cctgggtagg aactaggtgg 420 ggaaargcag ggacttaagg cagaagcagg aaaactagas aaagaaaaag gtggagactt 480 aagacagagg tgggaacttc aaraaaaatc ygacatcata aaaaccccgt gcagactctc 540 agggctgctg ctggctcact ctctttcagc agcccrctct gcctca 586 // ID L1PB2 repbase; DNA; HUM; 898 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PB2) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P5; L1PB2; L1PB2 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-898 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-898 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 9.5%. XX SQ Sequence 898 BP; 365 A; 165 C; 180 G; 188 T; 0 other; ctaatatcca gaatctataa ggaactcaaa caaatcagca agaaaaaaac aaacaatccc 60 atcaaaaagt gggcaaagga catgaataga caattctcaa aagaagatat acaaacggcc 120 aacaaacata tgaaaaaatg ctcaacatca ctaattatca gggaaatgca aattaaaacc 180 acaatgagat gccaccttac tcctgcaaga atggccataa ttaaaaaatc aaaaaacaat 240 agatgttggc gtggatgtgg tgaaaaggga acacttttac actgctggtg ggaatgtaaa 300 ctagtacaac cactatggaa aacagtatgg agattcctta aagaactaaa agtagaacta 360 ccatttgatc cagcaatccc actactgggt atctacccaa aggaaaagaa gtcattatat 420 gaaaaagaca catgcacacg catgtttata gcagcacaat tcgcaattgc aaagatatgg 480 aaccaaccta agtgcccatc aaccaacgag tggataaaga aaatgtggta tatatacacc 540 atggaatact actcagccat aaaaaggaat gaaataatgt cttttgcagc aacttggatg 600 gagctggagg ccattattct aagtgaagta actcaggaat ggaaaaccaa atatcgtatg 660 ttctcactta taagtgggag ctaagctatg aggacgcaaa ggcataagaa tgatataatg 720 gactttgggg actcaggggg aagggtggga ggggggtgag ggataaaaga ctacatattg 780 ggtacagtgt acactgctcg ggtgatgggt gcaccaaaat ctcagaaatc accactaaag 840 aacttatcca tgtaaccaaa aaccacctgt acccccaaaa actattgaaa taaaaaaa 898 // ID LSAU repbase; DNA; HUM; 2759 BP. XX AC . XX DT 27-DEC-2010 (Rel. 16.03, Created) DT 27-DEC-2010 (Rel. 16.03, Last updated, Version 1) XX DE Beta satellite core sequence in Homo sapiens. XX KW Satellite; Simple Repeat; Beta satellite; Complex repeat; Human; KW BetaSatCore_Hsap; LSAU1; LSAU. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-2759 RA Winokur T.S., Bengtsson U., Feddersen J., Mathews D.K., RA Weiffenbach B., Bailey H., Markovich P.R., Murray C.J. et al.; RT "The DNA rearrangement associated with facioscapulohumeral RT muscular dystrophy involves a heterochromatin-associated RT repetitive element, implications for a role of chromatin RT structure in the pathogenesis of the disease."; RL Chromosome Res 2(3), 225-234 (1994). XX RN [2] RP 1-2759 RA Meneveri R., Agresti A., Marozzi A., Saccone S., Rocchi M., RA Archidiacono N., Corneo G., Della Valle G. et al.; RT "Molecular organization and chromosomal location of human GC-rich RT heterochromatic blocks."; RL Gene 123(2), 227-234 (1993). XX RN [3] RP 1-2759 RA Ennesser R.E. and Doering J.L.; RT "Organization of human beta satellite."; RL Repbase Reports 11(3), 1123-1123 (2011). XX DR [3] (Consensus) XX CC Consensus sequence from 34 copies of a 2.76 kb repeat sequence CC found interspersed at approximately 5-10 kb intervals in beta CC satellite arrays on all human acrocentric p arms, as well as CC other heterochromatic regions of the genome. Individual CC sequences >80% identical to consensus. XX SQ Sequence 2759 BP; 405 A; 876 C; 1047 G; 404 T; 27 other; ggtgttggga gagcctcagc cggaatttca cggacggaca agggcacaga gaggccagcg 60 ggctcccttg cacgtcagcc ggggtgcgca atgagcgcag gtctagccag gaggccggca 120 aagagagcta gaggtctgcg ttccrccgcc aggcgctcca tggtggcagc tgggaggctg 180 caggggcacg ggcgggccgg cgacggtggc gcggaggcgc agaggaggcg agccgcygga 240 ggggtgtcag gcctggacgc tgcgcgggcc cggtgtttcr cgggaygggg gtctccaccc 300 agcccagggg aggaygcatt ttccgggggt ggggggtggg ggtggggagg ggstggtcag 360 gcgggggtgg ggtggtggaa aggcatgaga gctctgcccg ggctgctccc acagcccagg 420 cggctgcccg caaacccgcr cgtgcrcagt aggcggccca cctgctggta cctgggccgg 480 ctctgggatc cccgggatgc ccaggaaaga atggcagttc tccrctgtgt ggagyctctc 540 accgggccta gacctagaag gcaggaatcc caggccggtc agcccggtgg agggggcggg 600 ggaagacacg cccctccata gccagccagg tgttccccgc gaaagagagg ccaccgccct 660 gccccgaccc gaccccgtcc caaccccgcg tcctaaagct cctccagcag agcccggtat 720 tcttcctcgc tgaggggtgc ttccagcgag gcggcctctt ccaaggcctc cagctccccc 780 ggggcctccg tttctaggaa aggttgygcc tgctgcagaa actccgggct cgccaggagc 840 tcatccagca gcaggccgga ggggagtgca gacgagcgcc ccggctcctg gagcgcctgg 900 gagggcgccg ggatgccttg catctgcccc tgccrcgygg aggcctccgg gggcgcgggc 960 tggcgaggtg gagctgcccc ggcttggggt tcccaygccg ccccggcgac ctggggaccc 1020 cggccccagc cccaccacgg actcccctgg gacgcgggtg gcgcaagcac accttggccc 1080 tgtggccccg cttgagcggg cccaggctgt cccaccgygc aagggcccgg caggccgtcg 1140 cgctgcgggt cccggtcctc ccggcttttg cccgggtgcg gaggccaccg aggagcctga 1200 gggtgggaga gcgccccttc cggaggagcc ggggyggcgt aggcaaaatc cccgcrtgcc 1260 ggggcaggtt gggagatccc ctctgccggc gcggcctggc tgggctggag cacggggacg 1320 gccctcgctc cctggctcac gaaagccccc tgtgggagag ccccaggcgc gcagggcacg 1380 tggggtgcgg gaagccccgt tccccacgcg ccggtgtggg cgaaggcgac ccacgaggga 1440 gcagggtgac acccgccggg ggccgcgttg cacaggccgc ctgcctgygc gggcgccctg 1500 ccagcctgtc ccgggtgcct ggcccttcga ttctgaaacc agatctgaat cctggactcy 1560 gggaggcccg tctctctggc cagctcttcc ctggcggcga tgcctggaaa gcgatccttc 1620 tcaaaggctc ggaggagcag ggcggtctgg gatccggtga cggcggtccg ctttcgcctg 1680 ccttcttgcg ggccgcgtct ccygggccag ggccgagatt cccgccggtg ctgcctcagc 1740 tggcgtgacc tctcattctg aaaccaaatc tggaccctgg gctccggaat gccgatggcc 1800 tgggccagcc rttctctggt ggcgatgccc gggtacgggt tccgctcaaa gcaggctcgc 1860 agggcctcgc tttggctcgg ggtccaaacg agtctccttc gccgtccccg tccccgggct 1920 tccgcgggga gggtgcygtc cgaaggtgtc gggagggcca tcgcggggag ccccggccgg 1980 aatttcacgg acggacaygg gcagagagag gccggcgggc tcccgtgcac ctcagccggc 2040 ctgtgcactg cggcaggtgc agccaggagg cctgcccgga cagccagcca gcggctctta 2100 taaaggcccr caggcaggca ggctccaccc cttcatgaat ggcggtgagc cctgggacag 2160 cccgccccac cccggaaggg tcccagggcg tcgaggcctg cggccggggg gtggtggggt 2220 ggggggggag ggcgtggtga tggyggtggt ggggccrgag asacgaagag gaagggggcg 2280 agggggaagg ggtgaggggg gcgcgtttcg ggggctggct ctccggacct ctccaggaat 2340 cccgcgggaa ctggaagccg ctctctgggc tcccacgcgt cttcagcagg gagaaaccgg 2400 cctgggaggg tggaggggag tgtggaactg aacctccgtg ggagtcttga gtgttccagg 2460 ccctctctcc gtgaaggagg cagtgcctgt gggtgtcgcc gttgccggga cagtctcaca 2520 cacgcaggcg tgtggctctc gttcatttcc acgtaggaga ccagagcgag accccagaga 2580 gaagatgcct ccccggcgtg atggcctgac gatggattcc cgtgtgcggc aacatgggga 2640 gtctgcagtg tggccggttt ggaaactggc aaggagagcg aaggcaccat gccggtcttc 2700 cacccttccc tgcatgtttc cgggtgcccg cagagctccg ggagcaaaca gtcagcatg 2759 // ID LTR84a repbase; DNA; HUM; 757 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR84a_LTR; LTR84a. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-757 RA Smit A.F.; RT "LTR84a - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC Classification only on 5 bp TSDs. Orientation based on AATAAA at CC pos 618-623 which is conserved in the related but otherwise <60% CC similar LTR83 consensus. LTR84b consensus is 90% identical. 31% CC subst in dog-human; rnd-3_family-1285. XX SQ Sequence 757 BP; 195 A; 175 C; 187 G; 199 T; 1 other; tgttatggga gatccttggg aaaatcccca aatggggcct gagacccctg gcactgccat 60 gtaatgattt ttccttctca tgggaacaga tgggactaat agattatgac cattgttctt 120 aagcaaggta tgccaaggtc gctgtgccct ttcctgaaag ataggctgca tatctgcact 180 gagggagaat gaataacatc tgcaaatccc ctgcttaaag cccctttgtt tagaaatcct 240 gcttgcttgc ctttttgata tgtatgtctc cataaataga ttagggagaa acttgtccct 300 ttgtatccca aataaggcaa aaggaagttg taattggatt tcaccatggg cccacaattt 360 ctgccccggg gaaagtaata aaaagggtca gaacaccccc tccctttgct ggaacggtcg 420 cctggtattc cctgcagagg ctcagctgta ggctgtaggc aaaacccctc tgtcgtctgc 480 ccccaatcac tgagtgagca angccagctc tggggcccag gaccgttcgg atgattgaag 540 attcccacct tcaggcagag ggctggaagc agtgcgggta atatctagat attgtttggg 600 cattgcattt gatagggaat aaagggcatg tgaaaccctt tgaccggtct ctgtctcttg 660 gtgtcctgaa atttccatct cattgtgatt aaaagaatca aagtacggtc tggcccagag 720 aggggaggca tccccaagtt tggcagaccc tagaaca 757 // ID LTR22A repbase; DNA; HUM; 454 BP. XX AC . XX DT 17-JUL-1998 (Rel. 3.06, Created) DT 28-AUG-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus HERVK22 - a DE consensus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR; HERVK22I; KW LTR22; HERVK22 endogenous retrovirus; LTR22A. XX NM LTR22A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-454 RA Kapitonov V.V. and Jurka J.; RT "LTR22A."; RL Direct Submission to Repbase Update (30-JUN-1998). XX DR [1] (Consensus) XX CC Putative LTR of HERVK22-related endogenous retrovirus. CC Solo LTRs are flanked by 6 bp long target site duplications. CC LTR22A individual sequences are about 93% identical to the CC consensus which is only 64% identical to the LTR22 consensus CC sequence. The estimated number of LTR22A copies per human CC genome is about several hundreds. XX SQ Sequence 454 BP; 110 A; 102 C; 136 G; 105 T; 1 other; tgtgggggat cggtcagagt ggtgggaaaa actataggga aaggacgcaa accttctgaa 60 aggtcggaag gttctgcaga gccccggggg agaatagctg aaggcagctg ttctataacc 120 ctgaggcaga gggcaaggag taggtacaag ggagtgtggg ggaatttatc ttaaacaggc 180 ttgtttactt acgttgacca ggaactgacc tttgatcatc cgcgcgcgtg acgttccctg 240 aaaggggaac aataaatgtt aattacctac aggttgtgtt ggctccaggt tttyggcatt 300 gtgcctgcac tgaataaaag caagcagctc cagcttctcg gggctgctct ctggccacta 360 gagccaggca gtcacctagc tgctcttaca ctgcatacct gtgtctgagt actcatttca 420 tccgtcggcc agggtctgcg ggacagaccc ggca 454 // ID LTR1A2 repbase; DNA; HUM; 837 BP. XX AC . XX DT 18-FEB-2009 (Rel. 14.06, Created) DT 18-JUN-2009 (Rel. 14.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR1A2. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-837 RA Smit A.F.; RT "LTR1A2 - ERV1 Endogenous Retrovirus from primates."; RL Repbase Reports 9(6), 1171-1171 (2009). XX DR [1] (Consensus) XX CC 9.5% subst outside CpGs. Ca. 90 copies. XX SQ Sequence 837 BP; 196 A; 264 C; 247 G; 130 T; 0 other; tgatacggaa gtgctgggaa gggaagggcg tggtcccttt aaatgatacg gaagggggga 60 agggaagtgc tgggtagagg agggcgtggt ccctggctag ggctccaccc ccggcctgtg 120 cccacggacc taggtgagga caggcacttc tgccttcctg cccaaatgtt gcatttccca 180 agaccaccct ggcccgccac gcccccatcc tgtgcctata aaaaccccga gaccctagca 240 ggcagacaca caagcggctg gacgtcgaga ggagcacatc ggcggaagaa cacacaagcg 300 gctggacgtc gagaggagca cgccgacagg caccggcacg ccggcaggcc accgaccggc 360 ggaacgacgc ggagtttggc cggggcagtc ggaggagagc cgggccgccg agcggcccga 420 ctccagggga aaaccatctc ccttctggct cccccatctg ctgagagcta cttccactca 480 ataaaacctt gcactcattc tccaagccca cgtgtgatcc gattcttccg gtacaccaag 540 gcaagaaccc gggatacaga aagccctctg tccttgcgac aaggcagagg gtctaattga 600 gctggttaac acaagccgcc tatagacggc taaactaaaa gagcaccctg taacacacgc 660 ccactggggc ttcaggagct gtaaacattc acccctagac actgccgtgg ggtcggagcc 720 ccacagcctg cccgtctgta tgctccccta gaggtttgag cagcggggca ctgaagaagc 780 gagccacacc cccatcgcac gccctgcgag ggggacaagg gaacttttcc cgtttca 837 // ID Tigger13a repbase; DNA; HUM; 771 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Mariner DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; mariner; KW Tigger13a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-771 RA Smit A.F.; RT "Tigger13a - Mariner DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 23bp TIRs; 26% subst in dog-human; The partial ORF (pos 279-629) CC encodes a peptide 33% identical (55% similar) to the N-terminus CC of the Tigger4 transposase. XX SQ Sequence 771 BP; 237 A; 156 C; 157 G; 220 T; 1 other; cagtagaagc tctcttaacc gacctccact taaccgactc accagattaa ccgatgctct 60 ccattccctc tgtaaaacat actgactgat gcccacggca cgctgaatgc tcgcggctag 120 taggctactc tctagtacgc ccgcgcactt ctgctcccac cagttgagtt gtatgcttac 180 caagagtcag ttgtgtttgt tcccaaacct gtttatgcca gttgtacttg ttattgtaat 240 tacgtaattt aattaaatat tacgtaaacc gatgaaatat gagtgcgaaa agaaagagag 300 ttgttgtttc tatgaaaact aagttgaatg ctttggaaag actcgataaa ggtgagtcgc 360 taaaaaaaat tgctgtcaaa ttaggtgtgg gcgagacaac tgtaaaagat tggggggaaa 420 aaaatcataa aaatctagaa ggattctgca ctcagattgc ttcgcaagtg tctttaagtt 480 ctcgctccac tttaaagaaa ccgaaactgg aaatcataga tgatgcatta tgggtgtggt 540 ttatgcaaga aagacgatgc ggaactccaa tcagcggacc catactcaaa gaaaaggcct 600 tggccctaca tcaaaagatt ggcgaatgaa tgtacattta tatgttttaa gttaaaataa 660 aatgtttaag gtatgtatgt atcatttttt atgattcccc gctttaaccg actttttnat 720 taaccaacca actaccggtc ccgatcgcgt cggataagag ggcttctact g 771 // ID HAL1B repbase; DNA; HUM; 1348 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate HAL1B repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; HAL1B; KW L1 family; LINE. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1348 RA Smit A.F.; RT "HAL1B."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [1] (Consensus) XX CC Preliminary consensus 3' half for HAL1 subfamily HAL1B. The CC 'ORF1-like' CC coding region ends somewhere around bp 660. Pos 1115 to 1348 CC (end) are CC 70-80% similar to the 3' terminus of the ancient L1ME4A LINE1 CC subfamily. XX SQ Sequence 1348 BP; 515 A; 191 C; 239 G; 374 T; 29 other; aataaaaaan ttagcagaaa cannagaaga tatggctgan aaaatcanag ncagaagatg 60 aaatcaaaaa ggagataaag acgaaancaa agcaattaga gagaagntaa tagatatgga 120 agacagacaa agnngatcca acataaggat aattgatgtc cctgaagtag agaanncaan 180 aaacaggana aagagaaaat ttttaataga tataacanag aaattttcct gaaatgaaga 240 aaaatnaatc tgcagatcga aagaacacac catgttccag gaaaattgat acagaatgnt 300 caacactaag acatatccta gttaagttat tgaacttcaa ggataaagaa agaattcttc 360 aggcatccag gcagaaaaac aagtcaccta caagggagaa aaatcaggct ggcctcagac 420 ttctccacag caacattcaa tgccagaaga caatggagca atgtctacaa agttctgagg 480 gaaagaaagt gtgacccaag aatattatac ccagccaagn tgtcgttcaa gtataaaggc 540 aacaggcaga cattctcaaa catgaaagaa ctcagggaat acagcaccca tgagcccttc 600 ttgaaaaaac tacttgataa tgaaatccag ccaactaaga gatgaatcaa aataaagaac 660 tcaggaatgg agaagccgtg gtaaaaggac tggtggtgag cattgaatcc atttaaatat 720 agaactaaga ctaaacaact gtgggaatta tggttacaga acagaatgta aatgttataa 780 accttgacaa tgtaaaaata atataactaa caaaaattgg gaggtgggag aggagaggtg 840 gaaggaagta tgagagtgct aatntcctca tctttcatag cagggagtca atnnatactg 900 tctaaaattg aaacatgtag tttaaaaata taatactcca acctcttaat gtttttcata 960 atcttttttc ttaaccttag agggatcttt taggaantaa tatctcttgt ggtgaagaaa 1020 catttatctg aagttcaaca attccttcag tttcacttta gtttcttttt cttctgttaa 1080 attcaagtaa aattaaattt aatactttta ttttaaaata gcatctgtan tatgatccna 1140 tttttataaa attatntttn tcattctact atccatncta tcttcctatc tgtatatatg 1200 catagaaaga tgtctggaat aatgttcacc naatgttaac gatggttatt tctgggtggt 1260 gggatttggg gtgatttgtt actttcttct ttgtattttt ntgtattgct tgaatttttt 1320 ataatgagca tatattattt taaaaaaa 1348 // ID MER74A repbase; DNA; HUM; 558 BP. XX AC . XX DT 09-OCT-1997 (Rel. 2.09, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE MER74 repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL-74 group; KW Long terminal repeat; MER74A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-558 RA Lee I., Westaway D., Smit A.F., Cooper C., Yao H., Prusiner B.S. RA and Hood L.; RT "Complete Structure and Organization of Three Mammalian Prion RT Chromosomal Regions."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC LTR of class III (HERVL) endogenous retrovirus HERVL74. CC Average divergence from consensus 20.5%. 5 bp target site dups. CC Belongs to a group also including MER73, MER88, MER54 and LTR53. XX SQ Sequence 558 BP; 122 A; 191 C; 103 G; 141 T; 1 other; tgtattaacc atgtttttta ttttctgtat tcttgatgct ttgacatctg gggccttgct 60 gaccctggag ggactgcccc tcccagggct agccaattcc tagagatagc aaacgactcg 120 cctgggagcg cgcctttcat atgcaaacca accaatccag agcccacacc cccaaccacc 180 tcctttatcg ggctctcaca ctctgggcca ctatccccct gccctaatca ccccagggcc 240 aggtaccaga caactaggga cagcccctat accccagagc ccgctgaaat tattcaaact 300 agccaatcct aagcctgctt accctgcctt gcccattcct tcccatggaa accacaataa 360 aggctcttgc ccacgttttc ccgtcgctcc ctctgcctcc tgaccgaccc tggtgcttcc 420 ccgtgtggcc ccccgtggcg tggcgtgccc ccttctcttg ggawctgtga gtaacaaact 480 atcttttcaa tggcagtcgt ctcctgatct gttggcctta ccatacctga ataataataa 540 aacctacatt ttaaaaca 558 // ID MER110A repbase; DNA; HUM; 468 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Putative long terminal repeat from endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER110; KW MER110A; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-468 RA Jurka J.; RT "MER110A."; RL Direct Submission to Repbase Update (FEB-1999). XX DR [1] (Consensus) XX CC 3' similar to MER110 at positions 196-458. XX SQ Sequence 468 BP; 148 A; 135 C; 52 G; 132 T; 1 other; tgagaactga aaccatctac cacccacaca gcttactgac tgtctacatt aacatgactt 60 tactattcca ctgtcttcat caacataact ttactattcc aggaaactct tgcccaggaa 120 gataaaagtt gcaaataact ttattgttca tttcaggaac ttcctaaaaa acccatcaac 180 tcttcaatag aaagcatcaa acgacagttt atccccaaga ctctttgaaa cccttgcctc 240 aaaaccctca ccttgctgtg tctgtgtcca ccaatcctaa actattatat catgatcctt 300 acccaatcct aatcaagccc ctacattgaa agacctgcct taaatcagac tccaaaatct 360 caataaatat cctgactttg ccctccctcc tctgagacac tactaagact ctgtaaggtg 420 gtgctcyccc ttaccacagt aagcaataaa ctcagctttg tcttatca 468 // ID LTR62 repbase; DNA; HUM; 719 BP. XX AC . XX DT 08-FEB-1999 (Rel. 4.01, Created) DT 08-FEB-1999 (Rel. 4.01, Last updated, Version 1) XX DE Putative LTR from human endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR62; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-719 RA Jurka J.; RT "LTR62."; RL Direct Submission to Repbase Update (JAN-1999). XX DR [1] (Consensus) XX CC 85% identity to consensus; 200-500 copies per genome. XX SQ Sequence 719 BP; 198 A; 170 C; 141 G; 205 T; 5 other; tgtatagagc acccttgaca taagtaactc catcttagaa aaagactcca tcttacattt 60 caaaaggcat cttgccaaca gggaccagat gttttgccta atcaataaag actgcaycca 120 accagataag gacataaaca agcacactct tccactatca gtcctcacca gaggactctg 180 tggccataaa aagagcagga cttcaccagc tcaaaatggc catcttaaca gacaccgtct 240 tgctgtcact tgtgataagc acccagcatc tgccaccaaa ggctctgccc acatcaaaga 300 ctcttccttg caagacantg aggctgacgg actgcctgga tcaggccagg acactctttt 360 tgtctacgtc actctccctg gactggttcg ttaacccttt ttcctatccc ttttctcttg 420 atgttaaatg ttactttgtt tgttgtggaa tgtttaatct ataacattta tatattgatt 480 aagtatacta ttatgtatgg tttgcaatat tgactgactt gtggagtggc ttgagcctgt 540 gtgcccatgg ctctgactac cgagtgaayg ggaagtacta aggagaattg cctccttggg 600 aactccatgt agctcgtggc ttttgtgatt gaaatagcat caataaaagt ctgacattgt 660 ggaaagacac aaanatgtgt ggacctggtt atctctgacc ttgcrctgct cacgacaca 719 // ID LTR86C repbase; DNA; HUM; 621 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR86C_LTR; LTR86C. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-621 RA Smit A.F.; RT "LTR86C - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSDs, with a bias for NNNNC. 29% subst in dog human. <75% CC similar to LTR86A and B. XX SQ Sequence 621 BP; 126 A; 146 C; 166 G; 182 T; 1 other; tgcaggatag gccctatagc tggtctaagg gcctgttagc atgactccca gagacgtctg 60 ggtaactgac ccttgttcta gttccgcagc nctgagttca ggaatgtact tggaccaggc 120 tgtgttagcc tggggaggct gagggtgata aatgaggact gtgttcatgc ctgagtgtac 180 tgtactgtac tgtgctctgt agtcatattg tacattgtat aactccgaga ttgatgaggt 240 gcacctggct cagatgaggt ggtccccggc acatatccag actagcctac gtgcagaact 300 gctccagcct tatgtatata aggctgggct tggagggggg cagttgagct tccagaaggt 360 ctgatgtgac cctcactcac tcagacgtta tcatccgcaa ctgtgcgccc cctggtgagg 420 atcttggggt ccagaagctt gcacctccgt ctgtcctgga gaatgttgct gatctctctg 480 ccgtgtatcc tgactgtgct gacttccttc tgtatccttt agataagtaa accttgtttg 540 atttacccaa gtggtgtctg tgtctggtct ttccatcaat ctgaacctac tattgacatt 600 tgtcaataca gtggtcgtgc a 621 // ID L1PA6 repbase; DNA; HUM; 901 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA6) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P2; L1PA6; L1PA6 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-901 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-901 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 4.5%. XX SQ Sequence 901 BP; 344 A; 180 C; 189 G; 186 T; 2 other; ctaatatcca gaatctacaa agaacttaaa caaatttaca agaaaaaaac aaacaacccc 60 atcaaaaagt gggcaaagga tatgaacaga cacttctcaa aagaagacat ttatgcagcc 120 aacagacaca tgaaaaaatg ctcatcatca ctggtcatca gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagttaga atggcgatca ttaaaaagtc aggaaacaac 240 agatgctgga gaggatgtgg agaaatagga acgcttttac actgttggtg ggagtgtaaa 300 ctagttcaac cattgtggaa gacagtgtgg cgattcctca aggatctaga actagaaata 360 ccatttgacc cagcmatccc attactgggt atatacccaa aggattataa atcatgctgc 420 tataaagaca catgcacacg tatgtttatt gcggcactat tcacaatagc aaagacttgg 480 aaccaaccca aatgtccatc aatgatagac tggattaaga aaatgtggca catatacacc 540 atggaatact atgcagccat aaaaaaggat gagttcatgt cctttgcagg gacatggatg 600 aagctggaaa ccatcattct cagcaaacta tcacaaggac agaaaaccaa acaccgcatg 660 ttctcactca taggtgggaa ttgaacaatg agaacacntg gacacagggc ggggaacatc 720 acacaccggg gcctgtcgtg gggtgggggg ctgggggagg gatagcatta ggagaaatac 780 ctaatgtaaa tgacgagttg atgggtgcag caaaccaaca tggcacatgt atacctatgt 840 aacaaacctg cacgttgtgc acatgtaccc tagaacttaa agtataataa aaaaaaaaaa 900 a 901 // ID MER45C repbase; DNA; HUM; 953 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Nonautonomous hAT-like DNA transposon. XX KW hAT; DNA transposon; Transposable Element; MER45C; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-953 RA Smit A.F.; RT "MER45C."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-953 RA Smit A.F.; RT "MER45C."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. CC Orientation reversed to agree with gene orientation in MER45R CC [2]. CC Sequences 24% diverged from consensus. XX SQ Sequence 953 BP; 140 A; 309 C; 319 G; 182 T; 3 other; cagggccggc ttcatgggcg tgcgaccagt gcagtcacac agggccccgc gctcagaagg 60 gccccgcgct tggggtttaa tgctctgcgg tcgccgtctt gaaattctta ataattttat 120 ctttgaattt gtgttttgta agtgaagtcc gatgggacaa tggagcatgt gccgggggct 180 tggagcctcg gctcacgcgc ggtcccgcct cccgctgcct ccccgcctcc ccgggatggg 240 ttctcggccg cccgctcccc tgccccctgg tgccccgggc cccacctgcc ttctccctcc 300 ncgcccctgc ccagcgacca ctgccgccct ctgcccccag caggggcctg ggcacgggtg 360 cggggagggt cagggttggg tgcacgcgcc ctgtggcatc tcggggcggg gcatggcggc 420 ggctgtcccc gccctgggct ggcagcgcca cggcgcattc ggcgggcgac tcggcggggg 480 cgagcctctc gcccacccct gatccaggta ccgagcgcgt cctggcacgg aggttgcaat 540 acccttgggg gtcgcccgtc tgccgtgggt tggggcagcg ggcccgtggg aaggggagat 600 gcctggctcg acttccccgc ccctggccgg ggcacggtgc gtcggcccag cggctggcgg 660 gagggggaac ctggcagctg gtgggcccat gngtgcgcac ccccaagtcg cagggtgggn 720 ccccgggtac ctgtgagggt ctgcactcgc cccgcgagta tccccgtgcc cgagggagcg 780 tgacattaaa tagcaaataa aaaacaccat gacaggtcga gagagagacc gtggaagaaa 840 ggaaaaagct ttatatttta gtacctttaa tggcactttt ttcctgcttt ttgaacaagg 900 ggccccgcat tttcattttg cactgggccc cgcaaattat gtagccggcc ctg 953 // ID LTR88b repbase; DNA; HUM; 837 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; LTR88b_LTR; KW LTR88b. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-837 RA Smit A.F.; RT "LTR88b - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; 3' end matches LTR85, which is tentatively a Gypsy CC LTR. ~80% similar to both LTR88a and LTR88c. Many CpGs. Middle CC region least well defined. Outrageous substitution level (>35% CC in borEut13) partly due to CpGs. XX SQ Sequence 837 BP; 177 A; 219 C; 295 G; 142 T; 4 other; tgtagcgggg gtcccagctt gagcctaagc tgggattcag acatgtctgg gcatgtctgg 60 cgaactggtg gggcgggccc gccagaagcc tatttgcatg aggactgagg agcctcctgg 120 gagagaactc atcctaaggg aagaaggagc caggcacgac gagcttgacc cagtaacaaa 180 gccttagtcg tcggagggga ggggcgattc tgagtacagc gcggtgtctg tcactcggat 240 ttgtctcccg gcccagcccc cactggactc atgtctgagt cctatggaga gcgggaggac 300 tgtaagtaaa actgaaagag ctgtttcact aaaactccgt aagacattgg ggcacaagca 360 gcactgcttt ggnacccctc taacagagtg taacacaaag gggggagaga ggcattctcc 420 cccacttcgc cgcggancgc cgcgcagctt tggcacctcg agggctccgg cgcagcggtt 480 cggcgccccg ggggactgcg gctgggagca ncgggagaca gcgccctcgg cagggacgtc 540 ggcgtctcac ggagggcgcc ggcagcagtg gcggcggcga ggcgcccgcc tcaagtggct 600 cgcgggcagc ggacgtcaac gaggagggcc ggagcggaag agcaagagcg gactcgttgc 660 gagcacatgt gagacacccc ctggggactc ccagaaatac ttgggggaga ctttgcaggg 720 ggctgaggtc ctgcgtnagc aggtgggggc aagagccagt gaaatttggg ttattactgt 780 taatgtgacc ccatttgtac ccacaggctg gtgaggcctg gggaaactcg ggttaca 837 // ID RICKSHA repbase; DNA; HUM; 2030 BP. XX AC . XX DT 29-JUN-1998 (Rel. 3.05, Created) DT 19-DEC-2001 (Rel. 6.11, Last updated, Version 3) XX DE RICKSHA repetitive element - a consensus. XX KW MuDR; DNA transposon; Transposable Element; Nonautonomous; KW MUDR superfamily; Nonautonomous DNA transposon fossil; RICKSHA; KW composite mobile element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-2030 RA Kapitonov V.V. and Jurka J.; RT "RICKSHA."; RL Direct Submission to Repbase Update (JUN-1998). XX RN [2] RA Kapitonov V.V.; RT "RICKSHA."; RL Direct Submission to Repbase Update (DEC-2001). XX DR [1] (Consensus) XX CC Putative non-autonomous DNA transposon fossil. Perfect 79 bp CC terminal CC inverted repeats. CC RICKSHA copies are flanked sometimes by 9-bp target site CC duplications. CC In some other cases its copies are flanked by 9-10-bp CC direct repeats which do not belong to the target sequence. CC RICKSHA can be preliminary classified as a nonautonomous DNA CC transposon CC related to the MuDR superfamily [2]. It shares important CC structural CC hallmarks with MuDr-like transposons: 9-10 bp TSD; the 5' GGG and CC 3' CCC termini; TIRs are longer than 70-bp. CC Average identity of individual copies to the consensus sequence CC is 81%. CC RICKSHA is a composite element since it carries (positions CC 184-904 of CC the RICKSHA consensus sequence) a 3'-portion of HERVL endogenous CC retrovirus including its LTR (MLT2B). RICKSHA has been mobile CC also before CC the retroviral insertion; we found several copies of RICKSHA CC without HERVL-related portion. XX SQ Sequence 2030 BP; 577 A; 379 C; 414 G; 651 T; 9 other; gggtttggat cataatcccg aaagacacaa tcccaaacgc cataatcccg aatgttgaaa 60 tcccgaaaga tcaaaatcct aaagtctaaa tccctaaagt ctaaaatccc taatgtctaa 120 aatcccgaaa atcacaatca cgaaagatta aaatctcaaa tattgaaatc ctgaaagccg 180 aattctgggg aagggattag tgcgttttcg gttgtacgca ggatagttgc atcatgttag 240 ttgcatcatg ttaggtggca gaactattac cttgttattg tctttatttg gaaattaagt 300 atggtttaag gagacacgta tgggtgccaa gttgacaagg agtggacttg tggacttaat 360 tttaggtgtc aacttgactg gattaaggaa tacctagaaa cctggtaaag cattattttg 420 ggtgtgtctg tgagggtgtt tccagaggag attagtgtgt gagtctgagc ggactaggcg 480 gggaagatct gccctcaatg ttggcgagca ccatccaatc ggccgggggc ccggagagaa 540 caaatacaga aggcgaactg gtctctctct gagagctggg acagattttt cttctgctgc 600 cttggacatc agaactctgg gcttgctggc tttggactcc aggacttaca ccagtcctnn 660 naaccgggtc ctgaggcttt cggacctcag actgagagtt acaccattgg cttccctggt 720 tctgaggctt ttggacttgg actgagccat actgccggca tcccagggtc tccagcttgc 780 agacggcctg tcgtgggact tctcagccac cataatcgcg ttagccaatt cttctaataa 840 attccctctc atrtatatat atatcatatt ggttctgtct ctctggagaa ccctgattaa 900 tacagatttg gtattgggga agccgaatat cattccttct tactgtattc cttacaacat 960 aatagaagag atctgtgaaa ttgttccctc acaaaaaggc tgtgataaaa taagtggacg 1020 aggctactca attgtgaaag ataaaattta aaagctaatt attattggtg ctgcaaaagc 1080 agaaaatcac ttaattacaa tggccgagca ataaccagct tttaaatgga cagcatatac 1140 ttacaaaatt tgtagaccac aaccactctg caaatacaca tgcagcaagt gtcttgaaga 1200 tggcaamart gaaaattcag tttaaaaata cawsaattsc ctgccaaatt attcaatctg 1260 tatgacttct acttctttac acaaaattta tgctatgtat ttcatcttcg catcatttcc 1320 aatactggag gtataaattg tgtagagact tttagagagt tctaatttgt tttatgcatt 1380 ttttgcaaat ttgactccac gaaagtgcat tatcacaatg ttgactttgt gtgtaagcat 1440 tgtgcatgta tgtaaaaacg ttgaaacttc ctcaataaat gaagagatgt cctttttgta 1500 catctgcatt tgtgaaagat aaaatttctc aagatcttgg ctctttgggc gactgcatat 1560 gcggtggtga cccatcgcgg tttttgatcg atctcgtcaa aagacttagg ttgttcgtca 1620 cggtatttca gatgaccgca gttataaagc tgggtgcaca caattaccaa ccatagtgat 1680 atgcgtttat acatttccct ttttgaccta tttctttatg aatacggttc gtctgctcat 1740 aactgttata cccgtgcgac tgtcattagt atacctgagt gtttatgctt gcaaaaatat 1800 gtatgttatt attgcctatt ttattgtgta aagtggccta tgaagtgttc tgtcatgttt 1860 ttatatgttt ctcaaataaa tcccctttta aaaatgtaaa taaattatct tttaaagaat 1920 ttttaaattt tttttcagaa ttatattttc gggattttga tctttcggga tttcaacatt 1980 cgggattatg gcgtttggga ttgtgtcttt cgggattatg atccaaaccc 2030 // ID MER5B repbase; DNA; HUM; 178 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Nonautonomous DNA transposon. Human medium reiteration frequency DE MER5 repetitive sequence - a consensus. XX KW hAT; DNA transposon; Transposable Element; MER5; MER5B; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-178 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [1] (Consensus) XX CC 14 bp terminal inverted repeat, 8 bp insertion duplication site. XX SQ Sequence 178 BP; 47 A; 43 C; 40 G; 40 T; 8 other; cagtggttct caaccytggc tgcayattag aatcacctgg ggagytttta aaaatccnga 60 tgcccgggcc acaccccaga ccaattaaat cagaatctct ggrggtggga cccaggcatc 120 agtatttttt aaarctcyyc aggtgattcc aatgtgcagc caaggttgag aaccactg 178 // ID HERVL66I repbase; DNA; HUM; 4329 BP. XX AC . XX DT 21-JUL-2000 (Rel. 5.06, Created) DT 21-JUL-2000 (Rel. 5.06, Last updated, Version 1) XX DE HERVL66I is an internal portion of the HERVL66 endogenous DE retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW HERVL superfamily; HERVL66I; LTR retrotransposon; LTR66; RT; KW dUTPase; env; int. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-4329 RA Kapitonov V.V. and Jurka J.; RT "HERVL66I."; RL Direct Submission to Repbase Update (JUL-2000). XX DR [1] (Consensus) XX CC HERVL66I is an internal portion of LTR retroelement flanked by CC the long terminal repeat LTR66. CC There are about 100 copies of HERVL66I survived in the human CC genome. They are ~92% identical to the consensus sequence and CC belong to two major subfamilies. A vast number of HERVL66 CC copies have been multiplied in a nonautonomous mode (multiple CC copies contain deletions of coding regions and false-stop codons CC at the same positions). HERVL66I encodes the dUTPase and env CC proteins. Reverse transcriptase is truncated at N-end; Gag is CC also deleted (the only copy which preserves these two regions CC is present at AC021762 GenBank sequence). XX SQ Sequence 4329 BP; 1242 A; 1014 C; 989 G; 1084 T; 0 other; tttttggcgt cacaaacagg attcgaaaac aaaagcgtgc cattttttgg ccgcaaggac 60 ggggctggaa gctcggggac ttcccatatc ccgggatggg aactccccca gttctccccc 120 ttggccattg aatggtccag gggaactggc ctttgtgaga attgggaatc taaattagtg 180 caatttgaac ctttggctgt gcgtgaagtg ctgcagggga ttccagtcgg caaaggagat 240 gctgagggaa tctcccggag tggatggtgt ttgcttactg cttataagtt aatgtgtcaa 300 gataggggct ggttgctaca agagaaatgt aagctggaaa aggaaaatgc taatctgact 360 tccagactgg ccctggccca atgccaggcc tatgtcttga ctgatcaggc tcaaagctat 420 cagcctattg ctgaaaaaag cagctgtccg agtggcccgg tcagggtaaa actgaagaac 480 tagtcagccg gggcttggag caggtaaaaa cccagctcct atctcaagga tgggaaatta 540 accttagtaa aattcaagga cctgcacaaa ctgtaaaatt ccttggcatc ctatggaatg 600 cagggaaaca gtccatttta ccaaaggcta aggctaaaat actagaattt gcaaccccta 660 ccactaaaaa ggaggcccag aaatgtattg gcttgtttgg attctggaga catcatattc 720 cccacttggg taacatttta caacctctgc atgcagtcac tagaaaacgc tatgactttc 780 actggggaga gaaagagagc atggcttttg aacaagctaa acaagcagtg caactggccc 840 tggatctatg gcccttacgg gatgggccag tagaactgca agtaactgtc ctagatcaac 900 atgctaattg gagccttagg cagaaacaag atgggaagag ggtacctttg gggttttgga 960 cccagaagct gccagaggcc ggcaaagctt ataccccttt cgagaagcaa ttgttagctt 1020 gctattgggc tttgctggaa acggaacacc tctgcttcaa ccatgatgtc tttatgaggc 1080 ccgaaattcc tattatgact tgggtcatga gttcccccaa aactcaccgg atagggcacg 1140 cccaagaaag tagcatcata aaatggaaat ggtacataca agaccaggct aagccaaaac 1200 caaagggggt atcattttta catgaggatg tacaaaactt gccagctcag gaaaccaccg 1260 agcaagtcct gcagataggg aaggaaacct cccccgccca atggggcaaa tcctttaaag 1320 aactaagccc agaggatcag aaacatgctt ggtttactga tggatccacc aaatacattg 1380 gtgggacccg atgctggaag gccgtggctt ataatcctgt taaaaacata agcatttctg 1440 atgaaggaag gggtgggagc agccagctgg ctgaactggt agccatcctc cgagctattc 1500 aggaggaggc cagagggatt tgtcacttgt ataccaactc ttggtcagta gcaaatggtc 1560 ttactacctg gatgccccaa tggcaacgaa acaaatggtt aattgggaat aaagaggttt 1620 ggggaaaaca atactgggaa gatatctcaa tcctggcgca cactaccatt atcactgttt 1680 tccatgttga tgctcatgca tctctgcttt ctcttgacag actatttaat cagcaggcag 1740 atcaacaggc caaaatttcc accataactg caaactcaga cccggaagaa gcggattggg 1800 ctgcaatcac gcaatgggtg catcaccagt gcggacacct aggcgtacag ggaaccatgg 1860 cttggggagt gcaaagaagg atatcgttac cccaggatgc ggttcagaca attttatccc 1920 aatgcactac atgccaacag ttaaaaacca agccaattcc tcaaagggct atggggcaca 1980 ttcaccgggg aaaaatgcca ggacaaattt gtcaaatgga ctatatttgt cccttgccac 2040 tttctaaagg gtgccaatat atatgtactg ctgtagacac ctactcaggg ctcctagtag 2100 cctgcgctta tgctaatgct aaccaaatta acactattaa aacattaaat atcctaattc 2160 tatattatgg tgtgcccata caaattcaaa cggacaatgg ctcccatttc aaaggtgaag 2220 ctgtacaaac ctttgcagcc caagatggca ttgaatggat tttccatatt ccttaccacc 2280 tgcaagcagc tggtttaact gaaagaatga atgagttatt gaacaaacag ttgaaagtgt 2340 tagggcaagg taagttagaa aaatggaagg atcacctgtt tgacacatta caaaatttaa 2400 acaattggcg attaacaaca tctgaaaccc cagtgagcca aatgcttacc ccacacctac 2460 aaattgctaa gtgtgccagt gtagtccaac ctctctcgct aaaattctgg aaaatccacc 2520 cggaggctat actcccatgg aagagtacaa gagaagctac cggcttggac ttacatagtt 2580 tcaagtctgg gataattcct gcccaaagta catacatggt ggcctcaggc ctaggagtta 2640 ttatacctcg caatgaatgc ggatggatta caacgcgttc aagccttgca atgagaggca 2700 ttataatgta tggtggtata attgatagtg attaccgggg agagttaaag gtcattttat 2760 acaataccac tccagattct tttgctataa aaccgcagat gcgggttgct caattgttag 2820 tggtaccttg tcaacaatta acccctgagg aaatctctgc cccaacagag gctacataca 2880 gaactggggg attcagatcc accggtacgg gtagcttaaa tcctggagcc aaaatatggg 2940 tacagcgtcc atcagatccc gcccctaagg ctggtgacct tgtagctatg ggagcagaaa 3000 atgaaggcat agtacaattt cctaaagatg aaaaacaata tcatgttccc ctccgttttt 3060 gttattacag ggaataacct atctactagt ggtcagcacc tgtgtcttcg tgtctgaggc 3120 cgagaatgaa ttcatcaact gggtagccac cgctgcaaca gaagccaacc gcagtcaatg 3180 ctggctatgc gtcgagttgc cagaggccgc cgggaatggg ctaccttgga gaatcgtccc 3240 tgccaacatt tctgaatggc tatgtcgcta ccaatggggc cacaacaaca acacttgcaa 3300 tccaacctgg acttcttttg accaaaccaa gcaatctatc tttgcccaag tcagacaaaa 3360 ggcgaactcc accctcgcct tgcatcaaaa gccttggtat cctgcccaat attcctggaa 3420 cggtatatac tgggaacctg ctgtgctggt ggctggattc catacagccc ccgctttgtc 3480 tggaggcctt aaatggctcc tccaatgtta ctctggggtt tctcccgcca gacaattgtc 3540 aacacatact ccaaatcaac aacattgccc ccaatgaaac acaatctctt tcctacttta 3600 ataacacatt aatacactac gattacagta gctccattgc tgtcccctgg ggggccctct 3660 gggtatgcag atcctacggg tggcgatacc tgcccccaca ttggacgggg agatgcactt 3720 gggggtggcc attaattcca ttcaccatcc gggataatat tcccctcccc agtaatctag 3780 atgcttacaa acatcgctgg ttacgaatgc gccggactcc ctggtggtgg taccctatca 3840 cagtattctc ccctgccgcc ggtacaatcc tgcttcagca acaaattaaa atattaagct 3900 tacatgtaga aaaagctctt aatgatagta gcactggact tatgttgtta tcagatgaat 3960 ttgctcagct gcgtactgtt gtgttgcaaa atcgaatggc attagatatg cttaccgcag 4020 cccaaggagg ggtttgcgcc ttactgcata ctgaatgttg tgtgtatatc cctggcaatt 4080 ctcacaatat tactctcctt gcccaagcca tgcaaggaca agtaaaacag ttggaatcta 4140 accatcagga ccccatcatg gattggctgt ccaactggca ttggcgttgg ccatggtggg 4200 tgtggttttt attaattgtg cttttaattc tcctgtgctt accctgtatc tgtaatctat 4260 atcaactatg ccttccccat gtatctgtaa gggtattttc ctacaattga gtatcaaatt 4320 gaggccgaa 4329 // ID Charlie21a repbase; DNA; HUM; 1213 BP. XX AC . XX DT 07-MAY-2008 (Rel. 13.04, Created) DT 07-MAY-2008 (Rel. 13.04, Last updated, Version 1) XX DE Charlie21a. XX KW hAT; DNA transposon; Transposable Element; DNA/MER1_type; KW Charlie21a. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1213 RA Smit A.F.A.; RT "Charlie21a - consensus."; RL Direct Submission to Repbase Update (07-MAY-2008). XX DR [1] (Consensus) XX CC Description: 15 bp TIRs. 26% subst in dog-human. 67% AT-rich CC consensus. Pos 373-774 (perhaps 912 with frameshift encode a CC sequence matching the N-terminal 167 AA of Charlie3 and Charlie9 CC transposases (~50% similarity, 30-33% identity only). XX SQ Sequence 1213 BP; 417 A; 193 C; 201 G; 397 T; 5 other; cagcatttcc caaccggtgg tttgtgaacc cccaggggtt cntgaaggtg ttccnggggg 60 ttcacgtcgt taaaggcggt aatggcatct gtttcaattt ctatttttaa aaatcaataa 120 ataaaataat tatttaaata ttttcccttt aaaatggaac agtttgagag cctccgagtg 180 cgtatcgagt gagcatgcgt ggcggttagt ggagatcaga tgagcgtgct catgactcag 240 tcactcagtc ggtttatcac tcagctgaac accgctagcc gccgtggtgg ttttgaccat 300 tatacagttt taaattgttt ttattcttag tcatatattg tttaatttat acccataatg 360 gaccattggt taaagacagg aagcataagg aacactgatg ttgaaataca acaagttaat 420 gaggagcata aaaatgataa taattctgca aatttgcctc aagatgatct tcaccagatc 480 cgtaagttgc attcatctga tcaaaattct tatatagcac atcaagatgt ctctagtact 540 tcaaaaacca atgttaaaaa gagaaaatat agtgacgatt atatccaatt tggcttttca 600 tttattggga ataaagacta tccacacccg caatgtgtta tttgcggaga agtgcttgca 660 aatagcagcc tgaaaccttc tctcttatct catcatttag aaacaaaaca cgaaaattat 720 aaaaataaac cagttgattt tttaaagtgc aaaatgcaag aattccaaac atcaggtcat 780 gaaagcagtt tttgtctatt tttgatgctg taacacgtag ttaaatttca atctacattt 840 taatatacat tcggtcccca aaccaaacac gatataatat gtcattttta aatttatttg 900 tcgacaaatc atgctttttc ttacataatt aatttaaagt aaattaaaca gcatgtgtca 960 cttgttaaat gggaaaaagt caaaatttgt ctttatatat tatgaatatt attaaagatt 1020 gtattaaaat gaactttata atataatctt taataatata ctgatctaaa ataaaatatt 1080 ttacttaaaa tcacttcttt atcatatacc atacaaaaat gacaaaatga ttttnaaaat 1140 tcctaagggg gttcgcgaga ttatatatta ctntgaaagg ggttcgngag tcaaaaaagg 1200 ttgggaaacg ctg 1213 // ID LTR65 repbase; DNA; HUM; 669 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR65. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-669 RA Jurka J.; RT "LTR65."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC 3'-similar to MER90 (~200 bp), and MER110 (~70 bp). CC 76% similar to individual copies. XX SQ Sequence 669 BP; 187 A; 165 C; 119 G; 194 T; 4 other; tgagaaagta aaaatctgcc ctgccattca tcaggctggg ataacagaca cagataaagc 60 cagctgcaaa gtataacagg aaacaatatt tctcccaagg acatactgca gctgtaaagt 120 gtcataacaa ncctccttct ttgagtgact actgctttct tactcactga gaaaccttgt 180 tctctaaaat catagactat cagaaacttt gctgtttgaa attatatcag taagaatgaa 240 acatcccact cttgcctgga ggatctaagt cactttgaca cagagaagca gcctcaattt 300 ccaacccagg tgcagagctt cagataaggg gtttctggac acaacattcc acatttatct 360 taactttgta gtttccaagg aaacaggacc ctgggtccac tttgcagtcc aggacctgat 420 gttgacccct ttacacacag ccctgctttg ctttgagcct atcannntca aaacactgct 480 tcatttaaat ttcacctaaa ctccaccctt cccccaaatc ctataataac tctatctttt 540 cctttgtttg gtgagatgct ccatggttcc tctggtgtgc agtctccctc attgcaataa 600 gtcaataaac ctgactttgt tggactacag gtttgtccct ggtggtctta ggctgattgg 660 gctaggaca 669 // ID BSR repbase; DNA; HUM; 136 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 02-SEP-2008 (Rel. 2.03, Last updated, Version 3) XX DE Human beta satellite DNA - a consensus. XX KW SAT; Satellite; Simple Repeat; Satellite repetitive element; BSR. XX NM BSR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-136 RA Waye S.J. and Huntington F.W.; RT "Human beta satellite DNA: genomic organization and sequence RT definition of a class of highly repetitive tandem DNA."; RL Proc. Natl. Acad. Sci. USA 86(16), 6250-6254 (1989). XX RN [2] RP 1-136 RA Smit A.; RT "Consensus."; RL Direct Submission to Repbase Update (02-SEP-2008). XX DR [1] (Consensus) XX SQ Sequence 136 BP; 40 A; 32 C; 36 G; 28 T; 0 other; gatcagtgca gagatatgtc acaatgcccc tgtaggcaga gcctagacaa gagttacatc 60 acctgggtga tcagtgcaga gatatgtcac aatgcccctg taggcagagc ctagacaaga 120 gttacatcac ctgggt 136 // ID MER70B repbase; DNA; HUM; 578 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Primate MER70B repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MER70B; KW Repetitive element; putative LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-578 RA Smit A.F.; RT "MER70B."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-578 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC A putative long terminal repeat of a retrovirus-like element. 5 CC bp CC target site duplications and similarity over the poly A site (bp CC 376-381) region to MER54 and LTR52 suggests a classification with CC the foamy-virus (ERVL) type elements. 500-1000 copies of CC MER70A+B. CC 21% divergence from consensus. Reversed from [1] after poly A CC site. XX SQ Sequence 578 BP; 111 A; 154 C; 158 G; 148 T; 7 other; tgcaggacag ttctccgggt ggccttggac cgacccagtt ctccccnctt tctcgcttgt 60 agttctcaag aataactgta gaatgtgctg ggaatgcaac atcctgagat agggaggaac 120 tggccggaac agcccgggct ctgttccagt ccctcctaga aacaggatgt ccttcaacgc 180 tttagcccag cgagtcatgt ngcccctgag gtataaaacc cagggcgggc tgctttccgg 240 ggtccctcag ctgcggtgca agtggggcac gcgcagncga gactccatcc gccctgggca 300 gctttcctga gccttggggg accggctcgc natgaatcct aggcttctgt tgtcccttgc 360 tgcctatctg taagtaataa acccgcttca tgtaacttgt tggtgtgtgn gtgttctgtc 420 tcaccggact cagacaagta gtaaaantgc agcccaagat gcagtgggct gaagtgtttc 480 ngacccctat tcctggtggt tggcatagtg atgatctttg ctattctcca cgcagtggga 540 gtcctccctt gggattggta attagtgaac ctgcttca 578 // ID MER34C2 repbase; DNA; HUM; 555 BP. XX AC . XX DT 31-MAY-2008 (Rel. 13.05, Created) DT 04-AUG-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of LTR-retrotransposon: consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER34C2. XX NM MER34D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-555 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(5), 609-609 (2008). XX DR [1] (Consensus) XX CC Renamed from MER34D to MER34C2 by Arian Smit due to nomenclature CC overlap. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 555 BP; 165 A; 134 C; 90 G; 166 T; 0 other; tgttggggct caggacacac caccccaaaa tatgactgta ggagaccaga atatgccacc 60 ccaaaatata cctctttggc atattgatta ttttgagctg gttattctga gaaactgcag 120 acacaggagt agctctgaaa agctgtcctt ttgtaaaaga aaaatttaca tctataaagg 180 aaatttacat tagtaaaaga tatctgtatc aggaagagag ctgctctgag acaactttta 240 tcacctgaga gacttttatc tgcataacaa gacaaccttt attcaccata catttcctcc 300 cctcaccctc ccataacttg tctcaccacc accccccaga agccccaagc cctattcctt 360 tctgtagctc aggatgctat ataagcttca atcatctggc cgcttctttg agtctcatat 420 ttttgtggga ctcccatgtg tatatataca taattaaaat ggtttttctc ctgttaatct 480 gtcttatgtc aatttaattt atagcccagc caaagaacct agaagggtag agggaagcca 540 ttttcctccc ctaca 555 // ID MLT2A2 repbase; DNA; HUM; 549 BP. XX AC . XX DT 31-MAR-1998 (Rel. 3.02, Created) DT 31-MAR-1998 (Rel. 3.02, Last updated, Version 1) XX DE Interspersed repeat MLT2A2 - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; HERV-L LTR; KW Interspersed repeat; MER19; MLT2A1; MLT2A2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-161 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RA Cordonnier A., Casella F.J. and Heidmann T.; RT "Isolation of novel human endogenous retrovirus-like elements RT with foamy virus-related pol sequence."; RL J-Virol 69(9), 5890-5897 (1995). XX RN [4] RA Jurka J.; RT "MLT2A2."; RL Direct Submission to Repbase Update (MAR-1998). XX DR [2] (Consensus) XX CC Replaces MER19. CC This sequence is a human endogenous retroviral LTR [3]. CC Subfamily of MLT2A1 (one extra insertion). XX SQ Sequence 549 BP; 121 A; 130 C; 136 G; 159 T; 3 other; tgtgatggtt aatattgagt gtcaacttga ttggattgaa ggatgcaaag tattgttcct 60 gggtgtgtct gtgagggtgt tgccaaagga gattaacatt tgagtcagtg gactgggaga 120 ggcagaccca ccctcaatct gggtgggcac catctaatca gctgccagca cggctagaat 180 aaagcaggca gaagaatgtg gaaggagcag actkgctgag tcttctggcc ttcatctttc 240 tcccgtgctg gatgcttcct gccctcgaac atcagactcc aagttcttca gcttttggac 300 tcttggactt acaccagtgg tttgccaggg gctctcaggc ctttggccac agactgaagg 360 ctgcactgty ggcttcccta cttttgaggt tttgggactc agactggctt ccttgctcct 420 cagcttgcag acggcctatt gtgggacttc accttgtgat cgtgtgagtc aatactcctt 480 aataaactcc cyttcatata tacatctatc ctattagttc tgtccctcta gagaaccctg 540 actaataca 549 // ID GGAAT repbase; DNA; HUM; 75 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Satellites 2 and 3. XX KW SAT; Satellite; Simple Repeat; GGAAT; Satellites 2 and 3. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Prosser J., Frommer M., Paul C. and Vincent C.P.; RT "Sequence relationships of three human satellite DNAs."; RL J. Mol. Biol 187, 145-155 (1986). XX DR [1] (Consensus) XX SQ Sequence 75 BP; 30 A; 0 C; 30 G; 15 T; 0 other; ggaatggaat ggaatggaat ggaatggaat ggaatggaat ggaatggaat ggaatggaat 60 ggaatggaat ggaat 75 // ID MIRb repbase; DNA; HUM; 268 BP. XX AC . XX DT 15-MAR-2006 (Rel. 11.02, Created) DT 10-APR-2007 (Rel. 11.02, Last updated, Version 1) XX DE SINE2 SINE from mammals. XX KW SINE2/tRNA; SINE; Non-LTR Retrotransposon; Transposable Element; KW MIR; MIRb; SINE2. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-268 RA Smit A.F.; RT "MIRb - SINE2 SINE from mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX SQ Sequence 268 BP; 68 A; 58 C; 73 G; 69 T; 0 other; cagaggggca gcgtggtgca gtggaaagag cacgggcttt ggagtcaggc agacctgggt 60 tcgaatcctg gctctgccac ttactagctg tgtgaccttg ggcaagtcac ttaacctctc 120 tgagcctcag tttcctcatc tgtaaaatgg ggataataat acctacctcg cagggttgtt 180 gtgaggatta aatgagataa tgcatgtaaa gcgcttagca cagtgcctgg cacacagtaa 240 gcgctcaata aatggtagct ctattatt 268 // ID LTR45 repbase; DNA; HUM; 525 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Putative LTR from retroposon related to the MER4I-group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW endogenous retroelement; LTR14; LTR45; MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-525 RA Rowen L., Koop F.B. and Hood L.; RT "The complete 685-kilobase DNA sequence of the human beta T cell RT receptor locus."; RL Science 272(5269), 1755-1762 (1996). XX RN [2] RP 1-525 RA Kapitonov V.V. and Jurka J.; RT "LTR45."; RL Direct Submission to Repbase Update (MAY-1998). XX DR [2] (Consensus) XX CC LTR45 is related to the MER4I-group and it has 4 bp target site CC duplications [2]. CC An internal sequence is in GenBank sequence U66061 (pos CC 70546<-76457)[2]. CC Individual LTR45 copies are 86% identical to the consensus CC sequence. CC LTR45 (position 315-525) is 67% identical to LTR26 (position CC 378-603). CC LTR45 (position 316-525) is 62% identical to LTR8 (position CC 463-691). CC LTR45 (position 388-510) is 66% identical to LOR1 (position CC 344-466). CC LTR45 (position 316-494) is 64% identical to LTR31 (position CC 402-587). XX SQ Sequence 525 BP; 145 A; 152 C; 107 G; 121 T; 0 other; tgtaaccgcg ggaccagccc aaactgggcc tactctgttg ataacaaaat gtcaagttac 60 cttgtaggta taacagagcc caaaactgca agtcatgtag cccgggcatg tgcaatagaa 120 aaagctttga cctctaacaa cacccagaac caatgattcc tcccctcgga accaagaaga 180 ccgggacatg accggaacct gaatgccgga actctttcag aagcaaaggg gtccgttggc 240 ccggaagatc tggggctaaa atctgcctca acatacctta ccgtaaatgg tcaaatttga 300 agccctccaa tcagaccctg ccaagccaac attcctaaat cctttccctt gccctctgat 360 cccttaaaac ttgccccaga ccccaaatcg gggagacaga tttgagccca cctcctgtct 420 ccttgctggc cggttttgca ataaagcctt tcttttctca aaagctggtg ccatagttat 480 tggcttctgt gtgcatcagg cagcaagccc atttgctcga taaca 525 // ID MER80B repbase; DNA; HUM; 176 BP. XX AC . XX DT 16-JUN-2008 (Rel. 13.06, Created) DT 16-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Interspersed repetitive element MER80B - a consensus sequence. XX KW hAT; DNA transposon; Transposable Element; MER80B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-176 RA Jurka J.; RT "hAT-type families of nonautonomous DNA transposons."; RL Repbase Reports 8(6), 639-639 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 176 BP; 49 A; 28 C; 44 G; 54 T; 1 other; cagggcttct taaccagagg tccatggatg ggcttcagga ggtctgtgaa ccctctgaaa 60 ttatatacaa aaatgttgtg tatatgtgca tatatgtatt tttctgggga gagggttcat 120 agctttcatc agattctcaa aggggtctat gatctmaaaa aggttaagaa gccctg 176 // ID MER41B repbase; DNA; HUM; 635 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 4) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER41B. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER41; MER41B; KW MER4I-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-635 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX DR [1] (Consensus) XX SQ Sequence 635 BP; 182 A; 157 C; 129 G; 158 T; 9 other; tgtcagaggc gtttgaacca gagcaactcc atcttgaata ggcgctgggt aaaatraggc 60 tgaracctac tgggctgcat tcccagacgg ttaaggcatt ctaagtcaca ggatgagata 120 ggaggtcggc acaagataca ggtcataaag accttgctga taaaacaggt tgcagtaaag 180 aagccggcya aaacccacca aaaccaagat ggccacgaga gtgacctctg gtcgtcctca 240 ctgctcatta tatgytaatt ataatgcatt agcatgctaa aagacactcc caccagcacc 300 atgacagttt acaaatgcca tggcaacgtc aggaagttac cctatatggt ctaaaaaggg 360 gaggaaccct cagttccggg aattgcccgc ccctttcctk gaaaaytcat gaataatcca 420 ccccttgttt agcatataat caagaaataa ccataaaaat rggcaaccag cagccctcgg 480 ggctgctctg tctatggagt agccattctt ttattccttt actttcttaa taaacttgct 540 ttcactttac tctrtggact cgccctgaat tctttcttgc acragatcca agaaccctct 600 cttggggtct ggatcgggac ccctttcttg taaca 635 // ID MER75 repbase; DNA; HUM; 514 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 09-OCT-1997 (Rel. 2.09, Last updated, Version 3) XX DE Primate MER75 repetitive element - a consensus. XX KW DNA transposon; Transposable Element; DNA transposon fossil; KW MER75; T2_type family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-514 RA Smit A.F.; RT "MER75."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC MER75 belongs to the T2 type putative DNA transposons which have CC previously been described in Xenopus (Unsal & Morgan, JMB 248, CC 812-823, 1995). The elements duplicate TTAA upon insertion. CC MER75 has a preference for inserting in the sequence TTTAAATAA. CC 14 bp TIR. Average divergence from consensus 11.5%. XX SQ Sequence 514 BP; 140 A; 96 C; 97 G; 180 T; 1 other; cccttttccc gtttgccccg agaatactcg ccggcggcgc ttgcggctgc agcgtttacc 60 ccgagataac tttgccatga aatatnttgc ttttattatt attttcgcat cgttctagta 120 tatcgacttt ggaaacaaaa gacatcgttc tatttatagc attctgtttt tagtagtggt 180 atttccattt acaaaatata gtaattctcg attgctgaaa atgtcaaatc ctagaaaacg 240 tagcattcct acacgtgatg ttaacatcgt tctcgaacag ttgttggccg aagattcatt 300 tgatgaatcc gatttttccg aaatagacga ttctggtgat tcagatgatt ctgatgttag 360 ttctgtttag aaataactcc aagaacagtt tttatatttt attttcacat tgaaaatcag 420 tcagatttgc ttcagcctca aagagcgtgt ttatgtaaaa ttaaatgagc gctggcagcg 480 agctgcactt ttttttttct aaacgggaaa aggg 514 // ID L1MEf_5end repbase; DNA; HUM; 2217 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1MEf_5end. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-2217 RA Smit A.F.; RT "L1MEf_5end - L1 Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC rnd-2_family-115 Perhaps ancestral to other L1ME and the L1MD CC 5'UTRs. ORF 634-1593 encodes complete gag protein. 21%/25% subst CC in dog-human. XX SQ Sequence 2217 BP; 886 A; 398 C; 454 G; 439 T; 40 other; agagttccgg ttctggcang acggagtaag cccactacag ccctatctct cccactgatt 60 acaactaaaa actctggaca aaatacaaaa agcaactacc tgaggactct gaaaagtaaa 120 caaaagcagg cagattgtgg aggggagtca aaacttggag aagtgacncg cacggcggtg 180 agtttcccag ttttttttcc ttctttctcc cggctttgcc ccgagggcgg ccccagtcac 240 ggagctgtgc agcagagcgg cgcgggcagc taaaaccccg anagaaaccc catctttctg 300 gccngaggaa ccgggaaaag gggcccctgg gagccggaga gtgtggggga aatcccagag 360 aggagagagc tggagagggg aatcccctaa ttctgtgtat gaaccnacac aagtcccagg 420 ctnacccctg agctgcgcat gtgtgggaca gacccaaanc agcatagcaa aggctttgag 480 aactgaactg agatttgaac caccgcccac agaaggcaag acagaacttg tagtctgaac 540 ccaaccgggt tgattgcctg ctaaaacaaa aaaaaatcaa cattctccag aggantntaa 600 caggacccag agtctcacaa cataatattc anaatgtcca ggatacaatc caaaattact 660 cgacatacga agaaccagga aaatntgacc aattctcaag ggaaaagaca atcaacagan 720 gccaaccccg agatgaccca gatgttggaa ttatcagaca aagactttaa agcagctatt 780 ataactatgc tccangaggt aaaggnaaac acncttgaaa tgaatggaaa gatagaaant 840 ctcagcagag aaatagaaac tataaaaaaa aaccaaatgg aaattttaga actgaaaaat 900 acaatatctg aaatnaaaaa ttcactggat gggctcaata gcagaatgga gatgacagag 960 gaaagagtca gtgaacttga agatagatca atagaaatta tccaatctga agaacagaga 1020 gaaaaaaaat tgaaaaaaaa tgaacagagc ctcagggacc tgtgggacaa tatcaaaagg 1080 tctaacatnc gtgtnattgg agtcccagaa ggagaggaga aagagantgg ngcagaaaaa 1140 atatttgaag aaataatggc tgaaaatttc ccaaatttgg tgaaagacat aaatttacag 1200 attcaagaag ctcagcgaac cccaaacagg ataaacncaa agaaaaccac gcctagacac 1260 atcataatca aactgctgaa aaccaaagat aaagaaaaaa tcttgaaagc agccagagaa 1320 aaacgacaca ttacatacag gggaacaacg attcgaatga cngcggattt ctcatcagaa 1380 acnatggagg ccagaagaca gtggaacaac atctttaaag tgctgaaaga aaaaaactgt 1440 caacccagaa ttctatatcc agcgaaaata tccttcagaa atgaaggtga aataaagaca 1500 ttttcagata aangaaaact aagagaattc gttgccagca gacctgcnct anaagaaatg 1560 ctaaaggaag ttcttcaggc tgaagggaaa tgataccaga nggaaacttg gatcttcagg 1620 aangaangaa gagcancaga aatggtaaat atctgggtaa atataaaaga ctatttttct 1680 cctcttaant tctttaaaat acatatgact gtttaaagca aaaattataa cattgtctng 1740 tggggtttat aatgtatgta gatgtaatac atatgacaac tatagcataa aggatgggag 1800 ggtaaatggg acctatatgg ttgcaaggtt tctacatttt acntgaagtg gtanaatatt 1860 aactctaagt agactgtgaa aagttaagna tgtatattgt aatccctaga gcaaccacta 1920 aaaaaataat acaaagagat atagctaaaa agccaataga taaattaaaa tggaatacta 1980 aaaatattca aataatccaa aagaaggcag aaaagaggaa acagaggaac aaaaaacaga 2040 ggggacaaac agaaaacaaa taataaaatg gtagacctaa atccaaccat atcaataatt 2100 acattaaatg taaatggnct aaacacacca attaaaagac agagattgtc agantggatt 2160 aaaaaacaag acccaactat atgctgtcta caagaaacnc actttaaata taangat 2217 // ID MER74B repbase; DNA; HUM; 622 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Primate MER74 repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL-74 group; KW Long terminal repeat; MER74; MER74B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-622 RA Lee I., Westaway D., Smit A.F., Cooper C., Yao H., Prusiner B.S. RA and Hood L.; RT "Complete Structure and Organization of Three Mammalian Prion RT Chromosomal Regions."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC LTR of class III (HERVL) endogenous retrovirus HERVL74. CC Many intermediates between 74A and 74B. CC Average divergence from consensus 22.5%. 5 bp target site dups. CC Belongs to a group also including MER73, MER88, MER54 and LTR53. XX SQ Sequence 622 BP; 138 A; 200 C; 115 G; 165 T; 4 other; tgttttctta gattctgtat tcgtctattt ggcatccgtt catcacagag ncanttatat 60 taaccatgtt ttttattttc tgtattcttg atgctttgac atcttggggc cttgctgacc 120 ccggagagac tgcccctccc agggctagcc aattcctaga gatagcaaag gactcgcctg 180 ggagcgcgcc tttcatatgc aaaccaacca atccaaagcc cataccccca accacctcct 240 ttatcgggct ctcacactcc aggccaatat tccccctgcc ctaaatcacc ccagggccag 300 gtaccaggca actagagacc acccctgtac cccagagccc gccagaatta ttcaaactag 360 ccaatcctaa gcctgcttac cctgccttgc ccgttccttc ccgtggaaac cmcaataaag 420 gctctggccc acgttttccc gtcgctcctt ctgcctcctg accgaccctg gtgcttcccc 480 gtggggctct gcgtggcgtg gcgtgccccc ttctcttggg aactgtgaga ataacaaact 540 atcttttcaa tggcagtcgt ctcctgatct gttggcctta ccatacctsa ataaaataaa 600 atcccaggta cattttaaaa ca 622 // ID MER45R repbase; DNA; HUM; 1581 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Nonautonomous hAT-like DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; Nonautonomous; MER45; KW MER45R; nonautonomous DNA transposon. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-116 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 810-1581 RA Jurka J.; RT "MER45R."; RL Direct Submission to Repbase Update (APR-1999). XX RN [3] RP 1-1581 RA Smit A.F.; RT "MER45R."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC MER45R is a hAT-like DNA transposon encoding a protein related CC to that of MER69 and Zaphod and "activator-like" transposases in CC Arabidopsis (e.g. GID 4538984). It is an internal deletion CC product CC of an autonomous element (N-terminal half of gene is missing). CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. CC Orientation reversed from [1,2] to agree with gene orientation. XX SQ Sequence 1581 BP; 492 A; 306 C; 336 G; 434 T; 13 other; cagggccggc ttcatgggcg tgcgacctgt gcagtcgcac agggccccgc gctcagaagg 60 gccccgcgct tggtttaatg ctctgctgtc gccgtcttga aattcttaat aattttatct 120 ttgaacttgt gttttgtaag tgaagtccga tgggacaatg gagcatgcgc gtgagcagag 180 gagatacgcc gggcagcagc gcccacggcc tgtgggggct ggcaggcagt gtgcatgcca 240 ccaagcagtt ggccgggccg cctggtgtgc acgacacgcc ggggcagtcc ggggcacckc 300 ggggccccga gggggcaggc caggaccagt gnctacantg gcggcggcag caaaagcagc 360 agcagaggtg gcagcggctg cagccctggg agagangagg gcctccatgc agggacagtg 420 angagacccg tcgtgggagg ccagcttgtc ctgtcaccgg ccatctgcgc aaatatcaac 480 tcnccggcct gagtgctggg acaggaactg ccggcgctca ggcagtaaac tttgtcagta 540 aattattaca aaataaaagc atacacatgg acattgcaat aaagcatatc agggagttgt 600 tagaattctt caaagagttt agaatctccg gttttgaaaa ctgctgcaac attgcaaagc 660 aaatatccac aggcttagaa atagaaatta aatttaaaga tcgtcgcatt cgacggaaaa 720 gaacactatt ttcatgtgaa gcttcggatg aaccaattat taatgaggaa gacaatttta 780 aaattaattt ttccttataa ttgaagatac agcgatagaa tgcataaaca gacattttga 840 attatataca aatcatgaag ccactttcag tttcttgtac gacctccaca agttacagga 900 aatgtcagag gaaacattaa aatgccattg tataaattta catttaaaat taaattcaga 960 cttacacaaa actgatttgt atgaagagtt aaatcttttt agaaaaattg ttccacaaga 1020 atcatcagct ctagatgtac taaaatttat attttgaaat aatttatcan aaatntatcc 1080 taatgttgtc atagccnata aaatactctt aacagctcca gnaacagttg catcagcaga 1140 aagatccttc tcaaaattaa aaattataaa aaattatttg tgatcttgca tttgccaaga 1200 gcgantgacg tcgctttcaa ttatatcaat tgaaaatgaa gttgctaaaa gtataaattt 1260 tgatgaccta ataaatgaat ttncagaaaa gngagccaga aaaatcttat gatcaatcaa 1320 gatatcacat taataaagta ttattactta ttgtattata taaaattatg acaccaaaat 1380 attatttttt gcaatttgta agtttatgtt gttattcatg tatcactatt acccctatta 1440 cgttttataa gtaataaaat attttagaag gaaaagcttt atattttagt acctttaatg 1500 gcactttttt cctgcttttt gaacaagggg ccccgcattt tcattttgca ctgggccccg 1560 caaattatgt agccggccct g 1581 // ID L1PA7 repbase; DNA; HUM; 901 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 3) XX DE 3'-end of L1 repeat (subfamily L1PA7) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1-J; L1P3; L1PA7; L1PA7 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-901 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-901 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 5%. XX SQ Sequence 901 BP; 344 A; 180 C; 192 G; 185 T; 0 other; ctaatatcca gaatctacaa ggaacttaaa caaatttaca agaaaaaaac aaacaacccc 60 atcaaaaagt gggcgaagga tatgaacaga cacttctcaa aagaagacat ttatgcggcc 120 aacaaacata tgaaaaaaag ctcatcatca ctggtcatta gagaaatgca aatcaaaacc 180 acaatgagat accatctcac gccagttaga atggcgatca ttaaaaagtc aggaaacaac 240 agatgctgga gaggatgtgg agaaatagga acgcttttac actgttggtg ggagtgtaaa 300 ttagttcaac cattgtggaa gacagtgtgg cgattcctca aggatctaga accagaaata 360 ccatttgacc cagcaatccc attactgggt atatacccaa aggattataa atcattctac 420 tataaagaca catgcacacg tatgtttatt gcagcactgt tcacaatagc aaagacttgg 480 aaccaaccca aatgcccatc aatgatagac tggataaaga aaatgtggca catatacacc 540 atggaatact atgcagccat aaaaaaggat gagttcatgt cctttgcagg gacatggatg 600 aagctggaaa ccatcattct cagcaaacta acacaggaac agaaaaccaa acaccgcatg 660 ttctcactca taagtgggag ttgaacaatg agaacacatg gacacaggga ggggaacatc 720 acacaccggg gcctgtcggg gggtgggggg ctaggggagg gatagcatta ggagaaatac 780 ctaatgtaga tgacgggttg atgggtgcag caaaccacca tggcacgtgt atacctatgt 840 aacaaacctg cacgttctgc acatgtatcc cagaacttaa agtataataa taaaaaaaaa 900 a 901 // ID LTR52 repbase; DNA; HUM; 421 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; LTR52; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-421 RA Jurka J.; RT "LTR52."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX SQ Sequence 421 BP; 102 A; 135 C; 75 G; 108 T; 1 other; tgtaataaag agtctgactc cattttttga tgtttgactg ctgacagctt ttaagcctca 60 cccctccctc ttccctttgc cccacatctg ggcaagctga taagaaagcc caggtgctcc 120 ctcctttggt actagcagga aattcaaacc atacaagccc ctgcctgcgg gaaccctcac 180 cccagcccca cccccctaac cacaataaaa accccaagcc agtctccttt ccctgctctc 240 tcaagacatt tttggacctg cttgggaggc ctgccctgct ctccccagaa agcctcaatt 300 atgtaagtaa taaacctttt cataccctct tggtgtgtgt gtggcatcat cagtcttaac 360 atccaaacca aattttgggt gggggagtcc atcctgcctc tgcagagtga ccayaacaac 420 a 421 // ID LTR5_Hs repbase; DNA; HUM; 968 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Long terminal repeat of ERV2 Endogenous Retrovirus from primates. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR5; LTR5_Hs_LTR; LTR5_Hs. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-968 RA Smit A.F.; RT "LTR5_Hs - a subfamily of endogenous retrovirus from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC HERVK LTR (youngest subfamily < 1% div). XX SQ Sequence 968 BP; 250 A; 238 C; 227 G; 253 T; 0 other; tgtggggaaa agcaagagag atcagattgt tactgtgtct gtgtagaaag aagtagacat 60 aggagactcc attttgttat gtactaagaa aaattcttct gccttgagat tctgttaatc 120 tatgacctta cccccaaccc cgtgctctct gaaacgtgtg ctgtgtcaac tcagggttaa 180 atggattaag ggcggtgcag gatgtgcttt gttaaacaga tgcttgaagg cagcatgctc 240 cttaagagtc atcaccactc cctaatctca agtacccagg gacacaaaaa ctgcggaagg 300 ccgcagggac ctctgcctag gaaagccagg tattgtccaa ggtttctccc catgtgatag 360 tctgaaatat ggcctcgtgg gaagggaaag acctgaccgt cccccagccc gacacccgta 420 aagggtctgt gctgaggagg attagtaaaa gaggaaggaa tgcctcttgc agttgagaca 480 agaggaaggc atctgtctcc tgcccgtccc tgggcaatgg aatgtctcgg tataaaaccc 540 gattgtatgc tccatctact gagataggga aaaaccgcct tagggctgga ggtgggacct 600 gcgggcagca atactgcttt gtaaagcatt gagatgttta tgtgtatgca tatctaaaag 660 cacagcactt aatcctttac attgtctatg atgcaaagac ctttgttcac gtgtttgtct 720 gctgaccctc tccccacaat tgtcttgtga ccctgacaca tccccctctt cgagaaacac 780 ccacagatga tcaataaata ctaagggaac tcagaggctg gcgggatcct ccatatgctg 840 aacgctggtt ccccgggtcc ccttatttct ttctctatac tttgtctctg tgtctttttc 900 ttttccaaat ctctcgtccc accttacgag aaacacccac aggtgtgtag gggcaaccca 960 cccctaca 968 // ID MER5C1 repbase; DNA; HUM; 263 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE hAT DNA transposon from placental mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; MER1_type; KW MER5C1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-263 RA Smit A.F.; RT "MER5C1 - hAT DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC 95% similar to MER5C, except for a deletion (pos 133-156 replace CC pos 133-206 of MER5C). XX SQ Sequence 263 BP; 79 A; 51 C; 60 G; 73 T; 0 other; cagtgctact caaagtgtgg tccgcggacc ggtgccggtc cgcgaactgt ttgttaccgg 60 tccgcgacga gataagtaca gaaattgaga gtaagcgttt agaaactttt atagcaattt 120 gacattgccg cgacatccaa gtacgtgatc atttttctag taattcattt ttattgtatt 180 ttacaaaagt atcggtctgc gacggattgg agaaaacaaa aaaaaaaact ggtccttcac 240 cacagatagt ttgagaagca ctg 263 // ID HERV23 repbase; DNA; HUM; 4843 BP. XX AC . XX DT 01-OCT-1997 (Rel. 2.09, Created) DT 01-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE Primate HERV23 endogenous retrovirus. XX KW Endogenous Retrovirus; Transposable Element; HERV23; KW Internal sequence of retroviral-like element; LTR23; MER4 group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-4550 RA Kapitonov V.V. and Jurka J.; RT "HERV23."; RL Direct Submission to Repbase Update (01-OCT-1997). XX DR [1] (Consensus) XX CC Internal sequence of a MER4-group retroviral-like sequence CC flanked CC by LTR23s. The sequence was deduced from GenBank sequence Z72004. CC The entire retrovirus including LTR23s has been found as an CC insertion CC in MLT2 sequence (positions 33012-46193, reverse orientation). XX SQ Sequence 4843 BP; 1634 A; 710 C; 800 G; 1699 T; 0 other; ttttggtgat gcctatggga cccaaagtgg ggttccagca atccctatca cttcactgaa 60 aattgaagcc ttggtaccgt catgaatgac tttcattgac ctgacctcgc caatgtcaac 120 agggatcact gggcaggccc ctctcaggat ctgcatcttt ctagcttggc tgagaattca 180 gactttattt gagccataca cattcctaac ttgacaagtt tggaattgaa gtctacttta 240 aggcataaat tttatttgtt attctctgga gattgcggag ttgtgatttt cacttttctc 300 tgatgttaag gttttgtgtt gaattactca ttagagtttt tataaccttt tctctcattc 360 aaatcttggt cagggagaaa aatagattct ctcccttaaa agaggaagtg gatatttgtg 420 gcttaagcaa aatttataat ctttaaaact ggccagattc tgaaacttga atcaaatgat 480 gaatctaaac tttcttttga ctgaccacaa ttcctcacgc taggtctttt tggccattca 540 aaggaataat ctaaattatg gtgagtcata cttctataac tgggacttct ttaagaagag 600 atccagggac gaatccttga tttttaaaga tctagatgtg ttgccttcca gctgtgcctg 660 cttttcacat attaaatatt aggccctggc cctggaccat gagaacgagc tctttcccct 720 attcgttaaa aggctccact ctgaagtcag taaactcata aaaaaacaag ctaaattgaa 780 aagaccaact gtctacccag gtaagtctcc aaaatatggc tttttggcat ttagctggct 840 gttttgaaac gctttgtaaa agaaatgtat atctataaat taaatctcca tttgtaaggg 900 catctccctt actgtaacta aactgctaga aacatttaag ttgaggaaca cattgcataa 960 caaactttac ctttatttaa ggtacttttc ctagaatctt ggcttgacta ggcctttacc 1020 tatgcctttc tttgactcag caaataatat tgtatagatc taagttctgt gcctttggga 1080 tgtaaatttt cacctaacat tcatgtcttc ggaggggtga atttatggtc acctagctaa 1140 caattgttta cggcttggta gtctaaagag agaagagaaa ctctttgaaa actggccaat 1200 gaagtacctt ataaagctat caaatcttct gtctgtgtat ctgtatgtct acgttgtcaa 1260 tcaagaataa tgacccatat gtttatatga atcatgtgta tattatatgt aactaccaaa 1320 ttatatgaat ctaattaact ggcttgaaga aaaagaaacc acataaatca aatattttat 1380 tagaaaaaca gaaactaact caaatgccat ttagttcaca tgacttgggt catctttcat 1440 aagtaagact tgtttaatat tgctggtttg atgaaaacag ttgtgtattc tgatcagcaa 1500 aatacccatg catttaccta tagagttctt gcttaaatgg taactaccta ttaataacat 1560 tcacatacta ttaaaatgac tatcaaaaaa acttgagatg aagactagct taatttaatg 1620 agcaattcag gtataattgt taagaatgaa tgaattaaac aaatataaat ggaataaatg 1680 tttataaata aagtatccat tgtttagaaa tcattcagta acttaatatt aaagtcatat 1740 tatgttaaat taagtaatat gtaatcataa agtgtctgag ttgcttatat ggtatagaaa 1800 agagaaacat atttatattt cttaataaac caaaaaagaa acatttttct aaaaattttg 1860 aaatggtttt taactacaaa tactcatata aaacagttcc aaattactta tttcctagat 1920 ttttcccaga aaattagggt ttataatagt taaaattata gttaatttat atatgtaatt 1980 aagactagta gatatatgag atacaactca atatacaagg tatatgaaga aagtcaaata 2040 tatttttggt aaaataagat gaaaggagat agtgatattt gtgtgtttgc ttggcagaag 2100 aaagaacttt gtgtggtcaa aatgataagg gataaaggaa agtacatttt tattctatga 2160 tagaatggca atatttttaa aaaggtataa taggataaaa ttggaggtta aagccagtta 2220 tataaggttt gtggaagatt aagctcatga aaggaatttt gtctgtgatt gaattggcta 2280 aaattagaag aaaattattt ataaggtttt tctaaaaatt gagcattaat ataaaaaaca 2340 cattaattta aggccagagt ctgggctcct gtgtcagaac aacaattttc tcagagcatt 2400 gatctgttcc ttaatagaaa attgtaagag gttataaaac atttatggaa atcttatctt 2460 atatggtcaa agttgactga gattggatga atttggtatt aaggttttat taaaattagc 2520 tttagtagtg gtaatacagt aatataaaag taaattttct ttttttccct ttgaataaga 2580 ttttatgtag tattaatgag agataagatt tgtttacctc ttgagtaaac tacagaaaaa 2640 aagggaagag tttatttcat gctgtcatta ttaggtctct tgattgggaa ctgggtctcc 2700 tctctatcaa agagtaaaat ttttgctgtt tgaaatctta atctttgaat tagtatattg 2760 gctaaataaa tgactgttat tttacagtct gtgatcctaa tttactatgt gttttaaacc 2820 tttttaattt taatattaag gtttttaaac ctttaatatt tgagattctt aaaattacat 2880 tttaaattct gaagttatct ttctgaccca aactgatgaa gataattaat aaaaactctg 2940 gaaatccaag agagacatat taaacttctt tcatacagaa agaaatgtca aataagaaat 3000 tatgtttaag tttcttagag ttatatttgt ataaatgtgt tattaatgtg tgtttcaaaa 3060 ttgaaaaaga tgcctaaaat tatatcttgg aatacattat cagtcataat tatgattatg 3120 ttaaactgtt gtattactac aaaaaatagc caattttctg tcaattgcat atttaaccaa 3180 accatgacaa ttcaaagttt tttgtcattc atggacagtt attgttttac tttgattctt 3240 ctcaaaaagt agtttatgat caactgctgt ctaaaattgg tttcttctga aaggaaattc 3300 atggaagagg atcctgacaa gtactcttca gtacaggttt ctgataactt tagagataat 3360 accactgaag taagtaaaaa cttctagaac tctaacaaaa actgatgtag tcatgaagat 3420 tgccaaccta acatcgttaa gcagaaaaat aattacttac atgggactaa gctgatagag 3480 aattaaaatt atttttatgg catttttgtt tgaaccattg ttgattcttt ctaaattttg 3540 cttttcagag tcaagaaaac agtttttttt agccatttat agcttacagc aattgggtat 3600 agtataattt tgtgaacaaa actgaaacag ttacccttcc ttctatgtgg tttctccaaa 3660 atttgaaaac tattcatgag cattcttatt ttatggcaat ataatttcat aatttcaata 3720 aaaagatgct ttcttttcca acagaacaca ttggagacat tggtaatttt accaatgttt 3780 tgtctggaac agtgtatttt cagatataac cagtctgctt tgagaaatta aagccacatg 3840 gaaagaatgg cctggaacct agtttacaca gtttccttac aaggttccag accttgtagt 3900 aaataatgaa tatcactttc tgacaggctc aggaaactca agatatttgg ggactacaag 3960 aagagagaaa ttcactcaat ttgtacaggt attgtaagta ccattttatg gtgactcttt 4020 ggcttcgctt ccttgcctag agataatttt aatagtctaa tatgaatctt ctaatgaaaa 4080 atttccagca aagccaactt aaatttccag caaagcctgc aggaccagtc actgttcttg 4140 tgaatgttta tgcaatgacc aggccaagta taatactaaa acttattttg caattaaatt 4200 ggtcctacta ctatttatct ttggtagaaa tggaaaattg gagagagaaa agaatgtgtt 4260 ttagaagaaa actgtagcac acttgttatt agattacagc cctgactatt atttttgagt 4320 ttttattatt ttcctacaac tcagactaaa ttctgaagta tttcctggct acaagactct 4380 aaagaaaatc tgggtgttaa ttttttttta ttatgttttt agttgactcc tcaatagaac 4440 agttgttttg ttgttgttgc tctggtacac aatatttttg ttataatcct atgtgtgtta 4500 taattctgct atgtatctcc tgttgtttga cttcttttaa gaaaactaaa cacatgatat 4560 tctaaagact aaagatgatt caacaagtga tagcaactat gtaaatcagt gacttgactg 4620 gtcttatttt tgtgaaccta tgaggccatt ccaatttgta ttttgaagct cttagaattc 4680 ctcaatgaga catgtcctgt ccccccaacc atgtgagata gagccatctg ggaatgagct 4740 ttactagcaa tgcaggacta agattctcaa cataaaaaga gccaaaagca tttgagttta 4800 tctatgatgc tttcttcaaa agatatttat gaaaaggggg gaa 4843 // ID FORDPREFECT repbase; DNA; HUM; 1683 BP. XX AC . XX DT 27-DEC-2001 (Rel. 6.11, Created) DT 27-DEC-2001 (Rel. 6.11, Last updated, Version 1) XX DE Primate FORDPREFECT repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; DNA transposon fossil; KW FORDPREFECT; hAT family; ZAPHOD. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1683 RA Smit A.F. and Hubley M.R.; RT "A few more common, ancient interspersed repeats in the human RT genome."; RL Repbase Reports 1(4), 20-20 (2001). XX DR [1] (Consensus) XX CC FORDPREFECT is a hAT-class element with 8 bp target site dups. CC It has about 1300 copies in human genome, including CC FORDPREFECT_A. CC The first 66 bp of FORDPREFECT are 90%, and the last 36 bp are CC 80% CC identical to those of ZAPHOD. It does not seem to have had coding CC capacity and perhaps hitchhiked with ZAPHOD. CC The average divergence level of copies to the consensus is 22% CC (20% outside CG, ~24% substitution level). XX SQ Sequence 1683 BP; 353 A; 483 C; 468 G; 378 T; 1 other; cagtaccgcc cttagacccg ggcaagcggg gcccctgccc cgggccccgt gcctcagggg 60 accccgtgct ttggagtgcc ttcctcgaaa ttttctaagt ccccctccgg tgcctgggac 120 cggccggggc cggcagtgcc atccgggcag ggcgccccga gcccggaccg ggacccgcgt 180 gggccctggt ccccgtttct ccccttcggg gtactctccg accctctacc ccatgtgtgg 240 ggtcgaccag atgccccgag gagctccggg actcatgcct atggggtcgt cccggggccc 300 cgtggccggg ccccggttcc aggagggcgg cctggcgagc agatcgctcc cgctggccgg 360 cgcggtattt ctttcgcggg atcgcatgag attgggccgc cagaatggtg ctgacacgct 420 gatttggggt gactctcact cacgtcggac acaggacaag ttcagggctc tgggctaccg 480 acggtccacc gccgaccctt gggcttgagc cgcatgtgtg ggcccatgcg tcggctctca 540 cccatctgtg ttctgaccat ggtgccgcct ctggtctaca gcacccgagg gtggtggagg 600 tggcggcagg catcctttac cctgtgcgcc tcccaccgct ggcacccagg gcggtcaccc 660 caccccctct ncaggctccg cgccacgtgt caggcagtcc tccggaggtg gccgcgccta 720 tctcctccga gggctttcga gaccgttgct ccgcaacgcc aacgggccct tccgatcgat 780 gtcctctctt gcctccgatc gatgtggtga tgtcgtgctc tcctgggttg gtcttaagcc 840 atgccggacg agggacggac attccttgca cgaatgggac cgctcttctc gctctgccca 900 tgggcccctc gcctatcctc cccgctgtgg tggtgtgtgg aaggcagggg tgcggtcaac 960 attgaaagag atcacattct aggaatgcag tgattacggc ctaaagagtt caagagaaga 1020 catggttgga agatgtgttg ttctacgttt atgctataaa attccaaacg gtaaatttaa 1080 catgaccaga aaacgaatta tcgttcacat tttcctgcat actctgggta agacttgcat 1140 ttgtggtcat catcaacgaa gcacagtaac aacctttgag agagtcactg gaagccagta 1200 ttcacgggcg gcacgatgga tgatgcagcg tcatgagtaa tgatgtaacc agcattaaat 1260 aaatggtatt agggaactgc agaggcaaga agatctatat tgtttcaata caaacaggtt 1320 ccgaagagcc atggcattgt gagtaataac agcgttgcta cctttttctc gtggtgggag 1380 atatgaaatt agccaggaac ggcgcatttg acaataaaga acacgaagag atggttcctg 1440 gacctgaaca ggaagagatg gtgcctggac actatgaaga atcttcacgt gcactgattg 1500 gacaataaac aaatacgtaa gtacctcttc tctacccatt attctaaatc ttcatcgata 1560 aatcactata cctcacatgg gcccatgaat tttgtaatac atttttaatc aaattgttta 1620 tatagacagg ggccccgcaa aaaatatttg cccagggccc cgcacaccct aggggcggcc 1680 ctg 1683 // ID MER41F repbase; DNA; HUM; 387 BP. XX AC . XX DT 19-SEP-2000 (Rel. 5.08, Created) DT 19-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER41F. XX KW Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER41E; MER41F; KW MER4I-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-387 RA Jurka J.; RT "MER41F."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC Individual copies ~88% identical to the consensus sequence. CC 3'-end almost identical with central portion of MER41E. XX SQ Sequence 387 BP; 125 A; 89 C; 84 G; 85 T; 4 other; tgagacagga ataatacagg gtggtcgcag gagaatagaa aattccaggc agcagtttca 60 catgactagc aaaaggaaac tgttgaaata gctgcataag ctaggggctg ataagaccct 120 gaaaaaccag ggtgtggrcc aagctggcta agactgactg gacccaacat ggyrctggat 180 ttgacctagg tttcacctag gacctcatta tatgctcatt aacatactaa atcacacacc 240 caccagcrcc atgacagttc tgggaacacc catatttggt gtaaaaatgg gtggcaccac 300 agttccgaga aatcttcacc tttttccagg aatcttcatg aatattccac cccttggtta 360 aagaaaccca taaaggtaga agcccca 387 // ID L1M4B repbase; DNA; HUM; 5024 BP. XX AC . XX DT 07-FEB-2001 (Rel. 6.01, Created) DT 07-FEB-2001 (Rel. 6.01, Last updated, Version 1) XX DE L1M5 LINE1 repetitive element 5' end - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; 5'-end; KW L1 repeat; L1M4B; L1M4B_5; L1M5_5; L1MB8_5; L1MB8_5A; LINE1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1228 RA Jurka J.; RT "L1M4B."; RL Direct Submission to Repbase Update (15-APR-1998). XX RN [2] RP 1-1680 RA Smit A.F.; RT "L1M4B."; RL Direct Submission to Repbase Update (03-MAY-2000). XX RN [3] RP 1681-5024 RA Jurka J.; RT "L1M4B."; RL Direct Submission to Repbase Update (FEB-2001). XX CC The corresponding 3'-end comes from L1MB7-8 subfamilies. CC The ORF1 region starts at pos. 1361. XX SQ Sequence 5024 BP; 2083 A; 884 C; 936 G; 1029 T; 92 other; aaggagtttc acttctggaa tggcagcatg aggagctccg nagacccnct ccccagcgaa 60 acaancataa ctggtgaaaa ttatttttaa aaaaacaacc atttaaagtc tctggaaatt 120 gtcctaaggg catacagcaa atgaagaaac atttattcaa gaaaatctac taaatctcag 180 taagaacagt gagagtctgt ggcacttgag ccacgacccg ctcccaccct cccccctccc 240 cagctcagcn tgacagaagc tccactccgg gcgggtgcgg ccaagaagac ggggctccct 300 ctcccctcag ctcccagtca agggntacgg tatctcnccg ggaggggcag gccgccagca 360 tttctcatcc cctccagctc cgngttgcag aggctaaatt ccaggtgagt gtagctgaga 420 ggtcgggggc tcccttcctc cacccagccc ccactcatag ggcggaggct ctaccccagg 480 cgcggcaggc cgagaatact ggggccctga ttgccctcac cccagctcgc tcatagggcg 540 gaggttccac gccgggagag gcaagccgag aagaccagag gctaccgccc ccgcccagcg 600 ccctgctcat aaagcagggg tgtcactccg agagaagcgg gccactgtcc ccgcccccag 660 ctccggagca gtggctcaga gattttgccc agggggagag gcagnccata agaacagaga 720 gctccgaagc tctccccaaa ggaactgact ttatttgaaa cagagtgtgg ggaagttcaa 780 gcctaagggt actctcgaaa acaatggaga ttttggtggt aagcaattaa gaggaggctg 840 gtagctccat gagagcaaca agctaaacca taggccagct agtttaccag agagaaccag 900 ggaaagagac agctaagaag agccctcctg gggtcagaac aaacctcaaa gactggcctc 960 aaaaactacc cctrcaaagg ggcccgaatt taattggatc agactgtgga gcaatttatg 1020 ccccagggca ttgtcgaaaa caatagagca atcagccggc aattagtgga gcctaacagc 1080 tgggtgtgat accaanngag gcagacagct taacagagag atcagggaaa gagacagtca 1140 aagagagccc tgctaaaacc actgtcatcc cagggtgact gtgcgcatgc ccaaggctgc 1200 gccctctgag gagcgacatc agaggcttca cactgngggg gaaatagact tcactaaaat 1260 agtccagcca agtcactaaa caaataaaca agcaaaaaca ancacnanga gccgggggng 1320 gggaatcagt atccagagtt gctacaatat attacctaaa atgtccagtt ttcaacaaaa 1380 aattatgaga catgcaaaga aacaggaaag tgtgacccat acacaggaaa aaaagcaggc 1440 aacagaaact gcctgtgaga gggcccagat gtcggattta gcagacaaag acttcaaagc 1500 agccattata aatatgttca aagaactaaa ggaaaccatg cttaaagaag taaaggaagg 1560 tatgatgaca atgtctcatc aaatagagan tatcaataaa gagatagaaa ttataanaaa 1620 aaaccaaatg gaaattctgg agttgaaaag tacaataact gaaatgaaaa attcactaga 1680 ggggctcaac agtagatttg anctggcaga agaaaagaat cagtraactt gaagatagat 1740 caatagagat tatgcaatct gaagaacaga aagaaaaaaa agaatgaaga aaaatgaaca 1800 gagcctcaga gaaatgtggg acaccatyaa gcataccaac atatacatac atggacagac 1860 aaacaacata tacataatgg gagtaccaga aggagaggag aagagagaga aaggagcaga 1920 aaaaatattt gaagaaataa tggctaaaaa cttcccaaat ttgatgaaaa acattaatat 1980 taatctacac atccaagaag ctcaataaac tccaagtagg ataaactcaa agagatccac 2040 acctagacac atcatagtca aaatgttgaa agacaaagac aaagagaaaa tcttgaaagc 2100 agcaagagaa aaatgactca tcacatacaa gggaannnac ctcaataaga ttaacagctg 2160 acttctcatc agaaacaatg gaggccagaa ggcagtggga tgacatattc aaagtgctga 2220 aagaaaaaaa aaaaaaaaaa aaaacaaaaa aahacanaaa caaatacaac nytacctgtc 2280 aaccaagaat tctatatcca gcaaaactat ctttcaaaaa tgaaggtgaa ataaagacat 2340 tcccagataa acaaaaactg agagaatttg ttgctagcag acctacctta caagaaatac 2400 taaaggaaga gttcttcagg ctgaaaggca agtgacacca gatagtaatt caaatccaca 2460 taaaaaaata aagagacaca cactaagtaa agnncactag taaaggtaat tatgtagnaa 2520 gacagtaant taattatnaa agrcatgtak gtaattataa aagacagtat aaatgcatat 2580 ttcttctttc ttctcttaac tgatttaaaa agcaattgta taaaacaata tgtatataat 2640 tgtattgttg ggcctataac atatagaaat gtaatatatt tgacaataac agcacaaagg 2700 aggtgggtgg gagcaaagct gtattggagt aaggaaatga caccagatgg taacttgaat 2760 ccacaggaac aaatgaagag aaccagaaat ggtaaataag aaggttaata taacaaactc 2820 tataaatata tacttgttct cctttcttct cttctttaaa agacataaaa ttatataaag 2880 taataattat aacaaatgta tttntnnnat aataatgttg ggtttgtaac atatatagat 2940 gtatatatat tnntattgta atatgtataa caataatagc acaaaaaagg agaaaaagga 3000 atagagctat ataggagtaa catttctata tctcactgga attaagttag tataaatctg 3060 aagtagattc tgataangtt aagatgtata tggtaagccc tagagcaacc actaagaaaa 3120 taacttaaaa aaatatagta aaaaaaatca ttaaagaaat taaaatgtta cactagaaaa 3180 tattcactta atgcaaaaga aagcagtaaa ggaggaatag aggaacaaaa aagacatgag 3240 acatatnaca tatagaaaac aaaaagtaaa atggcagata taaatccaac tatatcaata 3300 taacattaaa tgtgattatg gattaaryaa aatggcaraa gctgtcagnc tngagattta 3360 ntntatataa atccaantnn ntngttnana tgntnagacn gntaatncaa atatcaataa 3420 taacattaaa tgtgaatgga ttaaacaatc caatcaaaag gcagagattg tcagactgga 3480 taaaaaaaaa aaaacaagat ccaactatat gctgtctaca ggagacacac tttagattca 3540 aagatacaaa tagrttgaaa gtaaaaggat ggaaaaagat atatcatgca aacagcaacc 3600 ataagaaagc tggagtggct atactaatat cagacaaaat agactttaaa acaaaaaatg 3660 ttactagaga taaagaggga cattttatta tataatgata aaagggtcaa aagggtcaat 3720 ccatcaggaa gatataacaa ttataaacat atatgcatat anatatatgc acctaacaac 3780 agagccccca aaatacatga agcaaaaact gacagaaatg aagggagaaa tagacaattc 3840 aacaataata gttggagact tcaatayccc actttcaata atggatagaa caactaggca 3900 gaagnnaata ngatcaacaa ggaaatagaa gacttgaaca acactataaa ccaactagac 3960 ctaacagaca tctatagaac atttatagaa cactcyatcc aacaacagca gaatatacat 4020 tcttctcaag tgcacatgga acattctcca ggatagacca tatgctaggc cataaaacaa 4080 gyctcaataa atttatttaa aggattgaaa taatacaaag tatgttctct gaccacaatg 4140 gaatgaaatt agaaatcaat aacaaaaaat ttgggaaatt tacaaatatg tggaaattaa 4200 acaacacact cctaaataac caatgggtca aagaagaaat cacaagagaa attagaaaat 4260 actttgagat gaatgaaaat gaagacacaa cataccaaaa tttatgggat gcagctaaag 4320 cagtgyttag aggaaaattt atagctgtaa atgcctatat taaaaaagaa gaaagatctc 4380 aaatcaataa cctaaccttc taccttaaga cactaaaaaa agaagagcaa actaaaccta 4440 aagcaagcag aaggaaggaa ataataaaga ttagagcaga aattaatgaa atagaagaaa 4500 aacaatagag aaaatcaatg aaaccaaaag ctggttcttt gaaaagatca acaaaattga 4560 caaaccttta gctagactga ccaagaaaaa gagaagactc aaattactaa aatcagaaat 4620 gaaagaggga acattactac taaccttaca gaaataaaaa ggattataaa ggaatactat 4680 gaacaattgt atgccaataa attnagataa cttagatgaa atggacaaat tcctagaaan 4740 yaagacacac aaactacyaa aactgactca agaagaaata ganaatctga atagacctat 4800 aaaantnaag agattgaatt agtaatntaa aaactnccya caaaaaaagc ccagncccag 4860 atggcttcac tggtgaattc tccaaanatt taaaanagaa ttaataccaa ttattcacct 4920 nttccaaaaa atagaagagg aggnaayact nccnaactna ttctatgagg ccagtattat 4980 cctgatacca aaaccagnca aagacatnac aaaagaaaag aaaa 5024 // ID L1PA14_5 repbase; DNA; HUM; 1772 BP. XX AC . XX DT 28-FEB-2001 (Rel. 6.01, Created) DT 18-APR-2001 (Rel. 6.03, Last updated, Version 2) XX DE Primate L1PA14_5 sequence - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1PA12_5; L1PA13_5; L1PA14_5; L1PREC2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1199 RA Jurka J.; RT "L1PA14_5."; RL Direct Submission to Repbase Update (FEB-2001). XX RN [2] RP 1-1772 RA Jurka J.; RT "L1PA14_5."; RL Direct Submission to Repbase Update (APR-2001). XX CC The first 660 bp, or so are unique to L1PA14_5. The rest CC is most closely related to L1PA13_5, L1PREC2 and L1PA12_5. XX SQ Sequence 1772 BP; 508 A; 505 C; 432 G; 310 T; 17 other; agggctagtg aacactgacc ctgcaggccg atcatctgag aaaccatgtc gggatccatc 60 aaggcagcan ggggacacag agagcagaga ggagtgaagc tgggcaccag cctgtctggg 120 ctcagyrcrg agccaggaga acctctccaa cacnggaaag ggtgagtgag tgagagcccc 180 ctgggggatt cacrctctcc acagggacct gtgcaagact gggaatggga gaatccccct 240 ggccccccca caccccccac tgtgcttcta gactgaggca gagagccacc tggacatttt 300 gcaggggcaa ctctcgagtc caaggggacc tctacaagcc ttgggcccca gagcagacca 360 gcaccagtgc catagcccca rtagaggcca cagttntggt gcctgggagc agtaagattg 420 ctccaccccc ccttgctaga cagggctcag caccagcttc tggcccagtg gtcccacttc 480 tgcctgaact cagccagcag ctgcagcctc ctgttgtcct aggaagcacc cggatggcag 540 ggtrggtgac ccnccaccca cccctgccac tggtagccag gtaggcaang cctgctagag 600 cttcyagccc agtggtccca cttctgtgtg aactcagctg gagggtgcag cctcctgttg 660 tcccaggaag accccaccca cccctgccac tggtagccag gtgggcaacg cctgctagag 720 cttctggccc agtggtccta cttctgtgtg aactcagctg gagggtrcag cctcctgttg 780 tcccaggaaa cacctggatg gcagggcagg tgaccccacc cacccctgcc actggtagcc 840 aggtgggcaa tacctgctag agcttctagc ccagtngtcc tacttctgcc tgaanttgct 900 gaggggtaca gcctcctgtt gccctggaaa cacccagatg gcagggcagg caactccacc 960 cacccctacc tcttatagcc agatgggcca cacctgctag agcttccagc ccagtggtcc 1020 cacttctgcc tgaactctgt gggcaggcac aaccctatgt ttccccagga agcacacaga 1080 cagcagatta gggctaacct ggcaaggata cagcttgtct gccaactgtg gcccctgcct 1140 gagggagccc cgtggaccag aacacccaac aaaagaaatg tgggcatgga gacagtaatt 1200 ggagggggct cctccaagac ccaggagtgg actagaatca aagccagtca acngaaccca 1260 ccttatacca taatcaaacc cccaagggca tcaaagaaga aaaaagaaaa aaaaatccat 1320 ccaaaaggac agcaacttca aagactgaag gaacatcagc ccacacaaat gagaaagaac 1380 cagtgcaaga actctggcaa ctcaaaaagc cagagtgtct tctttcctcc aaatgaccac 1440 actagttccc cagcaatggt tcttaaccag gctgaaatgg ctgaaatgtc agaaatagaa 1500 ttcagaatat ggataggaat gaagatcatc aacattcagg agaaagttga aacccaatcc 1560 aaggaatcta agaaatacaa taaaatrata caggagctaa aagacaaaat agccatttta 1620 aaaaagaacc aaactgatct gatagagctg aaaaactcac tacaagaatt tcataatgca 1680 atcacaagta ttaacagcag aatagaccaa gctgaggaaa gaatctcaga gcttgaagac 1740 tggctctctg aaataactca gtcagacaaa aa 1772 // ID LTR90A repbase; DNA; HUM; 976 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 08-FEB-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of LTR Retrotransposon from mammals. XX KW LTR Retrotransposon; Transposable Element; LTR90A_LTR; LTR90A. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-976 RA Smit A.F.; RT "LTR90A - LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 35% subst level. A tough one. Possibly 5 bp TSDs, and thus an CC ERVL class element, but hard to confirm. Orientation unclear has CC an AATAAA site in both orientations at reasonable positions. CC Chose this one, as the most conserved part region of the CC subfamilies overlaps this orientation's potential poly A site. CC Subfamilies are < 75% similar. XX SQ Sequence 976 BP; 311 A; 209 C; 213 G; 223 T; 20 other; tgttagaaat ttgatcgggg atttcctgtg cagtctggag ctgagaaaaa ggagatcatg 60 acttgggctt tgcagcccaa atatctttcc ttccccatcc cccaaaatac atccaatcaa 120 ataaggttag gatgatggtt accaggcagc ttgcaaaagc aagggcattc caccctccga 180 atttctggtc agaganagta natatgtaaa acagaatatg ctccattgtt aagcaaacgc 240 cctntttatt gatagtgggt caacaagagc ataggcaggt ttagctatac agacaactaa 300 cagaatttga gatgcagaat attaaagcta agaatccaag atcaatcatt caaaatacaa 360 gtagatangc agagaaaata tcacaacata agtagcagtn ctaaaataca aaggactaga 420 atcctgnnaa ggcctttcct ncgcagaagn gccaaagcgg agatccagaa tcaacactgt 480 taaaatgcaa aatataatcg ggagcaagca ctactgaatt ctgcagaggc ctttcttaat 540 taagcaattc tgatgtacat acaactcctg gttatacgng gcgcgggnag cagagaggcn 600 ncagggggnc gnnccgaggg aagagcggtg agaaagcaga gagaaagagc agccggnaga 660 tnccagctcc ttaaaagctc taaacaaggg gcggagactc gctcctccct ggccaatcct 720 tgatggctcc ggagagggcg ccctgattaa tactttgtta cgtcattaaa aggggtcagc 780 ttaaggtaag gtaatggagn tcccatgacc tattgacctt gttacgtcat tagagaggcc 840 anctttggcc cagaaaatgg cggattcctt ccctgtgatt cacacattac ccagaagcct 900 ctggcttcct ggaattctta ataaaaattc caaatctctc ggcaataact ttcaaacacc 960 acaattttcg ctaaca 976 // ID TAR1 repbase; DNA; HUM; 2111 BP. XX AC M37140; M57753; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 3) XX DE Telomere associated repeat sequence, complete sequence. XX KW Satellite; Simple Repeat; Repeat sequence; TAR1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-2111 RA Brown R.W., Mackinnon J.P., Villasante A., Spurr N., Buckle J.V. RA and Dobson J.M.; RT "Structure and polymorphism of human telomere-associated DNA."; RL Cell 63, 119-132 (1990). XX DR GenBank; M57753; Positions 1 2111. XX SQ Sequence 2111 BP; 336 A; 734 C; 648 G; 393 T; 0 other; gatcaacagt gaggaggtcc cacaaggcta agtggggcaa gtcggggacc taaggcagta 60 gcaggaaaac caaagaaaac aggcggagac ttgagacaga ggcaggaatg tgaagaagtc 120 caaaataaaa atccctgcac aggactctta ggctgttatc atgcactatc agcctactcc 180 tccctatttt tgtacaataa gctctttaca ctgtatttct tttcaatgaa gttatcttcc 240 atctttgtac tgcctcttgg tgaaaagctg tcttccaagt taataactgg gacatcagct 300 ctctgcagta atagctcctt ttcagtttta atttgcagaa ctgatgggga ttaataactg 360 gcgctctgac tttaagtggt gcaggaggcg gccagtaggg gacgccagcc gttacgccgg 420 gagcaagagg gccctgcgta gtccccatct gcctgcatgt ggcgtgcagc cacgacaatg 480 gcagcaagag ggcccggcag tgtgcccagc tgccagcagg cgggtgtgct gccactataa 540 tgtgaggaag agggccctgc aatgtcccta gctgccagca ggcggcgtgc caccactata 600 ctgcgagcaa gagagccctg ccgtgccccg gcgccagcag ggggcgctgg acagcactgt 660 aagcaagagg gccctgcagt tgtcctagtc gccagtaggg gacgcaatgg cagagcaccg 720 tgggcaagct ggtcctgtag tgcccggctg caagcagggg gcgcccgaaa cgggcttttc 780 agattactca ggttccactc gtctctgcgc cgccggggac gtgtgtctct gcgcgtgcac 840 cgcgccaccc ccgcgctccc cgcccggcgg cgcgcgactg tgcgactgca acactccccg 900 ccaccctcag cccagcgacg tgcgtctctg cgcctgcgcc gcgcctcact cccgcccgct 960 cagcgacccc tcccttccgg ggaggcgccg gcgtgcgtct acgccctgcg ccgcgtctcc 1020 ccaacagcgg cgcgcctctc tgcgcctgcg ccggcgcgcc gcgcctctct gcgcctgcgc 1080 cggcgcgccg cgcctctctg cgcctgcgcc ggcgccccgc gcctctctgc gcctgcgccg 1140 gcgccccgcg cctctctgcg cctgcgccgg cgccccgcgc ctctctgcgc ctgcgccggc 1200 gccccgcgcc tctctgcgcc tgcgccggcg ccccgcgcct ctctgcgcct gcgccggcgc 1260 cccgcgcctc tctgcgcctg cgccggcgcc ccgcgcctct ctgcgcctgc gccggcgccc 1320 cgcgcctctc tgcgcctgcg ccggcgcccc gcgcctctct gcgcctgcgc cggcgccccg 1380 cgcctctctg cgcctgcgcc ggcgccccgc gcctctctgc gcctgcgccg gcgccccgcg 1440 cctctctgcg cctgcgccgg cgccccgcgc ctctctgcgc ctgcgccggc gccccgcgcc 1500 tctctgcgcc tgcgccggcg ccccgcgcct ctctgcgcct gcgccggcgc gccgcctttg 1560 cgagggcgga gttgcgttct ctttagcaca cacccggaga gcatcgcgag ggcggagctg 1620 cgttctcctc tgcacagact tcgggggtat tgcgaaggcg gagcagagtt cttctcaggt 1680 cagacccggg cgggcgggct gagggcactg cgagggtgga gctgcgttct gttcagcaca 1740 gacgtggggg gcaccgtaaa ggcggagcag cattcttctc agcacagacg ttgggggtac 1800 tgcctgcctt tgggataact cggggccgca tcgagggtga ataaaatctt tcccgtttgc 1860 tgccctgaat aatcaaggtc agagaccagt tagaacggtt tagtgtggaa agcgggaaac 1920 gaaaagcctc tctgaatcct gcgcaccgag attctcccaa ggcaaggcga ggggctgtat 1980 tgcagggttc aagtgcagcg tcagaactca aatgcagcat tcctaatgca cacatgacac 2040 cctaaatata acaggcatat tactcatgga gggttagggt tcaggttcgg gttcgggttc 2100 gggttcgggt t 2111 // ID LTR14C repbase; DNA; HUM; 587 BP. XX AC . XX DT 23-NOV-1998 (Rel. 3.1, Created) DT 23-NOV-1998 (Rel. 3.1, Last updated, Version 1) XX DE LTR of human endogenous retrovirus HERVK14C - a consensus DE sequence. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW HERVK-superfamily; HERVK14CI; LTR; LTR14C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-587 RA Kapitonov V.V. and Jurka J.; RT "LTR14C."; RL Direct Submission to Repbase Update (20-NOV-1998). XX DR [1] (Consensus) XX CC LTR14C is a consensus sequence of LTRs from HERVK14C CC endogenous retrovirus (its internal sequence was deposited CC in Repbase as HERVK14CI). CC LTR14C sequences are ~96% similar to their consensus sequence. CC The estimated number of LTR14C copies in the haploid human CC genome is about 100-200. CC LTR14C consensus sequence is 70% identical to the LTR14 CC consensus. CC 3' portion of LTR14C (about 200 bp long) is 70% identical CC to the 3' portions of LTR14A and LTR14B. XX SQ Sequence 587 BP; 132 A; 172 C; 130 G; 153 T; 0 other; tgtgggaaag agagtttctg gggtgccagt tgagttggtc tcccctgtgt gagacaccca 60 tgggaagcca tgggcggcct ctgaggagaa aagtctcctt attgccttca tgtctttatg 120 ccccgagagc ataaccgctc agcggcattc cacaggttgc tcagggagat aacactccct 180 tgaagcagtg gagtataatc aaacatcttg gctcctcctg aaacccactc ccacccgttt 240 cagtcccgat aagttaaaga tcttaagtag tttagacaca cgcctttgct caaggaaatt 300 cacagaaacc gccactgcta cacatcttat cgaatgactc acgagttctc cttcactgat 360 taatcctttt cctcatccct tcctccccct cccatctgcc ctaagaacaa agagcttgta 420 aaccaataaa ttgggtggag cccaagagct ctgggccgtg agcaagcctc cgatgctctg 480 gtcccctgga cccgcctttt aaacgcttat tctgtctctt tctaactcct ttgtctccgc 540 cggactcggg gtacccactg ggtggtgtgg ggctggtttc cccaaca 587 // ID Charlie11 repbase; DNA; HUM; 2196 BP. XX AC . XX DT 06-SEP-2005 (Rel. 10.08, Created) DT 05-AUG-2008 (Rel. 13.07, Last updated, Version 2) XX DE hAT DNA transposon from placental mammals. XX KW hAT; DNA transposon; Transposable Element; Charlie11; DNA; KW hAT-Charlie. XX NM Charlie11. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Charlie11 - hAT DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (06-SEP-2005). XX RN [2] RP 1-2196 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [1] (Consensus) XX CC Incomplete termini (just too diverged to handle); gave rise to CC Buster 3; copies 25% diverged from consensus: average Kimura CC substitution level is >=30% (excluding Buster3 which CC shows 16% substitution level in the coding region);. CC [2] Gave rise to Buster 3; average Kimura substitution level is CC >30% even in dog-human (excluding Buster3 which shows 16% CC substitution level in the coding region); ORF 219-1994. Very CC short TIRs; ends tough but TSD bias clear. XX SQ Sequence 2196 BP; 673 A; 404 C; 458 G; 645 T; 16 other; cagtggtgag ttgcttgcgt cgagttgtgc tgtcatngct taatttgtac cgccatattg 60 cggggtattt cttgangcat gtacagatga tgatntggca gcgccgtggc tttgtttgaa 120 ttcagttagc cactgactgt tagcgcgttg nttacagttt attcccacag caaaactccg 180 caacatctct gggtagtacc tgnatatttt tgtgtgccat gttgaagaaa cncaaatnga 240 acnataacta tgttcattac aggttcgctt gtacaatgga gatggatgga actcaacgac 300 cacaatgtgt actgtgcaac tcgttatttt caaacgccaa tctcaaacca tcgaagctgt 360 ctgaacattt caacaaacgg cacggcggtg cagccagaca tgaccttgac accctgaagt 420 ctagtgagag cacatttgat catagtagaa ccttgaggac atttgggttt gtgtcacttg 480 agaagccctt gttacaagca tcctatcaag ttgcatattt gtgtgccaag gaaaagaagc 540 ctcatacaat agctgaaaaa ttagtgaaac cttgtgcatt ggaaatggca aaaatagtat 600 tgggaccaga tgcacaaaag aagcttcagc aggttccctt gtcaaatgac gtgatccgtt 660 ctagaattca tgagatgagc caggatatct tgnagcaagt tatagaagat atcaaagcta 720 gtcctcttaa agtgggtatt cagcttgatg agtcaactga cattgatggc tgcagtcagc 780 tnttggtgtt tgtgcggtac gtaaaggaga aagagatcac agaagaattc ttgttctgtg 840 aaccattgca attaactacg aaaggaatcg atgtgttcaa tctcatcaga gatttctttt 900 tgaagcataa gataacgctt gatgtatgtg gatcaatttg caccgatggt gcccctgcta 960 tgctaggaaa aaaatcagaa tttgttgcct gtgtaaagaa agaagtacct catatcatga 1020 tcacacattg tatgttgcac cgtcatgcac ttgccgcaaa gantttgcct acaaaattga 1080 aggatgtttt gtctactgcg gtgagcgcag taaacttcat cagaggacat gctctaaatc 1140 atcgcctctt ccgtgctttt tgtgaagaaa ttggtaccga gcacactgtc ntccttttcc 1200 atacagaagt gaggtggctt tcccgtggcc agatgcttac ttatattttt gaaatgcgta 1260 aagaaatgaa tcagtttctt cgcaaccaaa gcagtaattt agttgatgac tttgaaaata 1320 gagagtttat ccttcgccta gcatacatgg cagatgtatt caaacaccta aatgaactca 1380 acacatctat gcaaggaact gggatgaaca cagtaacggc cagagagaag ttatctgctt 1440 ttattaggaa acttccagtt tggataaagc atattgagaa aagaaatttt actaactttc 1500 cttttcttga agaaacagtt gtttcagaaa atgaaggaat gaccatcgca actgaagtga 1560 caatgcattt gcaacagttg agtgactctt tccgtngata tttttccact ggagatcttg 1620 atgtggcaaa gaaatggata ctggatccat ttctttttaa cctggattcc atcaatgata 1680 gtgatttgat gaaagatgat ctcactgaat tacgagccaa tggccaaatc cgaatggagt 1740 ttgagacaat gaagcttgag aatttctggt gtgctcaact agcaccattt ccacaactgg 1800 caaagacagc gctggagatc cttgtgccat ttgcgactac atacttgtgt gagataggat 1860 tttcatcact tttacacatc aaaacaaagg ccagaaacta cttaaatgcg agtgatgaca 1920 tgcatgtggc tatttcaaaa aagttcctta tttctcgaac atcattgaac aaaagctaca 1980 gcagaagtca ctgagccggt aaacttttta agtgataatt ttataattct atattactat 2040 naaaattaaa ctgtaattct atctctttca ttctatagtt atgatatatc ttaagtttaa 2100 agaactaanc tacttcagta atttttgata agaggtatga gaacatattt tgagaacaaa 2160 agggatgcaa gctgcagnaa aggttaagaa ccactg 2196 // ID LTR56 repbase; DNA; HUM; 445 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 18-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR23; KW LTR24; LTR56. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-445 RA Naik A. and Jurka J.; RT "LTR56."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC 3' similar to LTR23 and, to a lesser extent, to LTR24. XX SQ Sequence 445 BP; 137 A; 106 C; 62 G; 138 T; 2 other; tgagaattaa gaaaagaact tttatctgag gaatgcaagt cttttaaatt atcaggccca 60 gagagacatt aaaatgagac cgcaatcacg tcctactccc cactttgagc tatgtatttc 120 atctcttgaa actgcttgct attgccacaa gtagctataa attaacctaa taatgccaca 180 ccrgacacta taacccacac cctatagctt aacaatgtat atggccaatc actaatcaat 240 gttatttctg taaaccaatg agaattyctg acaaacaact ttgtatcagc ccactccctg 300 tccccctctt ttttgccttt aaaaatccac ttgtaactgc tgctaattgg agtgtatatt 360 cagggcaact tgaatctatg ctcctgggtt gcaatcctca agctttggct caaataaact 420 ctctacttat attaattttg cctca 445 // ID LTR43 repbase; DNA; HUM; 602 BP. XX AC . XX DT 14-MAY-1998 (Rel. 3.04, Created) DT 14-MAY-1998 (Rel. 3.04, Last updated, Version 1) XX DE Putative long terminal repeat from endogenous retrovirus - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR43; KW Long terminal repeat of retrovirus-like element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-602 RA Kapitonov V.V. and Jurka J.; RT "LTR43."; RL Direct Submission to Repbase Update (MAY-1998). XX DR [1] (Consensus) XX CC Putative LTR from endogenous retrovirus distantly related CC to MLTV and HERV17. Individual copies are ~86% identical to the CC consensus sequence. Internal sequences are found CC in GenBank sequences D84394 (position 209204-202092) and U85056. XX SQ Sequence 602 BP; 167 A; 152 C; 110 G; 165 T; 8 other; tgaggcagga taggtagtca aggaagtaac catgtccttg ggacgcagca accgtggtga 60 ccatacagtc aacacaataa gccccagcat tcgcattgta gtcgagctca ttcaagcaaa 120 gctatcttca gtagggamtt tcccctgtag agagcatgcg cattttgatt ttacctgtcc 180 tcaaactgac cctttgctca ttataatagt aaaaaacaca acccctgggt ggagatttaa 240 gatgctaatg agacatgcga tgtatgaaca agcatgtaca gctactgcgc atgtgcaccc 300 agaggaccac ccagaacatg cttactagta acacctcttt cccacctcct tatgaataat 360 catgtaagac tcccataaag ggagtctccc yagcgccart cwwtgctgtc tcatccttat 420 gagcagcccg ccctgaattc tctctctcag ggtgtactgt ctattctgca cctaactttc 480 aaaatattct ttttcytttg caataaattr ctctatgctg catctccttt gctgtgtgtc 540 tcttgtttaa attcttttaa actaagaaga caagaaccga ggtmtcacaa cagccatcaa 600 ca 602 // ID LTR9C repbase; DNA; HUM; 666 BP. XX AC . XX DT 11-AUG-2008 (Rel. 13.08, Created) DT 11-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR9C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-666 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 831-831 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 666 BP; 181 A; 177 C; 133 G; 173 T; 2 other; taatacagga gttattaaga aattattttt aggcagctag aaagggtaaa agagttctcg 60 gtggaatttt cctttaataa aaagcagccc ccaaaccatt tcttttctct aacagaaagc 120 agcctgaaaa gtcaggctgc aagcatagat atgcaaacta gaagctttga tatgtaaatg 180 ccagcagctg tacctggaag ccgggtacac tcaatatggc gattcccgcc ctcttttcct 240 tgtcaccacg tgtgccaggt gtcatggcaa cctccagata aaaccacgtg tacaggaaat 300 catggcgacc accaggtaga agccgcattt gcataataaa agagctaggg tgggagggcc 360 agtcttttca cgggctatgt aaatgrcaca cctggtcaaa ccaatcccct gggccctatg 420 taaatcaatc accgcctcct caagcctctg tacaaaatca accgctttcc gccscaaacc 480 cggagaccct ctcttgggcg acccgctttc tcagtatgag gaagcttttt ctctctcttc 540 ttcttttttg tctattaaac tttccgctcc ttaaacccac tcctcatgtg tgtccgtgtc 600 ctgaattctt tctcagcgcg agacaaagaa ccacgggtat ttaccccaga caacggagcc 660 gtttca 666 // ID LTR27 repbase; DNA; HUM; 636 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 02-DEC-1997 (Rel. 2.11, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR27; KW MER4I-MER41I-MER57I-MER65I group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-636 RA Kapitonov V.V. and Jurka J.; RT "LTR27."; RL Direct Submission to Repbase Update (21-NOV-1997). XX DR [1] (Consensus) XX CC LTR of endogenous retroviruses related to CC MER4I-MER41I-MER57I-MER65I. CC LTR27 elements share common fragments with LTR20; MER52 and CC MER61C. CC The average similarity of LTR27 sequences to the consensus CC sequence CC is about 85%. 4 bp target site duplications. XX SQ Sequence 636 BP; 145 A; 183 C; 142 G; 166 T; 0 other; tgtgagagca gcaggaggca gccaatgcct aggtaggcag gggcaggtcc ctgtgaaacc 60 tcacctccag gccgaagaca gcttaaatcc tgaaagccaa gctaccattt aaatccttgg 120 accagactga gaacttgtct tcctgtttgg tgtgctttcc tctgattgat ccctaccctt 180 cacctatttt atgtatacct accctttcct aattggtttt ctgtactgcc aggcccactt 240 ctgcgtggtg tctttgcttt aacctttttt gcatactcac aaaccaatca gcatgcactc 300 cccattctga gtccataaaa ggccctggac ccagccacat gggggacttt cctgccttca 360 ggtaggggga ccacccctgt gtcccctctg tatttaaagc tgtttcatca ttcaataaaa 420 ttcttctctg tcctcctcac acttcaatgt tcagtgcatc ctcattcttc ttggatgtgg 480 gacaagaact tgggaatcag tgcacaagcc agacttggcc tgggaaggcc aactgggcag 540 ggcacctcct gcggcagata gcatgccctg ggcaaggcct ctggcatcgc cagccagaag 600 tccctgactg gcaaagggac cgagaaaaat cctgca 636 // ID MER51C repbase; DNA; HUM; 640 BP. XX AC . XX DT 14-JUN-2000 (Rel. 5.05, Created) DT 14-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE Putative LTR of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER51C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-640 RA Jurka J.; RT "MER51C."; RL Direct Submission to Repbase Update (MAR-2000). XX CC 75% to MER51A over the entire length; 80% similar to MER51B CC in the 3' end region. There are apparent duplications within CC the first 200 bp from the 5' end. XX SQ Sequence 640 BP; 175 A; 173 C; 135 G; 148 T; 9 other; tggaggcagg gaacttaagg ccaatttgtg ctgacttcct aaaagagaaa acaccarggc 60 tgggggcagg gaatctaagg ccaattygtg ctgacttccc aaagctggat caaaaggaaa 120 acacctgggt ctgggggcag ggaacctaag gccaattaac gcaaacttcc taaagctaaa 180 ccaaaaggaa aaaaccccat ctccccatgc cmgagtaaca aaggatcaaa ggctactctc 240 cctacaaccc tcccccttcc accacatctc agatggaaag ggagagtgcc ttggattggc 300 cgcgggccaa gcagggacca tcccttcatc tgcatagggc gccaattcac ctcagccttt 360 aattagccac agaccaaatc cttcatccag ataaggggta gccaatagga acctcaaaag 420 gagtacttaa aacccagaaa actttgtaac tgggcccttg agctrcttgc ttgggcccac 480 tcccaccctg tggagtgctt tctcgcttta ataaattcct gctttcgctg cttcgttcct 540 gtgtttcatt cctttgttac tttgtgcgtt ttgttcaatt ctttgttcaa aaygccaagg 600 acctggacaa ctcayastca agrccctcct tcyggtaaca 640 // ID MLT1G1 repbase; DNA; HUM; 595 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Mammalian long terminal repeat (MLT1G1 subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MLT1G; KW MLT1G1; MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-379 RA Jurka J.; RT "MLT1G1."; RL Direct Submission to Repbase Update (SEP-1998). XX RN [2] RP 1-595 RA Smit A.F.; RT "MLT1G1."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1G1 retrovirus-like MaLR element. 5 bp target site CC dups. CC Average divergence from consensus 25%. 85% similarity to CC MLTG/MLTG2. XX SQ Sequence 595 BP; 136 A; 178 C; 148 G; 126 T; 7 other; tgtggcagat tgtattttcc aaagatggcc gcaacaatat ctcccatccc acatgctctt 60 cttacaatgt gaccttgnca ctcctcccat cgagnggtgg ggtctatgtc ccctcccctt 120 gaacctgggc ggacctttgt gactgccttg accaatagag tatggcagaa gtgatgctgt 180 gtgacttccg aggctaggtc ataaaaatgc catgcacttc cgccttgctc tcttgggacg 240 ctcgctcttg gaacccagcc accatgctgt gaggaagccc aagcagccca tggagaggcc 300 cacatggaga ggaaccgagg ctcccggcca acagccccag ctgagntccc agccgacagc 360 cagcatcaac tgccagncat gtgagtgagc cagcctnnag atgactccag cccccagcca 420 ttgagtcacc cccanccgtc gagccatccc agctgacgcc gcgtggagca gagacgagcc 480 gtccccgccg agccctgccc aaattgcaga ttcgtgagca aaataaatga ttgttgttgt 540 tttaagccac taagttttgg ggtggtttgt tacgcagcaa tagataactg gaaca 595 // ID MER83B repbase; DNA; HUM; 378 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 18-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER83B; KW MER83I; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-378 RA Kapitonov V.V. and Jurka J.; RT "MER83B."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC MER83B is a subfamily of LTRs from MER83I retrovirus. CC MER83B individual copies are about 90% identical to the consensus CC sequence. 5 bp target site duplications. XX SQ Sequence 378 BP; 90 A; 119 C; 82 G; 87 T; 0 other; tgtggagtcc tgataagtaa gcaacaatga ggaaggggcc ccaggtgggg gagggcccca 60 ggtggggaag aacaatgaac aattgttctg agagacggct aatcacaaac aacccgcggg 120 cacaacgacc tcgttccgca tgtagcccca gcagcatgac ctcattctgc acgtagcccc 180 ctccagcacg accctataaa acttccctcc agcccctgcc tctttgcaga cagccccttc 240 tctgctgtgc tgcccgttgc aaccttgcaa cgtattttca tactttctct aataaatctg 300 cctttcttta cctacaactg tcttggtaaa ttcctttacc gcctgcgaca ctggccccag 360 atagttgcac ccgtgaca 378 // ID MER70C repbase; DNA; HUM; 531 BP. XX AC . XX DT 17-JUN-2008 (Rel. 13.06, Created) DT 17-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like element. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; MER70C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-531 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 670-670 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 531 BP; 102 A; 147 C; 143 G; 138 T; 1 other; tgttgggaaa ggcagtctca tgcatgcagt ctttcgaccc ccactcagcc gcataagaat 60 gggccttggg cctggaacac ttccttacca agagataaag agtcctcaca gcctgtgctg 120 gacttatcac cttgtgtggg aatatctttc cctgtttcag actcaatgtg tactcctttg 180 ttctgcttaa gcgtgtgcgt catatggcac ctggccaacc ccactgctat atctgtcccc 240 tgcggggagg ggacggggtc cttctgctgc agcacaagag gaggtggctg tgtgcctgca 300 ggccaattgc cctgcgtcrg ctgccgggag ggacccgctg gccatggggg accgacgccc 360 actactgaag ctgatcttgc tctgtctctt ctctatgtga gtaaagcgtt gttccatcca 420 gtgcttgact gcgttgtgtt ttccttggcg actccgatac caagatgcag tgggcagaag 480 tgctcggact tctactcctg ataataggca acagatgcca cttgctcgac a 531 // ID L1MA6 repbase; DNA; HUM; 1047 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MA6) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M2; L1MA6; L1MA6 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1047 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1047 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 14%. XX SQ Sequence 1047 BP; 415 A; 164 C; 215 G; 253 T; 0 other; ttaatatcca gaatatataa ggaactcaaa caactcaaca ggaagaaaac aaataaccca 60 attaaaaaat gggcaaaaga cctgaataga catttctcaa aagaagacat acaaatggcc 120 aacaggtata tgaaaaaatg ctcaacatca ctaatcatca gggaaatgca aatcaaaacc 180 acaatgagat accacctcac cccagttaga atggctatta tcaaaaagac aaaagataac 240 aagtgttggc gaggatgtgg agaaaaggga actcttacac actgttggtg ggaatgtaaa 300 ttagtacagc cattatggaa aacagtatgg aggttcctca aaaaattaaa aatagaacta 360 ccatatgatc cagcaatccc actactgggt atatatccaa aggaaatgaa atcagtatgt 420 cgaagagata tctgcactcc catgtttatt gcagcactat tcacaatagc caagatatgg 480 aatcaaccta agtgtccatc aacggatgaa tggataaaga aaatgtggta tatatacaca 540 atggaatact attcagccat aaaaaagaat gaaatcctgt catttgcgac aacatggatg 600 aacctggagg acattatgtt aagtgaaata agccaggcac agaaagacaa ataccgcatg 660 atctcactca tatgtggaat ctaaaaaagt tgatctcata gaagtagaga gtagaatagt 720 ggttaccaga ggctggggag ggtaggggga gggggggatg gggagaggtt ggtcaatggg 780 tacaaagtta cagttagata ggaggaataa gttctggtgt tctattgcac agtagggtga 840 ctatagttaa caataatgta ttgtatattt caaaatagct agaagagagg attttgaatg 900 ttctcaccac aaagaaatga taaatgtttg aggtgatgga tatgctaatt accctgattt 960 gatcattaca caatgtatac atgtatcgaa acatcacact gtaccccata aatatgtaca 1020 attattatgt gtcaattaaa aataaaa 1047 // ID HERVK13I repbase; DNA; HUM; 8116 BP. XX AC AF020092; XX DT 23-NOV-1998 (Rel. 3.1, Created) DT 23-NOV-1998 (Rel. 3.1, Last updated, Version 1) XX DE Human endogenous retrovirus HERVK13, an internal portion. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW HERVK superfamily; HERVK-T47D; HERVK13; HERVK13I; HML4; LTR13; KW env; gag; pol; pro. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 3585-3830 RA Medstrand P. and Blomberg J.; RT "Characterization of novel reverse transcriptase encoding human RT endogenous retroviral sequences similar to type A and type B RT retroviruses: differential transcription in normal human RT tissues."; RL J. Virol 67(11), 6778-6787 (1993). XX RN [2] RA Pavelitz T., Rusche L., Matera G.A., Scharf M.J. and Weiner M.A.; RT "Concerted evolution of the tandem array encoding primate U2 RT snRNA occurs in situ, without changing the cytological context of RT the RNU2 locus."; RL EMBO J 14(1), 169-177 (1995). XX RN [3] RP 1-8116 RA Seifarth W., Baust C., Murr A., Skladny H., Krieg-Schneider F., RA Blusch J., Werner T., Hehlmann R. and Leib-Mosch C.; RT "Proviral structure, chromosomal location, and expression of RT HERV-K-T47D, a novel human endogenous retrovirus derived from RT T47D particles."; RL J. Virol 72(10), 8384-8391 (1998). XX DR GenBank; AF020092; Positions 944 9059. XX CC HERVK13I is an internal portion of HERVK13 endogenous retrovirus. CC HERVK13 belongs to HERVK-superfamily, and it's LTR was deposited CC in Repbase as LTR13. Short pol portion of HERVK13 has been CC classified earlier as HML-4 [1]. Relation of HERVK13 env to CC the env protein encoded by HERVK10 has been shown by [2]. XX SQ Sequence 8116 BP; 2281 A; 1953 C; 1595 G; 2287 T; 0 other; tctggtgccc aacgtgggtt tctccctcac tgtgtgaagt tgcactttga gtgcaggact 60 cagcagagga cttttcaacg acagattcct gaggattgtc gtcattaagc ttggtggtaa 120 gcttgggcac tcagagtatc tcagggactc catgggacaa gccagtacaa agtacttggc 180 ctatttaaac acttcataaa aacccttctt aaagaaggag aaatttcagt ttcttctgac 240 aagctaattg aactctttga ggtcgtcatt ctcatttgcc cttggtttcc aactgaggga 300 actctagaac ttaaaagatt gggatgaggt gggccaacag tttaaaatcg ctcatagagg 360 ggaacatgtt atcccgccgg ccatttgcac agtttggtcc tcggttcgct ccatcttaga 420 atccttgcag ccataggagg agggaatgga gggtactcta cctttgctct cctccgaaga 480 ggttgaggaa atcctcagta ctctctctcc agagggcact gcacaacctg aagccatcat 540 tttagaaatg gacctccatt ctgatattcc tttggcatca ccaaatacac cacagcctac 600 ctgtcctacc gcacccccag tatcgcttta tgaggacctt atgaaggatc tccttcccca 660 gatctaagaa atccctctga aatgtactat cagcagccct tgtgccggaa cctcctgtac 720 tgtctcagcc ctgctgtagg gctctcaacc atccatctgt tcagcccggt tatgaggctg 780 tcaactctat ccctgttcgg cccagtaatg aggccctcaa tgctatctct tcacccaatt 840 ctgcctttcc tcttatgcat caggctccac agaagcctaa cctgcagtcc atgcaccagc 900 ctggagttca ggccctgcag tccatgcacc agcctggagc tcaggccctg cagtcaatgc 960 aacagcctgg agttcaggcc cctgaaagat cgcaaagcag gcaactgtgc gtcagcctgg 1020 cttgaagtct ctcaacttct atattcaaaa ccccaatttc ttttctgctt ctggtccagt 1080 cacaactgct gttgctaccc ataagcaata ggttacatac attcctgata atgacacccc 1140 tcttatgagg gccattctca gggcaaggga atacggggat cccgaggcat ggtgtcctgt 1200 tattctacaa tctcctatac ctgctgcccc cattctagct gcccctgctc tggctgcaat 1260 ggatcagcca ccacctgctg accaagttca gcaggcagct gacgccactg cctctccaga 1320 cccgcagctc aggggatcag gctcctcagc cagtgcaaga agggcctgat gtcccagcag 1380 agccagttcc tgaaatacct tccattcggg ctgtggtgca acctgatcct ttacaccctg 1440 gtcaggtcca cctatgacct gctacttggg aaagtttttc tttcaaattc cttaaagatt 1500 tcaaagagtc ggttaaacaa tattggtacc aattcccctt tcgtccgttc cgcccgaaaa 1560 tccttagcag aagataaatg cttggtgcct tgtgactggg aaattctagc aaaatctgtc 1620 ttatctaaat cacaatattt acaatttagg acatggtggg ttgatgctgt ccaggattga 1680 gtccgcctta atcagggctc taatcctcct gttaacgtta caactgacca gttactggga 1740 atggggcagt gggctgcaat tagaaagcaa actatattga atgatgaagt cactaagcaa 1800 ctccgaaaat gctgcctggg tgcttgggat aagattcagg atgatggcac tagatgtccc 1860 tcctttacag ccattagaca aatgcaaaat gaaccatacc cctgacttca ttgcccatct 1920 tcaggacgtg gcagaaaaat ctattcctga tctaaataac caacatttgg ttgtggaact 1980 catggcttat gaacaagcaa atccagatta tcaggctgct attcactctg taaaaggtaa 2040 aatcccacca ggaagtgatt taatcacaac ctatattaaa gcatgtgagg gtgttggtgg 2100 aacgttacat actgctatgg tcacggctca ggctatggcc agcattagaa tgcttggaca 2160 atttcctggt aattttcact gcagccaatc tggacatacc aggaaaaaat gtcctcggtg 2220 ttcagaccac caccctgtac aacaccaatc ccaaaaggcc gtacaactgc gagtcccacc 2280 atccacacca tgcccaagat gccataaggg caatcactgg acagctcact gccactcgaa 2340 attcgacact aatggcaacc ctttacagcc acttcaaaac cagggaaatg gtaagagggg 2400 ccagcccagg cccctccaga caatgaggca ttccccaact cccagccttg ccttgcagcc 2460 agatgagggc atccccagct caaccaatcg atccaaccac tcagtttcca cttcaaccat 2520 tcatgccaca agcatagatg tcacaacccc aacaaggatc tcatttcaat gctcgtcccc 2580 cgccaccaca ggatctgcag cagtagatct ctgctgtatt agagacattt ccctttttgc 2640 ctggagagcc accaatagct gttccacagg tgcttttggc ccttgccacc tggctctgtt 2700 ggtttattgc tcagtcactc aagcttaaat ttaaaaggtg ttcaggtaca taatggtgta 2760 attgactctg attactctgg ggaaatacac attactgtta gttctgcagt tccttgccaa 2820 gcttcagcag gagattgaat tgctcaactt cttcttctgc tgtacattcc actcagatcc 2880 agttctcata aaagaactgg aggttttagg agtgcagata atcagggtaa agtggcttac 2940 tgggctaata aaatttctga cacctgacct gtttgttcca cgcatataca cagaaagaaa 3000 ttcatgggca tgattgacct gggtgctgat gtttccatta ttgctttaca ccaatggcct 3060 cgtcactggc ccaaagaagt cacattcacc gggttggtgg gagttggtca ggccacagag 3120 gtttatgaaa gttccactat tttacattgt actggcccag aggacgaact ggtactgttc 3180 accctctaca cctattccag ttaatctctg gggaagagat cttttacagc aatggggtgc 3240 acaaatttca tttccacatg ctgccaacag tgagcaaagt aaaaacatta tgacaaaaat 3300 gagatatgtt caagacactg gtctgggaaa attggctcca ggtattactg cctattcaac 3360 ctttctataa atttgactcc aaagggcttg gttattcttt ttagaagcag tcactgtcaa 3420 gcctccagat gccatccctt tgacttgaaa actcagccag tttgggtgga tcagtggccg 3480 ctcccaaaaa ataagctgga ggcgctccat aatttagtcc tggaacagtt agaattggga 3540 cacattgagg aatctttctc tccatggaat tcacttgtct ttgttatcca aaagaaatct 3600 ggggaaaaca gagaatgctc actcatctta gggcagttaa tgctgtactt caacctctgg 3660 ggacattaca atctggctta ccctcccgct ctatgctcgc tgagtattgg cctctaatcc 3720 tcatagatct taaagattgc ttttttaaca ttccactggc ctctcaggac tttgaaaagt 3780 ttgcttttat ggtcccttcc ctcaacaatg tcgctcaggc tacatgctac tattggaaag 3840 tcctaccaca aggcatgctt aatagtccca ctatttgtca gtattttgtg gggcgtgtgc 3900 ttcaacctgt cagggatcag tttccccgat gttacatcgt tcactacatg gatgatctcc 3960 tctgcacagc ccccccatac accattttga tttcctgctt ttctgtgatt caacaagcca 4020 tttcagaagc aggtttgact attgcaccag aaaaaattca aactacctct cattttcaat 4080 atttgggcat gcagttggaa gacaagctga ttacaccaca aaaagttcag cttaggagag 4140 acgccttaaa aactttaaat gactttcaaa agttacttgg ggatattaat tggatttgcc 4200 cttctttggg catccctaca tatgctatgt caaacctttt tgccacatta tgtggggatc 4260 cagatttaca cagcaaaagg tttcttacag aaacctcaga ctcagagagg ctgagtctga 4320 gttatgattg attgaacaaa cagttcaatg gtctcaggtc actagattca atcccaaatt 4380 accttttact attttaattt ttcccactga acactctcca acagggatca tcacttagga 4440 acatgatata attgaatggt gttttcttcc ccatagctct ctaaggacac ttactattta 4500 ccttgactaa atttctaccc tcattaggca agcctgttcc catcttttat gacttttggg 4560 acaggaatct caaaaaatta ttcttccctt aaaccgtcaa caactctgac aagcatttac 4620 aaattgtgtt atttggcagg taaatttggc ccatttccct ggtataattg acaatcatta 4680 ccctaatgta aaattgttcc agttcctgaa actcacttcc tggattttac ctaatattac 4740 cagaagtatt ccattaactg gagccgttac tatatttact gatgcttcct ctaatggccg 4800 tgctgtatac acaggaccat gggaacgcgt tcttaacaca ggacctattt ctgtacagcg 4860 agctgaactt agcactgtta tgactgtcct tgaggatttt cctgagtctg tcaacattgt 4920 ttctgattct gcatacctcg tgcatgttgc ccacaacata gaaacggtgt taaatttttg 4980 cctgatgaaa gtttactttc actttttcaa aagtcttaga cagttctcag aaaacactgt 5040 gccccctttt acattactca tatttgagcc catacatcac ttccaggacc tctttcagct 5100 gtaaatgcca gagctgatgc tttagccaca tccattttta tggacatgcg aaattgtcgt 5160 gccctaactc atgtcaatgc tgcaggactc agaagcaagt tccctcccac atggaaacag 5220 gcaaaaacca tagtacggca ctgtccctct ggccaagagt taattttaca accacttcct 5280 tcggcagtta atcctacaac cacttccttc cagagttaat cctacaccac ttccttccgg 5340 agttaatcct acaaccaatt ccttcaggag ttaatcctac aaccacttcc ttccagagtt 5400 aatcctagag gcttttcccc caacacactc tggcaaatgg acgtgaccca ctttccagct 5460 tttgggagac tttctttcat acatgtaaca cttgacacct tttcccattt catctgggtt 5520 acatgccaaa caggagaaag tactgctcgt gttaaatgac atatgccttc ttgtttctca 5580 gttatgggct gccctgctaa gcttaaaact gataacggtc ccagctatac cagcattgcc 5640 tttaaaaagt tcactcaagc atggggcatt actcacacta ctggaattcc ctataattct 5700 caaggacagc ctctggtgga atgagctaat aaacctctca aggaccagct tcgcaaacaa 5760 ggtaacaaaa agaaagggga tgtcagtact ccccatgctc agataaattt agctctgttc 5820 acattaaaat ttttaaattt ggccaagaac caacctttca tggcagcaga acaacacttt 5880 gctggtaata aatttgaccc acaaaaaggc aagcaagtat ggtggaagga cacaaaaact 5940 aataaatggg aattacgcac tgtaattaac atggagtagg ggttttgctt gtgtctcccc 6000 aggaaaggac caacaacctg tttgggttct ctccccatca gctgaatttg taccatgact 6060 ccagccctga agaaccatca gaaacaaaag gagaagagcc gccagaaatc aaaacgcaag 6120 gctcgtcacc tgactaatac aatttatatc tcaagtttgc ctcacagcct cgccctataa 6180 ctcccaatgc taaaattcca ccctgctgat gtgggggggt cagataaaag taatgtccga 6240 agaggttgag agacacctac aggacaaagg gattccaaaa actatgggta atgttatctt 6300 ggctgccttt atggtagtta ctgcagtggt aagtataccc ggggctgcag caactcaaaa 6360 ttacacctac tggcatatgt cccgtttcca ttcttattcg atctgtttca tggatggatt 6420 cctcagtgga agtttatact aatgacagtg cattcatgcc agtccctaat gatgacagat 6480 ttccggctta aacagatgaa gaaggaatgc cttttaatgt gtccattgga tataaatttc 6540 caccattgtg tgtaggattt gcacctggtt gtttggcatt ctctaatcaa aattggatgt 6600 ggactgtacc ggcctccagc aatgattctt atcaggtgca taatgtcttc tgtagtaatt 6660 cttttcaggt tctgaccgtt aacataaatt catttgaaga acagagaatt cctgtcacag 6720 taaagcataa taaaacacaa ggattgccag actgtttaaa agaccttata aagggaccta 6780 ataattcaaa acattctatg gagtgattgc aatgccccaa aagtagtagt gctaagaagt 6840 ccgatcacaa gtgttgtcat tgactgggcc ccaaaaggat attattggcg agattgctct 6900 ggccaaaata cccaatgtcc tgagtttaac tatttaatag attatgaaga gaaaggctgg 6960 cagtcctaca aaaagaggga atgggtgtct ccttacccat tcaaatggtt ggacaaggtc 7020 atcgttcctc ctagaccaaa aatgattcat cctatagtta ccccggaaca tcctgaattg 7080 tggaggttgt ctgcagccat atccggaatc agattatgga atgttgctta tcaaaaaatt 7140 cttacaaata ccaaaacaaa catgtataag atctctttaa tgtctgagag ggtggtaccc 7200 attaggagct gtgttaaacc accatatgtt attgattgga aacataatta tcacccctga 7260 tagtcaaact attgaatgca ataattgcaa attgtttaca tgcattgatg ctacatttga 7320 tccaaaaaca agtgttctcc tggtcacggc caggaaaggg gtatggatat cagtttcttt 7380 acaccgcctc tgggaatcgt ctcttctgtt catgtagtca ataaagtcct taaaggattc 7440 ttaaaagaac taggagattc atttttactc tcattgcggt gattgcaggt ttaattgctg 7500 ttactacaac agcggctact gctggagtag ccattcataa cttggtccac accactcatt 7560 atgtggaaac atgccaaaaa aattccacct gactttggaa ttctcaggct cagactgatc 7620 aaaaactggc caatcaaatt aatgatctcc accagagtgt catctggttg ggagacagga 7680 tgatgaattt agaacactga atgcaactac aatgtgattg gaatacttct gattattgca 7740 taacacctta tggttacaag gaagatcaac atagttggga aaaagtccaa aggcatctaa 7800 aagcctggga tgataattta accctagaca tttcaacact gaaggagcac atttttgagg 7860 cttcccaggc tcacttaact accattcctg gttctgatat atttgaaaga attacaaaag 7920 gactatctga tctaaatcct ttcaagtgga tcaaacccgt tggaggttca cttttgttat 7980 cagcattact aatattggtg tgtttatgtt gtttgctttt agtctgcagg cgtctccacg 8040 gagtccaatg aaaaactcga agccagcgac aagcaatgat ggcaatgata atcctaatca 8100 ataaaaaggg gggaga 8116 // ID MER104 repbase; DNA; HUM; 180 BP. XX AC . XX DT 05-AUG-1998 (Rel. 3.07, Created) DT 26-JUL-2000 (Rel. 5.06, Last updated, Version 3) XX DE Non-autonomous Tc2-like DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; Nonautonomous; HSTC2; KW MER104; nonautonomous DNA transposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-180 RA Jurka J. and Naik A.; RT "MER104."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-180 RA Smit A.F.; RT "MER104."; RL Direct Submission to Repbase Update (05-MAY-2000). XX DR [2] (Consensus) XX CC Consensus inverted from [1] following orientation coding region CC in HSTC2. CC Original classification [1] of MER104 as a hAT-like DNA CC transposon has CC been corrected [2; and MER104A] as a Mariner/Tc1-like element. CC TA target duplication site [2]. CC 30 bp terminal inverted repeats. Average divergence from CC consensus CC 25-26%. HSTC2 is a prototype of an autonomous transposon involved CC in propagation of MER104. XX SQ Sequence 180 BP; 51 A; 31 C; 31 G; 67 T; 0 other; ccgtatttca tcgattctaa gatgcacatt ttttcacatt ttaacatctc tgaaatcggg 60 atgcatctta caatcgatgg catgtcatag tttaattggc agcatttttt ctttcttagt 120 ggtacataaa ataatggtgc atcttacaat cgatggcatc ttagattcga tgaaatatgg 180 // ID HERV-K14CI repbase; DNA; HUM; 7434 BP. XX AC . XX DT 16-SEP-2004 (Rel. 9.08, Created) DT 16-SEP-2004 (Rel. 9.08, Last updated, Version 1) XX DE Internal portion of HERVK14C, a HERVK-related endogenous DE retrovirus flanked by LTR14C - a consensus sequence. XX KW LTR Retrotransposon; Transposable Element; endogenous retrovirus; KW HERV-K14CI; HERVK superfamily; HERVK14C; HERVK14CI; LTR14C; env; KW gag; pol; pro; internal portion. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kapitonov V.V. and Jurka J.; RL Direct submission (November 23, 1998). XX RN [2] RA Flockerzi A., Meese E. and Mayer J.; RT "The human endogenous retrovirus HERV-K14 families: status, RT variants, evolution, and mobilization of other cellular RT sequences."; RL J. Virol., 2004). XX DR [2] (Consensus) XX CC DT 06-JUN-2004 CC HERVK14CI DNA CC DT 23-NOV-1998 (Rel. 6.7, Created) CC DT 23-NOV-1998 (Rel. 6.7, Last updated, Version 1) CC consensus CC HERVK14CI is a consensus sequence of an internal portion of CC HERVK14C endogenous retrovirus flanked by LTR14C. CC Updated consensus sequence generated from 21 loci. CC HERV-K14CI consensus encodes Gag, Prt, Pol and Env proteins. CC Average similarity of individual HERVK14CI copies to the CC consensus sequence is about 96%. CC HERVK14CI consensus sequence is on average 68% identical to the CC HERVKC4, HERVK14I and HERVK; and 60-64% identical to other CC members of the HERVK-superfamily. CC Updated consensus sequence generated from 21 loci [2]. CC PBS for lysine: nt 8-30 CC Putative gag gene: nt 159-2045 CC Putative protease gene: nt 1865-2851 CC Putative polymerase gene: nt 2824-5181 CC Putative envelope gene: nt 5232-7434 CC PPT: nt 7421-7432 CC Key Location/Qualifiers CC gene 2824..5181 CC /note="pol" CC gene 1865..2851 CC /note="prt" CC gene 5232..7434 CC /note="env" CC gene 159..2045 CC /note="gag". XX SQ Sequence 7434 BP; 2313 A; 1562 C; 1598 G; 1960 T; 1 other; tctggtgccc aacgcggggc tccctataat ctctacaaat aatccagtga agaaatgcca 60 gagcgtggaa agtggaggac gactgacaaa ggacgcccga gtacgttttc acttcaagct 120 ctacaggtaa gtagggcact cagagaattc cagggtaacc tcaggaaaat atgggtcagg 180 ctgaaagtaa gtttgctaat tacttaagcc tggtgcagca gttattgtgc cacagagggg 240 taattgtgag tacccaaaat ctcacatctt tgttccatct catagaaaag tattctcctt 300 ggttcccgga atatggaacc atgaatgtaa aagattggga caaggtcgga tcagacttaa 360 aacgagcaca acaagagggc cacgatattc ccttctccac ttggtctgtg tggtcagcaa 420 ttaaaacagc actggagccc ttccacactg aggaggagga ggagaagttt caggatgaca 480 tagaaaagtt taataatcag gagtctgatg atcagcaaag tgaaccatca cagtctagtt 540 ttaaaaaggg ggagaaatgg gaagctatat atgctaacct ccaaaaactt atgaaagaaa 600 cagttccacc tactgcagaa acagtgccac ctactgcgcc tttaggggaa ggtccggaat 660 ggccaccccc acctcagcct tatgaatttt tggaayggga gcctgagacg cggcttgcca 720 ctcccattgt tgcacgcccc accattaact atggcaaagg gaagcttcag gcttgcccaa 780 cagccaatta cagtgaggga atgatccagg cttgtccacc tgttaattat ggtagaggaa 840 tgctgcaagc cagcccaaat acaaattatg gtgcagggac aatccaggca tccatttgcc 900 aggcacgaga aatgggggat ttggatgctt ggcagtttct ggtaattatt tctccagctg 960 aggagcccag agaacatgct caagcatgct gggagccatt tccttttaaa atattaaaag 1020 acttaaagca agcaattgga caatatgggc caaattctcc ttatgttcat tccttgttac 1080 aatctgtggc ttataaccgg catttaatac ctatggattg ggagtcatta gcccgatcca 1140 ccctgtcccc ctctcaattt ctccaattta aaacctggtg gacagatgaa gcaacaaatc 1200 aggcatgcag aaatgctcaa gcccaacctc ccattaatat cacatctgat caattgcttg 1260 gaatcggaca ggcatggggt actgtaaatc aacagatggt aatgggtgat gaggctgttg 1320 atcagctcag aactatatgc ctaagagcct gggaaaaaat tcatgaccct ggtactactt 1380 atccttcttt taactcagtt cgacagggtc caagggagcc ttatccagat tttatcgccc 1440 atttgcaaga cgcggctcaa aaggctattt tggattctca tgccaggaaa gtgatcattc 1500 agctgcttgc ttatgaaaat gctaatacag aatgtcaggc agcaattaga cctattaagg 1560 gaaaggcaga tctaaatgag gaaaaaactt taagtgaata cattaaagcc tgtgatggca 1620 ttggggggca cttatataag gccagcctcc ttgctcaggc aatggctgga ctaagggtaa 1680 caaaaaacac acgagtgttc cctggatctt gctataattg tggacagata ggacatacaa 1740 aaagagagtg tacaaagagc caaaaaaggc aaaactcagg aggaaaaagc agggaaccag 1800 gtacctttcc tagatgtaaa aaaggaaaac actgggctaa tcaatgtcat tcaaagtttg 1860 ataacagcgg acagcccttg ccgggaaacg gacagagggg ccagccccag gccctgattc 1920 aaaatggggc attcccaatt caggatggga catccctgac tccaaacgga gtgttcccag 1980 cccagtctat ccctgtacaa atgtacagca attgtccccc tccacagcta aaagtggggc 2040 agtagattta tgctgtacaa aagctgtatc cctccttcct ggggagcctc ctaggaaggt 2100 cccaatggga gtttacggcc cattgccaaa tggcacggtg ggacttatac tgggaaggtc 2160 cagcttaaac ttaaagggaa ttcaagtaca tactggagta gtggactctg attgccaggg 2220 agaaattcaa attgttatct cctccactgt tccctggagt gctaatccag gtgacagaat 2280 agctcaactg ttgcttttac catatgttaa gttaggagaa agctcagaaa aaagaacagg 2340 aggatttgga agcacaaatt cagcaggcaa ggctgcctat tgggtaaatc aagtctctga 2400 caatagacct atttgtatgg tcactattca aggaaaacaa tttgagggtc tggtcgacac 2460 aggagcagat gtgtcgatca tagctcttta tcaatggcca aaaaactggc ccaaacaaaa 2520 ggccccagtg ggtcttgttg gggtcagaac tgcttcagaa gttttccaaa gtacttttat 2580 cttaccatgt cttggtccag aagaacagga aggcacaata aaacctgtaa ttatacccat 2640 tcctgttaac ttatggggga gagatctgct tcagcaatgg ggcacagaaa tttcaatccc 2700 ttctccccgg tatggtcaag ctagtcaaaa aataatgtca aacatgggct atgttcccag 2760 aaaaggccta ggaaaacagg agacgggcat tattgaaccc atacaggtta ctgtaaaaaa 2820 tgaccgaaaa ggattaggtt accattttta ggggtggtca ctgttgagcc tccaagtcct 2880 attcccttaa aatggaagac ccaaaatcct gtttgggtca agcagtggcc actttctcag 2940 gaaaaattgg gggccttaca ggaattagtc aaagagcaat taaacaaagg aaacattgag 3000 cccacatttt ctccatggaa ttcgccagtg tttgtaataa agaaaaaatc cggcagatgg 3060 cgcatgctaa ccgacttacg agcggtcaat gcagtcatcc agccaatggg ggccctgcag 3120 ccagggcttc catcccccac catgattcct agagactggc cattaataat tatagatttg 3180 aaggattgct tttttaatat tcctctagca gagtctgatt ttgagaaatt tgcttttact 3240 attcctgcta tgaacaacaa ggaaccagca gccagatatc attggaaagt cctgccacag 3300 ggtatgttga atagtcctac tatttgtcaa acttttgtgg ggaaggctat tcaacctgtg 3360 agagatcagt ttccagattc gtatatcatt cattatatgg atgacatatt gtgtgcggcc 3420 gaaaatcgag accaacttat ccagtgttat tcatatttac aggaggtggt agccaatgct 3480 ggattgctca tagcaccaga taaaattcaa acggccactc ctttccaata tttgggaatg 3540 caggttcagg aaagggcaat taaaccccaa aaggttcaaa ttcgaaaaga ctctctgaaa 3600 actttaaatg attttcaaaa attattaggg gatatcaatt ggattcgacc tactttggga 3660 atccctacct atgctatgtc taatctgttc tctattttaa gaggagaccc tgctctcaat 3720 agtaaacgag aactgactcc tgaggctgac aaagaattac aaatgattga agaaaaaata 3780 caacaggccc aggttaatag aatagactca agtttaccat tacagttcat tgtgttccct 3840 actctccatt ctcctacagg ggttatagtt cagagtgagg acttagttga atggtctttt 3900 ctgcctcaca atactgttag aacactcaca gtatacttgg atcagatggc aatcttgatt 3960 gggcaagctc accttagagt tgttaaactt tgtggctcag atccagataa gattatagtt 4020 ccaatgaata aaaatcagat tcggcaagcc tttgttaatt tggtcaattg gcaaataaat 4080 ttagctggct tcattggagt tcttgacaat cactatccaa aaaacaattt ttttcagttt 4140 ttaaagctaa caacatgggt ccttccaaaa attacccatt gtgctccatt ggaaggagca 4200 gtgactgtgt ttacagatgg ctctagccat ggaaaagcag cttatgtggg acctaaaaac 4260 agaattattc aaactgactt tcaatcggca cagagggctg aattacaggc agttatagct 4320 gtgttagaag actttaagca acctgtaaat attgtctctg attcagctta tgttgttcaa 4380 gccactcaat acatagaaac tgcactcatt aaatatcttg tggatgaaca actctatcag 4440 ctgttttctt ctttacaaaa ggcagtgcgt gatcactatt ttcctttcta tatcatgcac 4500 attcgagcat atactaatct ccctgggacc gttgtaaggg ctaacgatca agctgattta 4560 ctagtttcca ctgtgcttac taatgcccaa gattttcact ccctaacaca tgttaatgca 4620 gcaggactta aacaaaaata tcaaattact tggagacagg caaaggacat tgtgcaacat 4680 tgccctcagt gccaggtact acaactgcca catgaaggga ctggtgttaa cccatgggga 4740 ttaaccccca atatgttgtg gcaaatggac gtaacccatg taccttcatt cgggaaactt 4800 tcatacgtcc atgttactat agataccttt tctcattttg tatgggcaac ttgccaaaca 4860 ggtgaggcag ctgctcatat taaaagacat ttactttcct gtttcgctgc catgggcatc 4920 ccacaaaaga ttaaaacaga caatggccca ggctactgta gtaaatcttt acaagcgttc 4980 cttcaacaat ggcacattga gcacagtact ggaataccct ataattctca aggccaagcc 5040 attgttgaac aggctaatcg aaccttaaaa tctcaattac aaaaacaaaa gacagaaggg 5100 gggaaccaga gaatactcta ctccccatat gcagctacaa ttggctctta ttatcacttt 5160 aaattttttg aatttgtcta gagatcaggt tacaacggca gcagagcagc atttgacagg 5220 gcaaaaaata aatcctcatg aaggaaaaca tgtgtggtgg aaggacgtca gaaccaaaac 5280 ctgggaaaag ggcaaaatca ttacatgggg tcgagggttt gcttgtatct caccaggaga 5340 gaatcagctt cctgtctggg tacccacaag acatcttaag ctgtgccatg agccagaatc 5400 caaggaagag gaaaagacct cggaacgtcc ctgcaccccc agttcatcag atggctcaga 5460 tgaacatctc tgttgagcag atggaaacca gtaaaactca ccaagcaact ccaccgacct 5520 gggggcagat gaagagacta gctcacattg cagaagagaa cctgaggtct cagaacaagc 5580 tgctgaccac cagtaatcta atggtagcta tgatggtggt aatctccttg gtggtgagtc 5640 tccccgtagc tgaggcagat caaaattaca cttattgggc ctacattcca ttcccaccac 5700 tgattaggcc tgttacatgg ttagaccccc cagtggaggt ttatgttaat gatagtgtct 5760 ggatgcctgg accaacagat aaccgaggtc ctactcatcc agaggaggaa ggaatgttaa 5820 tgaatgtttc cattggttat cgctttcctc ccatctgcct ggggccagca gcaggatgtt 5880 taaattatga taaacaaagt tggatggttt atgtccctgc acataatgga tcaaaagcct 5940 ctattcatgc aatcagtgga agaacatttc aatctttgga cactattaaa taccttgagc 6000 atggctatgt tatgacacat cgccagatta ataaatttaa acctaataag aagccctgcc 6060 ctaggcaggc cactaaatgg tctgaaaagc tagaggtgct aacctgggaa gattgtattg 6120 caaacagcgc tgctgtactg caaaataatt cctatggaat catcattgat tgggccccta 6180 ggggacactt tgcagtaaat tgtactggac agagcaaaga ttgtagagag actccttttg 6240 caaatgacta cccagataat gcaccaaaat tatatagaag aattgaaaca aattacccta 6300 ttaagtggga ggagaatggt atggctcctc caagcccaaa aatgattgat ccaattataa 6360 gtccagaaca tccagaattg tggaaattaa tgatggctca aaccccaatt cggatttgga 6420 aaggagaata taaaacagag acccatagta aaaaacttcg atttgttgta gccatgacct 6480 ctaatcagac ggtcccattg cagagttgtg ttaaacctcc ttttatgttg gcagtgggaa 6540 aaattaatat cctacctgac tctcaaacca tatcatgcct caactgtcat ctttttacct 6600 gcattaattc tacctttaat aaagataata gcattttact ggttagggcc cgagaaggag 6660 tttggatacc tgtttccctc aatagacctt gggaggcctc tccctccata catattatca 6720 ctgaagtact aaaaggaata cttaatagat caaagagatt catatttact ttaatagctg 6780 tgatcatggg ccttatagct gtcacagcta ctgctgctgc tgctggtgtt gctttgcact 6840 cttctattca aactgcgggc tttgtggata gttggcagaa aaattcttct aagctttgga 6900 attcccaaag ccaaatagat caaaaattgg caaatcaaat taatgatctc cgtcaaacag 6960 taatttggat gggagatcgg attatgagct tggagcatag aattcaaatg caatgtgatt 7020 ggaatacttc tgatttttgt attactccta gctcttataa tgccactgaa caccattggg 7080 agatgattag acatcaccta caaggaaaag aagataattt aacattagat attgctaaac 7140 tgaaaaaaca actttttgag gcatctcagg ctcatctcac cctgttgcct ggagctgata 7200 ttcttgctgg agccactgat ggcctttcta ataccaatcc tttaaagtgg attaaaacca 7260 taggtggatc aacaattgca aattttattt tggtttgtgt ctgtttatgc tgtttgtttt 7320 tagtctacag atgcagacgg caccttggga gagaagccag acaccgtgaa cgagccatga 7380 tagcaatggc ggttattaat aaaaaaaaat taatagagac aaaaaagggg gaca 7434 // ID MADE1 repbase; DNA; HUM; 80 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human mariner derived element 1 - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MADE1; Mrs. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RA Morgan T.G.; RT "Identification in the Human Genome of Mobile Elements Spread by RT DNA-mediated Transposition."; RL J.Mol.Biol. 254, (1995). XX DR [1] (Consensus) XX CC Resembles internal deletion product of Mariner1 CC 37 bp terminal inverted repeats, TA target site. XX SQ Sequence 80 BP; 24 A; 15 C; 14 G; 26 T; 1 other; ttaggttggt gcaaaagtaa ttgcggtttt tgccattact ttyaatggca aaaaccgcaa 60 ttacttttgc accaacctaa 80 // ID HERVE repbase; DNA; HUM; 7813 BP. XX AC K02168; K02169; M10976; XX DT 11-NOV-1996 (Rel. 1.1, Created) DT 27-JAN-1997 (Rel. 2, Last updated, Version 2) XX DE Human endogenous retrovirus; family HERV-E; internal part. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVE; LTR2; KW env; gag; internal part; pol. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-518 RA Steele E.P., Rabson B.A., Bryan M.T. and Martin A.M.; RT "Distinctive termini characterize two families of human RT endogenous retroviral sequences."; RL Science 225(4665), 943-947 (1984). XX RN [2] RP 1-7813 RA Repaske R., Steele E.P., O'Neill R.R., Rabson B.A. RA and Martin A.M.; RT "Nucleotide sequence of a full-length human endogenous retroviral RT segment."; RL J. Virol 54(3), 764-772 (1985). XX DR GenBank; M10976; Positions 496 8308. XX CC Collinearity of deduced amino acids of HERV-E, C-type human CC retrovirus, CC with Moloney murine leukemia virus (MoMuLV) in the gag and pol CC regions CC is clearly evident. Overall amino acid similarity in these CC regions CC is about 40%. CC Some unique characteristics of the endogenous human retroviral CC DNA CC included a tRNA Glu primer binding site separated from the 5' LTR CC by a CC pentanucleotide and a putative env sequence which does not appear CC to CC overlap the C terminus of pol and has virtually no homology with CC the CC env gene of known infectious retroviruses. CC 495 bp LTR of HERV-E is listed in REPBASE as LTR2. CC CDS 571..2094 CC /note="pseudo-gag cds" CC CDS 2095..5655 CC /note="pseudo-pol cds" CC CDS 5678..7750 CC /note="pseudo-env cds" CC /pseudo CC /codon_start=1. XX SQ Sequence 7813 BP; 2256 A; 1723 C; 1921 G; 1913 T; 0 other; tttcttggtt ccctggccag gaagcaaggt aattgaagga cagtcgaggc agccccttag 60 gtggcttagg cctgccctgt ggagcatccc tgcaggggac tctggccagc ttgagtgacg 120 cggatcctga gagcgctccc aggtaggcaa ttaccccggt ggaaagcctc gtcagagagt 180 gcgtggcagg cccctgtgga ggatcaatgc agtggctgaa cactgggaag gaacaggcac 240 ttggagtcca gacatttgaa acttggtaag actggtcttc ggaacttgcc cactccattt 300 gagtggaagc gtggcctgat caaccacggc atgcctgtac tggcactttg gtttttgttt 360 ttgacttgac ttgaattgct tgatactttg gttttggttt gacctggctt ggatttctgg 420 atactctgat tttggttttg attctggttt ggtgaaaact gaaaaagtgt gtgtgtgcac 480 tttttaccca ttctttgttt tgtggtgtgc atgtggtgtg agcttggtgt tttgtcttga 540 ggaaacatgg atcagacaca aaataagcct actcctctag gaactatgtt gaaaaatttt 600 aagaagggat ttaatggaga ctatggggtt actatgacac cagggaaact tagaactttg 660 tgtgaaatag attggccaac attagaagtg ggttggccat cagaagggag cctggacggg 720 tcccttgttt ctaaggtatg gcacaaggta actagtaagt caggacactc agaccagttt 780 ccatacatag acacttggtt acagctggtg ctagaccccc cacagtggct aagagggcag 840 gcagcagcag tgctagtagc aaagggacag atagtcaagg aaggattctg ctccacccgc 900 tgagggaaat caactcctga agttctgttc gaccaaacat cagaagatcc attgcaggag 960 atggcaccag tgatcccagt gttgccctcc ccttatcagg gagagaggct ccccactttt 1020 gagtccacag tgcttgcgcc tctgccagac aaatgtatcc ctaggccact cagagtagac 1080 aagagaggag gtgaagcctc gggagaaacc cctcccttgg cagctcattt aagacccaaa 1140 acagggatac aaatgcccct gagagagcag cagtatactg gaatagatga ggatgggcac 1200 atggtggaga gtcgtgtttt tgtgtaccag cccttcacct ctgccgacct tctcaactgg 1260 aaaaacaata ccccgtccta tactgaaaag ccgcaagctc taattgattt gctccaaact 1320 attatccaga cccataaccc cacttgggct gattgccacc agttgctcat gttcctcttt 1380 aaaacagatg aaaggtgaag ggtgcttcaa gcagcaacta agtggctaga ggaacatgca 1440 ctggctgatt accaaaaccc ccaagagtat gtaaggacac agttaccagg aaccgacccc 1500 cagtgggacc caaattaaag agaggatatg caaaggctaa accgatacag gaaagctctc 1560 ttagaaggtt taaagaggag agcccagaag gccacaaaca ttaacaaggt ctctgaggtc 1620 attcagggaa aagaagaaag tccagcaaaa ttccacgaga gactgtgtga ggcttattgt 1680 atgtatactc cctttgatcc cgatagccct gaaaatcaac gcatgattaa catggcttta 1740 gttagtcaaa gcacagaaga cattagaaga aaactgcaga aaaaggctgg gtttgcaggg 1800 atgaacacat cacagttatt agaaatagcc aaccaggtgt ttgtaaacag ggatgcagca 1860 agccgtaagg aaaccacata gagaatgaac gtcaggcccg gcgaaacgcg cctgttagct 1920 gcagcaatta gaggggtccc cccaaaagag gcaaggcaaa aggggggccc tgggaaagaa 1980 actcagcctg gctgtcagag cttgcagtgt aatcagtgtg cttatcgtaa agaaatagga 2040 tattggaaga acaaatgccc tcagctaaaa ggaaaacaag gtgactcgga gcaggaggct 2100 ccagacaagg aggaaggggc cctgctcaac ctagcagaag ggttattgga ctgaggggga 2160 ctgggctcaa ggacctccaa agagcctatg gtcaggatga cagttggggg taaagacatt 2220 gattttcttg tagataccag tgctgaacat tcggtagtaa ctgcctcagt cgccccctta 2280 tccaaaaaga ctattgacat catcggagcc atgggagttt cagcaaaaca agctttctgc 2340 ttgccccaga cttgtactat aggaggacat aaagtgattc atcagttttt gtacatgcct 2400 gattgtccct tgcccttgtt gggaagagac ttgcttagca aactgagagc cactatctct 2460 tttacagagc acggctcttt gctgctaaag ttacccggaa caggagtcat tatgaccctt 2520 atgctccccc gagaggagga atggagactt ttcttaactg agccgggcca agagataaga 2580 ccagctctgg ctaagcggtg gccaagagtg tgggcggaag cgaaccctcc agggttggca 2640 gtcaaccaag cccccgtgct tatagaagtt aagcctgggg tccagccggt taggcaaaaa 2700 cagtacccgg tcctcagaga agctcttgaa ggtatccagg tccatctcaa gtgcctaaga 2760 acctttagaa ttatagttcc ttgtcagtct ccatggaaca ctcccctcct gcctgttccc 2820 aagcctggga ccaaggacta caggccggta caggatttgc gcttggttaa tcaggctaca 2880 gtgactttac atccaacagt acctaacctg tacacattgc tggggttgct gccagctgag 2940 gacagctggt tcacctgctt ggacctgaaa gatgctttct ttagcatcag attagcccct 3000 gagagacaga agctgtttgc ctttcagtgg gaagatccag agtcaggtgt cactactcaa 3060 tacacttgga cccagcttcc ccaaaggttc aagaactccc ccaccatctt tggggaggcg 3120 ttggctcgag acctccagaa gtttcccacc agagacctag gctgcgtgtt gctccagtac 3180 gttgatgacc ttttgctggg acaccccacg gcagtcgggt ggccaaggga acagatgctc 3240 tactccggca cctggaggac tgtgggtata aggtgtccaa gaaaaaaagc tcagatctgc 3300 cgacagcagg tatgttactt gggatttact atccaacagg gggagcacag cctaggatca 3360 gaaagaaagc aggtcatttg taatctaccg gagcctaaga ccagaaggca ggtgagagaa 3420 ttcttagggg ctgtgggttt ttgcagactg tggatcccaa actttgcagt attagctaag 3480 cctttgtatg aggtcacaaa ggcgggggac caggaacctt ttgaatgggg atcccagcaa 3540 cagcaagcct ttcatgagtt aaaggaaaga cttatgtcag tcccagccct ggggctacct 3600 gatctgacaa agccttttac attgtatgtg tcagagagtg aaaagatggc agttggagtt 3660 ttaacccaaa ctgtggggcc ctggccgagg ccggtgacct acctctctaa acaactagac 3720 ggggtttcta aaggatggcc cccgtgtttg agggccttgg cagcaactgc cctgctagta 3780 caagaagcag ataagctgat tcttgggcaa aacctgaaca taaaggaccc ccatgctgtg 3840 gtgactttaa tgaatactag aggacatcat tggctaacga atgctagact tactaagtac 3900 caaagtttgc tttgtgaaaa tccccatata accattgaag tttgtaacac cctgaacccc 3960 gctaccttgc tcccagtatt agagatccct gtcgagcatg actgtgtaga agtgttggac 4020 tcagtttact ctgggcatca gtagactggg aactatacgt ggatgggagc agctttgtca 4080 acccacaaga agagagatgt gcagggtatg cggtggtaac tctggacact gttgctgaag 4140 ccagatcgtt tccccagggc acttcaactc agaaagctga actcattgct ttaattcggg 4200 ccttagaact cagtgaaggt aagactgtaa acatttacac tgactcttga tatgtctttt 4260 taacccttca agtgcatgga gcattatgta aagaaaaggg cctattgaac tctgggggaa 4320 aagacataaa atatcaacaa gaaatcttgc aattattaga agcagtatgg aaaccccaca 4380 aggtggctgt tatacattgc ggaggacacc agtgagcttc caccttggtg ggtttgggga 4440 attcctgcac tgacttagag gctcaaaaag cagcatctgc ccttccgggc atcagtgaca 4500 gcccccctgc tccctcaagc acctgatctt gtacctactt attctaaaga agaaaaggac 4560 tttctccagg cagagggagg acaagtgatg gaggaaggat ggatttggtt accagatggg 4620 agagtagctg tgccacagct gctaggagct gcagttgtac tggctgtgca taaaaccacc 4680 catctaggtc aggaatcact tgaaaagttg ttaggctggt atttctacat ctcgcatttg 4740 tcagcccttg ccaaaacagt gacgcagcgg tgtgttacct gccgacagca taatgcgaga 4800 caaggtccag ctgttccccc tggcatacaa gcttatggag cagccccctt tgaagatctc 4860 caggtggact tcacagagat gccaaagtgt ggaggtaaca agtatttact agttcttgtg 4920 tgtacctact ctgggcaggt ggaggcttat ccaacacgaa ctgagaaagc tcatgaagta 4980 actcgtgtgc ttcttcgaga tcttattcct agatttggac tgcccttacg gattggctca 5040 gataatgggc tggtgtttgt ggctgacttg gtacagaaga cggcaaaggt attggggatc 5100 acatggaaac tgcatgctgc ctaccagcct cagagttccg gaaaggtaga gcggatgaat 5160 cggactatca aaaatagttt agggaaagta tgtcaagaaa caggattaaa atggatacag 5220 gctcttccta tggtattatt taaaattaga tgtacccctt ctaaaagaac aggatattcc 5280 ccttatgaaa tattatatca taggccccct cctatattgc ggggacttcc aggcactccc 5340 cgagagttag gtgaaattga gttacagcga tagctacagg cttcaggaaa aattacacaa 5400 acaatctcgg cctgggtaaa tgagagatgc cctgttaact tattctcccc agttcaccct 5460 ttctccccag gtgatctagt gtggatcaag gactgaaacg tagcctgttt gtgtccacgg 5520 tggaaaggac cccagactgt catcctgagc actcccaccg ctgtgaaggt agagggaatc 5580 ccaacctgga tccaccacag ccgtgtaaaa cctgcagtgc ctgaaacctg ggaggcaaga 5640 ccaagcccag aaaacccctg cagagtgacc ccgaagaaga caacaagccc tgctccagtc 5700 acacccggaa gctgactggt ccacgcacgg ccgaagcatg cagaagctca tcatgggatt 5760 catttttctt aaattttgga cttatacagt aagggcttca actgatctta ctcaaactgg 5820 ggactgttcc cagtgtattc atcaggtcac cgaggtagga cagcaaatta aaacaatgtt 5880 tctgttctat agttattata aatgtatagg aacattaaaa gaaacttgtt tgtataatgc 5940 tactcagtac aatgtatgta gcccaggaaa tgaccgacct gatgtgtgtt ataacccatc 6000 tgagcctcct gcaaccacca tttttgaaat aagaataaga actggccttt tcctaggtga 6060 tacaagtaaa ataataacta gaacagaaga aaaagaaatc cccaaacaaa taactttaag 6120 atttgatgct tgtgcagcca ttaatagtaa aaagctagga ataggatgtg attctcttaa 6180 ctgggaaagg agctacagaa taaaaaataa atatgtttgt catgagtcag gggtttgtga 6240 aaattgtgcc tattggccat gtgttatttg ggctacttgg aaaaagaaca aaaaggaccc 6300 ggtttatctt cagaaggggg aagccaaccc ctcctgtgct gctggtcact gtaacccact 6360 agaactaata attaccaatc ccctagatcc ccattggaaa aagggagaac gtgtaaccct 6420 ggggattgat gggacagggt taaaccccca agttgccatt ttaattagag gggaggtcca 6480 caagtgctct cccaaaccag tatttcaaac cttttataag gagctgaatc tgccagcacc 6540 agaatttcca aaaaagacaa aaaatttgtt tctccaatta gcagaaaatg tagctcattc 6600 ccttaatgtt acttcttgtt atgtatgcgg gggaaccact atcggagacc gatggccttg 6660 ggaagcccga gagttggtgc ctactgatcc agctcctgat ataattccag ttcagaaaac 6720 ccaagctagc aacttctggg tcctaaaaac ctcaattatt ggacaatact gtatagctag 6780 agaagggaaa gactttatca tccctgtagg aaagcttaat tgtataggac agaagttgta 6840 taacagtaca acaaagacaa ttacttggtg gggcataaac cacactgaaa agaatccatt 6900 tagtaaattt tcaaaattaa aaactgcttg ggctcatcca gaatctcatc aggactggat 6960 ggctcccgct ggactatact ggatatgtgg gcacagagcc tacattcggt tacctaataa 7020 ataggcaggc agttgtgtta ttggcactat taagtcgtcc tttttcttat tacccataaa 7080 aacaggtgag accctaggtt tccctgtcta tgcctcccga gaaaagagag gcatagttat 7140 aggaaactgg aaagataatg agtggcgccc tgaaaggatc atacagtatt atgggcctgc 7200 cacatgggca caagacggct catggggata ccgaaccccc atttacatgc tcaatcggat 7260 catacggttg caggccatct tagaaataat tactaatgaa actggcagag ctttgactgt 7320 tttagctcgg caggaaaccc aaacgaggaa tgctatctat cagaatagac tggccttgga 7380 ctacttgcta gcagctgaag gaggagtttg tggaaaattt aacttaacca attactgcct 7440 acaaatagat gatcaaggac aggtggttga aaacatagtc agggacatgg caaaggtggc 7500 acatgtgcct gtacaggttt ggcacaagtt taatcctgag tctttatttg gaaaatggtt 7560 tccagctata ggaggattta aaaccctcat tgtaggtgta ttgctagtga taggaacttg 7620 cttgctgctc ccctgtgtat tacccttgct ttttcaaatg ataaaatatt ttgttgttac 7680 tttagttcat cagaaaactt cagcacatgt gtattataca aatcactatc gctctatctc 7740 acaaagagac taaaaaagtg aggacgagag taagaactcc cactaaaagt gaaaattctc 7800 aaaggggggg aaa 7813 // ID PRIMAX_I repbase; DNA; HUM; 4102 BP. XX AC . XX DT 30-MAR-2001 (Rel. 6.02, Created) DT 30-MAR-2001 (Rel. 6.02, Last updated, Version 1) XX DE Internal part of the PRIMAX endogenous retrovirus - a partial DE consensus. XX KW Endogenous Retrovirus; Transposable Element; Class I; KW MER4I-group protease; PRIMA4_I; PRIMAX_I; RNaseH; KW leukemia retrovirus; reverse transcriptase. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-4102 RA Kapitonov V.V. and Jurka J.; RT "PRIMAX_I."; RL Direct Submission to Repbase Update (MAR-2001). XX DR [1] (Consensus) XX CC PRIMAX_I is an internal part of the PRIMAX endogenous retrovirus. CC PRIMAX is related to the Class I retroviruses, including leukemia CC viruses. There is 68% identity between PRIMAX_I and PRIMA4_I. XX SQ Sequence 4102 BP; 1335 A; 793 C; 637 G; 1131 T; 206 other; aaaaggctgc yraakcttct yctccyycag aagcttmtcc ttswcctkcm tytccttyct 60 ctttaacytt ctttkccttc ttyctyctcc tyykrcccyt gctgttctgg ctyyrttyws 120 yawrcagyca gtgtctggwa rgrraramcc tgcctyagyt trwyaaccat grtcaaagry 180 agaacttaaa rrcataatta aggaamtkyy kgacyccatc aggacyctac tggytttgkc 240 rggartttra aytamatatt yrarcttatg acyytggttt tcygattkat atmaaytagt 300 tcacatrtta gttkyrgaaa gtaaggctra agattrgmtw grtaaarsyc rytggagaaa 360 yccmctagag ratttcyawm amtgttcasw asraggyyrm aggaatgcct gtgaaactgy 420 aargrytctg cwtgcagsca ttcctttmrt cwtmcaaaag gtartsrryt gwaataaaat 480 acamyaatgt ynmaaanncn ratragtcag taatgkcwkr ctttgaaaga tttgaaaara 540 ytyttagmca mtaktcaggc ktatytgagg saarttatry taatcatcaa aayartaytc 600 tcaactccaa ctttataaat gggctavata aagaattagc actaatagta aagagacaat 660 gccctagttg ggccahttct caaactcatg atttggttaa tcttgctgac crgtygtykt 720 gtactttaac taaagaanaa aaaaachtaa attatccacc cagtntagac agncaaaata 780 tcccaataaa cctctgaaca gatctaacct tccaahtgca attactgcaa aaaaanactg 840 gccactttnn ntaaaaaaag atgctgaaaa ctaaaacaga aggaataaca acagyraagg 900 aggaaaatag gggtgctcca agaaacttaa agggabcttt ccttttctbc ttactaacac 960 tctggvagaa atagaaatta ttttaaatgg agaacaathc caagccctca ttgacactng 1020 agcaacdtta tctgtaataa atccacctta ttacaaggtc ccattctttn ndgtaaacac 1080 ttggtccaaa tggtgggtgt cacaaatact cctatatcag catacaagtc tcancctgta 1140 acttttcaac taggtctctt acaagggaat tcatgttttc cttttggttc catcagcccc 1200 catccatctg ataggaagag actncttagc ttagatctat acaataccca tatttctttc 1260 tcccanaagg ggaaatgtat ttagaattag atgcyataga tgatanaaca raattaacag 1320 acanangcaa atttttmaaa atctaakcca attgctatcc atnttnccat tgagaggana 1380 ctgaattatt aagnaatgaa gaattacaaa accttaacta aaggtagtac ttnatcaatt 1440 atggtcaaag tcctncactn atatagraac tattttttya gctactccaa taaaaattca 1500 aatagactca tcaaaacctc ttccaaatat caaacaatat cccttgagaa ctgaagcctt 1560 ngaaggaata aaacctataa ttttagatta tataaaaaga ggactgatca ttcyctgtac 1620 aagcccwtgt aatacwccaa ttctnccggt aagaaaacca aatggtagag gatggaggtt 1680 tgtacaggat ytgagagcaa ttaacaacat agtcattcct cascatccag tagtgccaaa 1740 tccycataca ttgttcrctg ctattccatc taatgsagaa ttyttttctt tactgtcata 1800 gatttatgta gtgcattctt tagcattcct atagataaaa acagtcaatt tctctttgcc 1860 ttcacttggg aagacagaca atacacttgg acagtcatgc ctcagggata cactgagagc 1920 ccaacttact tttcacaaat attaaaaaca gacctcctca gatgttgact tccttgagaa 1980 atccatctta atacaataca tagataattt acttctctgc tcagaggata aacaagcttc 2040 catagaagat gggattcact tgttacaaca attggcccta aagggacata aggtttctaa 2100 agaaaaactt caattttgtc aaaaacaagt aaagtactta ggtcacctaa tatccaagga 2160 aggacttttt attaatccag atagattaaa aggaatttta gcttttctgc caccgagaac 2220 caagaaacag ttaagagggt tttggggact ggcaggatat tgtagaaatt ggattccaaa 2280 cttttcttta aaagctcagc ccttatatgc tctcttaaaa caagacatgc cagaccctct 2340 agattggaca gaagaaaatc agctaacatt agaaatgatc aaaaatgacc ttgtaaatac 2400 cccagctttg gggcatccaa attataacat tccattttca ttatttgtac atgaaagtgg 2460 tggaaacgct tttaggggtc ctaactcaaa aacagagatc aaaatagacc tatagggtat 2520 tatagccaac aattagaccc tgtggctaga ggattgccac cttgtatgag agccataaca 2580 gccactgctc tgttagttaa ggcaactgaa gaaattgtga tgggaacacc ccttactgtc 2640 ttcgtccctc attctgtgga agcattgcta aattcacacc atactcaaca ttattcagtt 2700 agcagactgg cttcatatga agttttgctt ctttcagctt ctcatatcac catctctagg 2760 tgtaacgatc taaatcctgc aactcttctg cctttacttt cagatgaaat gccgcacgat 2820 tgcataacct taactgatca acttctctct cctaggacag acctacaaga gactcccctt 2880 actaacgctg atgttgtttg gtttacagat ggatcttact taaaggatga atctggaatc 2940 taccgtgcag gctacgctat agtatcttta actgaagaaa tagaaagtgc ttatcttcca 3000 gaagccacct cagctcaaca agcagaatta atagcattaa ttagggcctg tcaattggca 3060 aaaggaataa ctgctaatat ttatacagac agtagatatg cttttggagt agctcatgat 3120 tttgaaatgc tatggaaaca aagagggttc ttaacctctt ctggtcaatc cataaaaaat 3180 ggacatctta tttcacaatt attagaagcc atattattac caaaatcact ggccattatt 3240 aaaattccag gtcattccaa atcagatact ccagaaagca aaggaaatca gctagctgat 3300 aaagtagcaa aaagagctgc tctaaacgca tctaaacaag aaaaacaacc tatattaact 3360 tttaaggaaa cacctgaatt tgacataaaa ttagctcaat ccagagctcc aaaatcagaa 3420 caaaaaagtt gggaaacaaa agggggaata tactccccca aagatgaggt atggtatggg 3480 ccaaacgayt tgcccatact ttctgctgaa ttacagtcat cattttaacc tatgtacgtg 3540 atctaactca ctggagtcct gacaaaatgg ttgcttgggg aaaacaatat tattggaaac 3600 tttctctgac tatagctcat aaggtataca atcgctgtca tatttgccca aaatataatc 3660 caggaaaacc attacatagt tcccaaggac actttccttt acccgaggcc ccctttgaag 3720 tatggcaatt agattttatc cagctgccac chtcacaagg atacaaatat gttctggtaa 3780 tgatttgcat gttttctcat tgggtagaag cattttccat gcagaagagc aacggcctta 3840 gtagtaagta aaattctctt agaaaaaaat tattccaacc tggggagttc ctctggaact 3900 tcatagcaac agaggcactc acttcactgg acarataatt caatcagtat gtaaaatytg 3960 gcccattctt caacatttcc attgtgctta tcacccccag tcatctgggt tagtggaatg 4020 cacaaatgga ataatcaaaa ctcarttggc aaaattaacc aaggctttta aaattccttg 4080 gccaaaagct cttccattgg tt 4102 // ID LTR10D repbase; DNA; HUM; 513 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 02-DEC-1997 (Rel. 2.11, Last updated, Version 1) XX DE LTR from endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR10D; KW Long terminal repeat related to the HERV-I endogenous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-513 RA Kapitonov V.V. and Jurka J.; RT "LTR10D."; RL Direct Submission to Repbase Update (NOV-1997). XX DR [1] (Consensus) XX CC LTR10D sequences are ~90% similar to their consensus sequence. CC Bases 281-490 of LTR10D consensus sequence are 72% similar to CC bases CC 320-543 of LTR10A and to bases 271-459 of LTR10B. CC Bases 167-489 are 66% similar to bases 238-563 of LTR10C. CC Internal retroviral sequence has been found [1] in sequence CC AC003100 (position 71972-79993). XX SQ Sequence 513 BP; 124 A; 131 C; 87 G; 168 T; 3 other; tgtgggatat gatgaggttt ctcttcaaat aacctgatca atcttttatt ctttaattca 60 tagtaccccc ctccctyctt ttttcytttt tctccttttt tcctttttgc ctttgttaga 120 tgcccaggca cgccacagta ccaggcgtta tcaataccag ctcacattcc tttccttatt 180 tggaaaaaag actaactttc tagctcatta cagacacccc ttcccctttc ctctccgctt 240 tcttttacgt gcccacctta tctaaaaaaa aatcaaatgt ttagccaacc gggattagtt 300 tagattgtat gacccaaccc cagccaatgg ggaaagggta caagggcagg acttgcatca 360 raaataaagg ctctcgtgcc cctttgttca ggtgtgctct catggcgact ggccaaggag 420 aagcacccct ctgcgcagaa gtaaaattgc tttgctaaga atcctttgtt cgagtgttca 480 atttccttag gattttgagc gttattccta aca 513 // ID PRIMA41 repbase; DNA; HUM; 7756 BP. XX AC . XX DT 25-MAY-1999 (Rel. 4.04, Created) DT 25-MAY-1999 (Rel. 4.04, Last updated, Version 2) XX DE Internal part of an endogenous retrovirus flanked by MER41C LTRs DE - a consensus. XX KW Endogenous Retrovirus; Transposable Element; MER41C; MER4I-group; KW PRIMA41. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7756 RA Kapitonov V.V. and Jurka J.; RT "PRIMA41."; RL Direct Submission to Repbase Update (MAY-1999). XX DR [1] (Consensus) XX CC PRIMA41 is an endogenous retrovirus flanked by MER41C CC and MER41C/B LTRs and it codes for gag, pol and env. CC It lost main part of its internal coding sequence CC during formation of MER41A LTRs. The lost part has CC been replaced by non-coding sequences common for CC MER4-group. PRIMA41 is related to leukemia viruses. XX SQ Sequence 7756 BP; 2187 A; 1656 C; 1705 G; 2203 T; 5 other; tctttctggc gaaccacgga agggacgata ctgaagaaac cccccgaacc caaaggaaat 60 agactgcagc actgattgga cgactttggg taagtggtgg gggtatattc tatacccggg 120 taaagaatgg gattgggtta gaggcccaac ttaggggagt tagagtctct cctaagacag 180 agtgggttag aggcccctct taataaaagg caaggacgct tgaccgacct tgggttagag 240 gcccaactta ggagggttag agtcccttct aagatttagg gggttagagg cccctctcgg 300 taaagtccct ctcggctaaa aatgggtttg gcactgcagg atgtttatcg ctatgctctt 360 tggattaatt tgccttgtcc tccttgctkc mtgaatcaat ttcttggttg ctgtctctgt 420 ttcactgtca ttttcaggag actttattta actggtctta gggattttaa cttactcttt 480 tcctatgtgc ctcctgattt ccgtctgtct gcttgtgaaa cattgggaac aaaaagcatt 540 gaaggctctg tctctaaaat tgctgattga gatttggtat ttaacagcta tgagcaataa 600 aattagacag atgtggttat gttttgttgc cgctatgccg actaggtgtg atcgagaagc 660 actaggatgg aaatcagggg acttttctcc ttgctgtttt gtttcatttt gcacactaaa 720 aaaacttctt tcctttcttg gattcaggca aaccggcttt gcttgttcaa tccacactgc 780 cgctattgcc cagaacctgc ttgctctggt cattcccatc taaatcctct tcatttcctt 840 tgccttattt gacatttttg tcaaagtcca tgttgtggtt tatctaagat tcatggctcg 900 gctcacttat gttatttgga taatgtgaat aagggaattc aattttcagc aggttttccg 960 tcataatgca gcgtgcctta agaactgtct cctttttgat ggaacttggc caatggcaat 1020 acagtctcac gggtttggaa gttttctttc aacgtcatct gcctccttta tggggaatac 1080 agcatggatc ccagaggact caccactagg atgtattctt gaacattggg acaagtttaa 1140 accaaatgga cttaagaaaa gaaagttggt ggtttcatat aatactgtct ggcctcaaat 1200 tactatactt ggaaaaataa gaaaaatggt caactaccag aactatggcc tttaatacta 1260 tacttccact tgatttgttt tgtaagtgtg agggcaaatg ggataaaacc aatacgttca 1320 agcattttta ttgcccagtc aaaataaaac tctgcaatag gtatgtgcat gtttgatgag 1380 aggaaaggaa ggaaaataag aaaaagaact agacatacta gatgatcctt taatgcaagc 1440 ccccctcccc gcccccgcca accttggttc agcaggcagt tttgggtgga gcagaacctc 1500 cttctgtcag ctctgatggt tcagatgtgt tggcctcttc ttctagcccc tctgaaagtt 1560 ctgttgagaa ccctttgtcc cctcctcctt acccgtctag tcccactcta tacccaccac 1620 tccctgagga acttagccca gtgagtacta ctcgtagtgg agcctcctat caacttccaa 1680 agggaaatct ttgtccactt agagaggtgg caaatgggga agaaggcact gtgagagtac 1740 atgttccctt ttctatgtct gatttgactc tatgtaaaga gaagtttggt catttctctg 1800 aagatccagg aaaattcata gatgagtttg agaaattaac tctgacctat aatttaactt 1860 ggcaggatct gcatgttttg ttgtctctgt gttgtacagt ggaagagaaa caatacattt 1920 tggggacagc taggacccat gcagatgagg tattggctcg taacccgaac cataatatat 1980 atcaggcagg aggtatagca gttccagatc aagatccaga gtggaactat caaaggggca 2040 gtgaggactt ggggaggaga gatcatatgg tcacttgttt gttggaaggg atgaagaaat 2100 gtatgaaaaa gcctgttaac tatgaaaagg ttaaggaagt ttctcagggc aaagatgaga 2160 atccagcttt gtttcaaggg catttagttg aggcaatcag gaaatatact aacactgatc 2220 ctgcctcaag ggaaggacaa acccttttgg gagtacattt tataacccag tctgcccctg 2280 atatccatag gaaactacaa aaagcagcta tgggtcccca aactcctatg gaacagcttt 2340 tggatatggc atttttagtt tttaataaca aggacaaagc agaggaagca gaaagagcaa 2400 gaaggacctc ccacaaggtg cagctcttgg ctgcagcctt aagctcacct cccacatggg 2460 gttgccctcc tggctcttgg cctgaacaag ggaagctgaa aggtgggaag cccaaagctg 2520 ggcgtccgag tcaccgtgcc ttgggcacga atcagtgtgc acactgtaag aaaactggcc 2580 attggaagag ggatttccca gtgttctgaa gggagccatc ggcacctgaa ccaatgatgg 2640 ccgaaatagc caggcaagcc caagagtgat ggggcctcag accttccacc acagctccca 2700 tcggacaact agccatatct ccggagaagc ctcgggtaac ccttgacgtg gcaggtaaga 2760 atattaactt ccttctggat acaagggctg cttactctgt tttgacccat tataatggga 2820 ctctgtcacc ccaaaactgt atggtcatgg ggatagatgg acaagctcat agatgccatt 2880 ttacctatcc tttaagctgc tcttcaggga ctttggtttt ctcatatgcc ttttcttatc 2940 atgcctgaat gccccacccc ttgttgggaa gggatttgtt aactcagctg caaacagtag 3000 tatcttttgg aaatcacaag gcagacaaaa aattgctcct tctcctttcc tgtgataagg 3060 gaggaaagtc aatagggact tatctagctt gcctattgaa gtaacctccc aaataaatcc 3120 tgtagtatgg gacattgagg ttccagacaa agcattaaat gttcctctgg tttgcattta 3180 gcttaagcct gatgccctgt actcctggaa gagacaagat cccctaaaac cagaggcata 3240 aagagggatt catccattaa gaactaagtt tttgcaattt ggtttgttaa gaccctttaa 3300 gtttccttgt aatactctaa tcttgccaat taaaaagcca aatggagact atatatttgt 3360 tcaagatctt tgagctgtca acagtgctgt cattcccaaa catcctgtag tactcaaccc 3420 ctacatgctg ttagcccagg tccttgggga tgcaagttgg tttacagtct tagatctcag 3480 ggattttttt tttttctgca tttgagtata ccctgattca aaatttatct ttgcttttgg 3540 atggactgac ccttgatagt catttggttt ctcaattaac ttggatggtt tttccccagg 3600 agtgtaggga cagcccacat ttatttggaa atacattgac tagagaatta aagatgttaa 3660 aattgaatag gggcactagt atttggtatg tgaatgattt gttggtagct agcccaacta 3720 aaaggggctc aaataaaaat gccattaagt tgctaaattt tctggacact aatgggtata 3780 gagtgtcact gcataaggcc catgtttcaa ctcaagaagt taaatattta agatatgtct 3840 taacccctgg cacctgggca atagccccca gaaaaaaagg aagtgatctt gggaatcctg 3900 gaaccccaaa ccagaaagca gctatgggat ttcctaagga tgggaagatt ctgctcttaa 3960 tgagtgcctg gatttgggca tatggccaag tctttatgta aggctctaaa aggagcacac 4020 gtgatctttt tgaatgcagt atcaattgta aaacatactt ttaatactct caaggagaaa 4080 ctgggaacaa ctccagccct agggatcccc aatcttgata agccatttcc tttatttggc 4140 tgaaaaacaa ggaacgctct ggaagtcctt gtccagaaac tgggaggcat ccctgaccag 4200 tagcatattt ttctaagtaa ttagaccatg tagctttggg atggcccaga tgtctcaggg 4260 cagttgcagc aatggctctt ttggtatatg aagccaataa actggctttg ggacaacatc 4320 tggaggtttt gaccccacac caagtacaag gagtactaga agctaaaaga caccagagga 4380 tgactggggg acatgtatat aaatatcagg ctttgttgct aaacatcctg atataactct 4440 taaagtatgc cagactttga atccagctac ctatttgcct gaacccacag gcaccctaga 4500 tcattcttgc atacaagtta tggagcaagt ttactccagc tgtccggatt taaaggatga 4560 gcctctagat aatcctgagg tagaatggtt tacagatgga agtagctttg tgcaccaggg 4620 aaacggaaaa gctgggtatg ctgttgtcag tcaacatgag gtaattgaat ctcaggcctt 4680 accggcttct acctcagctc aaaaggcgga attaatagct cttattagag ccctgcaatt 4740 gggaaaggac ttaagaatta acatttccac tgattctaag tatgcctttc tggtacttca 4800 tgctcatgct gctatctgga aggaatgggg actcctaact gctaagggtt cccctataaa 4860 acatcactta gaaattcgga atctgttgga cgccgttttg ctgcccaagg aagtagctat 4920 aatccattgc agaggtcatc tgaaagggaa ctccagtgtg actaagggaa actcctttgc 4980 agatgcagct gctaaggcca cagcattaaa ggatccagtt ggacttgttg gtatgttggt 5040 gccctcagcc acggtaataa cagaaccgag atatactaaa gaggaacaag aatgggctaa 5100 aggtcagggt ttaattcaag atccttctgg ctggcttatc aatgacaaca aactgttgac 5160 accaggtgct aatcagtgga aaatagttaa acatttgcat gactctactc atttgggaag 5220 agattccctg tttcaattaa tgtctcagct ttttatagga aaaggcttac ttaaaacagt 5280 aaagcaggta actcaggcct gtgaactatg tgcccggaat aacccaaata accaatcttt 5340 acctcctcct ctagtaaggc ctgttcagca caggggaacg taccctggtg aagactggca 5400 aatagactat actcagatgc ccccatgtaa agtgtttaag tatttattag tatttgttga 5460 caccttttct ggttggatcg aggcttttcc tacctggtct gaaaaggcaa ttgaggtttc 5520 taaactccta ctaaaggaaa taattcctag atttgggctg cctaagagct tgcagagtga 5580 taatggccca tctttcacag cgacaattac ccaaaacata tcttcagccc taggaattca 5640 gtaccgcctt cattcagcat ggaggccaca gtcttcaggg aaagtagaaa gagctaatca 5700 aactctaaaa aggactcttg ctaaactatg ccargaaaca tcagaaacct ggctgtcttt 5760 attgcctgtg gccttgttac gggtttaaat ggcccctaaa ggaaatctgc agctcagtcc 5820 ttttgaaata atgtatggaa gacctttctt aactacagac ttcctaatag acatagatac 5880 tttcaagcta cagaattatg tgatcaactt aggacaagtg caaaacgcac tccttgaata 5940 tggaaatcaa agactccctt cccccactaa ggaagagaat cttgttacaa cccagccggg 6000 agactgggtc ctattaaaaa cttggaagga aggatcccca gcagatcaac tttcccccaa 6060 atggaaggga tcctatcaag ttctccttag taccccaact gcagttaaac ttctgggaat 6120 aaacagctgg gtccacttat cttgaattaa acctgtctct tatgaagtcc cacaggccag 6180 tggaacacaa gagactgatc ccgtttattc ctgtgagcca atcagtgacc tctgactcct 6240 gttcagaaga aacgaaaggg atgggtaaca taaagatatg gattggcatt ctacttttgg 6300 gtataagttg gaatcatgca gagagtaact tatttactga gtgggcacag actttagcct 6360 ctctacataa tcagacaaac tgttgggtat gtggaaaatt accactttcc tccacttccg 6420 gattgccctg gcatattcaa ccggccaacc taagtttgtg ggggacttta ttatgattgg 6480 gaaactgaaa ataataaaca tacaccctct ttccccatgc gctatagctt gtgtggccta 6540 agcccatttc ctctcatgcg gagagacaag aaggvacctt ttttttttgt ctaattagga 6600 aacagctaaa ttccacccca acttaggtta tactgtacag aatggacttg ggtggatgac 6660 aggtatcagg caaagcacct ctatgttttg aaaggcacaa taatagtcac caccagactg 6720 gaacccgtga tatgggatgg ttgccacctc aacaatgtaa tcagaccctt cttttaacag 6780 accagatgtg gatgggatgg caacataatt tgccaaaaat gggtgcctac ccttctcctt 6840 ggggatggtt atgggcttgt agaactcatg gctggccata cttaccttat aactggactg 6900 gaaggtgtat gtggggttgc ccttatctcc cgggatgtat cctcaccaaa ttggactctc 6960 tgccatctaa ctgggaaatt gtaaaggctc gccataggcg acaaaaacaa gcatcttggt 7020 ggttttaccc catggctata ttttccccac aggcagctac caaattavat attgagtgac 7080 aagttgaagc agcctcagcc aagcacacag ttgcagcttt caataataca tgccatgctg 7140 ccttaccctt acctaactga ggaaacttct cagattaggc aggtagcctt acaaaaccgt 7200 atggctttgg acattttaac agcggcccaa gggggaactt gtgctttgat caaaaccgaa 7260 tgttgtgtgt atgtttcaga ctattcacat actattaccc aggctatgaa agctttagac 7320 actcatatct ctgccactga tgtgctatca gtcgacccta tatcggcttg gttccaacaa 7380 ctgcccagtt cttggaaagc cttcctgttt agtttacttg gaatgatttt acttattttg 7440 ctttgctgtt gtggaatata ttgcggttgt actctttgtg taggaatgca agacaagctt 7500 actcaatgct ttcttaaatt ggacacttat taatcttcca gatatcacct tttgtcggaa 7560 ctcggagtta tgaacgaccc tcaccatacc gatgctttct gactgagctc ctctctaccc 7620 tgaatgcaag agaccctaat agttaggcag gaatatcatc gcccctattc agcctgaaga 7680 agttacagaa gatggatctt cgtccctctg caacccttag gattaagggt cttcttgtaa 7740 agggaggggg gagata 7756 // ID L1MB7 repbase; DNA; HUM; 922 BP. XX AC . XX DT 20-FEB-1997 (Rel. 2.01, Created) DT 07-MAY-1999 (Rel. 4.04, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MB7) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1MB7; L1MB7 subfamily; MER12; KW Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-920 RA Smit A.F.; RT "L1MB7."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 17%. XX SQ Sequence 922 BP; 365 A; 149 C; 176 G; 223 T; 9 other; cttgtatcca gaatatataa agaactctta caactcaaca ataaaaaaac aaacaaccca 60 attaaaaaat gggcaaaaga tttgaataga catttctcca aagaagatat acaaatggcc 120 aataagcaca tgaaaagatg ctcaacatca ttagtcatta gggaaatgca aatcaaaacc 180 acaatgagat accacttcac acccactagg atggctataa ttaaaaagac agacaataac 240 aagtrttggc gaggatgtgg agaaattrga accctcatac attgctggtg ggaatgtaaa 300 atggtgcagc cactttggaa aayagtttgg cagttcctca aaaagttaaa catagaatta 360 ccatatgacc cagcaattcy actcctaggt atatacccaa gagaawtgaa aacatatgtc 420 cacacaaaaa cttgtacacg aatgttcata gcagcattat tcataatagc caaaaagtgg 480 aaacaaccca aatgtccatc aactgatgaa tggataaaca aaatgtggta tatccataca 540 atggaatatt attcagccat aaaaaggaat gaagtactga tacatgctac aacatggatg 600 aacctcgaaa acattatgct aagtgaaaga agccagacac aaaaggycac atattgtatg 660 attccattta tatgaaatgt ccagaatagg caaatccata gagacagaaa gtagattagt 720 ggttgccagg ggctgggggr aaggggaaat ggggagtgac tgctaatggg tacggggttt 780 ctttttgggg tgatgaaaat gttctaaaat tagatagtgg tgatggttgc acaactytgt 840 gaatatacta aaaaccactg aattgtacac tttaaaaggg tgaattttat ggtatgtgaa 900 ttatatctca ataaarctat aa 922 // ID MLT1F1 repbase; DNA; HUM; 567 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE MALR long terminal repeat (MLT1F1 subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1F1; KW retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 67-567 RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX RN [2] RP 19-567 RA Jurka J.; RT "MLT1F1."; RL Direct Submission to Repbase Update (FEB-1999). XX RN [3] RP 1-567 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [3] (Consensus) XX CC LTR of MLT1F1 retrovirus-like MaLR element. 5 bp target site CC dups. CC Average divergence from consensus 21%. Pos 67 to 567 are 96% CC identical CC to MLT1F. XX SQ Sequence 567 BP; 139 A; 149 C; 140 G; 139 T; 0 other; tgtggtggtt ttaaaatatg tccacaaatt ctttgatact ccttccttca agaggtggag 60 cctaattccc ctccccttga gtgtgggctg gacttagtga ctcgcttcta atgaatagaa 120 tatggcggaa gtgatggtgt gtgacttccg agactaggtc ataaaaggca ttgtggcttc 180 ctccttgctc tctctcttgg atcactcgct ctgggggaag ccagctgcca tgtcgtgagg 240 acactcaagc agccctatgg agaggcccac gtggcgagga actgaggcct cctgccaaca 300 gccagcaagg aactgaggcc tcctgccaac agccatgtga gtgagccatc ttggaagcgg 360 atcctccagc cccagtcaag ccttcagatg actgcagccc cggccgacat cttgactgca 420 acctcatgag agaccctgag ccagaaccac ccagctaagc tgctcccgaa ttcctgaccc 480 acagaaactg tgagataata aatgtttgtt gttttaagcc gctaagtttt ggggtaattt 540 gttacgcagc aatagataac taataca 567 // ID MER92B repbase; DNA; HUM; 636 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate MER92B repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER92B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-636 RA Smit A.F.; RT "MER92B."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative LTR of retroposon. Similarity with MER31 and MER67 CC (bases CC 546-607) and therefore potential member of MER4-group. 4 bp CC target CC site duplications. XX SQ Sequence 636 BP; 154 A; 188 C; 101 G; 182 T; 11 other; tgacaatgtt gaactttacc tgagccctgt gctcctggaa aacagtgawg gttaagaaat 60 ccccccatcc ttttgtgttc cgggaaacgg cttactgcaa agaaccatcc ttccccatat 120 gacttagata agactcatgg atgnccccct tgtttaccta tgacaaggcc agacacagac 180 cctccaaatt cccattcttt gcctcataaa tgattagctg aactgtttgt ccccactgat 240 caatckggac aaaatacctg ytaactcgac tngaccaaac tttagttaag cttctctcct 300 tcctccaggm ccctgaactt tggaccaccc tcagcctgag ccagcatcan aatgtagaac 360 agcccctcct gagaataggc tgrcctcaag gtaaracatt ctctgatcta ctctgatctc 420 gccacccttt catcccactc ccccacacct ggttctttct agccttgttt actcctccct 480 ataaaagaaa agccctttct gcctgaactt tgagatgctt gcagatctta tggtcagagc 540 gttctcccta ttgcaatagt ccccytcccc ccmttgcaat agtccttttg aataaagtct 600 ctccttagct aagtccggat ttgtttttat ttgaca 636 // ID LTR85a repbase; DNA; HUM; 702 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; Gypsy?; LTR; KW LTR85a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-702 RA Smit A.F.; RT "LTR85a - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC 4 bp TSDs; 30% subst in dog-human; rnd-3_family-1819 CC rnd-4_family-1430; rnd-4_family-389; LTR85c has short match to CC MamGypLTRs 1 & 3. XX SQ Sequence 702 BP; 205 A; 132 C; 215 G; 146 T; 4 other; tgtagcgggg tgaaaaaaat attatcttaa cagctggcac cagaattcct cttagggagg 60 gaactgtctt tgtttaggaa aataccttga taagccactt ggggtggaag gtgagaccct 120 gagggcatgg nttggcagga gacaaggaaa caaaaagata gctaaactgc tctgcatnag 180 aaatgaacgg gaatttgatg gagagaagga gacagagaag aggagagaag gggaggccag 240 gcaacgtggc gagagactgg agcccaagtt ggcggaaatg gccaaaggac ttttaagaac 300 agggatgtct aatattcaat tttaagttgt ttgcgttgct gcgatgtaaa ccccctctgt 360 ctccccaaac cttcagtaaa gtctgctaca cacacaaatg ccttgtgtga gtgtgtttgt 420 gtgngtggaa atcaaggaaa ggggctgagt tccacgtctg ggtcgacgtg gtgcggaaca 480 gggacagcac gtacgggacg gcgagatgat ccataaactg aactaattca gcggaagcag 540 gagctcagag ccagaggtga ccatgagaac gtaagccccc tgggaattcg cagaaatctt 600 ggggagggca ttggactttc cacaggacgt ggaatggggg ttcgagccaa tcttatctag 660 atctcaaagg gcagggwgac cccagctgac atctgggtta ca 702 // ID LTR10A repbase; DNA; HUM; 609 BP. XX AC X14953; XX DT 18-APR-1997 (Rel. 2.03, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE LTR from endogenous retrovirus-like sequence (HERV-I). XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR10; LTR10A; KW Long terminal repeat of endogenous retrovirus. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 211-547 RA Armour A.J., Wong Z., Wilson V., Royle J.N. and Jeffreys J.A.; RT "Sequences flanking the repeat arrays of human microsatellites: RT association with tandem and dispersed repeat elements."; RL Nucleic Acids Res 17, 4925-4935 (1989). XX RN [2] RP 1-609 RA Smit A.F.; RT "LTR10A."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX SQ Sequence 609 BP; 143 A; 168 C; 106 G; 190 T; 2 other; tgttaagtac ggtgagttct gagatcctct ccaaagaacc agtatgtcag tatgttcagc 60 tcncctgttc tttgttctcc attttaaagt ttaacttcag tatgttcagc tcncctgttc 120 tttgttctcc attttaaagt ttaactcaac agttctaatc agtagttaac gcctgttccc 180 ctggtcacct gctccatcct gactcatccc gggtcacctg ctttgacctg agtcaccctt 240 agtcacctgc tctgtaacca tccttcccgc caaactactc accccgccac tctggctcat 300 acccctgctc tctttaaaat agccaatcgg aattagctta gactgtgcgg tccaacccta 360 gccaataggg gaacgacaca gcagtagggg ctacctgcat caggaataag aaccccttcc 420 cctcccttgt ccaggtgtgc tctcgccatt gctccatctg cgagacgcac ccttctatag 480 aagtaaaatt gccttgctga gaaaattaaa tttatgtttg agtgctattt cttttgcggc 540 accgaaacga aaattaaatt tatgtttgag tgctatttct tttgcggcac cgaaacttta 600 tttataaca 609 // ID LTR71A repbase; DNA; HUM; 461 BP. XX AC . XX DT 14-SEP-2000 (Rel. 5.08, Created) DT 03-OCT-2000 (Rel. 5.09, Last updated, Version 2) XX DE Long terminal repeat of the HERVP71A endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVP71A_I; KW LTR71A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 461-20 RA Jurka J.; RT "LTR71A."; RL Direct Submission to Repbase Update (SEP-2000). XX RN [2] RP 1-461 RA Kapitonov V.V.; RT "LTR71A."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [2] (Consensus) XX CC Originally reported consensus sequence [1] was inverted, CC cut and expanded [2] according to an orientation of the CC HERVP71A_I CC internal portion and 5-bp target site duplications. XX SQ Sequence 461 BP; 134 A; 86 C; 117 G; 116 T; 8 other; tgtgagaaaa cattttaaat ggtccatttt caaggcatga taaatctaag tactggcagc 60 cagcctgcga atgtgacaaa ctgcatgdct catgcaccta gaaggtcacv ataagtgaac 120 agaatgtaga ggaggggtca gcccataaaa gggaagaaag ttttgttatt gggaaattga 180 aacttaagca gggaagggga ccagggtata accttataag ggggataatg aaacttaggc 240 gatrtyyagg aagattgtaa ccccatagta ctcraccaat gaggaactgg gggarggact 300 tgyatgctag gagataaatt acctgctgta actgccccgg gtgtgcctgc ctaccagaca 360 cctgatcttg caagaccacc attaaaagtc tcgcttccac tgttcttcgt gtctctgagt 420 ccattctttg ggtttggatg ggtgaatgtg tgtttctcac a 461 // ID MER57A_I repbase; DNA; HUM; 6187 BP. XX AC . XX DT 30-MAR-2001 (Rel. 6.02, Created) DT 23-MAY-2008 (Rel. 13.06, Last updated, Version 2) XX DE Internal portion of non-autonomous endogenous retrovirus - a DE consensus sequence. XX KW Endogenous Retrovirus; Transposable Element; Nonautonomous; KW MER4I-group; MER57A; Class I; KW Internal portion of non-autonomous endogenous retrovirus; KW MER57A_I. XX NM MER57A_I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6187 RA Kapitonov V.V. and Jurka J.; RT "MER57A_I."; RL Direct Submission to Repbase Update (28-FEB-2001). XX DR [1] (Consensus) XX CC MER57A_I is an internal portion of non-autonomous endogenous CC retrovirus flanked by the MER57A LTRs. MER57A_I copies are ~12% CC diverged from the consensus sequence. This retroelement lost its CC mobility ~50 Myr ago. XX SQ Sequence 6187 BP; 1987 A; 1064 C; 1170 G; 1958 T; 8 other; gatggcgtca gaagtgggat ccgaagtaga gcttctagca acccccagga gcgctgagtg 60 accaagcaag gtacctgctg ggcccattgt gtccattgct ctctcacagc aactggggat 120 catggtaagt tctctctcag attccaaagc tccacagatt tgtgttttga gctctccgag 180 tttctttgag caaatttctg atccaaactg ggtttggaag tcatgacaga aactggactg 240 ggtccaggat tggattggat ctgataatta actggcttgg atccagttag aggcctctta 300 tgtctgactg ggtcagaaag aaactggtag taaatggcaa tactgcaggg ggtgtaaact 360 ttggcttttg gaaattcgca gcgatttttg tgttctaccc cctttgtttc atttttcttg 420 catgcttagg tagggaaaaa aatcattggc taagttgatc aagggaacct gagagccaaa 480 gccaatattt raggtaaaaa tgggatcctt aatttctgaa gaactgagta ctccttccag 540 cttacattta catgcataag tattaggccc cagaagcagc aaattcttac agaaatggca 600 aaatcttact aaagataagt tacagtggaa cattccaaat gaacaacact gcactttaag 660 aagtgcattt gaaaatgagg gctcccgaat tagtctcatc tagggatgcc tattgatatg 720 cagaagcttc taaaaagatt tcaatatttt tattgtttaa agactttata aaaggcaaat 780 aaaaagctta agtgactaat tgataagaaa aattaaatct gctaaccttt tggcttagtt 840 actatcccac cccaaaggtg aaaagaaagc tatcctagat aaagtgttta taaaaggtag 900 gccctcagrt aaaataggct tgcttctttt tcagatctat ccatgctgag tccaggcata 960 gagaatgctt tctttgctct attccttaat gggctccacc ctgaactcag taattttagc 1020 taagaaacag tagctaagtt aaaaagaaca cctattgaac taaaatacac ctttctggaa 1080 tttaactggc tatcttgaaa cycttttgta aaagaaattt acatctataa aggaaatctc 1140 catttgtaag gatgtctgcc tatgtacatt agaaattctt accattgttt taaatttaca 1200 taataagtca tacctttgtt taaggtgctt ttctggccat cttgtcttaa stgaactttt 1260 acttacacca tttttttccc ttggtttgag caaatgatga tacaatattt aggcctaaaa 1320 tcttagctct gtgcttatga aatataaatt tttttttgtt tcacctaaga gttgtccctt 1380 tagaaatgca aatttgttgc ctagttaaca attgcttagg gcaatgaaac aggtaattgg 1440 aagattgata gtctgaatgg ggaaaagaaa aactatttaa aagctggcaa ataaaaatcc 1500 tttatgaaag ctataagatc tgcttctgtc tgtgtgtttg tatgtctata tgtgttatgt 1560 gtatgtgata atatttggta aataaagcta gtttttaaat tgttggtaaa atagaaatgg 1620 cttcaaaatt atcagttaaa tataattaga tacttgcttg atttgactgt gagcttatgt 1680 ttttggttta gagcctctgg attcaggggt ctggataggt ggccatggtg aggtctggag 1740 acatgttctc agtgcctaga ccagcagcta caagccagaa tcaagcccaa tatggcccct 1800 tcttcctctg ctttcccagc tttgcctcct ggctattctg ggaggggttg gatcctccag 1860 gyatagtcct tcacagctct gtcttctgtc ctgagctcta tacctggtat gtaaattcag 1920 gactcagaca ggccctgccc ttcatagccc tcctgggtgc cacrtggcta cttgggaccc 1980 aggatgactg ggaagacatt agggagggta cctgtgtcat agtttcaaaa ttcttttcag 2040 taatttaaaa tcttaaagtc atgttaaatt aagtaataga taatcataaa atgtctgagt 2100 catttgtaag ttaaaatact gaaatattaa ttattaaaca tgagtttaag tctatatacc 2160 ttgacatstt atttttatat ggtatagaaa agctaaatat atttagatct gttaataaac 2220 aataatttga agaaaatatc tttctaaaaa attataaaat ggtttttatc tacaaatact 2280 gatataaaac agttcaaaat tactttctag ggttttcact agaaattagg gttactaaga 2340 gttaaaatta tagttaatat atgtaattaa aactactaga tatgagagaa acaattctgt 2400 atacaaagtg tataaacaaa agcaagatat gcttttgatg aggaaagtta taaaggcata 2460 aaaatgtgtt gttaaaaaat tttgtctagt ttgaagttac ttaaagattt caaattgaag 2520 gagtaaaaaa tagatagaaa aactaaaata tagaaagttg aaaaatgtta agagattata 2580 aaaggtttat ggaaatcttg tgtggtcaaa agatgacaga tttgataaat ttgtttataa 2640 ggttttatta aaattagctt tagtattgat aatacactaa tacaaaagta aaatttggtt 2700 ttctcttttg aacaaaaatt tcgtgtagta ttaataagac atacgtaaaa ttttttgttc 2760 accttttgag taaactgcaa aaaagaaaaa agagaagaga gaagaagaga cagattctgt 2820 ctcatgctgt ctttctcagg tcttttgatt gtttggaaaa ctgagtctcc tctatcaaag 2880 agtaaaggtt tttgctttta aaaatctttt aattatcact ttggctaaat aaatgactat 2940 tattttacgg tgacctgtga tcctattttg gtcaagtgtt ttaaaccttt gacatatttg 3000 acaggcttcc caaaatcaaa tttcaacttc aaaattaagt ctttttttaa cctctaactt 3060 tgggatgcta cagagggccc ctgaagcatc caaaagagag ataaacagga ttatttgata 3120 tgttaaatta catgggaagc attgtcaaat aagaaatgat gtttaacctt cttcaagtta 3180 tattttaatg aatatgttat taatatatgt tccaaaatta tatgggattt ctaaaattct 3240 gatatgtctg ggtatatgct atcagtcata attatggtta ttatgttaaa ttattgtagg 3300 ccacagaaat aaccaaattt ccttgtcaat tgtgtcttta tgaccatttt aagtcatttc 3360 cacagttaat tgcttaattc tgatgcagtt tctgaaaact tcacaagcac acaaaatcct 3420 agagtattgt gtcttcaagg aggttcatga aaggatgaaa aggaccctga caagcactct 3480 tgaatacagg tttctgataa ctttaggatc atatcatttg gactgggtaa gaattcccgg 3540 aactctaatg aagagactga ctggtttata aaactgctaa cccaagcagg acaaaaatta 3600 attgaatacc aagaaaatac tttgccagat tttcatgcta aatcagccag tactgaaatt 3660 gtttagatat gcaatttgaa tgaactccat ggtccaagtc aaattaccta tgataaccca 3720 tcagttatca gtgctatgca cctaaattgg agaaacaatt ggtatttaag aggacataag 3780 tccaatgtta agcgtggact catggagaac ctggatggct acctcgtcct tcctgagtcc 3840 ttaaagcttt cgttattaaa agctctgcat tccatgactc atcatggaag aaataaaatg 3900 atccaaatta aatatatata tattgatttg gtgactgttc taaattgcta aaatagttta 3960 tgaccaatgt ttggtttgtc aaacccatat tcctgggaag acaatcaaaa cttcaggtac 4020 atttctgcta cctgatgggc catttaaaca tttatagagg gatttcattc aattgtcatt 4080 ttcaatgcat gttttctggt tgtataaaag ctttcccatg caagagggct gatgttataa 4140 cagtagctaa aaggttatta gaaaatgttt ttttctcatg ggacattcct ggagaaatct 4200 ccagtgatag aggtacttgt ttcactggac aagttgtaaa acagttaaat aaggtattac 4260 agatacaata gcattaggca aagctaactg aattgactgg attgccttgg tcaaaggtat 4320 ttcagattga tgacaatcag atccacttcc agtggaaaac ataagttgac cccttatnaa 4380 ataatcactg gaaggcctat gcacctaata atagaacctc atgtatcttc cgctactgaa 4440 ctctgatatg actaaatgct gcaaggcttt aatgcattat gccaaagtgt attttcacca 4500 ggtaaagaaa gcttttcatg gtccactgac tgaggacaat caaacccttc acaatctaga 4560 acctggagac tgggtcttct gagaacaaca tcagagaaag actgcccttg ccatccacac 4620 tgcagcaaaa cttcgggatc ttgaaccttg ggttcataat ctcacaactc agaagggccc 4680 ctccagactc ttggaactgt acacccattg gaaaccttaa ggtaaagcta accagggaag 4740 tttctcccca gaagcagata gcatccttga cgtggacagc tttttcccaa gatcatggat 4800 caagacttct ctgctatcat gagactctta tctctcaatt ttttccttgc ttatgcctct 4860 gtgaacaata gaactgaaaa gggtcttttg tgtgcactca tggggtatac ttttatttgt 4920 gaaggatttt gcagccagcc ttatacatgg acaatcttat gccttgatag atggaagacg 4980 aagggccaat gtaggtgaga aattttaatg gtacatttgt tgcttcataa tcagtcagaa 5040 acagaacatt ggtccactcc tcttaaccta catcataggt taaagagaac attgccagga 5100 ggccttcact cttctagatg ggcatcattt gttaggtctc tttttccatg gtttggagta 5160 aatgaggcaa tgattagaaa tgtatccctc ataataggct ctatagcaga ttctactgta 5220 aaggctatgg ttacacaaca gactttaaat tctcttgtga aagttatgct aaataataga 5280 attgctctag attacttact ggctaaacag agaagtatct gtgcagttgc tgacacttct 5340 tgttgcacat ggagaaatac attgggtatt atagagattc agttgtaaga aattaatgaa 5400 caggctgctt ggttaaaacg agtagactct ttatctagct cattctttga tctatttgat 5460 tttagttggt ttggttcatg gggaccctgg ctaaggagca tactccaaac tcttggtatt 5520 atcctcctga tagtcataat agtagtctcc ctggtgcact gtattctctc aaaagtttta 5580 aatgtttgca tgcagccatc tctagaatgt caaatggtct ctcttcaact ggaatgacaa 5640 aaactcaaag aaatgtatga ccatgagggc accgtaacct atgaatgatg tgctgagact 5700 ggaaacccaa aatgatggta actgagagtg gcgctaaggc cgtaagtttt ggtcatactc 5760 tcacctaagt gagaacctga ccaaaagggg ggaattttta aacaaaatta tgggagacca 5820 ttgttttgga ctgagctcgt gtactaggcc ccaacagacc agaccaaacc aaaatggagt 5880 cactcatgct aaatgtgaca taatcaaact aaaactttaa ggaaacagat agatcctaaa 5940 acagaccagg ttttgttttt ctcctgtaaa caggagattc cagcacaagg aggtcccctc 6000 tactctaacc cttacaaaaa aaaaatgacc tgaagtcctt gttcccacct tgcaaaaccc 6060 actgttctac tgtttcccag tgggtttcaa gaccaattac cgtacattta cgatggtgat 6120 agtgacatca atgcctaaag ttttggtcaa tctctcaaaa ttgagaggat gaccaaaagg 6180 ggggaat 6187 // ID MER61E repbase; DNA; HUM; 569 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 21-MAY-2008 (Rel. 5.05, Last updated, Version 3) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW LTR Retrotransposon; Transposable Element; LTR; MER4I-group; KW LTR20; MER61E; LTR20B. XX NM LTR20B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-569 RA Kapitonov V.V. and Jurka J.; RT "LTR20B."; RL Direct Submission to Repbase Update (31-MAR-1998). XX DR [1] (Consensus) XX CC Putative LTR of endogenous retroviruses related to MER4I-group. CC LTR20B elements share common fragments with MER61; LTR9 and CC LTR25. CC Individual copies are about 90% identical to the consensus CC sequence. CC 4 bp target site duplication. Example of internal sequence CC flanked CC by LTR20Bs is in GenBank locus AC000406 (positions CC 155347-163655). XX SQ Sequence 569 BP; 160 A; 142 C; 145 G; 122 T; 0 other; tgagagagga gaaaggaaga aactggtcag gcaggcagtt agggtgggtc ctcggttgaa 60 ttctttcaaa caaaagaaca gcctgcaggc acagataagg gaacttgcac aggggggctt 120 gcctaagaca tgcccacagc cgcacagata agaaaggcta cacaggagac ttgcccagac 180 atgcccgcaa tggaaaattc cgtcccctga cacatgtgca gtaaggggaa caaagcaata 240 tggagtaact caagctaagg gcccgcatgc gcactaggag gatggggtgg agctaccaga 300 aattcgtgcc ttatgcaaat gagacaccca gccctcatcg gtttcttata aaagcctttg 360 cattcaactg taaaaatggc aaccctcttc cgggccccct ctccgcggcg gagagctttc 420 ttctttcgct tattaaactt tcgctccaac ctcacccttt gtgtccatgc tccttaattt 480 tcttggtcgt gagacaaaga actccgggtg atacctcaca aggagagact gagagactgc 540 tacattgtgg tgcattggcg agactaaca 569 // ID MER51A repbase; DNA; HUM; 634 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 19-JUL-2005 (Rel. 5.05, Last updated, Version 7) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER51; KW MER51A. XX NM MER51A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-634 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX RN [2] RP 1-634 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Putative LTR of class I retrovirus-like element with 4 bp target CC site CC duplications. Copies are on average 11-12% diverged from the CC consensus. XX SQ Sequence 634 BP; 154 A; 174 C; 134 G; 172 T; 0 other; tgaggcagga gaatagggtc tggaggcagg gaacctaagg ccgattcacg ctgacttcct 60 agaactaaat cgaaaggaaa accccaactt tccacgccca agtaacaaaa ggaccagagg 120 ctactccctt tgcaaccccc caccttttct gcgtggcaga tgggaaattg aaagtacctc 180 tgattggtcc cctcccgcaa ccaatcagac tggtcgcggg ccaagtcttc atttgcatag 240 gagtgtaact ttgtaacttc acttcagcct ctgattggtc gctttccgca accaatcaga 300 cgtttgcata ggagtgtaac tttgtaactt cacttcagcc tctgattggt cgctttccgc 360 aaccaatcag actgattgcg ggccactact tcatttacat agggtgtaca ccaagtaacc 420 aatgggaaac ctctagaggg tatttaaacc ccagaaaatt ctgtaaccgg gcccttgagc 480 cgcttgctcg ggcccgctcc caccctgtgg agtgtacttt cgttttcaat aaatctctgc 540 ttttgttgct tcattctttc cttgctttgt ttgtgcgttt tgtccaattc tttgttcaaa 600 acgccaagaa cctggacacc ctccaccggt aaca 634 // ID MER31A repbase; DNA; HUM; 485 BP. XX AC . XX DT 09-OCT-1997 (Rel. 2.09, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE Medium reiteration frequency MER31 repetitive sequence - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER31A; KW Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 315-478 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 149-479 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-485 RA Smit A.F.; RT "MER31A."; RL Direct Submission to Repbase Update (1996), 1997). XX DR [3] (Consensus) XX CC MER4-type LTR. Duplicates 4 bp. Average divergence from consensus CC 18%. CC Fragments are similar to MER67, whose LTR flanks a similar CC internal seq. XX SQ Sequence 485 BP; 111 A; 153 C; 73 G; 147 T; 1 other; tgacaaagat tctctgcttg accaaacttt agtcaggctc ctgaaccttc tcctaggccc 60 atctgtgcac ttccttgtaa aatccagttt tagcaaagaa ccctgctaag tcagtttagc 120 magaaccccc cacccttgat atctgatcac cctcaatatc tgatcgggtt cctcatcctc 180 caccatcccc caggtgatgt ctgatcaccc tggcctgtct tcagcaagaa tcctgttagg 240 tcggtttagc cagaatcccc ctacccctga tgtttcctct tagtaatttt ccatccactg 300 acccctcacc ctgctccttg gctataaatt cccacttgcc catgctgtat tcggagttga 360 gcccaatctc tctcccccac tgcaaaatcc cattgcagtg gtccctgtac ctatcgcaat 420 ggtcctgaat aaagtcttcc ttaccatgct ttaacaagta tcattgaata attttttctt 480 taaca 485 // ID MLT2E repbase; DNA; HUM; 622 BP. XX AC . XX DT 30-JUL-1998 (Rel. 3.06, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE Interspersed repeat MLT2E - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; KW Long terminal repeat; MLT2E. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-622 RA Jurka J.; RT "MLT2E."; RL Direct Submission to Repbase Update (JUL-1998). XX DR [1] (Consensus) XX CC This sequence is a human endogenous retroviral LTR. CC 3'-similar to MLT2C2 and MLT2D. XX SQ Sequence 622 BP; 146 A; 181 C; 119 G; 163 T; 13 other; tgctggattg ttctgttgtc aacttngtta agctnggaac tatgtttccc agaatcccct 60 tccctgtatg gttctgggtt agagttggcc aaagatgaaa ttgtggaaga tttggaaggc 120 agaagtgaag cagcagccat tacactctga aggtcatcat tggttasagg cagtgagaga 180 tggccagatg cagaggtgcc caggaggttc cagcttgtcc tcactctccc ctgctcyata 240 tccagctctt cttcctgacc actggccctg ctgaccaaca gcarccccag gcccaccacc 300 agatgcttgg ctgcaaactc acagaggtag tngccacaca gagncaacaa ctttccatag 360 agttctccac cagctcccct tcatggtcnc acttyagcgg ctggatatgc ttagcttcaa 420 atttccccac aagctccagn ctcattcaac tncgccagag ctggttagtg accctttttc 480 tgatccttca actcccccct ccagaccttc acttccccag ctcctcccac aattgtataa 540 ggtctaattc ctataataaa tcccttattc catanatact acatagtggc tctgcttccc 600 tgactganac ctgactaata ca 622 // ID ERVL-B4 repbase; DNA; HUM; 5714 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; ERVL-B4; KW LTR retrotransposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-5714 RA Smit A.F.; RT "ERVL-B4 - subfamily of ERV3 endogenous retroviruses from RT placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 15-18% div, MLT2B4 LTRs. ORFs at pos. 53-1792, 1793-5344. XX SQ Sequence 5714 BP; 1531 A; 1297 C; 1455 G; 1427 T; 4 other; gattttggta ccgagagtgg ttctagagga acagaatttt aaggatgagt tttctgaatt 60 ggttctgggg tttctggaat tggctctcta atctgattag atttaaagac gctaatgact 120 ctatttccag tagtaaagag agcactgata gtccatggcg tgatctggca atagagatac 180 gcaaaatatc nccattggat actcctaatc aaccacttat aagaagcaag gatctgggtg 240 actgtgtata tgatactttc aaacattttt ggcaaactaa cgagtataat gagattggct 300 ggttgctcct aatgtcgctg gacaaagtgg ggaaagaaaa ggatgagctc agggattcga 360 attcccagct caagcgccgc ataaatgacc tgaaagcttc tatgtgtgcc ctgaaggaga 420 cccttatctc ctgtagccgc agggctgaga ttgctgaaaa tcaaacccag aatctcatcc 480 tgcgactggc tgaattacaa tgcaagttga actcccagcc tcgtagggtg tctactgtta 540 aagtgagggc attgattggg aaggaatggg atcctgnaag ttggaatggg gacgtgtggg 600 aagaccctga tgaagctggg gacattgagc ccctaaattc tgatgagtct tctttgccag 660 tggaagaggc ctccccaccc ccagtagaag tggcctcccc acccccagtg gtagcggcct 720 ctccaccccc gtctgagggg attaaccctg cattgcctga ggaaactgta atggcctccc 780 ctgaggcagt tgccatgcaa gacaatgctg attctcctca ggacccaccc ccaccacccc 840 tctttgcttc tagacctata actagactca agtcccagca ggcccctaaa ggtgaggtac 900 aaagtgtgac ccatgaggag gtgcgctaca ctccaaaaga actacttgag ttttctaatt 960 tatacagaca gaaatccggg gaacatgtgt gggaatggat attaagggtg tgggataatg 1020 gtggaaggaa cataaagttg gatcaggctg aatttattga tatgggctca ctaagcagag 1080 attctgcatt taatgttgca gctcagggag ttagaaaggg ctctaacagt ttgtttggtt 1140 ggttggctga aacatggacc aaaaggtggc ccacagtgag tgaattggaa atgccggacc 1200 tgccttggtt taatgtagag gaagggattc aaaggcttag ggagattgga atgttagagt 1260 ggatttgtca tttaagacct actcacccac actgggaggg tccagaagac atacctttca 1320 ccannactgt gagaaataaa tttgtgaggg gagccccagc atccttgaag agctctgtga 1380 tcgctcttct ctgtaggcca gaccttacag tgggaactgc agtcactgaa ttgggaaacc 1440 taaatgcaat gggagtaatt ggatcccggg gtggcagggg ccaagtggcg gcactcaacc 1500 accaaaggca aggtgggcgt ggttaccgta atggacagca gagtcaaagc agcaatcaga 1560 atagtctgac tcgtgcagac ctatggcatt ggctagttga tcatggtgtt cctagaagtg 1620 aaatagatag gaagcctact aaattcttac ttgatctgta taagcagaaa agttctaggt 1680 caagtgaaca aaagtctaac ctgaatcata aaaacagaga gtcacggccc ctcaatcaat 1740 tcccagactt gagccagttt acagacccag aaccccttga atgaagggga ggccgggtcc 1800 ccttgaggaa ggaccccggt acactgccaa aaatttatac tgttaatctt tctcccagcc 1860 ttccccaaag ggacctacgg ccttttacca gggtaactgt gcattgggga aaaggaaata 1920 atcagacctt tcagggacta ctggacactg gctctgaact gacactaatt ccaggagacc 1980 caaaatatca ctgtggtcca ccagtcagag taggggctta tggaggtcag gtgatcaatg 2040 gagttttagc tcaggtccat ctcacagtgg gcccagtggg tccccgaacc catcctgtgg 2100 ttatttcccc agttccggaa tgcataattg gaatagacat actcagcagc tggcagaatc 2160 cccacattgg ttccctgacc tgtggagtga gggctattat ggtgggaaag gccaagtgga 2220 agccactaga actgcctcta cctaggaaaa tagtaaacca aaagcaatac cgcattcctg 2280 gagggattgc agagattagt gccaccatca aggacttgaa agatgcaggg gtggtgattc 2340 ccaccacatc cccattcaac tcgcctattt ggcctgtgca gaagacagat ggatcttgga 2400 gaatgacagt ggattatcgt aagcttaacc aggtggtgac tccaattgca gctgctgtac 2460 cagatgtggt ttcattgctt gagcaaatta acacatcccc tggtacctgg tatgcagcta 2520 ttgatctggc aaatgccttt ttctccatac ctgtcaataa ggaccaccag aagcagtttg 2580 ctttcagctg gcaaggccag caatacacct tcactgtcct acctcagggg tatatcaact 2640 ctccagccct atgtcataat ttagttcgca gggatcttga tcgcctttcc cttccacaag 2700 atatcacact ggtccattac attgatgaca ttatgctgat tggacctagt gagcaagaag 2760 tagcaactac tctagactta ttggtaagac atttgcgtgt cagagggtgg gaaataaatc 2820 cgacaaaaat tcaggggcct tctacctcag tgaaatttct aggggtccag tggtgtgggg 2880 catgtcgaga tatcccttct aaggtgaagg ataagttgtt gcatctggcc cctcctacaa 2940 ccaaaaaaga ggcacaatgc ctagtgggcc tctttggatt ttggaggcaa catattcctc 3000 atttgggtgt gttactccgg cccatttacc gagtgacccg aaaagctgct agttttgagt 3060 ggggcccaga acaagagaag gctctgcaac aggtccaggc tgctgtgcaa gctgctctgc 3120 cacttgggcc atatgatcca gcagatccaa tggtgcttga agtgtcagtg gcagataggg 3180 atgctgtttg gagcctttgg caggccccta taggtgaatc gcagcgcagg cccttaggat 3240 tttggagcaa agccctgcca tcctctgcag ataactactc tccttttgag aaacagctct 3300 tggcctgcta ctgggcctta gtagagactg aacgcttaac catgggccac caagttacca 3360 tgcgacctga gctgcccatc atgaactggg tgttatctga cccaccaagc cataaagttg 3420 ggcgtgcaca gcagcactcc atcatcaaat ggaagtggta tatatgtgat cgggcccgag 3480 caggccctga aggcacaagt aagttacatg aagaagtggc ccaaatgccc atggtcccca 3540 ctcctgctac actgccttct ctctcccagc ctgcacctat ggcctcatgg ggagttccct 3600 acgatcagtt gacagaggaa gagaagactc gggcctggtt tacagatggt tctgcacgat 3660 atgcaggcac cacccgaaag tggacagctg cagcactaca gcccctttct gggacatccc 3720 tgaaggacag tggtgaaggg aaatcctccc agtgggcaga acttcgagca gtgcacctgg 3780 ttgttcactt tgcttggaag gagaaatggc cagacgtgcg attatatacc gattcatggg 3840 ctgtggccaa tggtttggct ggatggtcag ggacttggaa ggaacatgat tggaaaattg 3900 gtgacaagga aatttgggga agaggtatgt ggatagacct ctctgaatgg gcaaaaaacg 3960 tgaagatatt tgtgtcccat gtgaatgctc accaaagggt gacctcagca gaggaggatt 4020 ttaataatca agtggatagg atgacccgtt ctgtggatac cagtcagcct ctttccccag 4080 ccacccctgt catcgcccaa tgggctcatg aacaaagtgg ccatggtggc agggatggag 4140 gttatgcatg ggctcagcaa catggacttc cactcaccaa ggccgacctg gctacggcca 4200 ctgctgagtg cccaatctgc cagcagcaga gaccaacact gagtccccga tatggcacca 4260 ttccccgggg tgatcagcca gctacctggt ggcaggttga ttacattgga ccgcttccat 4320 catggaaggg gcagcgtttt gttcttactg gaatagacac ttactctgga tatggatttg 4380 ccttccctgc atgcaatgct tctgccaaaa ctaccatccg tggacttaca gaatgcctta 4440 tccaccgtca tggtattcca cacagcattg cttctgatca aggaactcac ttcacagcaa 4500 aagaagtgcg gcaatgggcc catgctcatg gaattcactg gtcttaccat gttccccacc 4560 atcctgaagc agctggcttg atagaacggt ggaatggcct tttgaagact cagttacagc 4620 gccagctagg tggcaatacc ttgcagggct ggggcaaggt tctccagaag gctgtatatg 4680 ctctgaatca gcgtccaata tatggtgctg tttctcccat agccaggatt cacgggtcca 4740 ggaatcaagg ggtggaaatg ggagtggcac cactcactat tacccctagt gacccactag 4800 caaaattttt gcttcctgtt cccacgacct tatgctctgc tggcctagag gtcttagttc 4860 caaagggagg aatgcttcca ccaggagaca caacaatgat tccattgaac tggaagttaa 4920 gactgccacc cggccacttt gggctcctca tgcctctgaa tcaacaggca aagaagggag 4980 ttactgtgct ggctggggtg attgatcctg actaccaagg ggaaattgga ctgctactcc 5040 acaatggagg taaggaagag tatgtctgga atacaggaga tcccttaggg cgtctcttag 5100 tattaccatg ccctgtgatt aaggtcaatg gaaaactaca acaacccaat ccaggcagga 5160 ctactaatgg cccagaccct tcaggaatga aggtttgggt caccccacca ggtaaagaac 5220 cacgaccagc tgaggtgctt gctgaaggca aagggaatac agaatgggta gtggaagaag 5280 gtagttataa ataccagcta cgaccacgtg accagttaca gaaacgagga ctgtaattgt 5340 catgagtatt tcctccttat tttgttatga atatgtttgt gtgtatatat acatatatta 5400 agcaaatatc tttgttttct ttcctctctt attcccttat catgtaacat aagatgtatt 5460 gactttatat catagtattt aagtattgtt aattttacat catagtattt aagttatggg 5520 atatcaagga gaagagtaaa catcactcaa ggactttacc tcctcttctg gggaaggggt 5580 tagtgcgttt ttggttgtac gcaggatagt tgtatcatgt taggcggaat tatgaccttg 5640 ttattgtctt tatttggaga ttaagtatgg tttaaggaga tgcgtatggg tgccaagttg 5700 acaaggggtg gact 5714 // ID HERV3 repbase; DNA; HUM; 8426 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 3) XX DE Internal sequence of primate endogenous retrovirus HERV3 - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Endogenous retrovirus class I; HERV3; LTR4. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-2799 RA Cohen M., Powers M., O'Connell C. and Kato N.; RT "The nucleotide sequence of the env gene from the human provirus RT ERV3 and isolation and characterization of an ERV3-specific RT cDNA."; RL Virology 147(2), 449-458 (1985). XX RN [2] RP 1-8426 RA Smit A.F.; RT "HERV3."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [2] (Consensus) XX CC LTRs of HERV3 are listed in REPBASE as LTR4 sequences. CC Pol gene from 2441-5999; closest similarities to HERVR and HERVE. CC Average divergence of copies from consensus about 15%. CC HERV3 is 70% identical to HERV15I. XX SQ Sequence 8426 BP; 2326 A; 2183 C; 2135 G; 1716 T; 66 other; tttctggtga gccagccagg agtggagaca acaggtttgc tgtctccttt gcctgtgggt 60 ctggggcccc gggccggggg agacctgtga ccccaggcgc ngcctcgggg aacttcaacc 120 cggaggagag atcggntctc ccgtgacccg gtgcccctcc ccgacagcgc aacggaacnt 180 aaggggctac gggatgattc cagggacagc gtgctacagg accgcggtaa ggtttggggc 240 ccaaggcagg acccgtccca taaggacgga aggggagcct gatcacctcc cggggtgtgc 300 ctagtaatcc gacccaggag ctgggggtgg cgagagtggc tcgcnaantc ggatgaaacc 360 tacaccccaa ccnagaagag gaactgggag tggggaagtg tgtgaatgcg tgtgaaagag 420 gcggttccag aaggagccaa tgtggggagt gacgtgtggg gccgcaggtc tcttagcgta 480 gaccgtacgc tccgagcgaa gtgtgggacc gaccgggact agtggcgaat gtcctccggg 540 gctaccacat atggcttagg gaggcgcccc acaatttagt gattgtggtg gtccgggttc 600 ggggctcata cgaaccctcc attaaagcta agcggcgtct gaaaactccc gcgagggaga 660 tggtctaatc ggtctgaagc gaaagtaaaa gagtgagtgt gttgcgccgt aactgggagg 720 aaatgggagg gaagtcgtca aaacccaccc cattagaatg tatgttaaag aactttaaga 780 aaggttatgc aggggattat gggatcaagt tgacccccca gaggttgaga actctctgtg 840 aantagaatg gccctctttt ggtgtcggat ggccggccga aggaactata gatagggaaa 900 taattggccg tgtatttaag gtggtgactg gggtcggagg acagccaggg catccagacc 960 aatttcctta tattgactca tggctaaata tagtccaaac ccgaccngcg tggctgcagc 1020 cctgcctggc agcttattgc aaaacgctcg tggcccgagc cgagcctaaa gtgaaagaag 1080 aatcagcttc gctggcagct acggaganaa agggaaagcc acaggaaggc aagagaaacc 1140 agttttgcgg gaaccaccag aggagacaga aattcttcct ccntatatcc caatctaccc 1200 ccctttaccg aggccaatgg cccccgagga gtcaaattca gatggtgaca cgccccgggc 1260 ctcaccccaa agggaagaat cggagccnca ggaggtcagg gaggaaagtc aagatgatca 1320 agcgggccgc ctcnagtctg gccacgcccg ggctntgcaa atgcctctca gggagacgcg 1380 gggacccatc tattatgatg aacanggcca ngtccaaggg gggcaatgga ccttcntcta 1440 ccagcctttt tcaaccactg atctcctaaa ctggaaacac catattccct cctacacgga 1500 gaagccccag gccctcatag atctgatgca gtccattttt cagacacaca atccaacctg 1560 gccagattgc aagcagcttc tcctgacgct gtttaatacc gaggagcacg gaagggtgac 1620 ncaggcagcc ctccactggc tagaagccaa tgcaccagna ggcacantta atgtccaggc 1680 atacgctcag ggccagttcc cagaagcaga cccccactgg gacccaaatg atgcaaccca 1740 gtttcagcac ctgcagaggt actgagaggc actcctgcaa gggctgaggg aaggcgggaa 1800 aaaggcantc aatatgggaa agatctcgga ggtgcttcag ggagcagatg agagccctag 1860 ccagttttat gagagactct gtgaggcatt ccggctttac accccgtttg accccgaggc 1920 cactgagaat cagcgcatgg tgaatacggc atttgtagga caagcccagg gngacatcag 1980 gcgaaagctg caaaagctag aaggttttgc aggcatgaat gccacccagc ttttagaagt 2040 agccaccaag gtgtacgtta accgcgacca ggaggcaaaa agggaggctg atcggaggct 2100 taggaagaag gccgatctgc tggcggcagc cctcacggaa agggaagcta gcatcgcgag 2160 aggacgcgga cgcggacgcg gacgtggaag gggccaagtt ggacagagac ctgaaagtca 2220 gccgagacta gatagggatc aatgtgtgcg gtgcaaaaag aagggacact ggaagaatga 2280 gtgtccagag ggcaatgaag gaaatggcca aggccgtgag acgagaaggc cgccagccaa 2340 gggctgccgc accctgaggg agccagacac tgacctnatc gggctggcag ggactgaagg 2400 atatgaagac taggccagac cgggctccat ctccttaggc ccccaggagc ccatggtcac 2460 agtagaagta gggggccaac tgatggactt tatggtagac accggggctg aacactcggt 2520 agtgacncgg cccatagggc cactatccaa aaactatacg actattgttg gggctactgg 2580 ggtcccagag aagaggccat tttgtcggcc aaggaggtgt gtcataggag gacaagaagt 2640 ccagcatgaa ttcctatacc tcccaaattg cccagttccc ctgctgggaa gagacctact 2700 ccaaaaactg caggcacaga ttgcttttgg gccacaaggg gatatgactt taaacctgac 2760 tcacccaaag gccatggtgt taacccttac cgtcccacag gctgaggaat ggagactata 2820 cgcaaaagag tcgccagaac cgggantaaa tgaantgtat gggctactta gtaaaattcc 2880 tggagtatgg gctgaagata acccacctgg gctggctgta aatcaggcac cagtggtagt 2940 agagctaaaa ccgggagcaa ctccggttcg ggttcgtcaa tacccgcttc tccgagaagc 3000 catacggggc attcacaaac atttagantg gctcttcaaa cacaggatct tagtccgatg 3060 ccagtcaccc tggaacactc cactcttgcc agtacggaag ccagggtctg gtgaatatag 3120 accggtgcag gacttgcgtg ctataaacca ggctacngtg accatccacc cagtggtacc 3180 aaacccgtat actttaatgg gacttattcc agcaagtgcc gcttggttta cttncctaga 3240 cttaaaagat gcntttttct gtctccgcct ggcaccaatt agtcagccca tctttgcatt 3300 tcaatgggac gattgagtca caggcacagg ggagcagctc acctggacta gactcccaca 3360 aggattcaaa aactctccca caatctttga agaagcactg gcctcagacc tcaaggccta 3420 caccccgcca aatgataact gtgccttgct nnagtacgta gacgaccttc ttctagcagc 3480 cccaacccga gaggactgct accaaggaac ccaagacctc ctccacctcc tatggaaagc 3540 tggttataaa gtattcagga agaaggccca aatttgccan gaaagngtca aatatctagg 3600 cttcatagta agccaagggg aacgccggct cggcagtgaa cgaaagcagg ctgtttgtgc 3660 gctcccaact ccaaccaccc ggtgtcaaat aagagaattc ttgggggcag cagggttctg 3720 ccgtatctgg atcccaaatt tctcactaat ggctaagccc ttatatgaag ccacaaagag 3780 aggggaaagg aagcccctcc tctgggaggc tgaccaggag aaggcattta aacaaatcaa 3840 ggaagcctta actcaggccc cagccttagg actgccagat ataactaagc ctttctttct 3900 atatgtccat gaacgaaaag gaatggctat aggggtcctg actcaagtca taggatcatg 3960 gcatcgcccg gtggcatact tatccaagca actggactcc gtggcnctag gatggcctcc 4020 ttgccttagg gcactagctg ncactgccct actggcacaa gaagctaaca aactgactct 4080 aggacaacag ctgaccatcc gggtatacca cactcggtta taactttaat ggaccagaga 4140 gggcaccatt ggttatcaaa tccgagaatg actcggtacc aggggctcct atgcgaaaat 4200 ccccacataa ctttggaaac agtaaacacc cttaacccgg ccaccttgct cccgatcgaa 4260 ccgggagccc cccttcatga ctgtgtggaa acagtagatg aggtattctc aagccgggga 4320 gaccttacag accgacccct cggggaccca gatgttgaat acttcacaga tgggagcagt 4380 ttcatactgg aaggggtccg ctgagcaggg tatgcggtgg taacattgga ctcagtggta 4440 gaggctcagc ctctgcccac cggaacgtcg gcccagaagg cagagctaat agccctaacg 4500 agagctcttt tgctggcgaa agacaaaaag gtcaatattt atactgactc caagtatgct 4560 tttgccacgt tgcatgttca tggggctata tataaagaaa gaggactctt aactgcggag 4620 ggaaaaagaa ataaagtaca aagaagaaat tctacagctc ttagatgctg tatgggcccc 4680 gaagaaggta gctgttatgc actgcagggg gcaccaaaag gcaggaacac tagaggccaa 4740 aggaaacaga aaggcagaca gggaggcaaa acgggcagca atgactactc cgcactctaa 4800 aaaggaagcc ctagctatgc ctctcctccc agancctccc ctcccagaga tcccaagtta 4860 ctctccaaat gagaaggcct ggtttgccca agaatctgga aaatacattg aaggaggatg 4920 gtggaaattc tccgatggga gactagccat ccctgaaatg gtggccccta aatttgtaaa 4980 acaattccac caaggaactc acatggggaa aacggcacta gaaacgctac taggacgcca 5040 cttctatgtg ccacggctca ctgccatcac ccgagccgtt tgcaaacaat gtctaacttg 5100 tgcccagaac aacccacgac aagggcccac ttggcccccc gggaattcag gaaatgggag 5160 ccacaccctg tgaaaacctg cttatggact tcaccgagnt gccccgagcg gggggctatc 5220 agtacatgct ggtgctcgtc tgcaccttct cgggatgggt cgaggctttc cccacccgaa 5280 cagagaaagc acgagaggtg accaaagtac tgttaagaga cgttatcccc agatttggac 5340 tgcccctaac tctggggtca gacaatggac tggcatttgt agccgaaata gttcaggaac 5400 taacgcggct gttaaaaata aaatggaaat tacacacagc ctaccggctg cagagctcag 5460 gaaaagtgga gcgcatgaac tggacactca aacagctact gaagaaatnt tgtcaagaaa 5520 cccatctgag atgggatcag gtcctgccca tggtcctcct ccgagtcagg tgcaccccca 5580 ccaaacaaac cgggtattca ccctatgaga tcttgttcgg ccggccaccc ccaatcatag 5640 gtcaaattaa gggtgatctc cgtgaactag gggaactgac tttaagaagg caaatgcagg 5700 ctttagggat agccatgcag gangtccatg gctgggtacg ggaaagaatg cccataagcc 5760 tgacagaccc ggcacacccc ttcaaacctg gggactctgt ttgggtcaag aaatggaatc 5820 caaccactct gggacccata tgggatgggc cccatactgt aatcttgtcc actcccactg 5880 ctgttaaagt tgcaggaatt gtgccttgga tccaccacag tcggctgaaa ccggcagccc 5940 gagacaagtg gaccagccag caggacccag accatccgag ccggctgatc ctgcgacggg 6000 accgagttgc cactgagaga cgacgacagc cctgctctgg tcactccgga agctgaccag 6060 tctacgcacg gccgaagctt gaggaggcaa cagccctgct ctagtcaccc tggaagctga 6120 ctagtctacg catggccgaa gctngagtca tcatcaggga agtaaatgtg gttagaaatc 6180 ttaagtccag tagccttcct tataatacta gttgttttac tattgttctg tcgctttgct 6240 caaccncctc ccccgggtaa agacctcttt tgtccctgcc gggtataaac atgctactct 6300 ttacttattt gttccggcgt aggaagctac acctttcctc ctnattatgn cgntcccctt 6360 atctgtntca ggagaggaga ccatagaaga gtgcccacac tgcactcaca ctacgtggtc 6420 agggagcacn ataaccagaa ccctgttata ccacacttac tatgagtgta cagggaccca 6480 cctaggaact tgtactcaca accagacgac ctactcagtc tgtgacccag gaaatggcca 6540 gccttatgtg tgttatgacc ctaagttctt acctgggacc tggtttgaaa ttcacgtggg 6600 tcaaaagaag gaaaccttct aaacnaaacc aaggtccctc cctcccacaa gggagccata 6660 tccttgtact ttgatatttg ccaggcaaca tccataggct caacctttcc cgtaatctct 6720 agttccgaag agtactataa tagctgccac aaaaatatat gtncaccccc tgctttctcc 6780 gccagttccc cggaaacaan ttgctgggnc tgcanaatcg gtcctgtaac ctgcaatcac 6840 tggggcnagt catgcttacc aaaataccag cagaaccaga ctgtaaggca agcacttgca 6900 gtcctgtaaa tctcaccacc ttggagccaa atctggccgt atggactaca ggtttaaaag 6960 caccctagga atacaagtca gcagccagga aacagactca agagtctatt tacatattat 7020 caaaaaacct cggacccgtc cacccgaaaa ttccagtttt taagtcattc tatgagcatn 7080 tcaaccagga gttgcctgag ccccctcctt tgccagaaac ctattagctg tggatcgttt 7140 gcatgttcaa ctggctgaaa acatagccag cagcctacgt gtctcctcat gctatgtctg 7200 tggagggacc aacatggggg accaatggcc atgggaggca agagagctaa tgccccaaga 7260 taacttcact ctactgtctc ttcccccgaa ccngcgctca cgagcccgag cgtctggctg 7320 ttaaaaacct ctattatcgg aanattctgc attgcccgct ggggaaaagc ctttacagac 7380 ccagtaggag aattaacttg cctaggacaa caatattaca atgagacact aggaaaaact 7440 ttatggcggg gcaaaaataa ttccaaacca ccccatccgg gcccattctc ccgtttcccc 7500 tctttaaacc actcttggta ccaacttgaa gctccaaatg cctggcaggc accctctggc 7560 ctctactgga tctgtgggcc atgggcatat cggcaactgc cagccaaatg gacaggggcc 7620 tgtgtactgg gaacaattag accgtctttc tttctaatcc ctttaaaaca aggagaagcc 7680 ttagggtacc ctgtctatga tgaaactaaa aggagagaca aaaaggggta taaccatagg 7740 gaattggaag gacgattaat ggccccctga aagaataatc caatactatg gnccagccac 7800 ctgggcagaa gatggaatgt agggataccg cacccctatt tacatgctca accacatcat 7860 aaggttacag gcagtgcttg aaatcattac taatgacact gcaaaggcct taaatctgct 7920 ggcccagcaa gccacaaaaa tgaggaatgc tatttatcaa aatagactgg ccttagacta 7980 cctcctagcc caggaaggag gggtatgcgg gaagttcaat ctaactaatt gctgcctaga 8040 aattgatgac aacggaaagg tcatcaagga tataactgcn aaaatccaaa aattagccca 8100 tgttccagtc cagacttgga aaggatggtc tccagattcc ctctttgggg gctggttttc 8160 atcccttgga ggatttaaaa ccttagtagg aatagttcta gccatactag gagnctgcct 8220 natactccct tgcctcttac ccctccttgt taagaacatc caancagcca cagaggctct 8280 tgtagacaaa canactacca ctcaactaat ggctctaact aaatatcaac ccttgccaaa 8340 tgaagagaac tgccttcnca tgaagaatta antagtagtg atnctttcta ttaaacctca 8400 tttataaaaa gcatcaaagg nggnaa 8426 // ID HERVK3I repbase; DNA; HUM; 7242 BP. XX AC . XX DT 17-JUL-1998 (Rel. 3.06, Created) DT 21-NOV-2000 (Rel. 5.1, Last updated, Version 3) XX DE HERVK-related endogenous retrovirus flanked by LTR3s - a DE consensus sequence of the internal part. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW HERVK superfamily; HERVK3I; LTR3. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Medstrand P., Mager L.D., Yin H., Dietrich U. and Blomberg J.; RT "Structure and genomic organization of a novel human endogenous RT retrovirus family: HERV-K (HML-6)."; RL J. Gen. Virol 78, 1731-1744 (1997). XX RN [2] RP 1-7239 RA Kapitonov V.V. and Jurka J.; RT "HERVK3I."; RL Direct Submission to Repbase Update (JUL-1998). XX DR [2] (Consensus) XX CC Average similarity of HERVK3I individual copies to the consensus CC sequence is about 90%. CC As other members of HERVK superfamily, it has 6 bp target site CC duplications. HERVK3 is flanked by LTR3s. CC Similarity of HERVK3I consensus sequence to the known CC retroviruses CC is shown below: CC ---------------------------------------------------------------- CC start end RETROVIRUS start end identity CC ---------------------------------------------------------------- CC HERVK3I 381 452 HERVK 281 352 0.71 CC HERVK3I 1539 1809 HERVK 1772 2026 0.70 CC HERVK3I 1937 2523 HERVK 2194 2779 0.61 CC HERVK3I 2684 3273 HERVK22I 2334 2914 0.65 CC HERVK3I 3335 3992 HERVK9I 3015 3664 0.61 CC HERVK3I 3996 4464 HERVK 4240 4702 0.58 CC HERVK3I 4588 5193 HERVK 4826 5434 0.64 CC ----------------------------------------------------------------. XX SQ Sequence 7242 BP; 2190 A; 1569 C; 1503 G; 1979 T; 1 other; tagtggcgcc ccgaacagcg acagaatcag gcgctcaaca agtggcatcc gaacacaggg 60 actttgagga cgtgaacgaa gaaggtctgc tggagcagag aaactgaaat tgacaagacg 120 aatggggacc ctgggatgag tctgctggca gcagatataa ggtcagtgcc ctaacgaggt 180 actgggagca atataaggtc agtgccttaa agaagtactg ggaatgggag tttttctgaa 240 tcggaggtaa catggggcag aatttgtctg ttgaggaaaa acattatcgt gcagttgctt 300 aaagttttgt tgaaacaatc tggtgctcag gttaattctc agacattaac taagatgctg 360 caggaggtta ttacgcataa cccatggttt ccacaggcag gcactcctga tgtagaaaat 420 tggcacagag caggagaagg attaaaacag gctcatcaaa aaggtcttaa agttgattct 480 tctgctttct ccactaggag tttagttcat actgtccttc tgccattata tcctttttat 540 tctgctggac agcaggagtc atgttctgag tctaaaaatc tgaaagaatc tgttgtccca 600 cccacagcac caattgaaaa taaaaaacag gagagggagg ataaaaattg gcctataccg 660 ccccctccag ttgcagaaac atctgtaccg cctccttcag tagccgaaat agagacctca 720 atacaaagaa ttttatgctc tgctgccata gctggagagc ccttaggacc tctgcacttt 780 tcctatttcc gtaaggcctg atccaaacaa tccacagcag tttattcatg aacactcccc 840 actagagttt acgttgttga aggaattaaa aattaagtgt aattaataat gggatacaga 900 gcccattcac cttaggattg ctagaatctg tatttggtgc tatgcgcctt ctaccctttg 960 atgtaaaaca tttggctcgc acttgtttgt ctgctactgc atacctgact tggaatttaa 1020 attggcaaga aatgtgtgca gaccaggcta gacagaatca tgcttctgga cacggagaca 1080 ttacagaggg tatgctgtta ggtaatggcc ctttattcag acctggcatg tcaaatggca 1140 ctcccagatc ctgcttatca gcagtgtgca caggctgcta tgcacgcctg ggccacaatt 1200 ccagaagaga gagtcccagt acaatccttt ttacatctca tgcaagggtc acaggaaccc 1260 tacgtgcaat ttcttgcaag attacaagag gcagtgaagc atgaaattcc tcataccgct 1320 ggcacagaaa tgctaacctt aactttagct tttgagaatg caaacgcaga ttgtaaacgt 1380 gcactggcac ctgtgaggtg taacaaaact tgggaaattt tctcagaact tgtcaggatg 1440 tagaaactga gcttcattgc tctgcaattt tagctcaagc aatggctaat ttagtagttg 1500 acaaatctaa aaggagccga cggtcaaacc ctaaagtggg aaaatgttat aattgtggaa 1560 aaactggaca ttttaaaaag gaatcatgac tgatctcagg gcagaaagga ccttataatg 1620 tggtgccctc cacccccatg gcccagcgga aaaaaacgcc aggactctgt cctcactgta 1680 acaaaggaaa tcactgggct attcaatgcc gctcaaaatt tcatcaaaac tgcaaccacc 1740 tgtcaggaaa cgagaagggg gcctggaccc gggcccctca aacaatgagg gcattcccag 1800 ttcagaccac aaccccactt caggggtggg tcccaggagg aacattgatt ccctcacccc 1860 aggaacacca ggaagtgcag gattagatct tccagtcaga gaaagaatta cattaattgg 1920 tggagacaaa cctatcaaag ttcccattgg catttgggga cctttaccag caggatacag 1980 tagactaatt ttaggcaaaa gctgccttaa cttgcaaggc attactgtag tcccaggagt 2040 agctgactct gattatgaag gagaaattca agtagtttta atgtcacaag atctttgggt 2100 ttttgaaccg gaagaatata ttgctcaatt attgcttatt ccctgcaaat tacacccttc 2160 tccataaaag gagaaacgag gaaataaagg gtttgggagc acaactacat gagaaatcta 2220 atgattcaca acctatagct tataatagac ccacctgtgt agtacaaagt aaaggaaaga 2280 aattgtatgg gcttatggac acaggagctg atgtgtcagt aatatccagt aaggactggc 2340 ccccagcatg gcctctcaga ctaacctcca catccctagt gggagtagga gcagctaaaa 2400 gtgttcaaca gagtgctgag attttacctt gtcttggtcc ggatggacaa tcatgtactt 2460 tccagcctta tgatgcaaat atagctatca atttatgggg tcaagaatta cttacagcat 2520 gggatatgag acttacaaat gaaaactttc ataacccagg atttaaaatg ttgaaggaca 2580 tgggatatca gagtggaaaa ggtttaggga aattcctaca aggaaaccct aacccgatat 2640 ctataactgg agaaacagat agaaaagggc aaggatgtca ggatttctga tggggatcat 2700 tgatatttct cctcgaccca ctgccttacc attagaatgg ctttgtgaca aacctatgtg 2760 ggtggatcaa tggcccctaa cacaggagaa gctagatcaa cttcatctgt tggtaaaaga 2820 acaattgaat gcaggacata tagagaagag tttcagcccc tggaattcac cggtatttgt 2880 tattccaaaa aagtctggaa gatggtgact actacatgat ttgagagtta ttaatgcgca 2940 aattaaacca atgggtgcct tacagcaagg tctaccttcc ccagcagcca ttccaagaga 3000 caggcctctt gtagtaatag atcttaagga ttgtttcttt actataccat aacacgagaa 3060 ggataagcct caatttgcct tctctgtgtc ttctattaat catagagaac ctgtctctcg 3120 ctatcagtgg aaagttttac cccaaggcat gcttaacagt cctacattat gtcagcattt 3180 tgtaggaaga gcattaaagg agccttgaaa tatgtttccc actgtctata tcattcattt 3240 tatggatgat attcttttgg ccgctcctac agatcaaatt ttacatcagt tattcagaga 3300 aacaaaacag gccttaacta aatggaatct caaaattgct ccagagaagg tgcaaacaac 3360 ttccccatac cagtacttag gaactattgt tatggagggg agtgtacggc ctcagaaagt 3420 agttctccgt aagggcaggt tacagacttt gaatgatttc caacaattat taggggatat 3480 taattggctg tgcccaatgc taggtattgc tacttatcaa ctcacacacc tttatcaaac 3540 cctccaagga gattcttcat tagattctcc tcggcaattt actaaggagg cagaagctga 3600 gttacagctt gtagaacaga tgcttcagca acaacatgcc tcctggctac agccacaaaa 3660 gcctttgctt ttgtttattc ttcctacccc ccattctcca acaggacttt taggccaatt 3720 catagacaaa tctgtaatcg taatagaatg gctctttcta tctaatcagt gaaatctttg 3780 caagtttatc tttctttaat tactcaactt ataacaatag gtaggcatag gtcaaaaatg 3840 cttatgggat atgatccaga taaaattatt gttcccttgg attcccaaca acaggccaca 3900 gcatgggaaa tgtcgactgc atggcaaatc acttttgcag attttgtggg aataatagat 3960 aaccattatc catcagacaa aattttgcaa ttttataaag ttcacccttt tatccttcct 4020 gtaattactc atcacaagcc tattccaggt ggacagactt attttactga tggctcttct 4080 aaaggccgtg cagctattta tggacctaaa catactcaaa caataatgac ctctggggtt 4140 tcagctcaac gctcagactt aattgcagtc attcaggttt tacagctgac agcttcagat 4200 cctatcaaca ttgtctgtaa ttcagcttat gttgtaaatg tagccagttg catagaaact 4260 gctacaatta aaaatacact agacccagaa ctgcttaatt tgtttctaag acttcacaca 4320 gctattggct ctccttcgtc tccttttcat atttctcata ttcgctctca cacacaactt 4380 cctggaccac tatctctagg taatgataga gcagataaac tgatgagttc tgtgtttcag 4440 caagctcaag cgtctccatg catttctgca ccaaagtact tctgcctcta ctcgcatgtt 4500 ccatttstct cgcagccaag ctagggctat aatacaagcc tgtcctactt gccagcatgt 4560 ccctggagcc gcacctgtag aaggttgtaa cccatgaggt ttggctccaa atgaaatctg 4620 gcaaatggat gttacacaag tagcagcctt tagtaaactt agctatgttc tacgaattat 4680 agacacttat tctcatatgc tgcatgctac atgccaaaca ggtgagacag ctggtcatgt 4740 acggcaacat tgtttgtcat catttgctca tatggggatc actaaacaat taaaacctga 4800 caatggacca gcttatacta gtcatgcttt tcaaatattc ttacagcttt gagctataac 4860 ccataaacaa ggaatccatt ataatcctag aggacaagga attatagagt tggcacatca 4920 aacattacaa caagtgttga aaaaacagaa agggagggat aggagaccac ttcacacctc 4980 aaacaaaact acacttagcc ttattatctt taaatttttt tgactcctgg tagagatggt 5040 aagactccag cagaaagaca ttggcaagtg ttagaggaaa agaggaaagt ttatccgaaa 5100 gtgttattga aatcccccgg agaagagaca atggaaaggt ctgttggatt tactgacgtg 5160 gggatgaggg tatgcttgtg tttttcaggg agatggacaa gccgtgtggg tgccctcaag 5220 gtggatgtga ccatggaacg ggagactaga ggaacccagg gtggccaact atgggcctgg 5280 tccctctggt ctgagccatg agccagctga gctagagtgc aaagatggag agaaggccga 5340 ccggagtcca gacgacatca acccccataa cctgggagca actcaagaat accaatcagg 5400 aagctgggaa actactggag catcagagcc aggcaaaaca ccctgattcc atgttcttgg 5460 ccatgttagt cataatgtcc tgtgtggtat gttttccctg tgcagaggca aaaacatttt 5520 gggcatatgt tcccaatccc ctagtagtac aacctatgct ttggagtgac actcctcctg 5580 agatttatcg tgatcaggaa gtatgggctc caggacccct aactcccctg acaatagaac 5640 agttagactc tcagaacaat gtcattaatt atacgacccc acgagaagga ctcctcttgt 5700 gtatcactac aaagacatcg cttaactgta gctgtcttat aattcaagct caacaatggt 5760 tgagtcacta tggaaaagtc atgtgcctat taagtcttgg ttctattaat gtaacaggtg 5820 tgctaaccaa ccattcccgg cccaatcacc ctaatcgtgc tgactatatg gaatggattc 5880 ccttcgatag ttactacccc ccctcacatg gacccaatgt cttgacccac tggctagaaa 5940 acaatctatg ttaagtggag acattgtgga ttggggacct aaaggtcttc tgtatggaag 6000 acatgaaaat cagaaatcat ggcacaaact tcgctggcat tggtgggaag attttaaagc 6060 ttcttcttta taccacaccg ggatctaatc ccagtctgcc acccagattg cttgacatgg 6120 agcaggcttt agcccgcctc ttcctcagtg gcattatcta gggaggaaag gaccaatcca 6180 agagatgtta tggaaggcag cactcccatt tatgaatgga gcatctgggt tcgggatact 6240 atccagtgat agcaatagta agcaacacag tcttaatgtt acatttgtaa agaatatcac 6300 cactcaattt atggtttgtc tttttaatcc ttatgctttt ttggcgacta agaaggacca 6360 gctccaggta aacaatatcc aattgacctg taaatcttgc cagttatgtc actgcattaa 6420 tcatagcaca ttgcaaacac ataatgtctc tactttgata attttgggtc gcatccctgg 6480 gctatggatt cctgttaatc tgtcccagcc ttgggctacc acacctgctt tgcactttat 6540 gaaacatctt ctaactcagc ttactcattg tgcccgtaga gccttaggca tgataatttt 6600 tgctattgtt tccttggtca cattaataac ttccgttgtg atgtcctctg tagctttgca 6660 tagttctatt caaacaactc agtacatgga aaactggatg cgtatagcca accaagcatg 6720 gccacttcag aataaaatta acactgagtt acaaactgaa gtggcattgt tgaaatccac 6780 ggctctatgg ttaggagaac aagtacaaag cttgcaattg caacagcaat tgcatgatca 6840 ttttaatcac actcatattt gtgtaaccaa cttagaatat aaccaaagtg agtatccatg 6900 ggaccttgtg aaagcccatt tgcagggagc ttgcacatcc aacatcacct ttgatatcgg 6960 tgaattacaa aacaaaattc ttgatttaaa tggacaaact caagagtttc agccttcttt 7020 agaagacgag accaaattcc agcaaggcct ggagagcctc aacccttgga ccagtctaaa 7080 gcaccacatt aacatcttat atgtagtcct tggaataatg ttgttttgtc tctgtcttct 7140 gttcatagtc tgtaaaactg gatggactgc caatcagaaa atgagagctg cccagcctga 7200 ccttacattc tttcaattaa ttcataaaca gaaaggggga ta 7242 // ID HERV9 repbase; DNA; HUM; 8399 BP. XX AC Z84475; XX DT 13-MAR-1997 (Rel. 2.02, Created) DT 13-MAR-1997 (Rel. 2.02, Last updated, Version 1) XX DE Internal sequence of endogenous retrovirus HERV-pHE1/HERV9. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV9; HERV9; KW Internal sequence of endogenous retrovirus HERV-pHE1/HERV9. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 2350-4944 RA La Mantia G., Maglione D., Pengue G., Di Cristofano A., RA Simeone A., Lanfrancone L. and Lania L.; RT "Identification and characterization of novel human endogenous RT retroviral sequences preferentially expressed in undifferentiated RT embryonal carcinoma cells."; RL Nucleic Acids Res. Accession Nos M85205, X57147 19(7), 1513-1520 RL (1991). XX DR GenBank; Z84475; Positions 35025 26627. XX CC LTRs of HERV9/HERV-pHE1 are listed in REPBASE as LTR12 sequences. CC Part of the internal sequence is listed as interspersed repeat CC PTR5. XX SQ Sequence 8399 BP; 2414 A; 2137 C; 1685 G; 2163 T; 0 other; ttttggcaac cacgaaggga ctatcaccta tcgccaagcg gtgagactat tgcatagcgc 60 caagcagtga gtaccatcag acccctttca cttggtattc tgtcctattt ttccttagaa 120 ttcaggggct aaatactggg cacctgtcag ccagttaata gtgactagca cggccactgg 180 actaaaaaca cgggtgtcag gctttctggg aaagggctct ctaacaaccc ttgactcttt 240 ggagttggga gcgttggttt gcctggaacc agcttccact tttcctatac ttctaggctg 300 agccaagggt caacagagag gaaagccatt tagctctggg ggtcccgaaa acaagttggt 360 tgaccctgca gtcatgagcg gaactctcaa agtcatgtca cccaagcgag acttgcccat 420 ctattctatc taccctgacc cttgcctcct gggtcctaat gcctgccaga caaacttcct 480 ctcacctctc ttctccaagg ctagtcctgc ttctaaaaac cactccctgt ctctggtgct 540 tttctagttt ctcctataag aatgatttct agtataaact ccaggaatct attcccttct 600 ttaggcaact gggctcacca atcagaaaga cataattttt tcccaaagcc ctgtcgcagt 660 ggggactatc tggaatttta ggatccttcc ttagaatagc aggcctaacg aaagctattc 720 ctgaagctag gatatgggga gcctcataaa ttgtatcctt cctattcata taaatgagga 780 caaaaggcat cactcttcca actctggaga tcccttccct ccctcaggtt atggccctca 840 acttcatttt tggggcataa catctttata ggacacgggt aaggtcccaa tactaacagg 900 agaatgctta ggactctacc aggttttcaa gaatatgtca taagggtcac caaatcctat 960 ttttctcggt cctttttgtg gtctaggatg acaggcaagg gtacaggttt ttgagaatgc 1020 atcggtaatg gccactaaat cctaccttcc tcggtcctcc ttgtggtcta ggaggaaatc 1080 tagtgtttct gatgctgtgt cggtgagcac aactattcca atcagcaggg tccagagact 1140 gttgccagtt cttgggcagg ggttgtttct gctgctgcat cggtgattgc aactattctg 1200 atcagcagtg tccagggacc attgtgggtt cttgggcagg gggagaaaca aaacaaacca 1260 aaactatggg cggtttgata ggaaacactc aggcatcaac acgctcaccc ttgaaatgta 1320 tcctaagcca ttgggaccaa tttgacccac aaaccctgaa aaagaggcag ctcatttttt 1380 tctgcactac agcctgaccc taatattctc tctctgatgg ggaaaaatgg ccacctgagg 1440 gaagtataaa ttacaatact atcctgcagg ttgacctttt ctgtaagagg gaaggtaaat 1500 ggagtgaaat accataaggt attacaagct ttcttttcac tgaaggagaa tacacaacta 1560 tgcaaagctt gcaatttaca tcccacagga ggacctttca gcttaccccc atatcctagc 1620 ctccctagag ctctccttcc tattaatggc aagcctcctc caatctcccc tgcccagaag 1680 gaaataagca aagaaatctc caaaggacca caaaaacccc tgggctatcg gttatgtccc 1740 cttcaagctg tagggggtgg agaatttggc ccaacccagg tacatgtccc cttctccctc 1800 tgtgatttaa agcagatcaa ggcagactgg gggaagtttt cagatgatcc tgataggcac 1860 atagatgtcc tccagggtct agggcaaacc ttcgatctca cttggagaga tgtcatgcta 1920 ttgttagatc aaaccctggc ctttaatgaa aagaatgtgg ctgtagctgc agcctgagag 1980 tttggagata cctggtatct tagtcaagta aatgatagaa tgacagccga agaaagagat 2040 aaattcccta ctggccagca agccatcccc agtatggatc cccactggga cctcaactca 2100 gatcatgggg actggagtcg taaacatctg ttgacctgtg ttctggaagg actaaggaga 2160 attaggaaaa agcccatgat ttattcaatg atgtccacca taaatcaggg aaaggaagaa 2220 aatccttctg ccttcttcag gtggcttcag gagaccttaa gaaaatatac tccactgtca 2280 cctgaatcac tcgagggtca attgattcta aaagataagt ttattaccca atcagcagca 2340 gatatcagta gaaagctcca aaagcaagcc ctgggccctg aacaaaatat tgaggcatta 2400 ttaaacctgg caaccgtggt gttctataat agggaccaag aggaacaggc ccaaaggaaa 2460 agagatcaga aaaaggccgc agccttagtc atggccctca gaccaacaaa ctttggtggt 2520 tcagagagga cagaaaatgg agcaggccaa tcagctggta gggcttgtta tcagtgtggt 2580 ttacaaggac actttaaaaa agattgtcca gtgagaaaca agctgccccc ttatctgtgt 2640 ctactatgcc gaggcaatca ctggaaggtg cactgcccca gaggacaaag tttctctagg 2700 ttggaagccc ccaacctgat gatccaacaa caggactgag ggtgcccagg gcaaacgcca 2760 gctcatgtca tcaccctcac tgagccccag gtatgtttaa ccattgaggg ccaggaaaat 2820 gacttcctcc tggacactgg cacgtccttc tcagtgctaa tctcctttcc tggatgactg 2880 tcctcaaggt ctgttaccat ccgaggaatc ctggggcagc ctgtaaccag gtgtttctcc 2940 cacctcctca gttgtaattg ggagactttg ctctttctgt atgcctttct tgttatgcct 3000 gaaagtccca cacctttatt agggagatat attagccaaa gctggagcta ttatctacat 3060 gaatatgggg aacaagttac ccatttgttg tcccttactt gaggagggaa ttaaccctga 3120 agtctgggca ttggaaggac aatttggaag ggcaaaaaat gcccacccag tccaaatcag 3180 gctaaaagac tccaccactt ttccttatca aaggcaatat cccttaaggc ctgaagctct 3240 taaaggatta caggatattg ttaaacattt aaaagctcaa ggcttagtaa ggaaatgcag 3300 cagtccctgc aacaccccaa ttctaggagt acaaaaacca aatggtcact ggagactagt 3360 gcaagatctt agactcatca atgaggcagt aattcctcta tatccagttg tacccaaccc 3420 ctataccctg ctttctcaaa taccagagga agcagaatgg ttcatggttc tggacctcaa 3480 ggatgccttc ttctgtttcc cctgcactct gactcccagt ttctgtttgc ctttgaggat 3540 cccacagacc acacgtccca acttacatgg atggtcttgc cacaagggtt tagggatagc 3600 cctcacctgt ttggtcaggc actggcccaa gatctaggcc acttctcaag tccaggcact 3660 ttggtccttc agtatgtgga tgatttactt ttggctacca gttcagaagc ctcatgccag 3720 caggctactc tagatctctt gaactttcta cctaatcaag ggtacaaggc atctaggtca 3780 aaggtgcagc tttgcttaca gcaggctaaa tatctaggcc taatcttagc cagagggacc 3840 agggccctca gcaaggaatg aatacagcct atactggctt atccttgccc taagacatta 3900 aaacagttgc aggggttcct tggaatcacc ggcttttgcc gactatggat ccctggatac 3960 agtgagatag tcaggcccct ccatactcta atcaaggaga cccagagggc aaatacttat 4020 ctagtagaat ggtaaccagg ggcagaaaca gccttcaaaa ccttaaagca ggccctgtac 4080 aagttccagc tttaagcctt cccacaaact tctctttata tgtcacagag agagcaggga 4140 tagctcttgg agtccttact cagactcttg ggacaacccc acaaccagtg gcatacctaa 4200 gtaaggaaat tgatgtagta gcaaaaggct ggcctcactg tttaagggta gttgcagcac 4260 tggccatctt catgtcagag gctatcaaaa taatacaagg aaagatctca ctgtctggac 4320 tactcatgtt gtaaatggca tactaggtgc caaaggaatt ttatggctat cagactacca 4380 cctacttaga taccaggcac tactccttga gggaccagtg cttcaaatat ctacatgtgt 4440 ggccctcaac cctgccactt ttctcccaga gaatggggaa ccaattgagc atgactgcca 4500 acaaattaca gtccagactt atgccaccca agatgatctc ttagaagtcc ccttagctaa 4560 tcctgacctt aacctatata ccgatggaag ttcatttgca gaaaatggga tatgaagggc 4620 aggttgtgac atagttagtg atgtaactgt acctgaaagt aagcctcttc ccccagggac 4680 cagcacccag ttaacagaac tagtggcact tacctgagcc ttagaactgg gaaagggaaa 4740 aagaataaat gtgtatacag atagcaagta tgcttatcta atccctcatg cccatgctgc 4800 aatatggaaa gaaagggagt tcctaacctc cgggggtacc cccattaaat gccacaagga 4860 gattatggag ttattgcatg cactgcaaaa gcccaaggag gtggcagtct tacactgcca 4920 aagccatcag aaaggtgaag gagaaaaggc agaaggaaac cgtcaggcag atgctgaggc 4980 caaaattgct gccaggtgga tactcccatt agaaatacct atggaaggac ccttggaatg 5040 gaacaaaccc ctccaagaga ttaagcccca gtattcccca aatgaaacag aatggggact 5100 ctcatggggg catagttttc tcccctcagg gtggttaacg acaaaagaag gaaaggtact 5160 tatacccgaa gccagccagt ggaaaatact taaaaccctc caccaaactt ttcatatggg 5220 tattgaaaac actcatcaaa tggccacatc tctattcaca gggccaaatc tactctgggc 5280 cttccaacag gtagtcaaaa cctgtgaggt gtgccaaagg aataatccct tggtccattg 5340 taaggcccat ttgggggaac aaagaatagg tcactatcct ggagaggact ggcagttaga 5400 cttcacccat atggcctaaa tcaaagggat ttcaatactt gttggtctgt gttgatacct 5460 ttacaaattg gatagaagct ttcccctgca agacagagaa gactcaggaa gtgattgaag 5520 tcctaattga tgaaataatt cctagatttg ggcttcccta aggcttacag agtgacaatg 5580 gtccagtttt aaagccacaa taactcaggg aatgtccagg ctgctaggga tacagtatca 5640 ccttcactgc gcccggaggc cacaatcctc agggaaggtc aagaaggcaa atgaaacact 5700 cgaggcactt aaggaaacta acacaaggaa catctcccat ggcctactct tttgcccatg 5760 gccttgttga gaatccgaaa ttctcctcac aaaatggggc tcagtccata tgaaatgctg 5820 tatggacaac attttctcac aaatgacctc ctacttgatg aggaaaagac aaacttgttc 5880 aaagatataa cttcttcggc aaaatatcaa caaaacccta aaaacctacc tgaaggatgt 5940 cacagagaaa agggaacaga gttgtttcaa ccaggagatc tagtgttggt caaatctctc 6000 ccctctacct ccccatctat ggactctctg tgggaagggt catactcaat aatcctctct 6060 acccacactg cagttaaggt ggtaggagtg aaatcttgga ttcaccacac ccgagttaaa 6120 ttttggacat cccctgagga acctgtgaga ccatcagctc aggagtccca agatcagcca 6180 gaccagcctc aatacacctg tgaaccattg gaggacttgc atctcctatt tcggaaggaa 6240 acatcccaga ataaaatggc tcctaccact aatcctgagg aaaaacccct tcctccttaa 6300 aaaagataag tgaaaaccta cataatcttt atctttaata cctctccttg cccctttaat 6360 ggaatccttt tactatttca tcatattatt aagcagcata ctaaccatac tctttgtgat 6420 aggactatat actgtagctc ctgccaggat gaaaatccta atcacatcaa ccttctttct 6480 atcatccttc cttgtgacag caatttactc ctacctttaa ctcagcctgg aaaaaatgat 6540 gtcatcttcc agagcaccct ctttaccttt ctatttactc tttgcctatc tatccctcct 6600 gcttccttgg atacctcata caatcactgc tccccttcca ctagctccta attacctcta 6660 caagactctc aacttaaccc actgtctgtt aaaccagtcc aatccttccc tggcaaatga 6720 ctgttggctt tgtatctctc tatcaacctc tgcttatgat gccactccca gtcccataaa 6780 aaacttggtc tttaccaact taatctacca ccctcattat gaaggaaaag accttttctg 6840 acttctaaat atgcaatcat tagctgactt acccatctct gataggacca agaataccct 6900 aacaggaggc gcaatccaac ttttacgttc ttacatttcc aacctcaact attacacaag 6960 caatgaaaag cccatacaca gccctgtaac tatgaatacc atcttaactt tccaagcccc 7020 tttatgcatc caatgcaacc tgttatcagg cctgcccctg gggcacttac taccccatca 7080 gtgtaattaa accctacaac ttcaagcccc aactgatcat agtaacttct gagtcaccca 7140 aacagctcca ttcaaatggt ttgtctgctc agggccccca aaaatcatca cctcctccct 7200 gcttaacaaa cagtccaggt tttgtaatgg caaacatatt ccctgcatga ccattcaccc 7260 ctggacaccc tgcagcagca cccccactac tagtgaatgc cttctcatcc cctctttcag 7320 tcactctctc aaatggttcc tagtagatac aaaatggttt ttttctccaa tgggaaaata 7380 gaacacaggg agctcccaat acccctttcc agccacttac tggagctacc ttggcaagta 7440 ctctaggagt atggataaat gaaaacaaca aattcacaca cctttttaat atacacaacc 7500 aattctgtct acccagccaa ggtatattct tctaatgtgg aacatcgacc tatatttacc 7560 tccccactaa ctggacaggc aactgcacct tagtctttct aagtcccaac attaacattg 7620 ccctaggaaa tcagacccta tcagtacccc tcaaagctca agtctgtcag cacagagcca 7680 tacaactaat acccctactt atagggttag gaatggctac tgctacaggg agcagaagag 7740 ccagtttatc tacttcatta tcttactacc acacactctc aaaggatttc tcagacagtt 7800 tgcaagaaat aatgaaatct atccttactc tacaatccca aatagactct ttggcagcag 7860 tgaccttcca aaactgcaga ggcctagacc tcctcactgc tgagaaagga ggtctctgca 7920 ccttcttagg ggaagtgtat tgtttttaca ctaaccagtc agggatagta agagatgctt 7980 cctggcgttt acaggaaaag gcttccgaaa tcagacaatg cctttcaaac tcttatacca 8040 acctctggag ttgggcaaca ttgcctctcc cttttctagg tcctgtggca gccatcttgc 8100 tgttactcgc ctttgggccc tgtattttta accttcttgt caaatttgtt tcctctagaa 8160 tcaaggccat caagctacag atggtcttac aaatggaacc ccaaatgagt tcaactaaca 8220 acttctacca aggacccgtg gaccaacctg ctggcccttc cactggccta aagagttccc 8280 ctctttagga cactacaact gcagggcccc ttctttgccc ctatccagca ggaagtagct 8340 agagcagtca ttggccaaat tcccaacagc agttgtggtg tcctgtttag gagggagat 8399 // ID MER52A repbase; DNA; HUM; 1755 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Long terminal repeat from MER4I-group retroelement. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; MER52; MER52A; subfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX RN [2] RA Smit A.F.; RT "MER52A."; RL Direct Submission to Repbase Update (1996). XX RN [3] RP 1-1755 RA Kapitonov V.V. and Jurka J.; RT "MER52A."; RL Direct Submission to Repbase Update (APR-1998). XX DR [3] (Consensus) XX CC MER52A is LTR from retroelements related to the MER4I-group [3]. CC 4 bp target site duplication [3]. Previous orientation [1,2] has CC been changed based on internal sequences and similarity with CC known LTRs. MER52B shares fragment of significant similarity CC with LTR20, LTR25, LTR27, LTR28 and MER61. XX SQ Sequence 1755 BP; 273 A; 624 C; 579 G; 252 T; 27 other; tgatggcagc ggcggcccgt ctggagtggc cgctgccatg atgccggctg cagcggggga 60 ggcgcggccg gggctgcgcg ctccatggag ccagcgggag ccgggaacag gcgggagccc 120 cgcccccttc cgagttgggg cgggagctcc ccgggtgcag ctgcagccgc ccaaacgcag 180 acccaggcct ccctgtgctc ttgggggccg ggagcaggca ggagccccac cctcccgggc 240 acagctgcag ccgcccagcc gcggctscgg acccaggcat cyctgcgctc tcgggggcct 300 gggaaggccc ccctgccccc acaggcttgg aagtgcctgc tcccactgca gctggcctct 360 ccccgctccc ggcgcccgct ccgcaggctc agaagtgcct gctcccgctg cctggcctct 420 ccctgctccy ggcgcccgct ccgatttcgg agcaaagttg yggccgagcc cgggcgctgt 480 cgcaacccgg ccgggtgtgt gcacgctcgg ggcagcgctg acacgccagc cccctgccgc 540 ctcggccccc tccggacttt gggcgccgac gagcatggga gggaggccga gggggggctg 600 agggcagctc ggcgckggcc tgcaggcgcc cctcggcacg aacagcctgg gtgccatgaa 660 cggcagcagg aggcagacag gctcctgggc agaaaggggc gggtccccgg tgaaacccca 720 ccttcaagcc agggacggcc tgaagcctgg gggccgggct gccagttccg ggtggagtcc 780 gcggmccgga gtgagaactt rtggtgcttt ttctgggccc acccatggcc gcccatggac 840 caatcagcac gcacttcctc ccctctgarg cccataaaaa ccccggactc agccagacty 900 agrcagaygw ygggacgacc agctgcagag aggagctacc cactccgggg tctcctctct 960 gctgagagct gcasagwcgw cgggatgacc tgcctgcaga gaggagctac ccactccagg 1020 gtctcctctc tgctgagagc tgaacactcg tcgggacgmc ctgsctgcgg araggagcta 1080 cccactgcgg gtctcctgag agctgttctg tcgctcaata aagctcctct tcgccttgct 1140 caccctccac ttgtccgcgt acctcattct tcctggacgt gggacaagaa ctcgggaccc 1200 accgaatggc ggggctgaaa gagctgtaac acaaacaggg ctgaaacacg ccccctgctc 1260 accacgttgt gggcgacgag aaggagagaa gagctgtggc ccttcgggga gcccagacct 1320 aggagctccc cgagccaggg ctgtgacacc ctctttgggg ctctgcggtt cctggcgtct 1380 ccaagcttct gggcgccacc gcgttccccg gtgccmrcwg tggaagctgc ttgcggtacg 1440 cctggtccag ccgcagcctt gcacggagcc ggcacctgtg ccggcgcctg gagctgcctg 1500 ccccgccgca gccrgcgtgc ctggctgtgc gcagtggccg gaccccacgc tcgcttgctc 1560 acacacccct caccgctccg cgcctggctc gcccttggca ggcatgggat ccaggccrgt 1620 agcgcgagcy gagcgcagcc tgccaggccg agtgggcgga atgagcccag cgggcccaag 1680 caaaactcgg gcaaaggcgc caccggccac agaggtttcc ggctggvraa gcgacacccc 1740 aaggatcccg tgaca 1755 // ID CR1_HS repbase; DNA; HUM; 453 BP. XX AC . XX DT 06-MAY-1999 (Rel. 4.04, Created) DT 06-MAY-1999 (Rel. 4.04, Last updated, Version 1) XX DE A CR1-like fragment from the human genome - consensus. XX KW CR1; Non-LTR Retrotransposon; Transposable Element; CR1_HS; KW chicken repeat 1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-453 RA Jurka J.; RT "CR1_HS."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC Low copy number. XX SQ Sequence 453 BP; 136 A; 74 C; 133 G; 101 T; 9 other; gaggttcaac aaggccaagt gcaaagtgyt gcacttgggt tggggcaatc ccaggtatrt 60 atacaaactg gggaactatg agcttggcag cagccctgtg gagaaggatc tgggggttct 120 agtggatgaw aagtttaata tgagccagca gtgtgctgtt gctgccaaaa aagccaacag 180 tatcctgggc tgcattaana agaggattga cagcagatca mgggaagtga ttatacccct 240 ttacaatgcc ttggtgaggc cacatttgga atactgcatc cagttttggt caccccaatr 300 caaaaaggat gttgagactt tagagagagt acagagaaga gcaacaaaga tgatcagagg 360 gctggaggac ctaacctatr aggaaaggyt gatggaattg ggcttgttta gtttgragaa 420 gagaaggatg aggggagaca tgatagcagc ctt 453 // ID L1MB2 repbase; DNA; HUM; 918 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MB2) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M3; L1MB2; L1MB2 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-918 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-918 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 15%. XX SQ Sequence 918 BP; 355 A; 149 C; 190 G; 220 T; 4 other; ttaatatcca gaatatataa agaacttcta caactcgaca acaagaaaac aaataacccg 60 attaaaaaat gggcaaagaa cttgaataga catttctcca aagaagatat acaaatggcc 120 aawaggcata tgaaaagatg ctcaacatca ctaatcatca gagaaatgca aatcaaaacc 180 acagtgagat atcacctcac acccattagg atggctacta tcaaaaaaac agaaaataac 240 aagtgttggc gaggatgtgg agaaattgga acccttgtgc actgttggtg ggaatgtaaa 300 atggtgcagc cgctwtggaa aacagtatgg aggttcctca aaaaattaaa aatagaacta 360 ccatatgatc cagcaatccc acttctgggt atatatccaa aagaattgaa agcagggtct 420 cgaagagata tttgcacacc catgttcata gcagcattat tcacaatagc caaaaggtgg 480 aagcaaccca agtgtccatc gacggatgaa tggataaaca aaatgtggta tatacataca 540 atggaatatt attcagcctt aaaaaggaag gaaatcctgw cacatgctac aacatggatg 600 aaccttgagg acattatgct aagtgaaata agccagtcac aaaaagacaa atactgtatg 660 attccactta tatgaggtac ctagagtagt caaattcata gagacagaaa gtagaatggt 720 ggttgccagg ggctgggggg agggggaaat ggggagttgt tgtttaatgg gtatagagtt 780 tcagttttgc aagatgaaaa agttctggag atcggttgca caacaatgtg aatatactta 840 acactactga actgtacact taaaaatggt taagatggta aattttatgt tatgtgtwtt 900 ttaccacaat taaaaaaa 918 // ID LTR80B repbase; DNA; HUM; 584 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR80B_LTR; LTR80B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-584 RA Smit A.F.; RT "LTR80B - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSD; 20% subst in dog-human; orientation unknown. XX SQ Sequence 584 BP; 151 A; 124 C; 144 G; 163 T; 2 other; tgggaaggaa atggttaagc agcaggtctg caatccattc tctcccttta ctgggaggac 60 gcccctggga aagaaagaag gaaggtgacc cggtcaaatc tccttgtaaa catgctaatg 120 acagacctcc tggcaaacan actaatggta tttgctagca ggagagtcct tatctatgga 180 atgcttttag caggatgtac ctggtctgtc taggattgct tatggtaaac aaacctggaa 240 tctatggatt tatggggcat ggctccctgg aaaatgtcac gtaagctatg taactatctg 300 agtataaaat ggagatgttt catgaccaaa acggctccct tctgtgtaag tgatgtagcc 360 gcatacatca cttagagacc tcatatgtta atctgggcca gagcgcatcc tgatgcggca 420 agaaaggacc tggggagctg cgttggnggt cccggacctc tccctgcttc acctgtgcct 480 cgcgattact tgtatccttg aaattattag taaagcttga tactgggtaa gatctctgat 540 tcgtgtgagt ctgatttgac aatccgatcc tttgtgttat ctca 584 // ID HERVFH21I repbase; DNA; HUM; 6529 BP. XX AC . XX DT 15-MAY-1998 (Rel. 3.04, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE HERVFH21I endogenous retrovirus flanked by LTR21s. XX KW Endogenous Retrovirus; Transposable Element; HERVFH retrovirus; KW HERVFH21I; HERVH; LTR21; internal sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-6529 RA Kapitonov V.V. and Jurka J.; RT "HERVFH21I."; RL Direct Submission to Repbase Update (MAY-1997). XX DR [1] (Consensus) XX CC HERVFH21I is an internal part of HERVH-related endogenous CC HERVFH21 CC retrovirus flanked by LTR21s. CC However, it has different PBS site similar to Phe tRNA CC binding site in intracisternal A-particles from mouse CC and hamster genomes. (HERVH48I has similar PBS also). CC 5 bp target site duplication. CC HERVFH2 has been active relatively recently, since CC there is a case of 91% identity between its left and right LTRs. CC Several LTR-retroelements including GAG-like parts of MER31I and CC MER66I from MER4I-group are distantly related to the HERVFH21I: CC ---------------------------------------------------------------- CC start end start end identity CC ---------------------------------------------------------------- CC HERVFH21I 404 977 HERVH48I 363 935 0.62 CC HERVFH21I 782 945 MER31I 500 664 0.66 CC HERVFH21I 982 1180 HERVH 1408 1586 0.63 CC HERVFH21I 1384 1502 MER66I 2361 2479 0.61 CC HERVFH21I 1503 1817 HERVH 1587 1905 0.63 CC HERVFH21I 1819 1928 HERVH48I 1435 1546 0.85 CC HERVFH21I 1929 2267 HERVH 2031 2361 0.62 CC HERVFH21I 2490 2628 HERVI 2891 3029 0.66 CC HERVFH21I 2634 3285 HERVH 2714 3356 0.64 CC HERVFH21I 3192 3599 HERVH48I 2843 3243 0.62 CC HERVFH21I 3610 3928 HERVH 3668 3990 0.65 CC HERVFH21I 4017 4242 HERVH 4014 4237 0.68 CC HERVFH21I 4643 5215 HERVH 4548 5120 0.65 CC HERVFH21I 5338 5567 HERV9 7189 7398 0.65 CC HERVFH21I 5582 5804 HERVH 6684 6906 0.67 CC HERVFH21I 5910 6367 HERVH 7021 7476 0.64 CC HERVFH21I 6369 6486 HUERS-P3 8748 8859 0.67 CC --------------------------------------------------------------- CC The HERVFH21 consensus sequence (positions 1000-5200) encodes CC protein sequences 40-50% identical to the GAG, POL and RT CC proteins CC encoded by Moloney murine leukemia virus (MMLV). ENV protein CC sequence CC (positions 5725-6400) is similar to the ENV proteins from CC Mason-Pfizer monkey virus and MMLV. XX SQ Sequence 6529 BP; 1666 A; 2258 C; 1023 G; 1564 T; 18 other; ttctggtgcc gaaacccggg aaggcgatag actctggctg ggactcactc tctctctctc 60 tctctctctc tctctctctt cctctccctc ccctatcacc cctctcccgg ccaatctccc 120 ccttcccgaa cctgctaaag acccaaagga tctcctaaat tctcccattg ttggcgacct 180 catccaccat caaagcctcc accagggtga gtgaaaagag actgttgccg ttccccagaa 240 cccttgacca tccatctctc cacttccaaa agacccagcg ctgggccaag ggcttcctcc 300 cgtctctggg cctccaggag gccctcgatt cctccatttc agggatgcct gactcggcgg 360 ttacctcctt tattccggac aagttccgtg ggaaagggga cgccctctcc caccgtcctt 420 gtcatcagca gtctcttctt cccctaccct cccctcctcc attcactata ggagcctccc 480 aatccactcc ttccaagacc accccgctgg gtgcctcctc cgcaatctca atgctctcgg 540 cctccattca gaaatccgtt ctaagaggct tatctttttc aacgttctca gatacagaca 600 acttttgcca tcgaaatggg aaatggtctg agattcctta tgttcaggct ttcttcactc 660 tccgtaaccg cccttccctc tgtcagtcct gttctacttt ccaaatcctc ctcgcccgct 720 ccaaacctga ctcgcctcct acccccctcc ccacagcccc agctgacgat tcctcttcct 780 ttgaccctgc caattttccc cttccccgaa agcatcacga tcctccacca gagcatcctg 840 atcctccacc gtatgtcccc actccagctc tacctttctc ccctcctctc tccaaccacc 900 ctgcttctga ctctgggtcc tctctctctc cacccctcac cccctctttg gcccaagatg 960 ctcagcaacc agctcccttg cttcctcttc aggaagcagc aggagtcgag aggatcgtcc 1020 gtgtccacgt tcccttctcc ctctctgatc tctcccaaat taagaaacgt ctcaggtcct 1080 tttcctccga tcctgacact tatatcaaaa agtttaaata ccttacccaa tcttacgaac 1140 tcacttggca tgatctctac attatcctct cttataccct cctcccagaa gagaagaaaa 1200 gatgtggctc gcagctcagg cacatgctga tgatcttcat cggcaagatc ctactaagcc 1260 cgtagaggcc gctgcagtta cctgggaaaa gccttcccgg gagtaccaac ccacaaaccc 1320 cagccgagca tctcataacc acatgattac ttgcctcatt gcaggcctta acaaagctgc 1380 ccataaggct gtaaactttg aaaadcttaa agaaatctcc caaaggcchg acgaaaatcc 1440 cgcccaattt cttttccgcc ttacagaggc cttccaaaaa tatacccacg ttgaccccgc 1500 ctcccaggaa ggaactattg ttcttaacac tcagtttatc tcccaatcca ctcccaatat 1560 ttggcgcaag cttcagaagc ttgacgacag ccctcaaacc ccacaacgag accttcttaa 1620 tttagccttc aaagtcttta acaatcgtga tgaggaaaga aaggcaaaaa caggcagagt 1680 ttcaaacgct tgcctttgcc atcaggggcc ctgcaggcca cgggacgcag ctccacatgg 1740 aagcctccta gcaattcact tccacctggc gcctgtttca agtgcggcaa tgaaggccac 1800 tggtccagac aatgccctaa cccagataag cccaccaggc cgtgcccctc tgcggaggac 1860 gccactggaa gtcagactgt gagtggcccc cgcaaggact gcccccatcc cttcctgagc 1920 cggccaaaac ctcctactca gatctcatcg gccttgccac tgaagactga cggtgccctg 1980 gaacggacgc cccggcaact accatctctt catccgagcc aagggtaacc ctgatggtgg 2040 caggtaggcc agtatattth tttttttcaa tactgggaca acctactctg ctttacctaa 2100 tttttcagga cccaccgagt cctcccaggt ctctgttgta ggaattgatg gacaagtctc 2160 caaaccccga gccacccctc cactcttctg ttccctgcac aatttttcct tcactcactc 2220 tttcttagtc ctgccctcat gtccaactcc actcctaggc agagacatcc tttcaaaatt 2280 ccacactact catgtcttcc tgtccaccgc aaccagagtc cctcctgctc ctctctgcta 2340 gtccggcccc tgacccctct ccccagcacc cgctacccac ctctctcgtt aacccagtag 2400 tgtgggacac caccacccct tccatagctg ctcaccagga ccccatcaaa atccagttaa 2460 aagacccctc taaatttccc aacattcccc aataccccat ttccctaaca caccaaaaag 2520 gcttacaacc catcataaac aagctctgct cacgccgtct tcttagacca acacgttctc 2580 catataacac ctccatcctc cccgttaaaa aatctgacgg ctcataccaa ctcgttcagg 2640 acctccgagc catcaatcag gctgtcctcc ctattcatcc cgtagtccct aacccctata 2700 cacttctctc tctcatcccc tccaacacca cccactacac cgcaattgac ctaaaagatg 2760 ctttctttac cattccccta caccccgatt cccaaaacct ctttgctttc acccggaccg 2820 accccgacac cctccagtca caacaactca cgtggactgt cctccctcaa ggcttccagg 2880 atagccttct tttcttcggg caagccctag cccaagacct tgcctccttg gatctttccc 2940 ccagccgcct tcttcaatat ctagatgacc tccttctctg tagcccctcc ctaaaaaact 3000 cccaaactca cactgccacc cttctgaatt tccttactaa taaaggctat agggtctccc 3060 ctctaaagaa cagctttcca cctccatggt gacctactta ggaattcaac tttcccctgg 3120 ggcccgggct atgaccccag cccgagcggc cttaatagat aaataatcta ccccgccctc 3180 ttccaaaagc gaaatccttt ccttcctagg gctagcaggc ttctttagaa tatggattcc 3240 caactttgcc ctcctagctc accccctcta taaagcggcc aaaggccctc tcaatgaacc 3300 cctaaacycc tcacataaca tactccccag cttccgcgaa ctccaaaccg ctcttgtcac 3360 tgcaccagct ctgtccttac ctaatatctc ccaacctttc actctctata ctgccaaaaa 3420 ccgaggaata gccctcggtg tcttaggaca acagaaagaa aatcctcctt cctttgcccc 3480 tgtagcctac ctctctaaac aactagacaa cacagtcaaa gggtggccaa cctgtcttaa 3540 agtactagca gcggcagcca gttttagctc tagaaagcag gaaactaaca ttcagccaaa 3600 ataccaccgt ctacagtcct cataatctac aagatctcct ctcctcccga gcattaagct 3660 cccttcctcc ttcccggatt caattactcc atgccctctt tatcaaaaat cccaaattca 3720 gtcttgccaa aagtgctccc ctcaacccag catccttact ccccgtatcc tcttcccttc 3780 ctactcattc ttgcactgac atcctagacc acctgcagcc acactttcca aacatttcct 3840 ccgagcctct caccaacccc aatgatcaac tattcataga tggctcctct tccgggccca 3900 ctggctcccc caaaattgct ggatatgcag ttgtttccct tgaccaagta attgaagcta 3960 agcccctacc tccaggaacc tcctcccaaa aagcagaact cataggctct caccagagcc 4020 ctaacccttt ccaaaggcaa acgagtcaac atttatacag actccaaata tgcctatcac 4080 attcttcatt cccacgccgc catctggcaa aagagaggat tccttactgc caaaggaacc 4140 cccatcacta acggctcccc ttatttacca actccttcag gctgcacacc tcccaactaa 4200 agcaggagtt atacactgtt gaggacatca aacaggttca gaaaggcctt tgagggaaca 4260 gattaatctc aagaggrarc asraargcyr ayaaggcagc aragaacaga atctcaggag 4320 ggatcagaaa tgaaatctca agagggaaca gaaaggccga tgaggcagca aaagaagcct 4380 ccctttcttc tgcccctgcc tctctcctcc tcattacccc tgcaatccaa cccaagwact 4440 ctcccactaa gaaaaggctt cactactaca acaaggaacc tccttccaag gggactggat 4500 agtcaaaaat caaaagctcg tcctccccca agagcaaacc aaagaaattc tgacatctct 4560 tcaccaatcc ttccatatcg gtgcgcgccc cctgtaccta ctcctttgcc cttatttctc 4620 ctcyccccay ctattcacct cactaaaaga cataacctca aactgtcata tatgctctgt 4680 tacttcctcc caaggggccc tccrctctcc atctattcct acacatcagc taagaggaac 4740 actcccaggg gaggactggc aaatagactt cacccacatg cctcccgtca agagaacaaa 4800 atttcttctt actcttatag acaccttctc tgggtgggta gaagcatttc ctacctcttc 4860 agaaaaggcc gcagaagtct cccaaattct tgtaacagaa atcatcccta gatttggtct 4920 ccctggctcc atacaatcag acaatggccc ctagcttcat ctcccaaatc actcaacagg 4980 tttctcagtc ccttggcatc cagtggcgtc tccatatccc atgctggccc cagacatccg 5040 gaaaagtcga aagggcaaat gggatcctta aggctcagtt aaccaaactc actcttgaag 5100 tccaaaaacc atggacctcc cttttgccca tagcactgga gagcattaga gccagtccaa 5160 aagcaccctc cttcctcagt ccatttgagt taatatacgg acgccctttc ctcttacaaa 5220 acaggccccc ttctaactct cagctaggag aatacctccc aacagtctcc ctcatgagct 5280 atctcctctg ccaacaagcc gaccagggcc ctcccaaaac cccacgaagg cccttgacac 5340 ctcccacctc cttaacaaaa attcagggta ctgtaatggc cgacacctcc cctatttatc 5400 cctcttctct tggctcccct ctccatacac catccttacc ctatacccac cacccgggac 5460 ggtctccttc tcccaacatc caacaacact cccacatgca tcttagtgga cagaaaacgc 5520 ttcctcttac actgggaaaa aaaaaaaaga acacaaaaag cctcccagct taaaccaaac 5580 accctttaac aaccacttct gacagcagcc ctagctggga ccctaagagt atggatgatt 5640 gagaataaca aaatagtaca tctttttagc atacacaacc agttccgtct accaagccaa 5700 ggcatacttt tcctatgtga tacctcaact tatattgccc tcccctctaa ctggcgaggc 5760 acctcagcac cctgcttttc ctcagtccaa aaatcactgt tgccccagga gaccagcccc 5820 tactaatccc agttaatatc cctatctgac acgacsatac tatacaactc atacctctgt 5880 tagtaaccct cagaataact acaggagttg gaactgggat tgtgggatta accacctccg 5940 tttcctatta ccaatccctc tccaaagact tcacgaatag cttggaagag atagccaaat 6000 ccattacaac tctccaatca caaataaatt cttagcagca gtagttcttc aaaaccgcag 6060 aggcttagac ctgttcacag cgaaaaaagg agaactctgc ctttttctag atgaacagta 6120 ttgcttttat cttaaccaat ctggcgtgat acaggatact gtaaaaagac taaaggaccg 6180 agcacaaaaa attaaagaaa acgtcctctg atggccagcg tggccctcct ggtcttttag 6240 tacctggttt ccatggctac tgcccctcct aggccctgcc gtaaccattt ttctctttct 6300 agcatttggc ccttgtctct tacatctcct tacccagttt ttacagggcc gtgtcagagc 6360 cttcacccac ggaacagtac aagacatgat gctactccaa gaataccgac ggctccagga 6420 acagcagtcc ctactgtcca gccttccccc ccaaccatcg ccccttccca gcaagaagca 6480 gccagaggac aacggcgccc ctcttctatt acctattaaa aggctggaa 6529 // ID MER74C repbase; DNA; HUM; 460 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate MER74C repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL-74 group; KW Long terminal repeat; MER74C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-460 RA Smit A.F.; RT "MER74C."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC LTR of class III (HERVL) endogenous retrovirus HERVL74. CC Belongs to a group also including MER73, MER88, MER54 and LTR53. XX SQ Sequence 460 BP; 103 A; 150 C; 92 G; 113 T; 2 other; tgttttttaa aatgctgtct tgacccagtt ttgaggccct ggctagaggc cggtcagttc 60 cccttcttga gcagctgatt aagtccacac cccaaccact tcccttatcg ggctctcaca 120 ctccgggacc actatgcacc cgccctaatt gccccagggc caggtaccag acaactaggg 180 acagccccta tgccccggag cccgcgaaat tattcaaatt agccaatcca cagggagccc 240 gngaaaccta gctaacccca ccccacttgc catacataag ctgcccccta cagctccagc 300 ttgctgttac cctgtccctg ggtgcaactc cctgtgtggc cctgcctggc agccttctct 360 cgtttggagc tgtaagtaac aaagagttct gcctttcatc tatccgagtg tcantgtgtt 420 gtgtcccgcc atcaaaagaa tctttaaatc ttataaaaca 460 // ID L1PA7_5 repbase; DNA; HUM; 1727 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE L1PA7_5 - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1P5A1; KW L1PA7_5; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1727 RA Kapitonov V.V. and Jurka J.; RT "L1PA7_5."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC L1PA7_5 is a consensus sequence for a subfamily of L1. This CC 1.7 kb consensus corresponds to the 1.4 kb 5' region of L1 from CC REPBASE. CC Average similarity of L1PA7_5 sequences to the consensus is 0.93. CC The subfamily consensus contains multiple diagnostic CC positions and multiple long insertions of 180 bp (between CC positions 348 and 349 in L1 from REPBASE), 176 bp (positions CC 586-587), 27 bp (380-381), 19 bp (469-470), 23 bp (759-760) and CC 25 bp (952-953). XX SQ Sequence 1727 BP; 486 A; 462 C; 472 G; 302 T; 5 other; ggtggctggc aagatggccg aataggaaca gctctggtct gcagctccca gcgagatcaa 60 cgcagaaggc aggtgatttc tbcatttcca actgaggtac ccggctcatc tcattgggac 120 tggttagaca gtgggtgcag cccacggagg gcgagcagaa gcagggtggg gcgtcgcctc 180 acccgggaag cgcaaggggt cagggaactc cctcccctag ccaagggaag ccgtgaggga 240 ctgtgccacg aggaacgrtg cattccggcc cagatactat gcttttccca tggtcttcgc 300 aacccacaga ccaggagatt ccctcgggtg cctacaccac cagggccctg ggtttcaagc 360 acaaaactgg gcagccgttt gggcagacac cgagctagct gcaggagttt ttttttttcg 420 taccccagtg gcgcctggaa cgccagtgag acagaactgt tcactcccct ggaaaggggg 480 ctgaagccag ggagccaagt ggtctagctc agtggatccc acccccacgg agcccagcaa 540 gctaagatcc actggcttga aattctcgct gccagcacag cagtctgaag tcgacctggg 600 atgctcgagc ttggtggggg gaggggcatc cgccattact gaggcttgag taggcggttt 660 tcccctcaca gtgtaaacaa agccaccagg aagttcgaac tgggcggagc ccaccacagc 720 tccgcaaanc ggctgtagcc agactgcctc tctagattcc tcctctctgg gcagggcatc 780 tctgaaagaa aggcagcagc cccagtcagg ggcttataga taaaactccc atctccctgg 840 gacagagcac ctgggggaag gggcggctgt gggcgcagct tcagcagact taaacgttcc 900 tgcctgccag ctctgaagag agcagcggat ctcccagcac agtgctcgag ctctgctaag 960 ggacagactg cctcctcaag tgggtccctg acccctgtgc ctcctgactg ggagacacct 1020 cccagcaggr gtcgacagac acctcataca ggagagctcc ggctggcatc tggtgggtgc 1080 ccctctggga cgaagcttcc agaggaagga acaggcagca atctttgctg ttctgcagcc 1140 tccgctggtg atayccaggc aaacagggtc tggagtggac ctccagcaaa ctccagcaga 1200 cctgcagcag aggggcctga ctgttagaag gaaaactaac aaacggaaag caatagcatc 1260 aacatcaaca aaaaggacgt ccacacagaa accccatccg aaggtcacca acatcaaaga 1320 ccaaaggtag ataaatccac gaagatgagg aaaaaccagt gcaaaaaggc tgaaaattcc 1380 aaaaaccaga acgcctcttc tcctccaaag aatcacaact cctcgccagc aagggaacaa 1440 aactggacgg agaatgagtt tgacgaattg acagaagtag gcttcagaag gtgggtaata 1500 acaaactcct ccgagctaaa ggagcatgtt ctaacccaat gcaaggaagc taagaacctt 1560 gaaaaaaggt tagaggaatt gctaactaga ataaccagtt tagagaagaa cataaatgac 1620 ctgatggagc tgaaaaacac agcatgagaa cttcgtgaag catacacaag tatcaatagc 1680 cgaatcgatc aagcagaaga aaggatatca gagattgaag atcaact 1727 // ID LTR27D repbase; DNA; HUM; 615 BP. XX AC . XX DT 11-AUG-2008 (Rel. 13.09, Created) DT 11-AUG-2008 (Rel. 13.09, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR27; LTR28; KW LTR27D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-615 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Direct Submission to Repbase Update (11-AUG-2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 615 BP; 148 A; 196 C; 141 G; 128 T; 2 other; tgatagcgac aggagacaga caaattccta ggcagacagg gacgggtccc cggtgaaact 60 ctaaccttca agccaaggac agtctaaagc ctgaaaaccg agctgccagt tccggataga 120 gtccacgacc ggagtgagaa cttctatccc cgtcttaccc actctctctc gattggttcc 180 ttctgaatga tgccttttaa ccaatcgaat ggtgcttttt ccaagcccac ccatggacca 240 atcagcatca gcactccccc attctaagcc cataaaaacc ccggactcag cctcacagac 300 ggctacccgc tttcgggtcc cctctcgctg ytgagagctt gctgagagct ttctttctgt 360 cactcaataa aattctactc tgccttactc actctccggt gtccgcgtac cttattcctc 420 ttggtcgcga ggacaagaac ccggaactcg ccgaactgcg ggagcgaaag agctgtaacg 480 ctcctgctcg ccgagctgcg ggcggtggga gtaaaagagc tgtaacactc cctcccgctc 540 gccaaactac gggagtgaaa aagccgctgg gtgccactcc ctcccgctcr ccgaactacg 600 ggagcgaaaa agcca 615 // ID MER21C_BT repbase; DNA; HUM; 958 BP. XX AC . XX DT 31-AUG-2008 (Rel. 13.08, Created) DT 31-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER21B; MER21C; KW MER21C_BT. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-958 RA Jurka J.; RT "Long terminal repeats from domestic cow."; RL Repbase Reports 8(8), 824-824 (2008). XX DR [1] (Consensus) XX CC 86% identical to human MER21C. XX SQ Sequence 958 BP; 248 A; 203 C; 254 G; 252 T; 1 other; tgtgagataa tagaaaaaat atatatatat attggtctct gtccctggtt cctggcacag 60 agctcctaaa acccttgtaa tttcctaagt gataagagca ctaggagcat cttttgttct 120 aatatttgag tctttgaccc cggttcctga cacagagctc ctaaatccct tggaatttcc 180 tgggtgatag gagtgtgctt ttgttctaat gaggcgactc tgggtgggct cctggatggc 240 tcctggatgg gggctggtca ccagaaagac caagccatga ttagaagctt ggaactttca 300 gccctctccc catcctccag aaaggggaga ggggctggag aatggagtta atgattgatc 360 atgcctacgt gatgaagcct ccataaaaat cccaaaagta cggggttcgg agagcttccg 420 ggttggtgaa cacatccaca tgctaggagg gtggcgcacc ccaactccac ggggacagaa 480 gctcctgcgc tcgggaccct tccagacctc gccctatgta tctcttcatc tggctgttca 540 tctgtatcct ttatcatatc ctttattata taataaactg gtaaacgtaa gtaagtgttt 600 ccctgagttc tgtgagctca ttctagcaaa ttaattgaac ccaaggaagg gggtcatggg 660 aacctccgat ttatagccga gtcggtcaga agtacaggtg accatctgga cttgytaatt 720 ggcgtctgaa gttgggagag gagggcagtc tttgtgggac tgagccctta acctgtggga 780 tctgacgcta tctccaggta gatagtgtca gaattgagtt aaattgtagg acacccagct 840 ggtgtcgcag agaattgctt ggtgtggggg aaaaacctcc acacatctgg tgaccagaag 900 tgtcagaagt gaagtgttct gtgtgagtag taaaggagac acacagggaa gagaaaca 958 // ID ORSL repbase; DNA; HUM; 275 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 02-JUN-2011 (Rel. 16.05, Last updated, Version 5) XX DE Putative non-autonomous, hAT-like DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; KW Origin of replication-like (ORS8) region; ORSL. XX NM ORSL. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 66-275 RA Rao S.B., Zannis-Hadjopoulos M., Price B.G., Reitman M. RA and Martin G.R.; RT "Direct submission."; RL Unpublished (1989). XX RN [2] RA Rao S.B., Zannis-Hadjopoulos M., Price B.G., Reitman M. RA and Martin G.R.; RT "Sequence similarities among monkey DNA-replication ori-enriched RT (ors) fragments."; RL Gene 87, 233-242 (1990). XX RN [3] RP 1-275 RA Jurka J.; RT "ORSL."; RL Direct Submission to Repbase Update (13-APR-1998). XX RN [4] RP 1-275 RA Smit A.F.; RT "ORSL."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [4] (Consensus) XX CC ORSL shares ~200bp stretch of similarity with African Green CC Monkey origin of replication region (Acc. No. M26221). About 1000 CC copies in our genome. The first version of the consensus sequence CC [3] has been significantly shortened [4]. This repeat has been CC classified as a putative hAT transposon [4] of identification CC 14-bp terminal inverted repeats and 8-bp targets site CC duplications similar to other hAT transposons (esp. MER45, CC MER69). On average 21% divergence level. XX SQ Sequence 275 BP; 95 A; 48 C; 51 G; 81 T; 0 other; cagggccgac ttatccatta ggcacagtag gcacagtgcc tagggcccac gatactttta 60 ggggcccacg aaaatgtttt aatttctttt aaaatcagaa gaaaaaatga acttttaggt 120 caaagaaaat gttttaatat ataatattaa tatattctat attcatcttt ataccaatgc 180 agtcataaaa tataattttt aatatttttt tatggaggaa ggggcccacg aaggcaaaag 240 tgcctagggc ccacgaaagt cataatgcag ccctg 275 // ID MER57D repbase; DNA; HUM; 411 BP. XX AC . XX DT 22-MAY-2008 (Rel. 13.05, Created) DT 22-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER93; MER57D. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-411 RA Smit A.F.; RT "Long terminal repeat of retrovirus-like element; MER57D."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 16% divergence from consensus. XX SQ Sequence 411 BP; 117 A; 99 C; 75 G; 120 T; 0 other; tgttaaatta aataagcagg aggccattag cctgaggctg tctccgtact ttgagttcct 60 acataacaaa ctgcaaccta acttagtatg taaacaaacc gaaacctaac ttaggagtat 120 attttgtaac aaatagccgg gtttcagcca atcacaagac agctgagctt cagccaatca 180 caggcagcca actgatcaca ccatgcccaa ataaggcaga cgcctagctg tagccaatca 240 ggtgatttct ctactttgct tccgtgttcg gcctataaaa gctcactgct cacactgctg 300 ggcggagctc tctgaacctc ttctggttct gagtgctgcc tgattcatga atcgttcttt 360 gctcaaataa actctgttaa atttaatttg tctaaagttt ttcttttaac a 411 // ID MER63B repbase; DNA; HUM; 439 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 28-AUG-2008 (Rel. 13.09, Last updated, Version 3) XX DE Primate MER63B repetitive element - a consensus. XX KW DNA transposon; Transposable Element; Nonautonomous; KW nonautonomous DNA transposon; MER63B. XX NM MER63B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-439 RA Smit A.F.; RT "MER63B."; RL Direct Submission to Repbase Update (30-NOV-1995). XX DR [1] (Consensus) XX CC Putative internal deletion product of DNA transposon. CC 15 bp terminal inverted repeats, subfamilies only differ by size. XX SQ Sequence 439 BP; 145 A; 84 C; 69 G; 139 T; 2 other; ccagtggtgt gctggagctg gctcgtatcg gctcgcgaga gccgattgaa atttaaatta 60 tataaactta caattaaata aattatatta aaaacaaaga aatttaaatt atataaactt 120 acaattaaat aaattatatt aaaaacaaag gtaataaata ctcaaaactc atcacttcct 180 aattatttta ctacatttta ctattatcta tgctcttgag gttatttacg tctattgtat 240 ctgtatggtg gaaatactat ataatrgtgt gctactgtgc atctcttccc aactccscat 300 tcagtgacat cacgttggta gcttgaaatc ggccacggtg ggagtattta caccacggaa 360 atcggcaaac gctacaaatc agggcttttt tctttccccc agagagccag ttgttaaaca 420 tttaccagca caccactgg 439 // ID LTR1B0 repbase; DNA; HUM; 742 BP. XX AC . XX DT 18-FEB-2009 (Rel. 14.06, Created) DT 18-JUN-2009 (Rel. 14.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR1B0. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-742 RA Smit A.F.; RT "LTR1B0 - ERV1 Endogenous Retrovirus from primates."; RL Repbase Reports 9(6), 1172-1172 (2009). XX DR [1] (Consensus) XX CC Very close to LTR1B, but with among others an 80 bp deletion. CC 10% subst outside CpGs 25 copies. XX SQ Sequence 742 BP; 173 A; 244 C; 211 G; 114 T; 0 other; tgatacggac aggagacagg gaaatactgg gtagaagagg gcggttcccc ggcaaaggcc 60 ccaccctcaa gcctggagac ccgcggccct aaatgggaac aggcattcct gttttcgcgc 120 ccaaaaagtt gccttttggc ccgccacgcc ccctatcctg tacccatata aaccccgaac 180 cccaggctcc agaagcagac gagcagacga gcgaggagac aagcagacga acggcagaac 240 ggcgcggcag agaaagagag gaggaacgtc tgaacgccga gaggagttcg gctgggggcg 300 gtcggagagg agttcggccg ctggacggcc aaactccagg ggaagatcat cttcccactc 360 catcccccct tccggctccc catccatccc gctgagagcc acctccacca ctcaataaaa 420 cccccgcatt catccttcaa gtccgtgtgt gacccgattc ttccgggacg ctggacaaga 480 gctcgggata cagaaagctg tcacactggc cctctgccct tgcagaaagg cagagggtcc 540 actgagctgg ttaacactca agccgtccgc ggacggcaag gctaaaaggg cacactgtaa 600 cacacgccca cttgggctcc tgcacctgtc cgtctgcgtg ctccccctcc cgtaaggggt 660 ttgagcagcg gcggcgaccg aacaggcgag ccacacccct gtcgcacgtc ctgcgagggg 720 gtcagggaac tctcccgttt ca 742 // ID L1PBA_5 repbase; DNA; HUM; 3104 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 30-AUG-2000 (Rel. 5.07, Last updated, Version 3) XX DE Primate L1PBA_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; HGR; L1-25; KW L1M2_5; L1PBA_5; MER25; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 687-1015 RA Jagadeeswaran P., Biro A.P., Tuan D., Pan J., Forget G.B. RA and Weissman M.S.; RT "Interspersed repetitive DNA sequences of the human genome: are RT they transposons?."; RL Prog. Clin. Biol. Res 103, 29-35 (1982). XX RN [2] RA Rogan K.P., Pan J. and Weissman M.S.; RT "L1 repeat elements in the human epsilon-G-gamma globin gene RT intergenic region: sequence analysis and concerted evolution: a RT new sequence family."; RL Mol. Biol. Evol 4, 327-342 (1987). XX RN [3] RP 41-496 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [4] RP 1-2247 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. dissertation, Univ Southern California, 1995. XX RN [5] RP 1-2971 RA Jurka J.; RT "L1PBA_5."; RL Direct Submission to Repbase Update (MAR-2000). XX RN [6] RP 1-3104 RA Jurka J.; RT "L1PBA_5."; RL Direct Submission to Repbase Update (MAR-2000). XX DR [6] (Consensus) XX CC 5' end of LINE elements with L1PB1-3 subfamily 3' ends, CC comprising CC the 5'UTR and part of the ORF1 region. XX SQ Sequence 3104 BP; 1082 A; 753 C; 653 G; 581 T; 35 other; ggaaaatggy ggataggagg caggactaac ttgcagctcc cacttggatg gacagaacag 60 yrtgtggaga ctcacaycat gaacttttgc tccaagaact accacaggaa cataccagga 120 aaaccaaaag aattcacaga ccctttgaaa gaagtggctt gctrctgcaa actccatgag 180 acagccraaa aactgtgagt gcccaaagtg tgagaggggg aaagggggaa agtctgcctc 240 tgaacacaca tcctcactgg ggaacctgaa aatccagatc acaggagaag gatttaacct 300 tacctrgagc tgaaatgaat ttagagagcc nagtgaaata taaaagtaga agaagcagtg 360 ggaagagccc tgtaggcact cccagtcccc agctcaagcc cagggaagcc atttctgact 420 ttatctcaca ggggtccttg gggagggctg ccagtggaat tggggaarga ccacagggag 480 aaggaaactt ccagctgaac tttgtaataa tttygacyga rcaygaattt tcctggrcag 540 aatccggggg atgaatggga agtgctgcag ataygagcac agaagccgca gctgatggtg 600 tgggcaggcg gggaggggcg angcctgaaa gccctgcttg ctttctcagy ggggaggctt 660 gtagcctggg gcaagttctc agccctgctc accggctgcc tggaaataaa cttggtgctg 720 ttgggggggc acagtgggag tgagactggc cttgctggct gcatgggagc tgggtgaggc 780 ctgtcactgc tggctttccc ccacttccct ggtgacctgt atgacgcagc agcagaggca 840 gccataatcc ccctgggaac ataactccat tggcctgaga accacacccc catcccccac 900 agcagccaca gcaagcccyg cccaaggaga gtctgagctc agacaygcct aaccctgccc 960 ccacctgatg gtctttctct accyaccctg gtagcygaag acaaargaca taatctcttg 1020 ggagctctat ggccctgccc accacctgag aaacctgaat acttatccag gtgaccctag 1080 ggcaagcttg tatcctccct atactaccac agctgatgct ctcttgaaag ngccacctcc 1140 tggctggagg ccaaccaact caagccatta cagcaactca taacagaaca accctgctcc 1200 aaggaaggag aaaacaacag ctaattccac tgcctgcaac atcctggcta accagaggtc 1260 ctgagtctgt ccacgtgaca acttcactgc tagcattgat gctctctgga aagcgccacc 1320 tcctggcagg aggccaacca gcacaaaaat agagcattaa accaccaaag ctaagaaccc 1380 tcacggagtc cattgcaccc ccctgccacc tccaccagaa caggtgctgg tatccatggc 1440 tgagagaccc atagatggtt cacatctaca accaaggacc ctcacagagt ccacttcact 1500 cccctgctac ctccaccaga gcaggtgctg gtatccatgg ctgagagacc tgaagatgga 1560 tcacatcaca ggactctttg cagacactcc ccagtaccag cccagagcct agtagctcca 1620 ctgggtggct agacccagaa gagcaataac aatcactgca gtttrgctct caggaagccc 1680 catccctagg ggaaggggga gagcaccaca tcaagggagc accccatggg acaaaagaat 1740 ctgaacagca gcccttgagt cccagatctt ccctctgaca tagtctaccc aaatgagaag 1800 gaaccagaaa aacaattctg gtaatatgac aaaacaaggt tctttaacac ccccaaaaga 1860 tcacactagc tcaccagcaa tggatccaaa ccaagaagaa atctctgaat tgccagaaaa 1920 agaattcaga aggttgatta ttaagctact caaggaggca ccagagaaag gtgaaaacca 1980 acttaaagaa attaaaaaaa atgatacagg atatgratgg aaaaatctcc agagaaatag 2040 atancataaa taaaaaacaa actaatcaca acttctggaa atgaargaca cacttagaga 2100 aatgcaaaat gcactggaaa gtytcagcaa tagaatcgaa caagtagaag aaagaacttc 2160 agagctcaaa gacaaggctt tcraattaac ccaatccaac aaagacaaag aaaaaagaat 2220 tttaaaaaaa tgaacaaagc ctccaagaag tttgggatta tgttaaatga ccaaacctaa 2280 gaataattgg tgttcctgag gaagaagaga aatctaaaag tttggaaaac atatttgagg 2340 gaataatyga ggaaaacttc cctggccttg ctagagatct agacatccaa atacaagaag 2400 ctcaaagagc tcaaagaaca cctgggaaat tcatcacaaa aagatcatca cctaggcaca 2460 tagtcatcag gttatctaaa gtcaagatca agacraagga aagaatctta agagctgtga 2520 ggcaaaagca tcaggtaacc tataaaggaa aacctatcag attaacagca gatttctcag 2580 cagaaaccct acaagctaga agggattggg gtcctatctt tagcctcctt aaacaaaaca 2640 attatcagcc aagaattttg tatccagcra aactaagcct tcataaatga aggaaagata 2700 cagtcttttt cagacaaaca aatgctgaga gaattyrcca ctaccaagcc agcactacaa 2760 gaactgctaa aaggagctct aaatcttgaa acaaatcctc aaaatacacc aaaatagaac 2820 ctccttaaag cataaatctc acaggaccta taaaacaata acacaatgaa aaaaaaaaaa 2880 acaacaacaa aacaaacaca cacacacaac aaacaaaaac aaacaaacaa acaaggtatt 2940 caggcaacaa mtagcatgat gaatagaata gtacctcaca tctcaatact aacattgaat 3000 gtaaatggcc taaatgctcc acttaaaaga tacagaatgg cagaatggat aagaattcac 3060 caaccaagta tctgctgtct tcaagagact cacctaacac ataa 3104 // ID MER61A repbase; DNA; HUM; 341 BP. XX AC . XX DT 14-MAR-1997 (Rel. 2.02, Created) DT 21-MAY-2008 (Rel. 3, Last updated, Version 5) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I-group; subfamily MER61. XX KW Endogenous Retrovirus; Transposable Element; LTR; KW Repetitive sequence; MER4I-group; retroelement; MER61; MER61A. XX NM MER61. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-341 RA Kapitonov V.V. and Jurka J.; RT "MER61."; RL Direct Submission to Repbase Update (30-NOV-1996). XX DR [1] (Consensus) XX CC Renamed MER61 to MER61A. Refined consensus (May, 2008). XX SQ Sequence 341 BP; 73 A; 97 C; 96 G; 75 T; 0 other; tgagacagcc aggtgggaag gggtccccgg agaaactcca accagcctgc gcactgggag 60 gagtgcgcac tggggtggag ccacagaagt tcgcgccatt tgcagcgggg aggagcctgg 120 cccctcctct tcctgggtgg aacctgggat tcaaactgcg aggcaggaag cgcactagca 180 gggactctgg ctttgcggag agtccctgtt tccctttttt ttccttttca cccaataaaa 240 ccccgcctta ctcacccttc aaattgtctg cgagcctaat ttttcgtggc cgtgtgacaa 300 ggaccccgtc tttagctgaa ctaaggaaaa gtcctgcaac a 341 // ID HSMAR2 repbase; DNA; HUM; 1301 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 20-AUG-2006 (Rel. 11.09, Last updated, Version 3) XX DE Human mariner - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW DNA transposon fossil; Irritans subfamily mariner; HUMAR1; HSMAR2; KW MARINER2. XX NM HSMAR2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1301 RA Oosumi T., Belknap R.W. and Garlick B.; RT "Mariner transposons in humans [letter]."; RL Nature 378(6558), 672-672 (1995). XX RN [2] RP 1-1301 RA Reiter T.L., Murakami T., Koeuth T., Pentao L., Muzny M.D., RA Gibbs A.R. and Lupski R.J.; RT "A recombination hotspot responsible for two inherited peripheral RT neuropathies is located near a mariner transposon-like element."; RL Nature Genet 12(3), 288-297 (1996). XX RN [3] RA Robertson M.H. and Zumpano L.K.; RT "HSMAR2."; RL Direct Submission to Repbase Update (1996). XX DR [3] (Consensus) XX SQ Sequence 1301 BP; 428 A; 250 C; 272 G; 351 T; 0 other; cgaggggtct tcaaaaagtt catggaaaat gcgtattatg aaaaaactat gcatggattt 60 caaaaatttt ttgcaccaaa ataaactcgt actaacttgt tataacatgt ctgaacagga 120 tctagtttga ggcactaaga aggataagac atcagtttga aaagagcccc tatcagagca 180 acatgaattc tgctaaaatt gaagcaagaa caaacatcaa atttatggtg aagcttgggt 240 ggaagaatgg tgaaatcact gatgctttac gaaaagttta tggggacaat gccccaaaga 300 aatcagcagt ttacaaatgg ataactcgtt ttaagaaggg acgagacgat gttgaagatg 360 aagcccgcag cggcagacca tccacatcaa tttgtgagga aaaaattaat cttgttcgtg 420 ccctaattga agaggaccga cgattaacag cagaaacaat agccaacacc acggacatct 480 caattggttc agcttacaca attctgactg aaaaattaaa gttgagcaaa ctttccactc 540 gatgggtgcc aaaaccgttg cgcccagatc agctgcagac aagagcagag ctttcaatgg 600 aaattttaaa caagtgggat caagatcctg aagcatttct tcgaagaatt gtaacaggag 660 atgaaacgtg gctttaccag tacgatcctg aagacaaagc acaatcaaag caatggctac 720 caagaggtgg aagtggtcca gtcaaagcaa aagcggactg gtcaagagca aaggtcatgg 780 caacagtttt ttgggatgct caaggcattt tgcttgttga ctttctggag ggccaaagaa 840 cgataacatc tgcttattat gagagtgttt tgagaaagtt agccaaagct ttagcagaaa 900 aacgcccggg aaagcttcac cagagagtcc ttctccacca cgacaatgct cctgctcatt 960 cctctcatca aacaagggca attttgcgag agtttcgatg ggaaatcatt aggcatccac 1020 cttacagtcc tgatttggct ccttctgact tctttttgtt tcctaatctt aaaaaatctt 1080 taaagggcac ccatttttct tcagttaata atgtaaaaaa gactgcattg acatggttaa 1140 attcccagga ccctcagttc tttagggatg gactaaatgg ctggtatcat cgcttacaaa 1200 agtgtcttga acttgatgga gcttatgttg agaaataaag tttatatttt taatttttat 1260 cttttaattc cattttccac gaactttttg aagtcccctc g 1301 // ID MER92C repbase; DNA; HUM; 554 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE MER92C repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER92C. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-554 RA Smit A.F.; RT "MER92C."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative LTR of retroposon. 4 bp target site duplications. CC 90% similar to MER92B over bp 1-136 and 232-316, 80% similar CC to MER92A over bp 459-529. XX SQ Sequence 554 BP; 149 A; 165 C; 80 G; 148 T; 12 other; tgacaatgcw gaactttacc tgagccctgt gctcccggaa aacagcgatg gttaagaaat 60 ccccccatcc ttttgtgttc cnagaaacgg cttaccgcaa agaactaccc ttccctatat 120 gacttaaata agactctctg ncccttcttt ctcacgactt ccataagatc annnatgatt 180 ccttncctgn naagaccaaa cacagacctt tccccttttg cctgaacccg ctgacaaggc 240 cagacacgga ccctccaact tcctattctt tgtttcataa atgattagct gagattagaa 300 gngtctgtcc ccctgaaact agctagacac agagataaac atttcctgtt cagctaaccg 360 agacttcccc tgattgcaaa acaacccccc ctgtaaatct ccccacntga aacctatcta 420 ccccttccta taaaagtcca aggcaaaacc accctgccga gacacttcat agtcttcgga 480 tcttggatgc tctccctatt gcaatagcct gaataaaatc atctccttam ttgtctagtg 540 cattttgtct ttca 554 // ID CHARLIE8 repbase; DNA; HUM; 2417 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Molecular fossil of a hAT-like DNA transposon. XX KW hAT; DNA transposon; Transposable Element; CHARLIE8; KW DNA transposon fossil; MER102; hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 2414-2351 RA Jurka J., Naik A. and Kapitonov V.V.; RT "CHARLIE8."; RL Direct Submission to Repbase Update (JUL-1998). XX RN [2] RP 1-2417 RA Smit A.F.; RT "Interspersed repeats and other mementos of transposable elements RT in mammalian genome."; RL Curr Opin Genet Devel 9(6): 657-663.. XX RN [3] RP 1-2417 RA Smit A.F.; RT "CHARLIE8."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [3] (Consensus) XX CC CHARLIE8 is an old, autonomous hAT-like DNA transposon [2]. CC Its nonautonomous form has been reported originally as MER102 [1] CC (it is CHARLIE8B now). CC The coding region from pos <330-2102 (almost a complete CC ORF in the consensus) encodes a transposase at least 34% CC identical CC (52% similar) to the full CHESHIRE, TIGGER5 and TIGGER7 CC transposases. CC 15 bp terminal inverted repeats, 8 bp target site duplications CC with MER1-like NTCTAGAN bias. Average divergence from consensus CC 25%. CC A human gene (GID|4263748) is derived from a CHARLIE8 copy on CC chromosome CC 7q11.21-23 [2]. XX SQ Sequence 2417 BP; 728 A; 451 C; 519 G; 677 T; 42 other; cagaggtcgc aaactggcgg cccgcgggcc gcagatgtgt tttgtttggc ccgcacagtg 60 ttttnaaana tttttgaatt agttgccaac atttaaaaat cgggagattt cacataaaaa 120 tctagatttc tggcttctct tgaaaaatca gaagatctgg caacactggg cccgcattcc 180 cacatggcaa caattggctg gagctgagta gcagctgccc cctttagaca gggcatgtgc 240 tctccagttt gccacagtcc ccacctggcc cnccgcttcc aggtccagcc accgttgtca 300 tcaggcttgc gctgttgttt tcctcatagt agcgataaga gaaaagtgaa atatttcttg 360 tacccattgt ctctgtcaaa agtgggaaaa cgaaagatag accaagaggg ccgcgtgttt 420 caagaaaagt gggagagagc atatttcttt gtggaagtga agaatattcc tacatgtcta 480 atatgcaaac aaagcgtgtc tgtgtcgaaa gaatacaacc taagacgcca ttatgaaaca 540 aaccatggca agaactatga ccagtatacg gaaaagagtg cgtgatgaaa aacttaacga 600 actgaaaaaa ggactgaaat ttcaacaggg tttgtttttg aatgcgaata aaataagtga 660 tgctgctatg gaatgcngtt atgtattaag tgaaaaaatt gcccgggcat caaaaccttt 720 tacagatggc gagtttataa aagatgttta ttgaatgcag cagaaattat gtgtcctgaa 780 cagaaacaag catttgcaaa cntaagncta accggaaata ctgttgctca gngtgttgaa 840 gatatggctg agaacttaca ggacaagttg cgtgaaaaag tnaaatcntt tgtggcgttt 900 tctatcgcag ctgatgagag cacagatata aataatacca cccagttagc tatatttatc 960 cgtggtgttg atgagaattt tgatgtgacc gaagaacttt tggacanggt gcccatgaca 1020 ggcacaacat caggaaatga cttatttttg tgtgttgaga aaagtcttga aaagttcnat 1080 gtngactggt caaaattagt aagcgtgacc acagatggtg ctcctgcgat ggtcggtgtt 1140 aanaacggac ttgtcacaaa acttaaatcc aaggtggcaa cgttttgcaa ggacacggaa 1200 cttaagtctg ttcgttgcat cattcatcag gaancgcttt gtgctaaaaa gttaaaaatg 1260 gancacgtca tggatgtggt aattaacanc gtgaactgga tatgctcccg tggcttgaac 1320 cacaganagt tcagtgcttt gcttgatgaa ttagatgcac gatatggtag cctgctgtac 1380 tacatggaag ttcagtggct nagttgtggn atggtgctaa agagattttt tgaactgttg 1440 gaagaaatcg acttgttcat gtcatccaaa gggaaatccc ngcctcagct caccggcaaa 1500 gattggatca aagacttggc ctttttggtt gacattacaa cccatctaaa tactttgaat 1560 atttctctgc agngacgttc acaaatagtt acacaaatgt atgattngat tcgcttgttc 1620 ctagcaaaat tgtgcctttg ggaaactcat ttggcaagga ataatctggc ccactttcct 1680 acgctgaaat tggtttccag aaatgaaagc gatggcctga actacattcc caaaattgtg 1740 gagttnaaga ctgaattcca aaaaaggttc tctgacttca aactttatga aaatgaacta 1800 acattgttca gttcgccttt ctcggcgaat attnacagtg tgaacgaaga gctacaaatg 1860 gaagttattg aactgcagtg caacacggta ctgaaaacta aatacgacga tgtnggaatn 1920 ccagaattct acaaatatct cnggagtagt tncccnaaat ataaaaacca ttgtgcaaag 1980 attctatccg tgttcggaag tacctatatt tgtgaacagc tgttttccat tatgaaactg 2040 aataaaacna aacattgctc ccagttaaag gattcaaggc tgaattctgt actgcacgtc 2100 gcaacgtgat ggagagagaa ntcctggcat gggccctatg gnagggaang ctcgagtctt 2160 ccggtctcaa agnattgnga aatganaaaa tnaataatta aactatttct attttcaatt 2220 tgtatttttc cattttgaat tagaaatata atctccagta tcatacatgt ttgtattacg 2280 ttntatgcnt cactattcaa taaaaatcaa gaaagttnna ttatatttct ggcggtcgac 2340 ttttcttatg cctggcccnc ttcactcatt tatgttacct gcctggcccc tgtaggcatt 2400 tgagtttgcg acccctg 2417 // ID MLT1E1 repbase; DNA; HUM; 654 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE LTR from retrotransposable MaLR element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1; KW MLT1E; MLT1E1; MaLR family. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 3-638 RA Jurka J.; RT "MLT1E1."; RL Direct Submission to Repbase Update (SEP-1998). XX RN [2] RP 1-654 RA Smit A.F.; RT "MLT1E1."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC LTR of MLT1E1 retrovirus-like MaLR element. 5 bp target site CC dups. CC Average divergence from consensus 23%. CC Pos 1-138 and 389-654 are > 90% similar to MLT1E. XX SQ Sequence 654 BP; 169 A; 146 C; 181 G; 154 T; 4 other; tgtggtaggc agaattctaa gatggccccc aagattccca ccccctggtg tacatgccct 60 gtataatccc ctccccttga gtgtgggcgg gacctgtgaa tatgatggga twtcactcct 120 gtgattaggt tacattatat ggcaaaggtg aagggatttt gcagatgtaa ttaaggtccc 180 taatcagttg actttgagtt aatcaaaagg gagattatcc tgggtgggcc tgacctaatc 240 aggtgagccc tttaaaagag ggtctggagg tctttctgaa gaagtcagag agattcgaag 300 cagcagagat gctctcctgc tggccttgaa gaagcaagct gccatgttgt ggagagggcc 360 atgtggcagg gaatngcggg cggcctctag gagctgaggg cctcagtcct acaaccacaa 420 ggaantgaat tctgccaaca acctgagtga gcttggaaga ggaccctgag cctccagatg 480 agancgcagc cccggccgac accttgattt cagccttgtg agaccctgag cagaggaccc 540 agctaagccg tgcccggact cctgacccac ggaaactgtg agataataaa tgtgtgttgt 600 tttaagccgc taagtttgtg gtaatttgtt acgcagcaat agaaaactaa taca 654 // ID MER68A repbase; DNA; HUM; 563 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 01-JUN-2008 (Rel. 3.09, Last updated, Version 5) XX DE MER68 LTR element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; KW Interspersed repeat; HERVL68; MER68A. XX NM MER68A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 563-1 RA Smit A.F.; RT "MER68A."; RL Direct Submission to Repbase Update (30-NOV-1995). XX RN [2] RP 1-563 RA Kapitonov V.V. and Jurka J.; RT "MER68A."; RL Direct Submission to Repbase Update (31-JUL-1998). XX DR [2] (Consensus) XX CC Sequences related to MER21 and MER77. Original orientation [1] CC has been changed based on classification of MER68 as an LTR from CC HERVL68 retroelement [2]. Individual sequences are 82% identical CC with the consensus sequence. The age may be younger since this CC subfamily can be split further into minor subfamilies. XX SQ Sequence 563 BP; 119 A; 139 C; 144 G; 158 T; 3 other; tgtgcagaaa agagttaaca tagcaggcct gagactgcta tccttagaaa ggcctgcttg 60 caaggttggc ccttggctgg catctgggaa cttggatttc gggagggttc ccaccattcc 120 cwkaactgat aagagtggct cactgtgcct aaactgtttg tgcaaacaat atggtttatg 180 ctgaacacct gctttccttc tgggagtctg gaattttggt acgtgctagg cagagggtgc 240 ctacgtgacc agcccccart aaaaaccctg ggcactgagt ctctaatgag cttccctggt 300 agacaacatt tcacatgtgt tgtcacaact cgttgctggg ggaattaagc gtgtcctgtg 360 tgactccact gggagaggac tcttggaagc ttgcgcctgg tttcctccgg acttcgcccc 420 atgcgccttt tccctttgct gattttgctt tgtatccttt cgctgtaata aatcatagcc 480 gtgagtatga ctatatgctg agtcctgtga gtcctcctag cgaatcaccg aacctggggg 540 tggtcttggg aacccctaac aca 563 // ID MER6C repbase; DNA; HUM; 202 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Mariner DNA transposon from placental mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER6; MER6C; KW mariner. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-202 RA Smit A.F.; RT "MER6C - a subfamily of Mariner transposon from placental RT mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 17-18% div. XX SQ Sequence 202 BP; 58 A; 41 C; 40 G; 63 T; 0 other; cagtaagtcc tcacttaacg tcgtcgatag gttcttggaa actgcgactt taagcgaaac 60 gacatactgt atgccatagg aacttaactc ttgtttatat caattagcct atggtaaaat 120 tggtttcgtt atacagtacg tcgtttcact taaagtcgca gtttccaaga acctatcgac 180 gacgttaagt gaggacttac tg 202 // ID MER65A repbase; DNA; HUM; 445 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 4) XX DE Long terminal repeat of endogenous retroelement; internal DE sequence MER65I belongs to the MER4I-group; subfamily MER65A. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR of retrovirus-like element; MER4I-group family; MER65A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-445 RA Lee I., Westaway D., Smit A.F., Cooper C., Yao H., Prusiner B.S. RA and Hood L.; RT "Complete Structure and Organization of Three Mammalian Prion RT Chromosomal Regions."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC 4 bp duplication sites. XX SQ Sequence 445 BP; 139 A; 109 C; 69 G; 125 T; 3 other; tgtgaaagtt gtcagaatca aaatggagtc acttatgtta aaaaccctaa caaayagagc 60 cggggaaggc catgaagaga gggttctcac gcwcatatgc ctgataacaa gaactatcac 120 aaaagactgc aaaaaccaca accttgcaca aaggccatca caaccttaca canaaaaata 180 cttctacgag gacatctgcc cagcaactgc ctgtccaacc tcggactggc gtcacccttg 240 ttattgatcc ttgtagccaa ggataattat ctcaaaacaa ttatgtaatc ctcctcattt 300 ttcctttaaa aacctttgtc ttcctttacc tccctgaata tgcacatagt ttactatggc 360 acgcgtattc ccattgcaat gctctattcc caaataaata tcattttctt ttagagagcc 420 tctctgtttg ttatttaggt tgaca 445 // ID Charlie28 repbase; DNA; HUM; 948 BP. XX AC . XX DT 28-JUL-2009 (Rel. 14.07, Created) DT 28-JUL-2009 (Rel. 14.07, Last updated, Version 2) XX DE Eutherian hAT-type repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; DNA transposon fossil; KW hAT family; Charlie28. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-948 RA Jurka J.; RT "Eutherian fossil repeats."; RL Repbase Reports 9(7), 1379-1379 (2009). XX DR [1] (Consensus) XX SQ Sequence 948 BP; 315 A; 163 C; 194 G; 266 T; 10 other; aaggagaaga gaatgaattc tgaaagcccc aagttcaatt tctacacaaa gtgcctgtag 60 agctgaagtg atcaaancag ngaacntggt aaatncaagc tgctgcagtc ccgnctgttt 120 tcagctttnt gagaaggaaa tgggatcaga acaccatttg ttattgctcc ccnccgcaga 180 gtggcagctg cccaggagag ggcccgggct ggagtataag ccctgaaatg caagaggaat 240 aattctcact ttgcagattt gttgaaggat agttattggc ttcaaaaacg gcttacttca 300 gtgacatttt ggagcacctg aatgaactta attgaaaatt gcaaggaccg tatgaaaata 360 tattaacgtg taccgacaaa gtttatggat tcgaagcaaa aattcaactt tggaaaagtg 420 aggttaaaaa cggttcacta gtgatgttta gncggcgtta tnatttgaat cctaaagaag 480 aattattaag actaggagca acatccgtgt atgtgaggaa aaagtcatca ttattttgaa 540 atacttgata taaaaagttc gattggattc gaaatccatt cgcattatca caagaaattt 600 caacattaca tttgtcaatg aaagaaaaag aagagctgtt agatttaaag aatgagcaca 660 atttagagna atcgaattat ccgaattctg gttaatggcg agaaaggagt tctatcaatt 720 ggaggaaaag cggtaaatac tcttctgcca tttgctacca ctcttgcttt cgaagtttct 780 tatcctcaat ctgggaagat taacccagaa attaccccag gccatttcac gtataagccg 840 atgtaaagaa aactcaggtg caggctcagt ctctgatttt aaatttatga aagggtttta 900 tttgaaagct ttacataaat tcaatattca ataccttccc tactcctt 948 // ID MER54B repbase; DNA; HUM; 793 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 06-JUL-2005 (Rel. 10.08, Last updated, Version 2) XX DE Primate MER54 repeat subfamily - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL-74 group; KW Interspersed repeat; MER54 subfamily; MER54A; MER54B. XX NM MER54B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-793 RA Smit A.F.; RT "MER54B."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC LTR of Class III (HERVL) retrovirus-like element. CC Orientation inverted to match HERVL74 orientation. CC 5 bp target site duplications. Average divergence from consensus CC 17%. CC Belongs to a group also including MER73, MER74, MER88 and LTR53. XX SQ Sequence 793 BP; 179 A; 237 C; 189 G; 187 T; 1 other; tgtagtgaat tcttataatt ttatgttgcc tcggcatcca ttttgaatac aggtttaact 60 ttctcatacc agaagcaggg ctcagtcacc cttgacacag tttccagttc tacaccacac 120 ccaaatggct caagccggtg gccagagata agaacttaga ggcatctctc ccgcctagca 180 gactgggctc cccgctttcc cgccgcttcc tttaaangga ccattcaggc atttgcccgc 240 gaacttaaag tgacccacac cctattccct tatatatact gctagttgcc atgtcctctc 300 tctgcctgac tcttcattcc tgcctcgcgt gacccgggga cggaggactg ccctcccgac 360 tcattgcgcc ctccctgccc aggatctgta agtaaaaatc tttgaacttg tttcctattg 420 tggtggtgta ttgaatttgc gccttccatc tgaagaacca ggggctgccc caggccgggt 480 tttccccggg acgccgggga gaacacaagg tcgggctccc agcgccagag cgatggtcag 540 gcaggcataa actggacacg ggtcagacaa gagccacaag ggcatctgcc agtataaaca 600 agtttcccgt gtgagggacc ccctggtcac gggtcggaca actaggcatt aggccgtccg 660 ccaggtaaaa gaagtatccc gtgaaaggca cactgtaaac acccacgtcc agctcccctt 720 catttcccgt tagggcaggg ttgctagccg ctctggtact ggaaccccaa tttagctggg 780 ggctctcaaa aca 793 // ID HERVH48I repbase; DNA; HUM; 6559 BP. XX AC . XX DT 24-OCT-1997 (Rel. 2.09, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE HERVH-related endogenous retrovirus flanked by MER48 LTRs. XX KW Endogenous Retrovirus; Transposable Element; HERVH retrovirus; KW HERVH48I; MER48; internal sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kapitonov V.V. and Jurka J.; RT "HERVH48I."; RL Direct Submission to Repbase Update (17-OCT-1997). XX RN [2] RA Smit A.F.; RT "HERVH48I."; RL Direct Submission to Repbase Update (17-OCT-1997). XX RN [3] RP 1-6559 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [3] (Consensus) XX CC HERVH48I is HERVH-related retrovirus flanked by MER48 LTRs. CC It is closely related to HERVFH21. CC Youngest subfamily copies 7% diverged from consensus on average. CC ORFs: 657-2237 (gag) and 3927-6455 (pol + partial env). CC A 5120 bp internal sequence was found independently by [1] and CC [2], CC a 6559 bp consensus built by [3]. XX SQ Sequence 6559 BP; 1625 A; 2221 C; 1143 G; 1569 T; 1 other; tctggtgccg aaacccggga ggggctcagg tctgcgtccc ccgtggacct acccctccac 60 cccagagagc aggccacagc agccggacaa aggaagctcc tcagcctcca gtcgcctctc 120 tgtgcatgca catcggtcac tgatctcgcc tactggtaag tttccccggg agcccggtta 180 acagggaaaa atctgcacgg cctctcttgg tttctccggt ccaaaaatcc aacgttggtc 240 caagaaggct ccggcgtgtg ccaggcactc gctgatcatc tggtcttagg gggacgcctc 300 taagccattt gatcccgttc cgggaacgaa aaaggcagcg gtgacgatcg ctccttttat 360 cgtctccctc cggccgtcca ggacggtctc cttttccctg ttctcccaag cctaccctcc 420 gttatgggaa actcccggtc ctccattcca aaaaacagcc ctctaggctg cctcataaaa 480 aaacctgcaa accttaggcc tcaggcaaga tatccgccct aagcgccttg tctttttttt 540 tgcaattcag tctggccaca gtacgaatta aataatgggt ccaaatggcc cgcaaatgga 600 acattcgact ttacaatttt aactgactta agcaattatt gccgacgact ggagaaatgg 660 ggagaaattc cttatgtcca ggcctttttg cactcagatc acaacccgac ctctgcaatt 720 cttgctcacc tgttcaaatc cttctcctcc attctcgccg ccctgatcac ctttctcctc 780 ccaaccctac ctctttttcc tcgttcgatc cagcagactg ctgtccaccc ctcccagccc 840 ctacctctcc ctctcaaccg tcttctttaa ccccccaagc ctcctctttg tcttctcagc 900 cgccatcttc ccagccgcca tcttctcagc caccatcttc ccagccgcca tcttcccagt 960 cagcagtatc cacttctttt cctacaccgt cccctcctca ggacaattct agcattgcct 1020 gtacccattc tcctccccca ccgccctctc ctgaggcctg taaacccatc ccgccacctt 1080 acgcccctat ctatcctcca ctgcctatca actcaacccc ccttccccct tcaaaccctc 1140 agcaggaacc acttccggct tcttccttct ctcccacccg tactcactca ggcgccatct 1200 ttggcccatg ccccaccctt acttcagcgc ctgcgctaga gtgccccctt cgggaagtag 1260 caggaactga aggtattgtt agagttcatg ttcccttctc cctcactgat ctctctcaaa 1320 ttaacaaaag actcggttca tttccagaag accctacctc ttatattagg gagtttcagt 1380 accttaccca gtcttatgaa ctaacctggc atgacctcta cattatcctc tcttccaccc 1440 tcaccccaga agaccgggac cgtatctgga ccctagctca ggcgcatgct gatacaattc 1500 atcaccaagc tcctgcccag cctactggcg cagaggcagt ccccaaccag gacccccact 1560 gggattatca agacggggcc tctggatgcc gccatcgaga ccacatgatt gtgtgtctcc 1620 ttgcaggact caaaaagggt gcccataaag cggtaaacta tgaaaaactt tcagaaatca 1680 cccaaggtcc tgacgaaaac ccagcccttt ttctctctcg tttaactgaa gccatgagaa 1740 aatataccaa cctagaccca gccagcccag aaggaaccac tatcttaaac cttcggttca 1800 tctcccaatc cacccccgat attcggcgca agcttcagaa gcttgacgac ggccctcaaa 1860 ccccacaacg agaccttctt aatttagcct tcaaagtctt taacaatcgt gatgaggaaa 1920 gtaaaaggca aaaacaggca gagtttcaaa tgcttgcctc cgccatcagg ggccctgcag 1980 gcccacaggg ccgcagctcc acacagaagc ctcctagcaa tccacctcca cctggcgcct 2040 gtttcaagtg cggcaatgaa ggccactggt ccagacaatg cccaaaccca ggtaagccca 2100 ccaggccatg ccccctctgc ggaggacccc actggaagtc ggactgtgag cggcccccgc 2160 aaggaccgcc cccatccctt cctgagccgg ccaaaacctc ctactcggat ctcatcggcc 2220 ttgccgctga agactgacgg tgccctggaa cggacgcccc ggcaactacc atcgcttcat 2280 ccgagccaag ggtaaccctg atggtggcag gtaggccagt atgttttttt aaattaatac 2340 cggggcaacc tactctgctt tacctaattt ttcaggaccc acccagtcct cccaagtctc 2400 tgttgtggga attgatggac aagtctccaa accccgagcc acccctccac ttttctgctc 2460 cctgcacacc ttttccttca ctcactcttt cttagtcctg ccctcatgcc caactccgct 2520 cctaggcaga gacatccttt caaaactcca cactactctc cacttccacg ttccccatag 2580 tacccaacgc atcaacccag acccctccgg tgcttctaac tttcttctac tcctccaacc 2640 tcccacccta aaacatgcaa cttttcctta tcccccatcc gtagttaacc ccgctgttta 2700 ggatacttcc acaccctcag tcgcagaaca ccacaccccc gtccgcatta cccttaaaga 2760 gcccacccag ttcctatcac agaagcagta tcccatcccc caagcagctc tcataggcct 2820 aaagcctatc atttctcgcc tcctcgccag tcacctactc cgcccaacaa actccccttt 2880 taacacacca gttctacctg tcaaaaagcc agatggaact tatcgcttag tccaggacct 2940 caggctcatt aaccaagctg tactcccagt atgtccagta gttcctaacc catatacttt 3000 actttccgca attccctcca ataccaccca tttttctgtt ctaaacctaa aggatgcttt 3060 tttttcacaa ttcctttaca ccctgattcc caaaacctct ttgcctttac gtgggaaaac 3120 cccgacaccc acctttcacg tcagctcacc tggtgcgtac tacctcaagg tttcagagac 3180 agcccccacc tttttggaca ggcccttgct cgtgacctct gtaccttatc cctaaaaccg 3240 tccactctcc ttcaatgtgt taatgatctg ctcctgtgta gcccctctca aagagactgc 3300 aacgcccata ctatctctct cttttaaact tcttggcaga acgggggtat caggtctccc 3360 ctaagaaagc acaaatatgc accccctcag tcacctatct aggcctagct cttaccccgt 3420 gaacccgagg gctcacaacc gaccgcatat ccctcctcca gtccctcctg cctccgcaaa 3480 ctaagcaaga aattctctct tttctaggac tagcgggata ttttaggctc tgggttccct 3540 ccttcgctct acttgccaaa ccgttatacc aagctgctaa aggccctctc catgagcctt 3600 taaaccctgc acagcctatt acccaacctt tccgtctact ccggaaggct ctcacctcag 3660 cccccgtcct cactctccca gacctcacca aacctttctc cctctatacc gacgaacggc 3720 gtggagttac actaggtgtt ctaacccagt ctaagggacc caccctccag gttgttgcct 3780 acctctctaa acagcttgaa gccacagttc tcggatggcc tgcctgcctc cgagcattgg 3840 tggcagctgc tgtcctcacc cttgaaagcc taaaactatc tctccatgcc aacctaacag 3900 tttattcaac ccataacatc aaagacatgc tagctcaccg cagtgtacta agtctcatct 3960 ctgccccacg gctcctccaa ctgtatgctc tattcataga aaccccccac atcaccatgc 4020 taaccagctc ccgtctaaac ccggccacgc tcttacctga agctacaacc gcccaagacc 4080 ctacacactt ctgtgtgaac actgttcaaa cctttcttat accttttcca aacctaacag 4140 accaacccct tccagatgcc tcctttactt ggtttgtaga tggcagctcc ttcctacatc 4200 aaggacgccg gcatgctggc tatgctatag tgtcacccca cacacacact attgaagcca 4260 atccgctccc cctaggcacc acctcccaaa aagctgaact catcgccctc actcaagctc 4320 tcactctagc agccagacaa caaatcaaca tatattcaaa ttctcattat gcgttccaca 4380 tagtgcactc acactcgtcc atctggaaag aacggggttt cctaactgca aaaaacactc 4440 ctgtcataaa tggctctctc atcagcaaac tccttcaagc tgccaggctc ccacagaaag 4500 ttgccatcat tcattgcagg ggccaccaaa ccccagacaa tcctatatcg gctggaaatg 4560 ctctagcaga tcaggtagcc aaacaagtag ccctacaacc cgtgcaaggc cagtttctgt 4620 ccctgtcctt gttctctcct ctttactcct cagaagaaaa ggaggacttc cgagcccaaa 4680 accttcaaaa gcaaggacca tggtatgtca aggaagggtg cttcgttctt cctcactctc 4740 aaacaatccc tcacctccaa agcctccaca actctttcca tgtcggttac aaacctctct 4800 tgcaacttct ccgccctatt ctcacttgtc ctcacctttc cagccgtgtt cgagaaatta 4860 cccagtcctg ctctatctgc cactcagtgt caccccaggg ctccctccgg ccgccgcctt 4920 ttcctaccca ccaagcccgg ggccaggtac ccgggcaaga ttggcaagta gacttcactc 4980 acatgccgcc cgataaacgg ctccgctatc ttctagtctt tgtctgtact ttctccgggt 5040 gggtagaagc gttcccaaca acttcagaag gtgcaaatgt cgtcacacaa actctcatca 5100 tgcatataat tccccgtttc ggactcccaa catccatcca gtccgataac gggcccgcct 5160 tcatcagcca aattacccaa ggcgtctcta catccttagg wataaaatgg gttctccaca 5220 caccctacag gcctcaatct tcaggcaaag ttgaaaaaat taactctgtc cttaaagccc 5280 aactcaccaa gctggctcta gaaacccacc agtcgtggac aaaaaatctc cctttcgccc 5340 tcatgagact ccgcgcaaca ccaaaagcac cctcttttta tagtcccttt gaaatcatgt 5400 atggccgaac ttttgtctta gggcctccac ccttaccaga ctctgagcca ctcgggaatt 5460 acctcccctc cttaatccag acacggtctt tcattcgtga agcagcaaat gaggccatgc 5520 ctctccctgt cgacacctcc ttgtcctctc aacataactg tcttgcaggc acagacgtgt 5580 ttatctgcca acccgaccct cacaaaaagc tacaaccgaa gtggacaggc ccctacactg 5640 tgatactcag catgccaact gcagtgagag tccaaggact cccccactgg gtccatcgca 5700 ccagggtcaa gctcaccccc aaggctactc cttcctccaa aacattaaca gcgggcaaca 5760 ccctcggagt ccctgtatat aataacctaa acaaagaaaa acgatcctta aaggtaggag 5820 gaagccaaag atggcaagag gacaaatggc ctccgcaaca gatcatcgaa tattacggtc 5880 ctgccacttg ggctgaggat ggttcatggg gttatcgcac tcccatatat atgctaaata 5940 gaataattag actacaggcg gttctagaga taatcactaa ccaaaccgcc tcagccctgg 6000 aaatgctcgc gcaacaacaa aaccaaatgc gtgcggcaat ttatcaaaac aggctagcac 6060 tagactactt attagcagaa gagggtgggg tctgtggtaa gtttaatatc tctaattgct 6120 gtcttaacat agacgataac ggaaaagcgg ttctagaaat cgcttcaaac atcagaaaag 6180 tagcccatgt accagtccaa acctggaagg gatgggaccc aacaaacctt ctaggagggt 6240 ggttctctaa tttaggagga tttaaaacgc tggtagggac agtaatcttc atcattgggc 6300 tcctcctgtt tctcccctgt gttatcccac tgataataaa agccattaaa actcttgttg 6360 aaactacagt taaccgccag acaatccaga cgatgctcct gctacaacga cacgatggat 6420 accaacccgt ctctcaagaa taccccaaaa attaagtttt tctttttcca aggtgcccac 6480 gccaccccct atgtcacgcc tgaagtagtt attgagaaag tcgtcccttt tcccttttct 6540 ataaccaaat agacaggaa 6559 // ID LTR16D1 repbase; DNA; HUM; 675 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW LTR16D1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-675 RA Smit A.F.; RT "LTR16D1 - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC 80-85% similar to LTR16D. XX SQ Sequence 675 BP; 116 A; 227 C; 176 G; 153 T; 3 other; tgtatcggac acaaaccttg tgtgcctcct cagattccct cgactgcctc cctcttctga 60 aggtgccgnc tcctncccgg gccactccgc tgcnaccgcc tttgctgagc tccctgagct 120 ggctggagtc caagttgaag ccctgggcct gcatggccct cagtcccaca cgctgagccc 180 catccgcgcc gagttgcccc tccacttccg gacttggatg aaacgccaca ccacggggca 240 tgggatctgg cttcctgagc ggccgccaaa ggggccggat gacgcaacct ggaagtgtag 300 gggagttagc tccccgtggg gtgaaccttg accaatggga aatgggagac aggagggagc 360 cgggcagata aattccccct cctttctccc ttccgtggac tactccgagg tgtggtttct 420 ccttgcagcc cttccggaga agtcccgtgt gccgagcaaa cacacctgcc gagtgacctg 480 ctgtgtctct tcgtggcttg tcgtgaagcg gtggccagcg cggtaacgca tcgcatcgca 540 ttgcttcaca tctttccttg cctcacttcc ctttttcctc accctcaccg ccctgggctt 600 gcacctccca aataaagtgt cagcacttta atccttgcct caggctctgc tttctagagg 660 acccgggcta agaca 675 // ID LTR22C repbase; DNA; HUM; 509 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Long terminal repeat of ERV2 Endogenous Retrovirus from primates. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR22; LTR22C_LTR; LTR22C. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-509 RA Smit A.F.; RT "LTR22C - a subfamily of endogenous retroviruses from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 6bp duplications, 9% divergence from the consensus. XX SQ Sequence 509 BP; 125 A; 110 C; 138 G; 127 T; 9 other; tgtaggggtt cggtcagggt ggtgggaaaa attataagaa gaaattatag gaaatagaca 60 caaaccttct tggaaggccg ggaggttttg caaaagcttc agkaawgggt ttggctgaag 120 gcagccwaat tctcttatcc ggagccwgag agcwwagggt agataacaag ggaatgtaaa 180 ggagtttatc tagataagct tgtttactca tgtggcccga aamctgacct ttaatcattc 240 gtgcgcagga ctgctctcta ctcggggggc ggccatgtta attacccaca agttgtgttg 300 actcaaagcc tttgtcatta aatctgtact aaataaatgc cmgcagcgcc ggcttgtcag 360 ggccacggct gctacaactc tttacagcac cttcctgggw gtctgtgagc ggcccggtcc 420 ctcagctgga ctggcaaagc agaatatctg tgtgtcagtg tactttattc atccgtcact 480 cggtcagggt ctgcgggtca gacccggca 509 // ID LTR1B repbase; DNA; HUM; 826 BP. XX AC . XX DT 03-SEP-1998 (Rel. 3.08, Created) DT 03-SEP-1998 (Rel. 3.08, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like sequence - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HUERS-P2; LTR1; KW LTR1B; LTR27; LTR28; Long terminal repeat; MER52. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-826 RA Jurka J.; RT "LTR1B."; RL Direct Submission to Repbase Update (SEP-1998). XX DR [1] (Consensus) XX CC HUERS-P2-related; ~72% similar to LTR1. Also 3' similar CC to LTR28. Patchy similarities to LTR27 and MER52. XX SQ Sequence 826 BP; 211 A; 252 C; 201 G; 137 T; 25 other; tgatatggac aggagacagg gaaatactgg gtagaagagg gtggttcccc agcaaaggcc 60 ccaccctcaa gcctggagac ctgcggccct aaatgggaac aggcattcct gttttcacgc 120 ccaaaaagtt gccttttggc ccaccacacc ccctatcctg tacccatata aaccccaaac 180 cccaggctcc agaagcagan nagcagacaa ggagaggagc agangaggag acgagcagaa 240 gagcngcaga atagtgcggc agagaagaga aggaacgtct gaacgccgag aggagttcrg 300 ctrgggrcrg tcagagarga gntcagccgc tggayngcca aactccaggg gaagatcatc 360 ttcccactcc atcccctttc cagctcccca tccatcccac tgagagccac ctccaccact 420 caataaaacc ccygcattca ccatccttca agtccatgtg tgacccgatt cttctgggat 480 gctagacaag agcttgggat acagaaagct gtcacactgg ccctctgccc ttgcaaaaag 540 gcagagggtc cactgagctg gttaacactt aagccatctg tggacggcaa agctaaaaga 600 gyacactgta acacatgccn nncccacttg ggcttcrgga gtcacaggca cccaccccta 660 gatgctgcca tggggccaga gcccaaaagc actcacccca gctcctgcwc ctgcccgtct 720 gcatgctccc cctcctgtaa ggggtttgag cgtgtggcga ccnaacagrn gagccacacc 780 cctgtcrcat gtcctgcrag ggggrtcagg gaactctccc atttca 826 // ID HERV16 repbase; DNA; HUM; 4996 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 21-NOV-2000 (Rel. 5.1, Last updated, Version 2) XX DE Internal sequence of endogenous retrovirus HERV16. XX KW ERV3; Endogenous Retrovirus; Transposable Element; HERV16; KW Internal sequence of endogenous retrovirus HERV. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-4996 RA Smit A.F.; RT "HERV16."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC LTRs of HERV16 are listed in REPBASE as LTR16 sequences. CC HERV16 is related to HERVL and is relatively old (>20% divergence CC from consensus). Bases 300 to 1300 encoded a GAG protein closely CC similar to the murine "retrovirus restriction polypeptide" CC (PIDs e24674 and e242676). CC Bases 1 to 3096 are a consensus [1], bases 3131 to 4996 are CC bases 6160 to 8025 of GB ACC# Z70719. XX SQ Sequence 4996 BP; 1461 A; 1021 C; 1272 G; 1125 T; 117 other; gttggtacca ggagtggtcc gagaaagcag acgmtgctaa gatgkgattt tggagttgga 60 tcacccgctg ncwagctggc aatgaggact ccatcacwng tggtaggtgg agcatagata 120 gcctctggca caaggtagta gtgsaattgt taaaactttc actggtggtg aactgggatg 180 gcgtactggt gaaaagagaa cgcactagct ggtgcaatgc ttcaggcgtt tgagaaatat 240 gggatgaatt anntacatgg aaggacartg gaattggatg gctgtcgcta agcttgactg 300 acactctgka aaagaacaat aaaragctga gagcgattaa ttggcaattg aaaactaagc 360 atgaaagcca gagggcctct ttggtagcat ataaagaggc tctcatctcc tgcagcggga 420 nggcagagaa asctgaggat cagacccaga atttgatcaa agtagcaaag cttcaaagaa 480 ggttaaattc ccaaccaagg caggtcttct atgccnagkt cagcgccccg gttaggsaag 540 aacgggaccc tgacacacgg ratggggacg tctggattga tgcccctaaa aatcttgaat 600 ccccagattc ccctgaaccc tttgagcctg cagaagtgac ctactcctcc ctattaaggg 660 ctrgcattcg cttcttnctt tatgggaaga cagtacggag gcctctccct tngcaagaca 720 acatgggttt tccycaggat ctgcctccac ctcatctcct ggccactagg ccaataacta 780 gggttaartc acarcgtaac ctggccgggg angtgctggg cctgataagg aaagaaaggg 840 actatacccc aaaggagttg cgggacatat ctagccagca tatactagca ggaccgggag 900 agtacsyacg ggactggatt ctgaggacgc ttgatcaagg gggccggaac ataaakttgg 960 ataagggaga gtttattgat ttgggagcac tctcccggga tacaggattt aacaccctgg 1020 cgaggacccc aggagatggc gcaaacacac tgctaggatg gctcctagaa gcatggagaa 1080 agcgatggct cacactaagt gaggtagaaa tgccagaatt gccatggcag atggtgaaaa 1140 aagggatcaa aaagctcagg gaggtgggca tgctggaatg gatatattat gtraggccag 1200 aagacccgcc agaggattat gttstacagg aggactcagg ggacgcacna tttaccaaag 1260 ccataaggaa tgtgctggwg agaggggcgc cagcatcacc gagaagttca atggtggctc 1320 tcytctgcag gccagggttg ataataggag aggcaatcac agagctgggc tcgctgatag 1380 cagtcggggt gatagggctc tgacgtaata gaggccaggt ggtngcactc ggccgtcaga 1440 agcaaggtgg acgtaaatac cacaatgcac tgcagggtcg gagtggcagt cggganggcc 1500 tgacttgcgg ggagctatgg anatggttaa tagaacacag tgtccctaga ggcgaaatag 1560 acggnnagcc aacaggaaga catggacagt caatgggaca tggtgtccta tgggcaagag 1620 agatgggctg ccaacaaggg tgtattgttc aactgaagca agcgaaagaa acgaagggtg 1680 tannactagg aggctgaggg cggtcgcccc aataaaaagt catratccct tgcccagttt 1740 ccagatctga gccagttttc agacctagaa cccattgact gaaggagagg ccgggtcccc 1800 aggaggaagg accccgcaac accacggcaa gtgtacatcg taatnatttc tccagtcctt 1860 ccccaarggg acctgtrgcc atttactctg ggtaactatg caccggggaa agagaaatac 1920 ccggacattt cgaggactat tggacactgg ntctgagttg acattgatac ccggagacct 1980 aaagtgtcat catggtcctc ccgttagaat gggggywtat gggggycagg taataaatgg 2040 aatcctggcc caagtctggc tcacagtggg tccactgagt tcacagaccc acagtggtta 2100 tntctctnat ccctgantgt ataattggga tatacatact tggtagttgg cacaacccct 2160 acattggktc cttggcctgc ggggtgagag ctatcatagt ggagaaggcc aagtggaagc 2220 ttccgaaact gccctcacct tctccgggca agacagtaaa tcaaaaacaa tatngcatcc 2280 tcggggtgga gaatggcaga aattattgcc accwttaaag acctaaagga tgcaagaggt 2340 gtggtctcca tcatatcttc gtttaattcg ccagtgcaaa cccctgcaaa anctagacgg 2400 atcctggatg acggtagcgg gctaccacaa actcagccaa gtagtatccc aattgcaant 2460 gctataccag acgtggtatc ttcgctacag cagattaaca tggcctcaag tatgtggtkt 2520 gtagctattg atktggtaaa tgtattcttt tccatctctg tcanaaanaa cnatcagaag 2580 cagtttgcat tcactcggaa cggacaacag tatacatata cagttttncc tcagggcact 2640 actaactntc atgncctctg tcataatata gtctgaaggg gtctgaacca cttggacatc 2700 ctacagaaca tcacattggt ccactatgtt gatgacatca tgctaattgg accggaataa 2760 gcaggaagtg gctagtacat tggaggcctt ngtaagrcac atgcgctcna ganngtggaa 2820 gataaaccct acgaaaatcc gggagcttgc cacatcaatg aartttttag gggtccagtg 2880 gtctgkggca tgccggaata tccccccaaa gtaaaggacg aattantntn tcttgtacct 2940 tccaccacga agaaggaagc gcaatgcctg gtaggcctct tngggttntg gananancat 3000 attncacact tgggaatant gttccgaccc atatactggg tgacgcgaaa agctgccagc 3060 tttgagtggg gcccnagcag gaaagggctc tntggcnnnn nnnnnnnnnn nnnnnnnnnn 3120 nnnnnnnnnn cctctaagtc ataaagtaag atgaatccag cagtagccca taatacggtg 3180 gaaacagaat atcctagatt aagtccgagg aaaaccagag gacacaggtt aggtatatga 3240 gcagatagcc cagatcccca tgctatccac cacagttgca ccagtgcctc tcctttggtt 3300 tgaacctata gccatattaa agtatgtggt cccatataac cagttgaagg aaagctcaag 3360 cttggtttac aggatcagct tggtatgtga acgtaagtca aaatacgtgg tgactgtatt 3420 acagccccat ttagaggtgg tcctgaaagg cagcagggag tgaaaatatt ttcccagtgg 3480 gtagaactgc aagcagtgca cctgattatc cactttttgt ggaaaaagaa gtggtccaag 3540 atggtaatat atatgcatta ttggacagta gccaaaggtc tggtgagctg gtcaggagct 3600 tggaaggaaa agatcagaga aagggaagtc tagagtagag gcatgtggat agacatattg 3660 gaagtgatat gaaataggaa gatttttgta tcaatcctat tttaatgttc acatgaaagc 3720 atcaattgtg aaagagtaac tgaagaacta agtagacaaa gcgactttga ccactgacat 3780 taaccagcat tcattctggc cttctcagga ctggtccaat agacatctca aagaactagc 3840 catggcagaa gaaatggagg taatatatgg gcccaatatc acagactcct gtgtaccaag 3900 acaatttagc tgcttccctg tatgaatatc caacctgcag caacagcgac caaggctcta 3960 tctcaaatac gacactattt atgaagacca cttagcagtg aattgactat attgtatgct 4020 ttttatcctg gaacagtcag tggttcatgc tcacagaact atgtacctat tctgggtatg 4080 gatttgcctt ttctgcctgc acagcctcat taagcatctg agggatttgg gggttcttga 4140 gccatagtct cggaatccca cacaacagag catctggaca gggtagtcac ttcatagtaa 4200 agaaggggca caaatgggtc cagaacaaga ggatccactt atcatatcaa atactgcacc 4260 atccagaagg agctgacctc acagaacact tctgaaggca aagataaagc accaataaaa 4320 gtaaaccctg aaaaaattgg gtgccgttct ccaggatgca gtgtatacat taaatcacag 4380 acctatacgt taggctttag atctaattgg aagaatggga ttaggaataa gaggtgaaag 4440 caggagtgtg cctactcccc atcgtagtgg cccacaagga tcacagcagt ggtttgaaca 4500 cggattggac tactgatatc caggaatcgc cgcacaagaa ggggaatcca catgtggcag 4560 gagtaattga ctatgatgtg taggaggggt agggctgctt tagtaaaatg agtaagaaag 4620 gaatacatat gaaaccaggt gatctacttg agtgcctcct ggtattctct tgcttcattt 4680 aactgtgaat ggataatgtc attgaaaaga gtttggacac ctccacaatg aaagtttggt 4740 tcacatggct aagtaagctt ccaagacttg tcaaaataat aactgtgtga gggacatttc 4800 aaataggtag tggaaaagga agataataat taccagttct ggcccagaaa ctaaatgcag 4860 caaggggggc tgtagtgtgt cccactatcc tccctcttca aagtttggct tcataaagag 4920 aagcttaaag gaataaggaa ggaactgttc catgaacctg aatggagaaa tagatctgtc 4980 gagtacaaag gtggac 4996 // ID L1PA14 repbase; DNA; HUM; 908 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA14) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P4; L1PA14; L1PA14 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-908 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-908 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 9%. XX SQ Sequence 908 BP; 364 A; 177 C; 183 G; 184 T; 0 other; ctaatatcca gcatctataa ggaacttaaa caaatttaca agagaaaaac aaacaacccc 60 attaaaaagt gggcaaagga catgaacaga cacttctcaa aagaagacat acatgcggcc 120 aacaagcata tgaaaaaaag ctcaacatca ctgatcatta gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagtcaga atggctatta ttaaaaagtc aaaaaataac 240 agatgctggc gaggttgcgg agaaaaggga acacttatac actgttggtg ggagtgtaaa 300 ttagttcaac cattgtggaa agcagtatgg cgattcctca aagagctaaa agcagaacta 360 ccattcgacc cagcaatccc attactgggt atatacccag aggaatataa atcattctac 420 cataaagaca catgcacgcg aatgttcatt gcagcactat tcacaatagc aaagacatgg 480 aatcaaccta aatgcccatc aatgacagac tggataaaga aaatgtggta catatacacc 540 atggaatact atgcagccat aaaaaagaac gagatcatgt cttttgcggg aacatggatg 600 gagctggagg ctattatcct tagcaaacta acgcaggaac agaaaaccaa ataccgcatg 660 ttctcactta taagtgggag ctaaatgatg agaacttatg aacacaaaga aggaaacaac 720 agacactggg gtctacttga ggggggaggg tgggaggagg gagaggagca gaaaagataa 780 ctattgggta ctgggcttaa tacctgggtg atgaaataat atgtacaaca aacccccgtg 840 acacgtgttt acctatgtaa caaaccttca catgtacccc caaacctaaa ataaaagtta 900 aaaaaaaa 908 // ID LTR9B repbase; DNA; HUM; 644 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Primate LTR9B repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR from human endogenous retrovirus-like sequence; LTR9B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-644 RA Smit A.F.; RT "LTR9B."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC LTR9B is 75% similar to LTR9 over its full length and is found CC flanking CC closely related internal sequences (mostly HUERS-P3b). 4 bp CC duplications. CC The average divergence of copies from the consensus is about 14%. XX SQ Sequence 644 BP; 134 A; 190 C; 141 G; 173 T; 6 other; tgttgtagga gttattaaga aattatttta ggcagataga gaggaaaagg ggtccttggg 60 aagttttcgt ttcttttnaa agcagctcca gaaacatttc ttgtctagca gaaaagcccc 120 ggctcttaga gccaggccgg caanctttga tatgcaaatg caggccatta gaaactgggt 180 ccacccaaca tggcgattcc caccgtcgtc ttcttgccct tgccccacat gtgcctggca 240 acatggccgc ccccacatat ccccacgtgt gtagaacatc atggcgccct gcatttgcat 300 attaaaaggc tagggtggga gggccagttt tttcgcgggc tacgtgaatg acatgcctgg 360 tcaaaccaat cccctgagcc ctatgcaaat cagacaccgc ctcctccagc ctcctcatat 420 aactggctgn twtccgccgc acncggggtt tcctctctcg gctttggagc ccccctccct 480 ctgtctctgt acaggggagc ttcttccttc tttcttctcc cttctttctt gcctattaaa 540 ctctccgctc cttaaaacca ctccacgtgt gtccgtgtcg ttttatctaa atcggcgcga 600 ggaccaagga ccctggtgtt cctccastca tcggagccgt atca 644 // ID LTR27B repbase; DNA; HUM; 594 BP. XX AC . XX DT 03-OCT-2000 (Rel. 5.09, Created) DT 03-OCT-2000 (Rel. 5.09, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR27; LTR27B; KW LTR28. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-594 RA Jurka J.; RT "LTR27B."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC This subfamily is closely related to LTR28. Therefore, LTR27, CC LTR27B CC and LTR28 should be treated as subfamilies of the same family. CC More distant relation to: LTR1, MER52, MER61, LTR20 and LTR25. XX SQ Sequence 594 BP; 142 A; 178 C; 138 G; 129 T; 7 other; tgatagcgac aggaggcagc caaatgccta ggcagatagg ggygggtccc tggtgaaacc 60 ccaccttcaa gccaaaaaac agcctgaagg ctgaaagacc agactgctgg tccyggatga 120 aacccacgac ccagagtgag aacttctgtt cctgtttgcc caccctttcc cgattgattc 180 tttctgaata atgcctttta accaatygaa tgttgccttt tccaatacta cctatngcct 240 gcccctcccc cattctgagc ccataaaagc cccagactca gccacaytgg ggggactttc 300 ctaccttcag gtagggggac cacccctgca tcccctctcc gctgaragct gttttcgtca 360 ctcaataaaa ttctcctccg ccttgctcac tcttcaattg tcagcatatc ctcattcttc 420 ttgggtgygg gacaagaact caggacccag tgcacaagcc agacttggcc caagcaggcc 480 aagtgggtgg gccatctcct gcagcaggta gcatggccaa gcgaggcctg ggtggggcat 540 caccagccag aggtccctgg cttgcaaagt gaccgagaaa aaaatcctgt gtca 594 // ID SAR repbase; DNA; HUM; 84 BP. XX AC X03461; X03462; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 04-AUG-2008 (Rel. 13.07, Last updated, Version 3) XX DE Human satellite I DNA. XX KW SAT; Satellite; Simple Repeat; SAR; Satellite repetitive element; KW simple sequence DNA. XX NM SAR. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 84-43 RA Prosser J., Frommer M., Paul C. and Vincent C.P.; RT "Sequence relationships of three human satellite DNAs."; RL J. Mol. Biol 187, 145-155 (1986). XX RN [2] RP 1-84 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR GenBank; X03461; Positions 1 17. XX CC Positions 1 to 17 repeat unit A CC Positions 18 to 42 repeat unit B CC [2]. XX SQ Sequence 84 BP; 26 A; 4 C; 12 G; 42 T; 0 other; acagtatata atatatattt tgggtacttt gatattttat gtacagtata taatatatat 60 tttgggtact ttgatatttt atgt 84 // ID LTR1E repbase; DNA; HUM; 841 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 13-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR1E. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-841 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 827-827 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 841 BP; 191 A; 272 C; 236 G; 136 T; 6 other; tgatatggac aggaggcagg gaaatactgg gtagaagagg gcagggtccc cggygagggc 60 yccacaccct caagcctgga cccgcggccc aaagtgagaa catgcacttc ctgttttccc 120 gcycgaatgt tgccttttcc aaaaccaccc tggcccgccc cgccccccat cctgtaccca 180 taaaaacccc aggctccact ggcagagtgg cagagcagca gagcagcgga gyagcagagt 240 ggcagagaag gagagaagag aagaagcagc cggacatcgg agagaagcag cttgacttca 300 gagggacggc ttgacggcgg gacttcggag aagagttcgg ccggggatgg ctggccaaac 360 tccaggggaa gaccaccttc ccactccatc ccctttccag ctccccatcc cgctgagagc 420 cactttcatc cctcaataaa atcctccgca ttcaccaccc ttcaattcgt tcrtgcgacc 480 tgattcttcc tggacgccgg acaagaactc aggtaccaag agggtgggtg caaaaggctg 540 tcacactgac cctccactga gctgttaaac acttaagccg tccgtggacg gcaaagctaa 600 aagagcgcac tgtaacacac gccctctggg gctccggggg tcgygggtac acccctagat 660 gctgccgcgg ggccgcacag agttctgctc ctgccggcgc ccagaagcac tcgtcccggc 720 ccctgcaccc gctcacctgc gtgctccccc tcccgcgagg ggtttgagag ctgcgggctg 780 agtaaacgag ccaacccctt cgcgagtccc gcgaaggggt caagggaact atcccgtttc 840 a 841 // ID MLT1F_I repbase; DNA; HUM; 1399 BP. XX AC . XX DT 28-MAR-2001 (Rel. 6.02, Created) DT 07-AUG-2009 (Rel. 14.09, Last updated, Version 2) XX DE MLT1-type LTR retrotransposon internal sequence - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MaLR family; KW LTR retrotransposon; MLT1E; MLT1R; MLT1F1; MLT1CR; MLT1F2; MLT1FR; KW MLT1F_I. XX NM MLT1FR. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1074 RA Jurka J.; RT "MLT1FR."; RL Direct Submission to Repbase Update (28-FEB-2001). XX DR [1] (Consensus) XX CC Internal sequence consensus for MLT1E/F retrovirus-like elements CC (MaLR). CC The closest homologue is MLT1CR (75% similar). Divergence from CC individual repeats ~24%. XX SQ Sequence 1399 BP; 430 A; 246 C; 380 G; 341 T; 2 other; tgtctaacaa aacctaaaat gtgggagtgg ctttggaacg gcagtggtga gctgaaggat 60 tttgaggagc atgttagaga aagcctaaat tgccttgaac agactgttag tagaaayctg 120 gactttgagg aggctgccag tgagggctca aaaggaagtg aggaacatgt tattggaaac 180 tggaggaagg gggatccttg ttatgtagtg gcagaaagct tagcaacact gtcrcctgca 240 gttatgtgga aagtagaaaa tgtacctaat gaactgggtg atctagctaa ggagatttcc 300 aagcaaagtg ttgaaggtgc tacctggttt cttcttgctg cttatagtaa aatgtgagag 360 gagagagata aactaaggaa gaactgttaa acaaaaagga accaggactt gatggttttg 420 aaaattctca gcctctccag atggcaaaag atgctaaaat taagaaaatc actgccagga 480 aaacatggtc taaagatgaa gccaagggtg tgactgtaaa attttgttaa gacctcagaa 540 agatcaaagg gtgagagtat tcagtcacac aaaaggccct ttaaagagat taagggtgtg 600 cctcacagat cctctcaatc aaacaatagg gcttctagga agcttaaggg cattgtccct 660 cagccatctc agcaggagcc caaggtagag aagggcttat ctcgaagaga tttgtgggtg 720 tggcttttgt ctaatggagt gaaccccaat gagattcaca ggagacccac aaagtttttg 780 agaaaattat atcagcagaa acactgccag cttggactga aagggacaga gacagtacaa 840 aatgaaagga ggcctttgga cccccaaaat tctactggca ggaagcaggc tgagaaaact 900 actcagctgc aaacacatgc tacctttcat gaaaaaggaa ggatgactca gagggtggaa 960 ccaagagccc agagggtaga gccaagagcc atggagaatt attcccaggc cttgagacct 1020 aataaggaac ttccaacatt tgcctagctg gatttcagaa ttttggacca gtgactcctt 1080 tttgaacagg aatgtctata gctgttatcc tatgcctgtc ccaccattgt atgttgggtg 1140 tgttgggggc agataacttg tctctttagt ttcacaggtc tacagatcga gaggaactgt 1200 actcgaggag ctgtacttat acccaggagc ctcatccaca cctggacctg atttagatga 1260 tgagattctg gactttgagc tgatgctgta atgggatgag acttttgggg accttgggag 1320 ggggatgagt gtattttgca tgtgggaggg atgtgaatca ttggggccag agggtagact 1380 gtggtagcag tcaaatgcc 1399 // ID LTR16A1 repbase; DNA; HUM; 457 BP. XX AC . XX DT 02-SEP-1998 (Rel. 3.08, Created) DT 02-SEP-1998 (Rel. 3.08, Last updated, Version 1) XX DE Primate LTR16A1 repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR16A1; KW Long terminal repeat of endogenous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-457 RA Jurka J.; RT "LTR16A1."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX SQ Sequence 457 BP; 95 A; 148 C; 99 G; 112 T; 3 other; tgtagtagat gctgttggtg ccctgcccag gtcccytttm tcgggctagt gcatccattc 60 cccagctgct gtgagtgttg gctgctaatg gctcacagct gcccccttct ctggagaatt 120 gccctcagct aataggagtt gcctcacctg ggaggttacc ccccaccggg cagcccacag 180 ccaatagact gactgataca ggggtacaaa agcctagcyc ccttgcctca aggtgggaca 240 actcactctg tggtgcaatt catgctccag agctccccat gggatcaggc tgaggctaga 300 cttcagctga aaccacatcc ttgcttagct tcttcccctg ccctatcctg cttccctcac 360 tcccttacaa gtttctcctg agagcactcc ctcaataaat cacttgcaca agaatccctg 420 tctcaggctc tgcttctagg gaacccaacc taagaca 457 // ID LTR38C repbase; DNA; HUM; 711 BP. XX AC . XX DT 20-SEP-2000 (Rel. 5.08, Created) DT 20-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR38C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-711 RA Jurka J.; RT "LTR38C."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC Partial similarities to LTR36 and LTR38 (<70% identity). CC ~88% similarity to consensus. XX SQ Sequence 711 BP; 172 A; 203 C; 111 G; 221 T; 4 other; tgtaaccaag cagcttagct tcaaaccaca ttttaaaact tttttttttt ttcccttcct 60 ttctccccag tctcaagata taactttgag acaaactgca tatgtgtttc ctttcatctt 120 gaaatacagc ctcggaatgt gctgtgaacc tccactccct ttcttttccc attctatgct 180 cccatgcctt atgcacattt atttacctag atgcttgtta agcacacacc atgctcactt 240 atctggtcat atatttcctt agaagcttca ggggccggat cctgatacgg accagacacc 300 tccagaattc tctctccagc aaaagattac ttcaaggccg gaactcactc ctggctagag 360 attaactgca agattgactg caattaattt gtaacctggt tgggyccatg atggtgccgg 420 ccccttcacc agatggaaca ataattcaag ataagccatt ggagcgagtc acgccacctg 480 gcacctccta gccccccttg cctcttctgc attccaaacc cctctctctt taaaaacccc 540 tgccttccct ccacaaattg gagagtggca atttttggaa agnatttcca sccactcttc 600 cccttgctag catggataat aaaattcact ctctttttat cacacctcac tcttgttatt 660 ttggcttctt tctacaagcg gcaagcagcy ggaccctttt tgctggttac a 711 // ID HERV46I repbase; DNA; HUM; 6985 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE HERV46I is an internal sequence of class I endogenous retrovirus DE HERV46. XX KW Endogenous Retrovirus; Transposable Element; HERV46I; KW Internal sequence of class I endogenous retrovirus LTR46. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6985 RA Smit A.F.; RT "HERV46I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of class I endogenous retrovirus with LTR46 CC LTRs. CC Closest matches to HERFH21 and HERVH48. Possibly an autonomous CC element CC although there are frameshifts in the current consensus CC Average div from consensus 9.5%, but some elements much younger. XX SQ Sequence 6985 BP; 1755 A; 2381 C; 1090 G; 1706 T; 53 other; ttttggtgcc aaaacccggg atggtggatt gggttctaaa tgggtaagtc ttctcttgca 60 acctggaaag cagcaagcag caaaaactag accngggcct gcttccagat cctgagtgga 120 ctccctgttc ccagccccgt tccccttatt ctctcgtctt ctccggccct gggctgacct 180 ccagatcctg atcaaactct ccatcctctt tttccttcct tcccctttcc gggcggctcc 240 agcaaggatc acccccattg ctggacatca catccaacac cggtctccaa ttagtgggtg 300 agtctccctt ttcctccttt ccggattcct ctctatttct gccngttcnc cagaaaatcc 360 cagcgctggg tgagaggtct ccccggtcac caggtgaccg cggcctncct tctcagggga 420 cgccctcaga acgctcgcca ctctggccgc tccggcctct gggggactgt gaagagctgc 480 ggggatgccc cggctctcct aggtcccttc tcccaggagg aatcgggtac tcactcccct 540 ccggggtatt cacttccctc tggagnactc actccnctct ggggtattca ctcccttccg 600 gggtactcac tttcctcagg ggtantcact cccatccaga gtattcactc ccctcttcca 660 aaaaacaaaa cattcaactt ccaaattcaa cataatctaa aaaactttct ccaacgcaat 720 ggtaaatgat ctgaagtgct ttgcttatct ccgttcatgg ctcactctct ctctctgcca 780 atcttgttca ccttttcaaa tcttcctcct caaggagaaa cccccaaaaa tgcctcctcc 840 tccggacaag ccttcctcct ctgaatttca acctggccaa caaacccctt cctcngcctc 900 ctgcccaccc ccattccctc caccttctcc ttcggatccg gctcctccac ccccttactg 960 tcgccctcca tcccccttcc ttctccacct caaaccaggt ctcacgccca acccccttcc 1020 gccgaaaacc aggcacacgc ccaaaggcct tccaaagtcc tccccttgca ggaggtcgcg 1080 agggctgaag gcataatctg agttcangtt cccttctccc tagccgacct ctcccatntt 1140 gaaaagagac ttggctcctt ttccacggat cccacctcct tccgcaagga atttctgtac 1200 ttcactcaat cttatgacct tacctggcat gacatatatg tcatcctctc ctccaccctc 1260 accccggagg acagggaaca catctnnatg ggcgcccagg cccatgngaa caccctccac 1320 caacaagatg ctgcccataa cccaataggg accctagctg tccccagaac tgaccccagt 1380 tggaattatc aggcaacttc tgcagacaga cagaaacnag gccatatgat atcatgcctt 1440 ctagctggca taaataaagc cgcccctgct cttttcctct cccgcctttc aaaggtcaca 1500 actaaatatg ccaccttaag ccctaatacc aataagggca aaatctacct ccatttacac 1560 tttatctccc agtcagcccc agacatttga aaaaaaactt aaaaaactgg aggatggccc 1620 tcaaacctcc caaagagact taatcaaagt ggcctttaag gtctttaana atagagagga 1680 agaactaaaa accccaaacc taaaaaagga ccaggctaaa taccaaatgc tggcagctgc 1740 cactcaacag ggttcccaan gcatacagaa ntcctcaact tngcaacagt caactctgcc 1800 aggagcctgt tataagtgca nccaacaggg acactgggca aaagcctgcc ctaatcccag 1860 gacactctgg aaaccttgcc ccatctgtgg tatcaaggaa cactggaagt cagactgtgc 1920 tcagcgaaac tcttcatccc gcttcaccac ctgtacctga agacngacgg ggcctggagt 1980 ccaccgcccc tactgccatc accacctcgg aacccagggt aattctgtca gtctctagta 2040 agcccatgtc tttcctattg gatactcaat agggcaacta gttactcagt tttaccagaa 2100 tattctggac ccctcctcag ttcttcnatc tctattgtga gagtcaatgg aatcccctct 2160 aggcacaaac agactggtcc tttattatgc aacctattca acagccccct tcacccactc 2220 cttcctggtt atccctcagt gccctacccc tatcttgggg tgggacatat taagtaaatt 2280 ccaggcctcc atgcaatgtg gctcctacaa ttctacccct tttattttac tctgncaccc 2340 aaacgcttcc ctctcccccc actcatcctc attatccacc ctgttacctt ctgttaattc 2400 taaagtttgg aacgtttcta aacccacaat agccacacat cacatcccag ttaaaataac 2460 cctccaaaac ccctccattt tccttcatca gtctcaatat ccccttaacc cagccggcct 2520 caggggcctc aaacctatta tctgtaaact tttacaagct canattctca agcctgtcaa 2580 ctctccccac aacaccccta tcctggctnt ccaaaagaca gacgggnctt accccttggt 2640 ccaggatctc cgagttgtta accaggcggt ggtaccaatc catccggtgg tccccaaccc 2700 atatactcta ctctcccata ttcccccatc taccacacac tcctctgtat tgganctaaa 2760 ggacgcctnt ttcactattc ccttaaatcc ggcttcccaa agtctttttg ctttcacttg 2820 gtcaaatcct aatactcaca tgtccaccca actaacatgg actgtactcc cacaggggtt 2880 ccaggatagc ccccacctat tcagacaggc cctcaccaag gacctagctg aacttcccct 2940 tgctcctagc accctcctcc aatacgtcaa tgacctcctt ctctgtagcc cctcccttaa 3000 cctgtccatc caacacacca ctcaggtttt aaacttcctc catagtcgag gatatcgggc 3060 ctcacccaca aaatctcagg tagcccaaac ccaggtcact taccttgggt ttgtcctaac 3120 ccctaattct cgggccatcc caacccaacg aaaggagcta attcgggaca tgccccttcc 3180 ccacacaaag aaggacctcc tctccttctt gggccttgtg ggatacttcc ggctgtgaat 3240 tcccaacttt gacttgctgg ccaagccgct ctacacggcc tcacatgggc ccatcctaaa 3300 acccctgaac ccagcttgcc ccatcaactc ccacttaaaa acttaaaaat gcccttttaa 3360 tggccccggc actgggactg cccaacccca ccaagccctt tactctgtat gtacattctg 3420 accaaggcct tgcccttgga ctactctgcc aaacatacgg cgacgcccca gaagccattg 3480 cacacctctc aaaacaactg gactctgtca tccaaggctg gccactctga ctaaaaatct 3540 tgggtgtggc cacattgctg gcctcagagg cacagaaact ccctctctac caacacatta 3600 ctattgcatc ttcccatnac ctacaggacc tcataagcca tcaatccctt ctatccctcc 3660 caccatcctg cttacagcag gtacatgcct tattcatagg taaccctcta atcaccttcc 3720 agagatataa agctctcaac ccggccaccc tcctccctgt aaacacctcc gactctgagc 3780 tctctcactc ctgcctggac ctcttagact ccctctcctc ccccttccaa cacatttcag 3840 angccccttt gcagggaaca cntacacggt tcgttaatgg aagctctttt agggagccat 3900 gtccagcagc tggctatncc atcattgccg aaaataaact cctagaatcc aatgctctcc 3960 caccccatgc tacctctcaa caggcagagc tagttgccct aaccagggcc ctcaccctag 4020 caaagggaaa gagggtcaac atttacaccn attccaaata tgcataccac gtcctacant 4080 ctcacgcctt aatctggcag gaaaggggtt tcctaactac aaaaggaacc cccataggaa 4140 atggcaaact catacacaag ctgctggggg tggctaaact accaccaaag gccaccatta 4200 tccattgcaa gggacaccga aaggctacag atgccanaac cgagggaaac ctttcaacaa 4260 attcggcagc ctggcaggca gcccttaaaa ccccatcgtt attgcccatt tttcccagca 4320 tacaccctgt atatacccag gaggaacaaa ccccacttgc ccgggctggc gccattcagg 4380 aaaaaatggt tctacctcag tgataaaagt gtcttgccca agtttnaaaa accttctgta 4440 ctttcatatg tgcacaacca tttccatgcc ggttactgcc cctactccag cttttaaaaa 4500 cttatataca ttctcccgcc atggctgcca atctcaaaga tattactaag gcatgttccc 4560 tttgcactca aacttcccct caggaagcta tcaaaccacc tcctttcccc acacaccagg 4620 cctgaggaca cctgccaggg caggactggc aaatcaactt cactcacatg ccccccagaa 4680 agtgattcct ataccttctg acaatagtag atacattctc tggatggata gaagcttttc 4740 ctaccaccac caaaaaggca cacaccgtcg cttctattct cttcacccat attatccacc 4800 ggtttaaact cccctcttgc atccagtcag acaacgggcc aacatttgtt tcacagntta 4860 accaacagct ggcaaaggct ctaaacatta aatgggcntt ccatattcct taccgccccn 4920 aatcttcagg naaaattaaa cggnccaatg cccttttaaa acaacaacta accaaactct 4980 ccctagaggt taaaatggcc tggacttcac ttctcccatt ggccctcatg cgtttatgag 5040 ccattcccca aaagcccctc agcctaagcc catttaaact catgtacaaa tgccccttta 5100 tcctccagaa tctccctgta tcttcccccc cttctatatg ggatacttgg ccggcgttac 5160 acctcaccca acatctaata agacagtacg caaacgctta cttgncccag cctaaaagtc 5220 catcctcaaa acactcctcc ctgtccctac aaccagggga ctgggtctgg atcacagact 5280 cctcctcctc ccctctccaa cctaagtgga cgggtcctca ccaggttatc ctaactactc 5340 ccacagcggc aaagctaaca tcctttccac actggataca ccattccaaa ctaaaaagag 5400 caccagatcc acatccagaa atttcctcac ccccaaatta ttctccctcc ctcacaggac 5460 caacctcact gcacttaaca agaattccag aagttgccaa tccagaacgc cctggtccat 5520 aacactctct gcctccaatt tccaatcttt tatctcctac tttgtttcag atctttcctg 5580 gtntcccttc cccatgtccc tggatagtcc acgccaattt ctcacactaa tccaggagnt 5640 atggctgcag ggcaccttcc aaaatttcac tcctactcaa atctcctttt tctccttttg 5700 tcctctttgt ctgtgggata ctctaagtcc ccacccccaa cctctggcag ttgggccccc 5760 ttcatcagcc tcacacattn cctcttaaat cagtcacact cccctctttc ttccaactgt 5820 taaatttgtt tgtccacaca aatccagcag ttcacagccc ttcctgtcaa cctggccaca 5880 tgaacccggt ccaaaataaa cctgcatctc acctacttgg ccaattcatt cccaaaacct 5940 gtttataatc ttgctcggct aaacaccttt ccccccaatc catcaaatcc acccacaccg 6000 tcacacacag ggctgtcacc ctccttcgcc tcatagcctc ttaactaaac atgttacaag 6060 tcggattcca taaaacacct cttaccaacc cctcccctct ctgccggagc cgctctccat 6120 gtatccaact caagggcgct ccctggaaaa natgcacaaa caattccctc aactgcaacc 6180 tatatccttc tgccctgtca ggaccgcaat ggctattagt tacaaaaacc catttctctc 6240 tctctctcca aaaccaaaca gccttcacct cctccnccac caacatttcc tatcaggccc 6300 tcanaggggc tacccttgct ggcagctatt caacttggaa aaacataaaa gttgaaacaa 6360 agagtttgtn caggattcaa cccccacctt ctcatggctt gccaccataa cctacaactt 6420 ttgtctgtcc acccccagtg tcttcttcct gtgtggcaca aactcttatc tctgcctact 6480 ggcaagttgg tcaggaacat gcaccctggt gtttcaatct ccaaacatta acattttgcc 6540 taacaancag accatccagg ttcctttagt agcttctgtc tcatcttcct ccacacacac 6600 taagcgggct ntacatctca ttctagtgtt agcaggacta aacatctctg ctgcactcgg 6660 caccgggata gcaggtggcc cctttcttag ggcccctaat cttcctcctc ctaatantac 6720 aattggccca tgtatactca ccttcatatc ccgctttatc tcccgaaggc tgaactcccc 6780 tgtccaggca gccacccagn aacacattga taccatcctt ctcctccgcc aagtccggta 6840 ccagcgcctc caggaaaaca actctgaagt ccgacaccca ctgcttcaaa acccaaaccc 6900 tgattacagc ncccctattc ggcaggaagc agccagataa tcaacaacgc ccctcttcct 6960 tttatactaa agtagaaggc aagaa 6985 // ID MER112 repbase; DNA; HUM; 258 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 21-JUN-2008 (Rel. 13.07, Last updated, Version 2) XX DE Interspersed repetitive element MER112. XX KW hAT; DNA transposon; Transposable Element; MER112. XX NM MER112. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-258 RA Jurka J.; RT "MER112."; RL Direct Submission to Repbase Update (31-JAN-1999). XX DR [1] (Consensus) XX CC Present in human & other mammals; over 4000 copies per haploid CC genome. XX SQ Sequence 258 BP; 83 A; 28 C; 57 G; 89 T; 1 other; cagtgttttt caaactgcgg gttgcgaccc attagtgggt tatgaaatca atttagtggg 60 tcacgaccag cattttttaa aaataaaata aaatagaata gaaaatatca gagtgcatcg 120 cayatagtaa gggtaagtat tgtttcatga aacttttgtt aatgttatgt atgtgtagtt 180 tatgtgtgtg tgtactgggt tacaatgtaa aatgtatttc ttactgtggg tcgtggtcaa 240 aaaatttgaa aaacactg 258 // ID MER4D1 repbase; DNA; HUM; 900 BP. XX AC . XX DT 07-MAY-2001 (Rel. 6.04, Created) DT 07-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4-group; MER4D; MER4D1; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-900 RA Jurka J.; RL Direct Submission to Repbase Update (MAY-2001). XX DR [1] (Consensus) XX CC 90% similar to MER4D over majority of the sequence CC except ~35 bp from the 3'-end. XX SQ Sequence 900 BP; 269 A; 230 C; 141 G; 253 T; 7 other; tgtaaaccaa aaataaaatt ctaagccccc caaccaactg aatggacccc tcctcttggc 60 caagggyatt ccaaagtaaa cctgaaaaac tagttcaggc catgatggga aggggtggtc 120 ggacatgcct cattataccc tcctcccttt ggaattcagg cacarctgac cagcattaac 180 attaaaacag agaccttaag actgacaaaa cagactcttt gtagcaataa gataccaaat 240 tccaacctga ctctagtata gcatcacatg acagatagca ggccctgaaa gaaatcaaag 300 tattttaccc caaaatatat ttctttgaca tattttgaaa tggccctgca aagctgtctc 360 ttgtggggaa aatctacatt ctgtagagaa tccccttccc tttccaggtc tttttcctga 420 tccaggagag aattaactaa gagtctggca cctttttaag tctgataaga aacatttaca 480 atctattctc tctgaagcct gctacctgga ggcttcatct gcataataag aaccttggtc 540 tccacaaccc cttatcttaa cccagacact cctttctatt gattccaggt ctttagataa 600 taacttaact ctttcaacca attgccaatc agaaaatctt tgaatccacc atatgacctg 660 gaagcccccc cctccacttc gagttgtccy gcctttccag accraaccaa tgtacatctt 720 acatgtattg attgatgtct tatgtctccc taaaatatat aaaaccaagc tgtagcccra 780 ccaccttggg cacatgttct caggatctcc tggggctgtg tcanaggcca tggtcactca 840 tatttggctc agaataaatc tcttcaaata ttttacagag tttgactctt ttcrtcaaca 900 // ID HERV35I repbase; DNA; HUM; 6918 BP. XX AC . XX DT 11-SEP-2003 (Rel. 8.08, Created) DT 11-SEP-2003 (Rel. 8.08, Last updated, Version 1) XX DE HERV35I is an internal portion of the HERV35 endogenous DE retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; Nonautonomous; KW HERV35I; LTR35; MER4I-group; nonautonomous LTR retrotransposon; KW Class I; Internal sequence of endogenous retrovirus; tRNA Pro. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6918 RA Kapitonov V.V. and Jurka J.; RT "HERV35I."; RL Direct Submission to Repbase Update (AUG-2003). XX DR [1] (Consensus) XX CC Internal sequence of an endogenous retrovirus with LTR35 LTRs. CC This is an ancient class I nonautonomous LTR retrotransposon. CC Copies are on average 15% divergent from the consensus sequence. CC There are 20 copies of the internal sequence present CC in the genome. The primer binding site is complementary to CC the proline tRNA. One recombinant form of HERV35 is detected CC in chromosome 18. It shares with HERV35 the same LTRs and CC ~400 and 240-bp 5' and 3' ends of the internal portions. XX SQ Sequence 6918 BP; 1926 A; 1300 C; 1400 G; 2292 T; 0 other; attctttggg ggctcgtccg ggatcacggg acgtggggag cattttcctc cccggagggg 60 gaggcttgtg agccggcggg actgctggac atgacccctt cgcggctgac aagcggccac 120 ctgaaccttt gattcagtgt caccgcaact ggtgagtttt tctccagcct cctggagact 180 cctcgccacc cccccacaga caacgctttt cctcccctcc tgtcccccct atttgttgtc 240 tctttctctt tccttcttct ttctgtcact cagggtgctt tccctctctt cctttacttc 300 tcattaactt cattggctta acctgaaaag acatccgtga gggacgggtt gaaacgacct 360 ccctaattag ctggtcttgg gtcagcctga atagacatcc atgcaggatg gattgaaaca 420 gttgactatc caggtctgat cggttcagct ggtaggaaac tctgtctggc actctgcctt 480 tgacatctct catcttgctt aagtcttctt agtattaagt cccaagaaaa aaaattcttt 540 ctctcccttt gccacactcc ctctctggca ccctggccct tgatcctgta actattcgaa 600 acccctcatt acttcacttc ccttcttgtg gggaagggag gcctgtggtc ttttcgggcg 660 tctgtctgtt caagcgtgta gtcctattgg ctttgggtgc tagactgtgt gagacagggt 720 gctggggagg actgacaggt cttcaggaag gcaccagggg cacctgggtg tgaagtttgc 780 gttattgact tcctgatcca tttttccttt ataataagaa aagttgagag tttaatttga 840 caacctattc ccccatgcag cctattgggc ggcatcttgc aaaaagattt gagaggcttt 900 tgcctatggt tccatgaaat agaaaaagat gattttcttt gctttttttt ttcttttctt 960 tctgtaatgc ggcttggccc ccacagctat ggcgcagtga gcagggtcat caaaagccgc 1020 tctgctcttc cggaagctgc agagaaaggg aacccaaaaa cctggcatgc cagcaaaagg 1080 gtaagaattt cttaccagcc aggcttctgg cctctctctc tctgtgcaaa ccagttgagt 1140 gaatggtaaa aatcattgtt tgtctcctct gcaaggtttt aattaatggg aaaaaggatt 1200 tgtgagacta gtgttaggct gtagcgaatc tggtgtactt tgtgctgtga atttgtcttt 1260 ctgtgtcgtt ctgtcatgga gaggggtacc acaggataga acgtgggcct aggacccctg 1320 taagcccgct gttcgagcca gcccagcaga ctggtcagtt acaaactttg ctgcaggtcc 1380 ctgaaacaaa aactggatga ggtttccctc tcgtcttgtt ttatgtcctt gggagcttga 1440 ctttgtgacc atgtgggggt actctctctt ggtctctgcc atccggaggg tgggaatttt 1500 caggttcatg tcaggcagcc ggtctgaaag gaccgggagt ctgagacgca tcagcacact 1560 cttggtccga atgtgtcaag ccctggggtg agttttgtct taaaaggtcc catccctatg 1620 gggcttttgt catcttttgc tatcttaagc ccatttctga gagtgaattc ttggggacca 1680 tggagatgcc tcctctaccc tctctctaga aatacctttt gcttatatag ttttaaaaaa 1740 aaacctgaaa aattaccatc tgggctttaa aaggcttttg gattgagtca ctattggaac 1800 taagtacacc attaaaagaa aaaggacttt agagatctct tattctcaac aattttttaa 1860 aaaggtttaa attaaaagaa ggatgcataa taatgtcatg gctagcctta aaaattatct 1920 tgagcagttt aaaatctttt gcaagctcaa aaatgactgc tctagattcc ttctgggaag 1980 accagtggca actgcctcat gctgtagctc agtagctaag gctttgccct ttcacgatgg 2040 cggcctgggt tcaattcctg gcttagggaa tgagttcttt ctggtttgat atttgtgtga 2100 cctttgccat ttattgattc ttttcccctc catgaacagc ttctgacttc ctgtcttgaa 2160 ttttcctttc tctgagctac ctttggggcg attctaaatc ttgtaaaaac cgcttgccat 2220 ctctttggag acacctcgtg catccatggt taagtcataa ccttagttaa ggcttattgg 2280 tttcacttgg gaaaatacct ttggggggaa aaaaataaaa aaagcttaaa agccagaggt 2340 gtcggctgtt tgtcccggct aaagtctggt aataaaagat ttaaaaggtt ttttgtttat 2400 ataaaagagc tctatggtta aaagtcagct taattaaaag gagatatcca agctatacgt 2460 atacttaaaa ggcctttatg cttttttctc ttcttggatc ttgttttttg agaaaatggc 2520 ctaggcgttt gagaaaaaaa gttttttttt cttctcagtc gactgaattg tttctccatt 2580 tacttctgtc tgtcttcttg ccaccctcaa tgcccacaag agaggaccta aggtaatttc 2640 tgacagcctg ggactccttg ggaaaaacag tggaggtgcc acagaccctg ttttgggaga 2700 aacgtctgtt ttcctcatgg aaccccaaga attgtaagtg gacagatccc tctcaaaatc 2760 taaggctttg ctctgttttg cattgcatcg tattacctga cctttttgac ttttgggggc 2820 atcaaaaatt actttgcatt atgaaaaaac ttttagcctt gatgtgtaat agctaggtag 2880 gaaatatact tttagggatg gctaatgacg gttgcttaca gtgaatggtt attactacag 2940 ggtgatactc ctttctttgc acatttagat aagaaaaaca tgctcttggg cacctagaag 3000 gtatgaaatg gggggatggg ctgattacag agtgggctga ttggcactgg gttgcccacc 3060 agccttggag aaatgtcctt gcaatgagat acaccgtgaa agcattgcac tgtcccgtct 3120 cgtagtgttt ccttcttttt ggggacccag gattcggtat aaaaatgaga tccttaattc 3180 ctggggatct gttttgcctt ccagctgtgc ctgcctatta ggccttagaa actgcctgct 3240 ttcttggccc tgttccttaa aaggctccac cctaaagcca ataatccaat ttaaaaattg 3300 acatctttaa gggaatctcc acatgtgagg atgtctgctt ttcctggcca tcttacctga 3360 acttttactc acaccatttt ttcttggttt gagtaaaata taaattctct atcttgtttt 3420 acctaagagt tgtcccttta gaaatgcaaa tttagagttg cctagctgac aattgtttaa 3480 ggcagggaac aggtaatcaa gagactgatg gtctaaaatg gaaaagaaaa acttaaaaac 3540 tggcaaatga aaaaatttat aactctacca gatctgcttc tgtctgttta tttatgtttt 3600 gtgtgtgtaa tgtatataaa aaagagctct aattaattgg cttaaagaaa aataagtgct 3660 taaataaaat attttgtcaa aaaaaataaa aactttaatg ccttttagtt cacgtgactt 3720 tagtaatctt tggtaaataa agacagtttt aaagattatt ggtaaaataa aataaaaaca 3780 tcttcaaaat ttagacattt ggtttaaatt aggcaggtca gatactgtct ttgctagatg 3840 ctttaaggtt ataaactgct tctgtgactt ttgataattg ttcaacttgc ctgctttaga 3900 gccattagat tcctggtaag gcctggggac atgtggagtt agccatgccc cctagctatg 3960 ctggaaagag tcagacatta tctaaagttc tgtcctgtgt cctagactct gcacctgata 4020 cataattaaa attgtttaca ctaaaaataa aaattatgtg tttttggtaa aaggttataa 4080 agagtcatgg gaatgtggtt ttttaagaga aagtaatttt gtctaattta gagggtttta 4140 agtatgtttt aggttttaaa gaaagaagaa taaaactgaa ggtttaagga agttgcaaaa 4200 ggtttataaa agattaatct tgtaaaggaa gttctgtgtg tgagcaagtt ggccaaaatt 4260 taaaggggat tatttagttt ttccatggat tgcacattaa tataaaaagc atactgatgc 4320 aggcccagaa tctgggcccc tgtgccagaa caacagggtt tttgtagagc attaatctgc 4380 tctttaataa aaaattgtaa aagattataa aaggtttata aaaatcttac cttatggtca 4440 aactagttaa aattggatag atttgtttat tttaaacttt tattaaaatt agctttagca 4500 ttaatatact aattcaaagg taaaatttgt ttttcccttt taaacaagat tttcatatac 4560 ctgcagaaaa aagggagaga gaagagacag attcatctgg cctcatgctg tctttattgg 4620 gtcttgttgt ttggaaagct gagtctcccc tttatcaatg agtaaaggat tttggcttta 4680 ttaaaatatt taaagtaatc attttggcta aataaatgac taatagtaac ctgtgattct 4740 attttgtgat atcaagtgtt ttaaaccttt tgatatttga caaactttcc aagatcaaat 4800 ttttgacttg attaagcttt ttaagtatta ggtcccctga agtccaaaag agacatattc 4860 ggtttatttg gtatattaaa accatatagg aaacattgtc aaatataaaa tggtgtttaa 4920 ctttctttgg attatattta tatgttatta gtatgtattc caaaattata taagattcct 4980 ataattctga tatgtctcag tatatgttat caataataat tataattatt atgttaaatt 5040 attgtgtgcc acagagatga ccagatttcc ttgttgattg tgtctttaac cgtggctgtc 5100 ctaagacttt tgtcatccac agacaattgt tatcttgttt tgattctttt caaaagacag 5160 tttataatca gctataggac tctgaaaggt actcttgaat gcaggtctct gataactttg 5220 gagattgggt cattagaata gagggaaaaa cttccaagac tctcttggag agctaatgtg 5280 ttaataaata tcgagcagaa cagaagttaa ttacatggac taaactaata gaagattgaa 5340 ataatccttt tatgactttt tgcttgaaac gttgctgatc ctttttggtt tgtttttcag 5400 agtcaagaaa actttttttc cttttgagct atttacagct tttaacaatt gagtaaagta 5460 tactcctgtg agcaaaattt ggagcatatt tctttctctc tacctgattt ctccagaatt 5520 tggaaactat ttgtgagtat tcttaactta tggcaatata gttatttgca taaatgcaat 5580 aagaatctgt tttcttttgt aacaggacac aattggagac actggttatt ttaccaaggc 5640 tttgactgaa atgacatgct ttcaaatata aacagactgc tttaagaaat cgaagttgac 5700 ttataaagcc gataaaagtc ccttgggaaa actggcctca taccttgtct atgcagtccc 5760 tgtacagggt tcctgacctg tggtaagtaa agaatgtcac tttctaacag gtccaggagc 5820 cccaagttat cttgggacct ccagaggaga ggaattcacc caattcatac aggtatttgc 5880 aggcacagat aaatccgtgg ctgggctcaa ggctttaaaa agtctaatct gagattcctt 5940 atggaacaaa gttccagcaa agccaattta aaagagagcc tatatggcaa ataattattc 6000 ttgctgcact ttatgcaaat aatcaggcca agtataataa gactaaaact tattttgcaa 6060 acaaattggt cctaccatga tttgtctttg ataaaaatga gagactggag agagaaagat 6120 tataatacac ctgctattag attctagtct tgtccgttgt ttattgagtt tttttaaaaa 6180 tattattttc tacaatttgg actgaatctt aaatcctttc tgggctacaa gtctccaaac 6240 taatgttttc aaatttttct tccatttttc tgacttaaac tcaatagaat tgctactacc 6300 tttttcctga ggccctgcaa gctgaagctt attccttgtg atacaggtga gaagaacgtg 6360 tcagattgcc actgccttcc tcctctgtaa ctaaagatgc tttgagtcta acatctggat 6420 agattatgcc caccattaac gtttgttttt cttctgtttc catagaaatg cctcttatta 6480 aaagtctgtt tgccttatat ttcagacaac aggagactgg ttttccagcc tattcactta 6540 gattccaaat ggcatctgat ctcttcttat aagcattatt aaactgagct taagcatttt 6600 attaattatc actgggtgct atttgatttt taaaataatt atttgttata ttcaacaggg 6660 gtgcagatgg ttaaagttta tgtcttccag gcttcaacag ttccaagtca agctgatggt 6720 ggtgcaagga ttccaacccc taccatccca ggaggatcca agtccctaca agtctttaga 6780 acagtcagtg agagatttcc gtgccctcca aggttaggca gggacgacaa ccctgttcag 6840 caggaagtag cttcagaaga tgagatcttc ggccctttct ccttaagaat aaggagggta 6900 aaatctctca ggggggaa 6918 // ID MER9B repbase; DNA; HUM; 499 BP. XX AC . XX DT 01-MAY-2001 (Rel. 6.04, Created) DT 01-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of the HERVK9B endogenous retrovirus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK9; LTR; KW MER9; MER9B; the HERVK group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-499 RA Kapitonov V.V.; RT "MER9B."; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC MER9B is a long terminal repeat of the HERVK9B retrovirus. CC There are ~20 copies of MER9B present in the human genome. CC There is 80% identity between the MER9B and MER9 consensus CC sequences. However, MER9B copies are only ~8% divergent from CC the MER9B consensus. Internal portion of HERVK9B is only CC 12% divergent from HERVK9I. XX SQ Sequence 499 BP; 123 A; 122 C; 108 G; 143 T; 3 other; tgttggtagc aagccctaag cctgtcataa acaggcctta aagaaactgg ccataaacag 60 gatttctgca gcaatgtgac atgctcatga tggctrtcat gcacactgct araagttgtt 120 ggtttactgg agcagggcaa ggaacacctg gcctgcccgg agcagaaaac tgctcaaacc 180 acaaacaata gcaggagcgg cctgtgcctt aacaacatgt ttttgctgca gataatcagc 240 cagagcctgt ttctctrctc cttgctaaga atgctttgtt tcccataagg aatgctttta 300 gctaatctat aatctataga aacaatgctt atcactggct tgctgtcaat aaatatgtgg 360 gtcaaactct gtttgtggct ctcagctctg aaggctgtta gccccctgat tcccacttta 420 cactctattt ctgtgtcttt gtctttaatt cctctagcgc cgctgggtta gggtctccac 480 gaccgagctg gtctcggca 499 // ID LTR2B repbase; DNA; HUM; 490 BP. XX AC . XX DT 06-MAY-1999 (Rel. 4.04, Created) DT 06-MAY-1999 (Rel. 4.04, Last updated, Version 1) XX DE Long terminal repeat of human endogenous retrovirus (4-14), DE related to HARLEQUIN - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR2B; KW endogenous retrovirus 4-14. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-490 RA Jurka J.; RT "LTR2B."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC >90% similar to individual copies. XX SQ Sequence 490 BP; 136 A; 123 C; 105 G; 126 T; 0 other; tgagggaaga gagagaccct ctcatattgt tttatattgt tttatactca gtacctgttt 60 taagaaaaaa agaaaaaaca acaaggaagt aaaaccaaag acaggcagcc cggcgccagg 120 cccgaaacca ggcctgggcc tgcctggcct aaacccagta gttaaaaatc aactcatgac 180 ttagaaaccg atgttattca tagattccag acattgtata gaagaacatt gtgaaactcc 240 ctgccctgtt ctgtttctct ctgaccaccg gtgcatgcag cccctgtcac gtaccccctg 300 cttgctcaaa tcaatcacga ccctttcatg tgaaatcttt agtgttgtga gcccttaaaa 360 gggacagaaa ttgtgcactc ggggagctcg gattttaagg cagtagcttg ccgatgctcc 420 cagctgaata aagcccttcc ttctacaact cggtgtctga gaggttttgt ctgcggctcg 480 tcctgctaca 490 // ID ERVL-E repbase; DNA; HUM; 5667 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; ERVL-E; KW LTR retrotransposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-5667 RA Smit A.F.; RT "ERVL-E - a subfamily of endogenous retroviruses from placental RT mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC >25% div, MLT2E LTRs. ORFs at pos 131-1720, 1725-5267. XX SQ Sequence 5667 BP; 1497 A; 1276 C; 1444 G; 1393 T; 57 other; attattggta ccggaagtga ttccagggca anagaacctt aaggatggga atctggagtt 60 ggttctctga tctgattaga tttaaaggca ttaatgaccc tgctgccagt ggtaaanggg 120 acactggtag tccatggcat gcagtggcaa aaagctactt aaattatcat ctatagncac 180 ctgnaatcaa gtgcctatag aaggcaaggc tttgggtgac caagtagttg ctgccataga 240 acattttagt ggaaataagg agtataanga tgttggttgg ttgcttctaa gtgcactgga 300 gaacttggag aaagaaaatg atgagttcag ggctttaaat tctcagctca agntccaggt 360 aagggaccaa aaagcttcta tgactgccct aaaagaaacc cttatctcct gtagctacag 420 ggntgagatt tctgaaaacc aaacccaaag tctaatcctg cgggtggcta aattacaatg 480 caaattgaat tcacaacctc gcagggtctc ttatgttaaa gttagggcat tgactgggaa 540 ggagtgggac cctgaaantt gggatggaga catatgggca gattccgatg aagctgagna 600 ccttgaactc ctaaattctg ccgagccttc tttgccagta gaagcagccc tttcccccct 660 ntctgaggag nttagtctcc ccttgcctga agaanctgta atggcctccc ctgaggtgat 720 tgccttncag gggantgctg atcctcctca agacctaccc ccancacctc tcattgcttc 780 tagacctata accagactca agtcccggna ggctcctagg ggtcaggtac aaagtgtgac 840 ccatgaggag gtaccataca caccaaaana attgcaagat tttnccaatt tatatcaaca 900 gaaacctggn aaatatgtat ggnaatggat cctaangatg ttggatcagg gtggaaggaa 960 tataatgttg gatcaggccg aatttattga tatngatgca ctaagcagag attccggatt 1020 cagtgtacta gctcgagtgg ctgggagtga ctctaacnat ttgctcggtt ggttgactaa 1080 aacctggacc caaaggtggc ctacactgaa tgaagttgag atgccagaac ttccttggta 1140 tactgtagag gaaggtatcc aaaggcttag ggagatcaga atgctggagt ggatttatta 1200 tgtaagacct gctcacctac accctctaac tatgtccccg ggagggtcta gggacactcc 1260 cttcaccaag gctttgagaa atacattggt gaggggagca ccagcatcct tgaagagctc 1320 tgtagtggct attctctgca ggccaggaat gacagtggga aatgctgcca ttgaaatgga 1380 ctccctgaat tcaatgggga tgatgggatc ccggggtggc aggggccaag tggcggcact 1440 taactaccag agacaangtg agcatggttn ctgtaatgga cagcagagcc aaagcagtaa 1500 tcagaatggt ttgacctgca gagatctttg gtgttggcta attgatcatg gtgtccctag 1560 gactaaaata gatgggcagc ctactaaagc cttacttgat ttgtataagc agaaaagctc 1620 taggtctggt gaacagaagt ctgacttgaa tcaccaacag agagtcgtgg ctcctcaatt 1680 ngttcccana cttgagccag ttcgcagtca gaccccttga atgaagggga agccaggncc 1740 ccttgaggaa ggatcctgct acnctgccaa aaatttatac tgtaaatctt tctcccagcc 1800 ttccccaaag ggacctgcgg ccatttacca gggtgactgt gcattgggga aggggaaata 1860 accagacttt tgagggatta ctggacattg gctctgagnt gacactagtt cctggagacc 1920 caaaatgcca ctgtggtcca ccagtcagag taggggctta tggaggtcag gtgattaatg 1980 gagttttggc tcgggtccat ctcacagtgn gcccagtggg tccccgaacc cancctatgn 2040 ttatttnccc agttccggaa tgcatagctg gaatagacat actcagcaac tggcagaatc 2100 cccacattgg ttccctgacc catggagtga gggctattat ggtaggaaag gccaagtgga 2160 agccactaga actgcctcta cctaccaaaa tagtaaacca aaagcaatac cgcattcctg 2220 gagggattgc agagattagt gccaccatca aggacttgaa agatgcaggg atggtgattc 2280 ctaccacatn cccattcaac tcgcctattt ggcctgtgca gaagacagat ggatcttgga 2340 gaatgacagn ggattatcgt aaacttaatc nggtggtgan tccaattgca gctgctgttc 2400 cagatgtggt ttntttactg gagcaaatca atacatcccc tggtacctgg tatgcagcta 2460 ctgatctggn aagtgttttt ttccctatac ctgttgatag agaccaccag aagcagtttg 2520 ctttcanttg gcagggccag caatacacct tcactgtcct acctcagggn tatatcaact 2580 ctccagccct ctgtcataat ctagtccaca gggaccttga tcgcctctcc attccacagg 2640 acatcacgct ggtccactac attgatgata tcatgctgat tggacctggt gagcaggaag 2700 tagcaantac tctagacacc ttggtaagac acatgcatgc cagagggtgg gaaataaatc 2760 ccacaaaaat tcaggggcct gccacctcgg tgaaatttct aggggtccag tggtctgggg 2820 catgtcgaga tatcccttcc aaggtgaagg gcaagttgct gcatctggcc cctcctacca 2880 ccaagaaaga ggcacaatgc ctagtgggcc tctttggatt ttggaggcaa catatacctc 2940 atttgggcat gctactccga cccatttacc gagtaacccg aaaggctgcc agttttgagt 3000 ggggcccaga gcaagagaag gctctgcaac aggtccaggc tgccatgcaa gctgctctgc 3060 cacttgggcc atatgacnca gcagatctaa tggtgcttga agtgtctgtg gcagataggg 3120 atgctgtatg gagccnttgg caggccccta taggtaaatc acagcacaga cctttaggat 3180 tttggagcaa agctatgcca tcctctgcag ataactattc tccttttgag aaacagcttc 3240 tggcttgcta ctgggcccta gtagagactg aacgcttgac catgggccac caagttacca 3300 tgcgacctga actgcccatc atgaactggg tgttgtctga cccaccaagc cataaagttg 3360 ggcgtgcaca gcagcactcc atcatcaagc ggaagtggta tatncgagat tgggctcgag 3420 caggtcctga aggcacaagt aagttgcatg agcaagtggc tcagattccc atggctccta 3480 ctcctgctac attgcctcct ctctctcaac ctgcacctat ggcctcatgg ggagttccct 3540 atgaccagtt gactgaggaa gaaaanattt gggcctggtt tacagatggt tctgcacaat 3600 atgctggcac cacccaaaag cggacagctg cagcactgca gccccactca ggggtggccc 3660 tgaaggacag tggtgaaggg aaatcctccc agtgggcaga acttcgagca gtgcacctgg 3720 ttgttcattt tgcctggaag gagagatggc cagaggtaca gatctacact gattcatggg 3780 cagtggctaa cggtttggct ggatggtcag ggacttggaa ggaacatgat tggaaaattg 3840 gtgacaagga ggtctgggga agaggtatgt ggatggacct ctccgaatgg gcacagagtg 3900 tgaagatatt tgtgtcccat gtgaatgctc accaaagagc aacctcagca gaggaggatc 3960 ttaataatca ggtggacaag atgacccatt ctgtggatgt cagtcagcct ctttccccag 4020 ccacccctgt ccttgcccaa tgggctcatg aacaaagtgg ccatggtggc agggatggag 4080 gttatgcatg ggctcagcaa catggacttc cactcaccaa ggccgatctg gctacagcca 4140 ctgctgagtg cccaacctgc caacagcaga gaccaacact gagcccccga tatggcacca 4200 ttccccgggg gaatcagcca gccacctggt ggcaggttga ttacactgga ccacttccat 4260 catggaaggg gcagcgcttt gttctcactg gaatagacac ttactctgga tatggatttg 4320 ccttccctgc ccacaatgct tctgccaaaa ccaccatctn tggacttaca gaatgcctta 4380 ttcaccatca tggtattcca cacagcattg cttctgacca gggaactcat tttacagcaa 4440 atgaagtgcg gcaatgggct catgctcatg gaattcactg gtcttaccat gttccccatc 4500 atcctgaagc agctggcctg atagaacggt ggaatggcct tttgaagact cagttatggc 4560 gccagctggg tggcaacacc ttgcagggct ggggtaatgt cctccaggat gtagtatatg 4620 ctctgaatca gcgaccaata tatggtgctg tttctcccat agccaggatt cacgggtccg 4680 ggaatcaagg ggtggaaatg ggagtggctc ctctcactat tacccctaat gatctactag 4740 caaaattttt gcttcctatc cccgcaactt tgggctctgc tggtttagag gtcttagttc 4800 ccaagggagg aatgcttcca ccaggggaca caacagtggt tccattaaac tggaagctga 4860 gactgccacc tggccacttt gggctcctca tgccagtgaa ccaacaggca aagaagggag 4920 ttactgtact ggctggggtg attgatcctg actatcaagg ggaaattggg ttgctactac 4980 acaatggggg cagggaggag tatgcctgga atncaggaga tcctctgggg catctcttag 5040 tactcccatg tcctgtgata aaagttaatg gaaaactaca acaacccaat acaggcagga 5100 ctgctaatgg cacagaccct tcaggaatga aggtttgggt caccccacca ggcaaggaac 5160 cacgaccagc tgaggtgctt gctgagggca aagggaatat ggaatgggta gtggaagaag 5220 gaaattataa ataccagcta cgaccatgtg accagttgca gaaataagga ctgtagtant 5280 tatgagtatt tcttccttgc tttgatatga atatatttgt gatatatata ttaacnaata 5340 tctttntttt ctttcctctc tcattcccnt actatctaac ataagatgtg ttaatagtgg 5400 ttaaccttat atctcagtat ttaagttaca ggatatcaaa gggggantgt gactcagcta 5460 gaagagnaat aaacatcacc cagagatgga taaagtgaca tntgggactt tgtatcctct 5520 tttggggaga gggttagcgt gttttcggtt gtatgaggga tagttgcatc atgttaggcg 5580 gaagcatgat tttgctattg tctttatttg gaagttaaat atggttnaaa gaggtgtgta 5640 tggatgccaa gttgacaagg ggtggac 5667 // ID MER113B repbase; DNA; HUM; 302 BP. XX AC . XX DT 15-JUN-2008 (Rel. 13.06, Created) DT 15-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Interspersed repetitive element MER113B - a consensus sequence. XX KW hAT; DNA transposon; Transposable Element; MER113; MER113B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-302 RA Jurka J.; RT "hAT-type families of nonautonomous DNA transposons."; RL Repbase Reports 8(6), 642-642 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 302 BP; 115 A; 26 C; 57 G; 104 T; 0 other; cagtgttttc caaagtgtgg tgtctatatc actggtggta tatgagataa ttttaggtgg 60 tacatggatg aacatttttt aattttaata gttatgtatt tattttaatg tgtattagaa 120 aaaaatataa ctagcacatc aaacctatga tttcatagat attattgctt aggatgaggc 180 taaagtttta aaaaagtaag tcaatttaaa gaaaaatatt aagtaaataa tagtacaggt 240 ggtacacata tggcaaaaat tatgaaggta gtacacaaat gactgaagtt tgggaaatac 300 tg 302 // ID DNA1_Mam repbase; DNA; HUM; 407 BP. XX AC . XX DT 09-JUN-2008 (Rel. 13.06, Created) DT 05-AUG-2008 (Rel. 13.07, Last updated, Version 2) XX DE Putative non-autonomous DNA transposon: consensus. XX KW DNA transposon; Transposable Element; DNA; TcMar; DNA1_Mam. XX NM DNA1_Mam. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-223 RA Jurka J.; RT "Putative non-autonomous DNA transposon present in placental RT mammals."; RL Repbase Reports 8(6), 683-683 (2008). XX RN [2] RP 1-407 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (01-AUG-2008). XX DR [2] (Consensus) XX CC Present in ~200 copies in human and other placental mammals. It CC has imperfect TIRs and putative TSDs (TA, included in consensus). CC Features consistent with Mariner superfamily. This consensus CC sequence was reconstructed from human sequences. CC [2] Extended and improved from RepBase. The sequence is a near CC perfect hairpin. XX SQ Sequence 407 BP; 131 A; 68 C; 65 G; 143 T; 0 other; cagggtgtcc gaaaagtcgg gaaacatagg ataaacttat ttttaaacag tatgttagtt 60 acattttcaa ataatatgct caatatgttt ttcttcaacc tccagacacc ttttcaggtg 120 aagtacctct aaatttaaag caatgggtcc aattgttaat ctgaaaaaag tacaataaat 180 acactatttt ccctgtgttt ccagactttt tggacactct gtagtgtatt tattgtactt 240 ttttcagatt aacaattgga cccattgctt taaatttaga ggtacttcac ctgaaaaggt 300 gtctggaggt tgaagaaaaa catattgagc atattatttg aaaatgtaac taacatactg 360 tttaaaaata agtttatcct atgtttcccg acttttcgga caccctg 407 // ID MER41D repbase; DNA; HUM; 557 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER41D. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER41d; KW MER4I-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-557 RA Smit A.F.; RT "MER41D."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX SQ Sequence 557 BP; 165 A; 134 C; 101 G; 154 T; 3 other; tgttagggaa gcaggagcct aggagagcca gagtgacacc attttaaaat caactccatc 60 ttaaaactag caaggcacat tccttgccag tcacgaccca tggtcctaag atgtttacag 120 ttgaggaagc agcttgawaa tacctacaag gacacactcc tacaacaaca gaaagtccag 180 atgtcccaat acccataaca atatatgctt tcaagataat tatagtcatg ctttgatgta 240 cttacgcact aaaatgtcaa agatagtttt ctttaaatca atatamtaat aaattttgtc 300 atgctgtcag cccacccgca cgtaggcaca gcttagttta gtctttacat agacaagact 360 cctatataag aaaagtttaa gacagagatg gcgcgttcct ccgcctnctt tccggggacg 420 ccctactctg taatggagta gtttttaata aacttgctct tctcactgta ctccgcaact 480 cgccttgaat tccttcctgt gcgagatcca agaaccctct cttagggtct ggatcgggac 540 ccctttttct ggtaaca 557 // ID L3 repbase; DNA; HUM; 4489 BP. XX AC . XX DT 21-MAY-1999 (Rel. 4.04, Created) DT 18-MAY-2005 (Rel. 7.09, Last updated, Version 4) XX DE L3 is a CR1-like non-LTR retrotransposon - a consensus. XX KW CR1; Non-LTR Retrotransposon; Transposable Element; CR1 clade; L3; KW L3 family; LINE; LINE3. XX NM L3. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 3986-4489 RA Jurka J. and Kapitonov V.V.; RT "L3."; RL Direct Submission to Repbase Update (MAY-1999). XX RN [2] RP 2915-4489 RA Smit A.F.; RT "L3."; RL Direct Submission to Repbase Update (MAY-2000). XX RN [3] RP 1-4489 RA Kapitonov V.V. and Jurka J.; RT "The esterase and PHD domains in CR1-like non-LTR RT retrotransposons."; RL Mol Biol Evol 20(1), 38-46 (2003). XX DR [3] (Consensus) XX CC L3 belongs to the CR1 clade of non-LTR retrotransposons present CC in mammals, marsupials, birds, reptiles, fishes and insects. CC The ~500-bp 3' end of L3 was identified by [1]; a further CC ~1 kb 5' extension was produced by [2]; the whole-length CC prototype of L3 was reconstructed by [3]. CC L3 is distantly related to CR1_HS (another human CR1_like CC repeat). CC There are several thousand copies of L3 present in the human CC genome. CC They are ~66% similar to the L3 consensus sequence. CC L3 is composed of ancient diverse subfamilies. Therefore, the CC consensus sequence represents a set of most conserved domains. CC Several variable regions of the L3 consensus sequence are not CC reconstructed yet and are marked by n. The length of these CC regions CC is estimated based on identities between proteins encoded CC by the L3 consensus sequence and known CR1-like elements. CC ORF1 and ORF2 carried by L3 in the past are partially CC reconstructed, CC their approximate coordinates are 24-1332 and 1611-4405. CC The N terminal and the esterase domains of the ORF1p protein CC are reconstructed (positions 24-185 and 793-1332). CC The CR1-like endonuclease/reverse transcriptase is encoded by CC the ORF2p protein that is almost completely reconstructed. CC ORF2p is 66% similar (50% identical) to the ORF2 protein encoded CC by the turtle CR1-like element (PSLINE, PsCR1, GenBank BAA88337). XX FH Key Location/Qualifiers FT CDS 1700..4405 FT /product="ORF2p" FT /translation="LTYHNYSLVGLLEGLEYEMGGXRLFWKDSKEERGKSW FT WAGXXXXXXXXXXXXXXXXXXXXXXXXTSMWKSMNLGQKHAESIRVKEKGE FT SNRSDIVLRVYNRLLSQMEDMDDAFLIQITKLAQRQDIVVMGDFNYPDICW FT KSHSAKSRASDKFLTCLADNFISQKVEKAMRGTATLDLILTNKEELVGEVE FT VDRNLGRKCHVILEFIIAKKGKVKSPHMFQTLQGKADFKKFREKRYDSMAR FT DSKRKMAQEGWEALKNEILITITNDPMRKKRGRAFKKPTWPHRVFSDVRFQ FT KDMYQKMERGHITKDKERVSQAYKNSVRKAKAQNELRLAKKNAKDNKKKTF FT QSYVQSKKNKEETDMQMVQLLTDDKEKAELFNFYFASYLLYQRERSSNRKG FT QNKHCQEGIEANGRGDLRXPDTFKSAGPDGSHPRVLKEFADVIAEPLXIIF FT EXSRRSEEVPEECKRAXXVPSFKKGKKTNPGNYRPVSLTLIPGKXLEQIIK FT QMVCEHLEGEQKSLGSNQHGFIKSKSCQTXXISFXDRVTKRVDQGNAIDXM FT YLDFSKAFDKVSXDILVDKMXKYGLDXXXIRWIHSWLNNYTQEVLINGSMS FT TWREISSGVPQGSVLGPVLFNIFINDLDEDIEGMLIKFADDTKLGGIANTX FT DDRIKIQNDLDRLERWAETNKMKFNRDKCKVLHLGSKNQLHKYRMERIWLS FT SSSREKDLGVLVDHKLNMSQQCDVAAKKANAILGCINRSIVSRXREVIVPL FT YSALVRPHLEYCVQFWAPHFKRDIDKLERVQRRVTRMVKGLETMSYEERLK FT ELGMFSLEKRRLRGDMIAVFKYLKGCHVEEGLDLFCVAPEGRTRISGWKLQ FT GGRFQLNIRKNFLTIRAVQKWNGLPWEVVSSLSLEVFKQRLDDHLSGML" FT CDS join(24..185,267..731,793..1332) FT /product="ORF1p" FT /translation="MRTKRTVAVTCRVCAVFVFLPEVVTNYMCYKCKLIFP FT LEEGERALRTPLYTLAYKSKRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX FT XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX FT XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX FT XXXXXXXXXDFPLKDTEKTDVMENLPSLIKPPDCYPLLLIHMGMNDIIRRH FT LESISNDFEVLGRKLKAWRAQVVFSFLLPIEGYDFGREKKIWEVNSWLCRW FT CQRTGFGFLDHGLRYQNDGLLARDGVHFRKNREELISLEIHQHDKHELKGK FT CQENNKILTSVTKKKNIGRDIYCFLGENKEKKPEIILKSRGVYTPI" XX SQ Sequence 4489 BP; 1306 A; 635 C; 985 G; 906 T; 657 other; tttcatcttg agatccagga agtatgagaa ccaagagaac tgttgcagtg acctgcagag 60 tatgtgctgt gtttgtcttc ttgcctgagg tagtcaccaa ttatatgtgc tataaatgca 120 agctgatctt tcctttagaa gaaggtgaaa gggctttaag aacgcctctc tatactctgg 180 cttattaaag aggatgaaga attcctagag aagatgagta aagaaaataa ttcaagaagc 240 atgttaaaaa taaaaataca ctctgaaaaa gcaagaggaa nnnnnnnnnn nnnnnnnnnn 300 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 360 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 420 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 480 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 540 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 600 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 660 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn tgacttccca ttgaaggaca 720 cagagaaaac ctgatgcaaa tctgacatgg ctaatcagga aatgtgctgc cttcttggag 780 cctatatcct gagatgtgat ggaaaacctg ccaagcctta tcaaacctcc tgactgctac 840 ccactcctgc tgattcatat gggaatgaat gacataatca gaaggcacct ggaatccatc 900 tctaatgact ttgaagtcct aggcaggaaa ctgaaggctt ggagggcaca ggtggtgttt 960 tcatttcttc ttccaattga aggttatgac tttggaagag aaaagaagat atgggaggtg 1020 aacagctggc tatgtagatg gtgtcaaaga acaggatttg gttttctgga ccatggctta 1080 agataccaaa atgatggact tttggccaga gatggagtac atttcagaaa gaacagggaa 1140 gaacttattt ctctggagat tcaccaacat gataaacatg aactgaaagg gaaatgtcaa 1200 gaaaataata aaatattaac aagtgtgaca aagaaaaaaa atattggaag ggatatttac 1260 tgcttcttag gagaaaacaa ggaaaagaag ccagaaatca tacttaagtc ccgaggagtc 1320 tacacaccga tttagtacga mtgtaacaaa gttattagga tggttgaaaa tgcaaaaggc 1380 ataaatgatc tctcagaagg atcatcaaga tctagtgaga tggaatctgg cactcgaata 1440 tagaagggaa tattatagaa aggaagatgc nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 1500 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 1560 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn gaccacctgc 1620 agtccttgag ttgggctgca cagagcagag gaagtcaaca ggaggaactg gagcttttgg 1680 ttcaagacga cagttatgac tcacttacca taactacagc ctggtgggac tgttggaagg 1740 actggaatat gaaatgggag ggcngagatt gttctggaaa gacagcaagg aggaaagggg 1800 gaagagttgg tgggcaggat nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 1860 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn tacatctatg tggaaatcca tgaacctagg 1920 acagaagcat gctgagagca ttcgagtgaa ggaaaaagga gagagcaata gaagtgatat 1980 tgttttgaga gtatataaca gactgctcag ccagatggag gatatggatg atgctttcct 2040 aatacagatt acaaaactgg cacagaggca agatatagta gtgatggggg acttcaacta 2100 tccagacatc tgctggaagt ctcattctgc taaaagcaga gcatctgata aattcttgac 2160 ttgccttgct gacaatttca tctctcagaa ggtagagaaa gcaatgaggg gaactgctac 2220 tctggactta attctgacca acaaggaaga actggttggt gaagtggaag ttgataggaa 2280 ccttgggaga aagtgccatg tcatcttaga gttcataata gccaagaaag gaaaagttaa 2340 aagtccacat atgttccaga ctttacaagg aaaagcagat ttcaaaaaat tcagagaaaa 2400 gaggtatgat tccatggccc gagactcaaa aagaaagatg gctcaagagg gttgggaagc 2460 tcttaaaaat gaaattctga ttacaattac aaatgatcca atgaggaaga aaagagggag 2520 ggcatttaag aaaccaacat ggcctcatag agtattctct gatgtcagat ttcaaaagga 2580 catgtatcag aagatggaaa gaggacatat aaccaaggac aaagagagag tatcacaagc 2640 ctataagaat agtgtcagga aggctaaagc tcagaacgag ctgaggcttg caaaaaaaaa 2700 tgctaaggac aacaaaaaaa agacttttca aagctatgtt cagagcaaga agaataagga 2760 agagacagac atgcagatgg tgcaattgtt aacagatgac aaagagaaag cagaactatt 2820 caacttctat tttgcttcgt atcttctcta tcaaagagaa cgatcttcaa accgaaaagg 2880 gcagaacaaa cattgtcaag aaggaattga agccaatggg cgaggagact taagaaancc 2940 tgatacgttc aagtcngcag gnccngacgg ctcgcatcct agggtactna aagaatttgc 3000 agatgtcatc gcagagccgc tagntattat ctttgagana tcacggagga gtgaagaggt 3060 gcctgaggag tgcaaaaggg canacgnggt gccttctttt aaaaagggaa aaaagacgaa 3120 tcctggaaac tacagaccgg taagcttaac nttgatccct ggnaagatnc tagaacaaat 3180 cattaaacag atggtttgcg agcacctaga aggggagcag aaatcactag gtagcaacca 3240 gcatgggttc attaagagca agtcatgcca aactaanttn atttcctttt ntgatagggt 3300 tactaagagg gtagatcagg ggaatgccat agatanaatg tatctggatt tcagcaaggc 3360 atttgacaaa gtctctnatg atatccttgt ggacaagatg gngaaatatg ggctggatgn 3420 tagnncaatt aggtggattc atagctggtt gaacaactat acccaagagg tgttgattaa 3480 tggatcgatg tcaacctgga gggagatctc tagtggagtg ccacagggct ctgtccttgg 3540 ccctgtcctg ttcaacattt ttatcaatga cttggatgaa gacatagaag gcatgcttat 3600 caaatttgca gatgacacaa agctgggagg gatagctaat acgntggatg acagaatcaa 3660 gattcaaaat gatcttgaca ggctggaacg ntgggccgaa accaacaaga tgaaatttaa 3720 cagggataaa tgtaaagtcc tgcatttagg ttcaaaaaat caactgcaca agtacaggat 3780 ggagaggatc tggcttagca gcagttcacg tgaaaaagac ctaggggttt tagttgacca 3840 caagctcaat atgagccaac agtgtgatgt ggctgccaaa aaagctaatg caatcttagg 3900 ctgcattaat agaagtatag tgtccagawc aagggaggta atagtcccgc tgtactctgc 3960 gctggtcaga ccacatctgg agtattgcgt tcagttctgg gcaccacatt ttaagaggga 4020 cattgacaaa ctggagcgcg tccagagaag agtgaccagg atggtgaagg gtctggaaac 4080 catgtcatat gaggaacggt tgaaggaact ggggatgttt agcctggaga agagaagact 4140 tagaggagac atgatagctg tcttcaaata tttgaagggc tgtcatgtgg aagagggatt 4200 agacttattc tgtgtggctc cagagggcag aactaggatc agtgggtgga agttacaggg 4260 aggcagattt cagctcaata taaggaagaa ctttctaaca atcagagctg tccaaaaatg 4320 gaatgggctg ccttgggagg tagtgagctc cctgtcactg gaggtattca agcagaggct 4380 ggatgaccac ttgtcaggga tgttgtagaa gggattcctg cattggatgg gagnttggac 4440 tagatgacct ctaaggtccc ttccaactct gagattctgt gattctatc 4489 // ID Charlie19a repbase; DNA; HUM; 386 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; hAT-Charlie; KW Charlie19a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-386 RA Smit A.F.; RT "Charlie19a - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 16 bp TIRs; 27% subst in dog-human; rnd-3_family-790. XX SQ Sequence 386 BP; 116 A; 64 C; 92 G; 111 T; 3 other; cagtggttcc caacctgggg tccccggacc ctaggggtcc ntgaaggtag taatgggggt 60 ctncgagcta ttttcaatat ttcaaaaagc ctaacggaaa tcgtacattt acccgtgata 120 aggctgcaca ggctaactaa aacgtcaagt ttctttgctt ttggctggaa ttatatcaac 180 tcagtgtggt aacactggtt atctcatgct gatcagaagc tctgattggc agttatatat 240 gtctttgatt aataaaaaat ggggaaaaaa tnaattatta cttaataaat gcagtttgtt 300 tggtagacaa aatctttcaa aacatggggt ccatggggga aaataataaa aggggtcctt 360 ggtggtgaaa aggttgggaa ccactg 386 // ID L1ME2 repbase; DNA; HUM; 911 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1ME2) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M4; L1ME2; L1ME2 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-911 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-911 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 22%. XX SQ Sequence 911 BP; 354 A; 165 C; 171 G; 216 T; 5 other; cttgtatcca gaatatataa agaacgccta caactcaata ataaaaagac aaacaaccta 60 attaaaaaat gggcaaaaaa cttgaacaga cacttcacaa aagaagatat acgaatggcc 120 aataagcaca tgaaaagatg ctcaacatca ttagtcatca gggaaatgca aattaaaacc 180 acaatgagat accacttcac acccactaga atggctaaaa ttaaaaagac tgacaanacc 240 aaatgttggc gaggatgtgg agcaactgga actctcatac attgctggtg ggagtgtaaa 300 atggtacaac cactttggaa aacngtntgg cagtttctta taaagttaaa catgcaccta 360 ccctatgacc cagcaattcc actcctaggt atttacccaa gagaaatgaa aacatatgtc 420 cacaaaaaga cttgtacawg aatgttcata gcagctttat tcataatagc caaaaactgg 480 aaacaaccca aatgtccatc aacaggagaa tggataaaca aactgtggta tattcataca 540 atggaatact actcagcaat aaaaaggaac gaactactga tacacgcaac aacatggatg 600 aatctcaaaa acattatgct gagtgaaaga agccagacac aaaagagtac atactgtatg 660 attccattta tatgaagttc tagaacaggc aaaactaatc tatggtgata gaaatcagaa 720 cagtggttgc ctctggggag ggtgantgac tggaaagggg catgagggaa ctttctgggg 780 tgatggaaat gttctatatc ttgattgggg tggtggttac acgggtgtat acatttgtca 840 aaactcatcg aactgtacac ttaagatctg tgcatttcac tgtatgtaaa ttatacctca 900 attttaaaaa a 911 // ID L1MB6_5 repbase; DNA; HUM; 1711 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 2) XX DE L1MB6_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1MB6_5; MER60. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 477-1170 RA Kapitonov V.V. and Jurka J.; RT "L1MB6_5."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-1711 RA Smit A.F.; RT "L1MB6_5."; RL Direct Submission to Repbase Update (1997). XX DR [2] (Consensus) XX CC 5' end of LINE elements with L1MB5-8 subfamily 3' ends, CC comprising the CC 5' UTR and part of ORF1 (from pos. 1043) [2]. XX SQ Sequence 1711 BP; 644 A; 328 C; 351 G; 352 T; 36 other; ggtaatgtca gcgaaaatgg cggagtaagg amctccgaaa attcactcct ccataaaagc 60 aatgaaaaca ctggcaaaaa ttgtcagaat caactttttc agaactctgg aaattaacca 120 aaggcttaca gcaatctagg aagtgtttat tcaagaaaaa yagctgaatc tcwgtaagaa 180 cagcgagctt tgtggtattt taacttgccc tantcccatc ccccwctctc cagctcagca 240 gtagccttga aaataacagc ttatattatg gtgaaaacca gcagccaccg gagkgggcag 300 aacgggtttg gagcttctca aaagycncat tcccagggaa ttgtcattat ttgacctgtc 360 tggcggctcc ctggaagact ccattcamag ggcttgtctt tatttgacct gactcagagc 420 tcactcagtg cgaamagcat tatacctggg ggcatttgtt gaaaacawtt agaggcaawt 480 gtttaacacc acagctgcct gaggcagtgr ataacagttg gggcaaacaa gaggctgacc 540 aaaaagctta aaaggaaaag ctggggaatg agatgtccgn aggggctttg aaaagctcca 600 acatattcct gggaatctag aaggccacgc gcatgcccag ggctgtacac atgctcagaa 660 aagacctaag aaggccctaa gctctcacct ctggctgacc ttgagactct gcacaagcag 720 gaagtgaaga ctaaggcaga gttgtaaact gcctggctga gtgttgaagg tatgccccaa 780 cacacacaca gaaccccttg gcaaagamtg ggagacttgt tggttcmagg catttaagga 840 aatctctgtc caatcattag ctgaccacta agctaacnga gcagagactt cagtggccac 900 acatgacaaa gaatacagac tttacaaaat tagttcagaa aagtcactaa acaaacagca 960 acaanaacac aaaagagyaa caacaaaccc tggaaaggag ggagaatctg atttccagag 1020 ttgccacatt atattattta aaatgtccag ttttcaacaa aaaattacga ggcatacaaa 1080 gaaacaagaa agtatggccc atacacagga aaaaaagcag ttaatagaaa ctatccctga 1140 ggaagcccag acgttggact tactagacaa agactttaaa tcagctattw taaatatgtt 1200 caaagaacta aaggaaacca tgtntaaaga antaaagaaa aatatragaa cgatgtctca 1260 ccaaatagag aatatcaata aagagacaaa aattataaaa aataaancaa atagaaattc 1320 tggagttgaa aagtacaata actgaaataa aaagttcact agaggggtac aacagcagat 1380 ttgagcwggc agaagaaaga atcagcgaac ttaaagatag gtcaatcgag attattcagt 1440 ctgaggaaca aagaaaaaag aatgaagaaa aatgaasaga gcctcagaga cctgtgggac 1500 accatcaagc gtaccaatat atgcataatg ggaatcccag aaggagaaga gagaaarkgg 1560 cagaaagaat atttaaagra atagtggccg aaaatttccc aaatttgatg aaaaacatyw 1620 ayctwcayat ccaagaagct caataamctc caagtaggat aaactcaaag agatccacat 1680 ttasatgcat catagtcaaa ctgctgaaaa a 1711 // ID LTR24C repbase; DNA; HUM; 635 BP. XX AC . XX DT 07-FEB-2000 (Rel. 5.01, Created) DT 07-FEB-2000 (Rel. 5.01, Last updated, Version 1) XX DE Long terminal repeat from a human endogenous retrovirus - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR24; LTR24B; KW LTR24C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-635 RA Jurka J.; RT "LTR24C."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC 85% similar to individual repeats. XX SQ Sequence 635 BP; 204 A; 115 C; 99 G; 211 T; 6 other; tgtgaaaata agtaattcaa aatctaagct gttggaactt taaattattt tgagccttaa 60 aggaatgtga ttatgggrcc tgagtcatat gacaggcagc tgtaacctag gcagctgtaa 120 cctttgtttc tctgattata gattaagcct tcttccttac ctacattgtt ttgtaaaatg 180 ttgtaaatga ctaaagggcr ccagggaaga ccccttccct cttcactgtt gatcttcatt 240 atagattaac ttccctctta cctntctcac acaaagactt catgactatc acattgtctt 300 aagatggaat gttaaataya ctcttttaaa ttggaaagga aatgaaaaca agctgtaagg 360 aaaagaaaac aagctgtatg gaaaagaaaa naaaacaaac tgtaactaac taattaaatt 420 gttgtaactc ataaaccagc cttgtataga aaatgttata atcctattaa atttctttgt 480 tttctgccta tataagcaag accttaactt ttaactttgg agcactgacc ccatttctct 540 ggagtctgtg tttcctgaat ggccattccc agcttttnac ttgaataaac tctttaaaac 600 tggattctga tcctttcaat tatttcaggt tgaca 635 // ID LTR28C repbase; DNA; HUM; 1129 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR28C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1129 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 944-944 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 1129 BP; 253 A; 347 C; 283 G; 230 T; 16 other; tgatagcggc aggaggcaga caaatyccta ggcagayagg ggcaggtccc cagtgaaacc 60 ccaccttcaa gccaaagaca gtttaaagcc tgaaagccaa gctacaagtc tcaggtaaaa 120 tccatggact ggattgagaa cctctcttcc catttggcgt gctttcctct gattgatccc 180 cacccttcac ctattttaca tatacctacc cttccctaat tggttttttt tacactgtca 240 tgcccacctt tgagtggtgc ctttgtttta gccttttttt gcatactcac aaaccaatca 300 gcatgcactc ccccattctg agcccataaa agccccagac ycagccacac tgggagagag 360 accacccgac tttgggtagg ggaccaccct cacatcccct ctccgctgag agctgtttca 420 tcactcaata aaattcttct ccgccctcct cacccttcaa ttgtcagcat aacctcattc 480 ttcttggatg tgggacaaga actcgggacc caccaaaygt gggtacaaar aaggctgtaa 540 cactgtgagc cctctgccct ctgccrgygg agggcagcca ccccatgcaa cgggaagcag 600 tggcagggcc gagccagccc tggagctgcg ggccagagtg gggcaacagg gctgaaaggg 660 rctgacagag ctgttaacat gcccccrttc ttcaggctgt ggatggcggg actaaaagag 720 ctaattagca tgctgtaaca ccccctctgg ggcttcgggg tcacrggcac ccctgcytgg 780 gtgccaccac gttcccctca tctggatgcc agagtccacc acaggagtsg cttgcgacac 840 gcctggtcca gccrcaagcc ctrcatggag cctgctcctg tgccagcact tggaatggct 900 ggccggaccc tgcactcgct cgctcacaca ccccctccta ctaggggctg agcacacagt 960 cacagtagcy gtgggatcca tgctggagtg cargccaggt acagcccggt gggccgagtg 1020 ggcagggcat ctcctgtggc gaacccaggc ccaagcaagg cctgggcagg ggtgtcacca 1080 gctggagagg tctccggctg gcaaagtgac tgagaaaaat cctgcatca 1129 // ID L1M2C_5 repbase; DNA; HUM; 4038 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Primate L1M2C_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M2A_5; L1M2B_5; L1M2C_5; L1M2_5; MER62. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-2331 RA Jurka J.; RT "L1M2C_5."; RL Direct Submission to Repbase Update (AUG-2000). XX RN [2] RP 1-4038 RA Jurka J.; RT "L1M2C_5."; RL Direct Submission to Repbase Update (JAN-2001). XX DR [2] (Consensus) XX SQ Sequence 4038 BP; 1456 A; 1058 C; 800 G; 724 T; 0 other; ggagagtgat gtcagcaaga tggctgacta gagatgcctg gtgctcatcc ccccacaaga 60 aaggaccaag gcaataataa acagctaaga tttgactgga gtgtcaaagg gagagtgctg 120 gagtgcagtg gggagtggag atgcacctgt ggtgactgga agttgccaca gcatggaggc 180 acccagcctc tgcagcccca tctcccccac ctggatcaga tctgcctgga gcaggaggga 240 cttcccattg cagggaaaag gtaagcagaa gatccccacc accccactgc caccacaaac 300 acacagtcct tacaacagga gaatcccaca gtccttgcaa gccctgagcc cagtttggag 360 agctgccgga attacacagc tgcatgccct ggattaggag cacaaggtgt gcactcccca 420 cccccagtga ctcaagctgc tgcagcacag ccatcttgag accagagcca cctctggagt 480 gtaccctcct ctgggggcag tagccactgc acctctccag cactggggct ccatcttcat 540 tacaccaagc ccacacgggt ggctgaagcc acaaccccag ctgtgtagag ctgggcccag 600 gattggctgt gactctggtc ctgcacgcag ggaaaccaac tcccaccacc gcacttccag 660 ccagaggaac agtctgcagt cctacccagg gtaaacctgc ccttgagcta gccaaactgc 720 tgcatgccct ccccaagcag gagaggcccc taagcctctg agcagctgat acaccccagg 780 cagcagagtg gctatgcgcc catgctcagg acctgagaaa cagccctgca ggccccatcc 840 cctacagaca tgcccctggc ctgcccatgc cctcccttaa tagggcctga gaaacagccc 900 cacaggctac ccctagcagg cacaccaccg agtgggcctt gcacctgtct ctcagacctg 960 agagacaagc agctgtgtat gcccatgtct caggcctgag aaacaaccct ggagctacct 1020 ggtgggcaaa cccccaggcc agccaagcag ccatgtacct gtatcccagc ctgagaaaca 1080 gcccataggc cacccctagc agacatactc ccaggccagc taagcagcta tgtgaccatg 1140 ctgagcctga gaaatagccc tgtagccact cccagcagac acacctccag gccagcaagc 1200 agccatgagc ccatgtcctg ggcctgagaa acagccccat gggctacccc tggcagacat 1260 gcccccaggc cagccgagca gccgtgtgcc caatcccggc ctgagaaaca gcccatgggc 1320 cacccctggc aggcaccacc caggccagcc aagcagctgt gtgcccagtc ccagctagaa 1380 cagcctatgg actaccccca gcagacacac atccaggaca gctgagaagc tatgcctgtt 1440 ccaggcctga gaaacacctt cttggccagc cctggcagag atgctctcag tccagccaag 1500 cagcatgcac tatatattgg cccatgagtt tccccccagc agactgcccc aggccagcca 1560 agcagccttg cacccaatcc caggcctgag aaacagccct taggccaccc ctggcagaca 1620 tgcctccagg ccagccaagc agctgtggcc cgcatcctgg gcctgagaaa cagccccgca 1680 ggccacacct ggcagtcatg cccggctgag caaccacatc cccatgctcc tggccagagt 1740 aacagcccca tggccaaccc cagtgagcca taccccaagt tggctgaccc accgtgtgca 1800 tgcacacccc tgacctgaga aacagcccag tagcccaccc ctggcaaagc tgcaccactg 1860 caccacaaac tctctcagcc taggccactg agaactgcaa acgtcactag tgtggattac 1920 agctgaagaa actacatgga gactacactt actgcatcca cctagaacca aagccaatac 1980 accccaatga actgacacca agacccattt atacaaataa gtttttccct ataaacctac 2040 tccataaaat tggaagaggt acttttccac cagatgatag aaatcaatgt agggacacat 2100 caaacatgaa aaagcaagga aacatgacac ctccaaagga acacaataat tctccagtaa 2160 cagaccccaa tcataaatat atgaaatgcc agaaaaaata ataatcttaa ggaaactcag 2220 tgagataaag agaatacaga tagacaattc aatgaaatca ggaaaacatg atttgaatga 2280 gaaattcaac aaagagatag atatcataaa aagaaccaaa tagaaatcct aagagctgaa 2340 gaattcaatg aatgaaataa aaaatacaat tgagagcttc acagactaga ccaagcagaa 2400 gaaagaattt ctgaacttga agacaggtct tttgaaataa caggcagaca aaaaagaata 2460 aaaaagaatg aagaaagcct acaggattta tgggacacca ttaagtagat caaatatttc 2520 attatgggca ttccagaagg agaagagtag agaaaaggtg aagaaaacat atttaataaa 2580 atagatgaaa cttcccaagt cttgggagag agatggacat ctagatccag gaagctcaaa 2640 gaaccccaaa tagattcaac ccaaacatta tagtcaaatt gtcaaaagtc aaagacaaag 2700 aaattttaaa acagcaagag aaaagcatca cacatataag ggaatcccca ttagactaac 2760 agcagatttc tcagcagaaa ccttaggcca ggagagaatg ggatgatata ttcaaagtac 2820 tgaaagaaaa aaaatctgta gccaagaata ttatacccag caaagctatc cttagaaatg 2880 aagaaataaa atctttcaca gataagcaaa aactaaggaa ttcatcacca ctagacggcc 2940 ttacaagaaa tgctaaggga gtcttacatc tggaagtaaa aagacaataa ccaccatcat 3000 gaaaacatgc aaaactataa aactcactgg taagccaata cacaaaggag aaagagaaag 3060 gaatcaaacc ttatcactac agaaaaccac ccaactacaa aaataaacaa taagaaagga 3120 acaaagaata tacaaaacaa ccagaaaaca ataaaatgac agaagtaagt cctcacctat 3180 caataataac cttgaatgta aatagattaa attccccata aagatataga ctgctgaata 3240 gattaaaaaa taagacccaa ctatatgctg cctacaagaa actcacctca cctgtaaaga 3300 cacacataga ctgaaagtga agggatggaa aaagatattc catgcaaata gaaaccaaaa 3360 ggagcaggag tagctatact tatatcagac aaaacagact tcaagtcaaa aactataaaa 3420 agagacaaac aaggcattat ataataataa agggatcaat tcagcaagag atataattgt 3480 aatatgtgta caattgtaaa tatatatgca cccaaacact agagcaccca gatatataaa 3540 gcaaatatta ttagatctaa agggagagat agaccccaat acaataatag ttgaggactt 3600 caaccccact ctcagcattg gacagatcat ctagacagaa aatcaacaaa gaaacatgat 3660 ttaaactgca ccatagacca aatggaccta aataacagac atttacagaa catttcaccc 3720 aacagctgca gaatacacat tcttttcatc agcacatgga acattctcca ggattgacca 3780 tatgttagga cacaaaacaa gtctcaacaa attttatcaa gtatcttatc tgaccacaat 3840 agaataaaac tagaaatcaa taacaagagg aacattcaaa actatacaaa tatatggaaa 3900 ttaaacaaca tgctcctgaa tgacaatgag tgaagaagaa attaagaatg aaatttaaaa 3960 attccttgaa acaaatgaaa atagaaacac aacataccaa aacgggaaca gcaaaagcag 4020 ttattaagag gcaagttt 4038 // ID LTR34 repbase; DNA; HUM; 699 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of LTR-retrotransposon related to the DE MER4I-group; a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR34; KW MER4I-group; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-699 RA Kapitonov V.V. and Jurka J.; RT "LTR34."; RL Direct Submission to Repbase Update (23-FEB-1998). XX DR [1] (Consensus) XX CC LTR34 is a putative LTR from LTR-retrotransposon related to the CC MER4I-group. Individual copies of LTR34 are ~83% similar to the CC consensus sequence; 4 bp target site duplications. CC 3' portion of LTR34 (position 424-699) is ~72% similar to the 3' CC portion of MER4C (position 159-465). XX SQ Sequence 699 BP; 205 A; 190 C; 108 G; 187 T; 9 other; tgtaaagaaa aataaaaaat ctcaggaccc ccnnncyccn taaactcctt atgcccggag 60 gccgagtcat tgcaacaccc tcttccaaat gaatagctgt tactagcatc atgcatcagc 120 cagatcccca aggaaaggta aaaggcctca ggcatctgca aaagactgcc cccacagatc 180 attcataagt aaattctttg ctggcctccc ataaacaagg acatgccaat tgtaacttta 240 ggtctgcaac ctaagtctag ctcctaaaac taaagtctgt tcgattccac actgataatg 300 tcaattacaa gcttatcttc ccaggtgcag aacaaagaca aggtgagatc agtcatttcc 360 tccacctacc cagagacgtc tgcataattg actcttcctt tactcccttt ttctcttcaa 420 acattcacct tatcttatgt aaaatataga tttactgggc actaactaaa gtctcacagg 480 aatgtaarcc atttgcctta ccgcctacct gcccctcttc ctacatgcct tcccycactt 540 taaggaaatg tataaatact aaacctcctg aaaacctctt cagaaaaagc agccacagat 600 gtgtctgtgg ctcgcgtttt tcccggacat gccctaaagc tggcttaata aacctcgatt 660 gattgagacw twtgcctcag tcactcattt tggttgtca 699 // ID MER85 repbase; DNA; HUM; 140 BP. XX AC . XX DT 11-AUG-1997 (Rel. 2.07, Created) DT 11-AUG-1997 (Rel. 2.07, Last updated, Version 1) XX DE MER85 repetitive element - a consensus; MITE. XX KW DNA transposon; Transposable Element; Nonautonomous; MER85; MITE; KW Putative non-autonomous DNA transposon. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-140 RA Kapitonov V.V. and Jurka J.; RT "MER85."; RL Direct Submission to Repbase Update (11-AUG-1997). XX DR [1] (Consensus) XX CC MER85 has perfect 13 bp terminal inverted repeats. CC Putative TTAA target site duplication. CC The average similarity to the consensus sequence is 93%. CC Some repeats were transposed recently (97% similarity to the CC consensus). CC Estimated number of copies per genome is about 2000. XX SQ Sequence 140 BP; 43 A; 26 C; 30 G; 41 T; 0 other; cccatttatg cctgaggttg caattttttg aatttttgca tgagtgaaaa atcagacctt 60 ggcgatgacc ttgagcagta ggatataaat aactcccaca tgcttagcgt tccaataatg 120 gaacactagg cataaatggg 140 // ID MER52C repbase; DNA; HUM; 1278 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Long terminal repeat from MER4I-group retroelement, a consensus DE sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; MER52 subfamily; MER52C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1278 RA Kapitonov V.V. and Jurka J.; RT "MER52C."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC MER52C is a subfamily of LTR from retroelement related to the CC MER4I-group [1]. CC 4 bp target site duplication [1]. Individual copies are ~89% CC identical to the consensus sequence. MER52 shares fragments CC of significant similarity with LTR20, LTR25, LTR27, LTR28 CC and MER61 repeats. XX SQ Sequence 1278 BP; 238 A; 424 C; 407 G; 198 T; 11 other; tgatggcagt ggctgctgcc atcacgctgg ctgcagcagg gaggcgcggc tggggctgca 60 cactccatgg agccggtggg agccccgccc cttctgagtt gggacgggag ctccccgtgc 120 cactgcagcc gcctaaaccg cagctgcaga cccaggcctc ctgctccacg gagcaggcag 180 gagccccgcc ctcctgggcg gggctacagc cacccaaact gcggctgtgg atccgagcct 240 ccctgtgctc ttgggggagc cgggagcagg caggatctgc cytcccgggt gcagctgcag 300 ctgccscacc cgcggctgca gacctgggcc tcycactcca ggragcaggc aggagccagg 360 gacaagcggg agccccgccc cttccgagtt ggcagggcgg gagctcccgg gtgcagctgc 420 ggcctaccct cccaggcgca ggacctgggc gtctctgcag cctgcaccct tggggggccc 480 aggaaggacc cwccccatcc ctgcaggctc aggggtgtct gctcccactg cctggcctct 540 ctctgctcct ggcgcctgct ctgatctcgg agcggggttg gggccaagcc cyggggccat 600 gaatggcagc gggaggcaga cagattcctg ggcggaaggg ggcgggtccc cagtaaggcc 660 ccaccttcag gccagggagg gcctgaaggc tgggggccgg gctgccagtc ccgcagacca 720 gagtggggac tcgtggtgcc tcttccgggc ccacccatgg ccgcccatgg accaatcggc 780 acacacttcc tcccctctga ggtccataaa agccctgggc tcagccagag cagggcagag 840 gatggccaga ggacaaagrg ggcagagaga caatgggacw ggatgaccag ctgcagagag 900 gagctaccct ctctgctgat agctggagay gatggracga ccagctgcag agatgaccag 960 ctgcagagag gagctaccct ctctgctgag agcttcagag acctgcagag atgacttgcc 1020 tgcagagagg agccaccctc tccagggcct cctctctgct gagagctgaa cactcgatgg 1080 gacgacctgc ctacagagag gagctaccca ctcctctgag ctgttctaac actaaataaa 1140 gctcttcttc gtcttcttca cccttcactt gtctgcgtac ctcattcttc ctggacgcag 1200 gacaagaact cgggcaaagg cgccgcggcc acagaggttt cccgccagaa aaatcgacac 1260 cccaragatc ccgtaaca 1278 // ID LTR85c repbase; DNA; HUM; 823 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; LTR85c_LTR; KW LTR85c. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-823 RA Smit A.F.; RT "LTR85c - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSDs; 33% subst in dog-human; 70-80% similar to LTR35a & b; CC rnd-4_family-994; pos 709-787 is related to the same region in CC MamGypLTR1a & 3. XX SQ Sequence 823 BP; 223 A; 132 C; 262 G; 173 T; 33 other; tgtaacggga aggaagaaan tgttatttta aaagctggct gcagtttgag ccggttgctc 60 taggaggang gcagaattcc tcttagggag agaactgctc ttttgtttgg gaaaacacct 120 taatgggcct tttggttatg caaagnnagg ccccagggcc tagtctggan gggagaggtt 180 gagacaaaga ggaagctaaa ttgctctgca taataaagta acaggaattt tggagttntc 240 cnctggcggc ttgagagnta ggagtngtgg aatttnggag gaanngggag cangggaagg 300 cntgagaaag naaaaggntc ttagagnaga gagcaggccc cagannanaa gacaaaggag 360 gncngntnga gaggaaattc cctgnggtgg agatggccga ngaactttag gaacagtgat 420 gtctgatatt caattttaag ttgtttcctg ttctgtgctg taatccccct ccgtntcccc 480 aaaccttcag taaagtctgt tacacacaac agccttgtgt tagtggtgct ttggggaatg 540 aaggaaaggg gctggtccat gcctggggcg aagnaatgng acagagagag ganagcagct 600 gcaggaggng agatgagagc agggattgag aattcagcgg gagcaggaan tcggagcgag 660 aggtgaccag gagaacatga gcacccctga gaatcctcgg aaatattggg gagggcactg 720 gacttcccgc agtatgtggg atgggggctt gagccatttt atttggatat taaaggaaag 780 ggtgacccca gaaggctgga ggacttggga cacccaggtn aca 823 // ID LTR12F repbase; DNA; HUM; 519 BP. XX AC . XX DT 14-MAR-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR12F. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-519 RA Smit A.F.; RT "LTR12F - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC Preference for insertion in NTAN. 78 4.00 3.00 0.00 LTR12F CC 1 100 (419) LTR12B 1 103 (564) 73 8.11 0.90 0.90 LTR12F CC 101 211 (308) LTR12B 79 189 (478) 212 2.07 1.24 0.00 CC LTR12F 278 518 (1) LTR12B 192 435 (232) It's 3'end does CC confirm with that of the other LTR12 subfams (LTR12B has an CC exceptional extension). XX SQ Sequence 519 BP; 150 A; 135 C; 129 G; 105 T; 0 other; tgagaggtga agccagctgg acttcctggg tcgagtgggg acttggagaa cttttctgtc 60 ttacaagagg attgtaaaat gcaccaatca gcgctctgta aaaacgcacc aatcagcgct 120 ctgtagctag caagaggatt gtaaaatgca ccaatcagcg ctctgtaaaa tgcaccaatc 180 agcgctctgt aaaatgcacc aatcagcagg atcctaaaag tagccaatcg cagggaggat 240 tgaaaaaagg gcactctgat aggacagaaa cggaacatgg gaggggacaa ataagggaat 300 aaaagctggc caccccagcc agcagcggca acccgctcgg gtccccttcc acgctgtgga 360 agctttgttc tttcgctctt cacaataaat cttgctgctg ctcactcttt gggtccgtgc 420 catctttaag agctgtaaca ctcaccgcga aggtccgcgg cttcattctt gaagtcagcg 480 agaccacgaa cccaccggaa ggaaccaact ccggacaca 519 // ID MER11D repbase; DNA; HUM; 897 BP. XX AC . XX DT 24-OCT-1997 (Rel. 2.09, Created) DT 24-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE LTR from HERVK-related endogenous retrovirus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK; HERVK11; KW LTR; MER11; MER11D; subfamily MER11D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-897 RA Kapitonov V.V. and Jurka J.; RT "MER11D."; RL Direct Submission to Repbase Update (17-OCT-1997). XX DR [3] (Consensus) XX CC MER11 is a retroviral LTR [3]. It has been proliferated by CC HERVK-related CC retrovirus HERVK11 [3]. 6 bp target site duplications [3]. CC MER11D is a very young subfamily of MER11 LTRs, 98% similarity to CC the CC consensus sequence. MER11D consensus sequence is only 64% similar CC to CC MER11A,B,C consensus sequences, which are also young subfamilies CC (~90% similarity). XX SQ Sequence 897 BP; 237 A; 215 C; 190 G; 254 T; 1 other; tgtagggaga ccccctgaaa ctattgctac ggaataaaag atgaaatgct cctgattatt 60 gtaaatacaa aattgcatgc aggattgtgt aaagacaatg ccaggttgga ctgccagaac 120 gagccaacag cgcgtgatgt gcttccccct gcagagagcc tatgaatgga cgtgcagtca 180 gggaggtttc acatcaccaa gattcctatc ccagaaaagc agatgttcat agctctggga 240 atggaatgcg acccttgtgg agagcctata aacggacgca tggggggcgc ctgtccatat 300 ggataagata gggctataaa cgccctcatc ttgccacggc tcttctaggc ctctttaggg 360 ttaaggcata ctcccttctg agaatttctg gtctaaccgg ttgtctagct tcacgtcctg 420 tttccatgga ttgtttgtaa ccagcttttg ttgcaattgt tactgctgat taatatcttg 480 ctaatcatag gttatggaaa gaytgtgttt ctgttttaag gctctgttag aaattactga 540 cgcacacact atattgtaaa ttcttatctc tgtatactgt acttctacat acaaatgtac 600 tgtacttcta catacaaatg ttatgttaaa gaattacttc atccccatgt gaccatctca 660 cctcataatc aaatgaccct aaatccctca ctaacctacc cccgccctca ctaaacttaa 720 taataaatgc tggtatatcc agtgcattgt tggcaccgtg ggaccagaag gcggtgaccc 780 ccctggaccc agctttcact atcttgtgtg tgtctattat ttctcaacct gccgatccgc 840 ctaggagcaa agagagagcc ccgttgcatt gcgggctgct ggccagatcc cgcaata 897 // ID LTR41 repbase; DNA; HUM; 719 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 20-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like sequence. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of endogenous retrovirus; LTR33; LTR41. XX NM LTR41. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-719 RA Jurka J.; RT "LTR41."; RL Direct Submission to Repbase Update (31-MAR-1998). XX DR [1] (Consensus) XX SQ Sequence 719 BP; 143 A; 211 C; 157 G; 206 T; 2 other; tgtgccagtt atcaatttat tgcctctcag ctccaaattc acccttyatt gcctgctctg 60 cgaaaatgga tctgggccct ttaaatattt ttccttttgc cagctggcac aatgttaagc 120 tttgtcagta gagggcgctg gagagacatt gcaggaggaa gggggttttt ttcttcctgg 180 ttctggtgtg ctcccctgca ggctcctgca gtgaggcaca cttcctccag cccccaggaa 240 ccagtctcct gcagtatggg cagcagcttc agtgcaaggc tccgcagcac ccatggcttc 300 tccagcactc agctcctgca gtacatggcg gtcagcagca cccagtgggc agcagcttcc 360 ccaggaaccc ccttagcgag acaccttcct atgaacagct ttccctagca cctagagggc 420 agatttctag caagttccgc cggcgcagca ccacagcgac ttctctgcca ttcagtgagc 480 cacggctatg ccctctccaa caaggtctgg atctcagccc tgggggcagg gaggrtctct 540 tccttgggtg ctggctgctc cttatatctg ctattcctat attctttaga gttctcttta 600 cttcttacta gccaatccct cattactcca atcccctgtt atagttaatt atttatatta 660 aactttccct gttcaaatta ctgtgtggtt tctctcctga ttggaccctg actgataca 719 // ID MER113 repbase; DNA; HUM; 529 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 15-JUN-2008 (Rel. 13.07, Last updated, Version 2) XX DE Interspersed repetitive element MER113. XX KW hAT; DNA transposon; Transposable Element; MER113. XX NM MER113. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-529 RA Jurka J.; RT "MER113."; RL Direct Submission to Repbase Update (31-JAN-1999). XX DR [1] (Consensus) XX CC Putative DNA transposon. Present in bovine genome. CC ~1000 copies per human genome. XX SQ Sequence 529 BP; 174 A; 72 C; 99 G; 183 T; 1 other; cagtgtttcc caaagtgtgg gatatgtacc actggtggta tttaaagatg attttaggta 60 gxacatggat atggcattaa ataacattga atcacatagt gagaaagtta ttcccttttc 120 aattctcttt caatccttct gattacatca aggagaaagt ctcagtttgg tgcttagtat 180 gtctttaaca cctctctaac acttgctaat ctctcttttt aacaaagaga gagcaggcct 240 caggctcaga gccttgcagt aggcaggcaa cagtatctag ctagaattta ataacattgt 300 tttgttttca ttgtaattta tttttatggt taccttctat ttatggcaag tgatactggt 360 tttccattta tggtagtgat ataaagtttc cttttaaaat aaatttattt aaataaaaaa 420 agtgagtcaa tttaaagaaa aattaagtaa ataaatagta caggtggtat atagatatgg 480 caaaaatcat gaaggtggta tgaaaatgac tgaagtttgg gaaacactg 529 // ID MamGypLTR1d repbase; DNA; HUM; 813 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 02-JUL-2009 (Rel. 14.08, Last updated, Version 2) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; MamGypLTR1d_LTR; KW MamGypLTR1d. XX NM MamGypLTR1d_LTR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-813 RA Smit A.F.; RT "MamGypLTR1d_LTR - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; 32% subst in dog-human; 90% similar to MamGypLTR1b. XX SQ Sequence 813 BP; 198 A; 191 C; 251 G; 161 T; 12 other; tgtggctgga taatattttg agatattaat ttatgttttt ttttcctcct gtattttccc 60 ctttcctcct tccccccatt caagcaggta gccggctctg tgctcattgc ctcaggggag 120 gtatgtggca gggcagaaaa gcagaagtag cctgcaagtc tttctggctt ttgtnttcca 180 aaagcctaag cccttagggg aactagaggg tttgnggaag aggcaaaagg gaanaagtgt 240 cttggagaaa nncgagggga gagaggactt cctcctcccc agactagaaa gagattcccc 300 tgggctggga aggggagggg agaagagaag gagagangtn tgggtccnag agcagaggga 360 cctgngccct gcttcccggc agcgccgctg gggaggcggc aagaccccag agaggaatgg 420 ctgcgtggtg cgtctaggca gacgggacca taggcagcct cgcaaaagat tcccgtgccc 480 caagcatggc acggaagcag cagagagccg ccggacctga aggggccatg cggacaggga 540 caacggacgt ctcagcggta acctgtgtgg accgatgacc gagggccaga tccnctcccc 600 ncccccgacg ccttggcact gcgtaagatc cctggaactg tggcacaacc ctgggggagg 660 gagggggaac cccaagaagg actgaggtta agttttccgc cagcccagcg gaatgggggc 720 tcagagtcag aaattaagtt gagttataga aaataaagaa agtnatattt cttgcacacc 780 tgagtttgtg gactgagatt catacctgct aca 813 // ID L1M3DE_5 repbase; DNA; HUM; 2137 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE L1M3DE_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M3DE_5; L1M3D_5. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 835-1436 RA Jurka J.; RT "L1M3DE_5."; RL Direct Submission to Repbase Update (JUN-1999). XX RN [2] RP 1-2137 RA Smit A.F.; RT "L1M3DE_5."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF1 starts at pos. 1562. Corresponding 3'end is L1MA7 subfamily. XX SQ Sequence 2137 BP; 629 A; 538 C; 519 G; 392 T; 59 other; cttggcnctt aattcaccan ctctgggagc agaggggatt ggacatatga gtctctctgg 60 accacaggaa aaaggnagtg ttttatgcaa gcaggcaagc acttccagag gcttcatccc 120 ccaggagcag tgcagagaag gggctaaaaa atgcagctcc ctgtttctcc ctggaagggg 180 tttatgacac actcttccag cggctacttg gcggccnggc ttctaactaa cttgcatcgg 240 ggagttaaag aggcaggtaa ntantaacct nccgncagcc tgaaaagnag gtgggcactc 300 cccangcctt cttccccggc tcgctccagc gataantcca ggcctatnaa ttcctcctgg 360 aaggagtttg tccacacatt gagcgcccca acttttacag cttccacccg agggactgna 420 tcctaaatct cctagctctg ggagcagagg ggactaggca tatgcgagtc tccctagacc 480 acagagaaaa gtggcggttt tanacgggca cgcgagcact tccaggggct tcatcccccn 540 ggagcagtgc agagaagggg ctnaaaaaat gcagctcccn gtttctccct ggaaggggtt 600 tgtgccacgc atcgagcgcc ccaactttta cagctnccac ccgagggnct ggctcctaaa 660 tcacctagct ctgggagcaa agggactagg catncncgag tctccctaga tcacagaaca 720 aagaggtggt tttaaacggg cgtgcgagca cttccagngg ctacancccc tnggatcagt 780 gcagaaaagg gcnagaacgc ccagctccca ntttctcccc ggaaggggtt tgccgcacac 840 tcttccagcn gctacctgag ggcctggctt ctaactagcc tgcatctggg agctaacggg 900 gcagataaac aagtagccct ccggcagcct gagcgagagc ttggcacttc ctgngccttc 960 ccccccggct cgctccagng ataaatccag gtctacagat tctccctgga aggagtttgt 1020 ccatgcaccg agcgccccaa cttttacagc tcccacccaa gggactgnct cctnaatcac 1080 ctagctctgg gagttgacgg ggctctgcat tcctgagtnn ccctagacca cagagaacaa 1140 agaggtggnt ntacaacggg cncacttcca gcagctatct ccccaggatc agagngtgca 1200 gcctgaacan gagtacaggc atttgccaca gatcctctcc ccggcttagt gcagagngag 1260 tgggagataa acncccgcnc tcagcttcnc cntgaggana gaaggaactg gaacacacat 1320 ccaacacccc aacctttcca gctgcatctn aagagnctgg cttctatctc accngtctca 1380 gggcactgac aggacntggc acatcctaat ctccnggggg ccaccaagaa caaagacagc 1440 agtctggaca agcacaaaga tttgagaggc accttagaat ctctggccgg gcngattggt 1500 gagatccntc tcctacacga ggccagtctg acaagactgg gagaggtggt tgtcttatct 1560 aatgcgcaga aaccaacaca gagagtcaag gaaaatgaag aaacagggaa atatgttcca 1620 aataaaagaa caagataaat ctccagaaac cgacccnagt gaagtggaga tatgtgattt 1680 acccgacaga gaattcaaaa taatggtcat aaagatgctc accgaggtca ggagagcaat 1740 gcaagaacaa actgagaatt tcaacaaaga gatagaaaat attaaaaagt accaaacaga 1800 aatcatagan ctgaagaata ctataactga actgaaaaat tcaatagagg gattcaacag 1860 cagactanat caagcagaag aaaggatcag cgaactcgaa gacaggtcac tggaaatcat 1920 ccaatctgag gagcaaaaag aaaaaaaaat gaaaaagagt gaagatagct taagggactt 1980 ntgggacacc atcaagcgga acaacntatg cattatcagc gtgccagaag gagaagagaa 2040 aaaggagaaa aggnccagaa agcntattcg aagaaatagt gactgaaaac ttcccaaatc 2100 tggggaaaga aatggacatc cagatncaag aagccca 2137 // ID MER70_I repbase; DNA; HUM; 5023 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 25-OCT-2008 (Rel. 5.1, Last updated, Version 3) XX DE MER70_I is an internal portion of the HERVL70 endogenous DE retrovirus - a consensus. XX KW LTR Retrotransposon; Transposable Element; endogenous retrovirus; KW env; internal portion; RT; MER70A; MER70B; int; ERVL group; KW HERVL70; MER70I; MER70_I. XX NM MER70I. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-5023 RA Kapitonov V.V. and Jurka J.; RT "MER70I."; RL Direct Submission to Repbase Update (31-JUL-2000). XX DR [1] (Consensus) XX CC MER70I is an internal portion of the HERVL70 endogenous CC retrovirus CC flanked by the long terminal repeats MER70A and MER70B. CC There are about 100 copies of MERV70I survived in the human CC genome. They are ~80% identical to the consensus sequence and CC belong to two major subfamilies. CC MER70I encodes the reverse transcriptase, integrase and env CC proteins. It is related to the ERVL, HERVL, MERVL-like CC retroviruses: CC MER70I 1019 1729 ERVL 2304 3014 d 0.61 CC MER70I 1730 2285 HERVL_40 2374 2929 d 0.62 CC MER70I 2334 2725 HERVL_40 2982 3369 d 0.63 CC MER70I 2733 3028 HERVL_40 3770 4068 d 0.61 CC MER70I 4149 4264 MER51I 6384 6499 d 0.65 CC MER70I 4474 4638 MER57I 6517 6678 d 0.65 CC Its env-encoding DNA portion (position 4180-4780) is similar CC to env-like portions of MER57I and MER51I that belong to the CC MER4I-group of retroviruses related to ERV1 class. XX SQ Sequence 5023 BP; 1261 A; 1259 C; 1377 G; 1126 T; 0 other; aaattggcgc agcgagcagg gtccggtctg acagaaccat ggcttattgg cgaagcggga 60 ggggcgatac cccccagtac ccggcccagg gcggagacat cagcctgggg gtgcaggggc 120 tggacatgca gctggatgtt ttatggggaa ggaggggtga taagtgggac atagtctccc 180 cacctccccc gcagatgtga gtgagctggc tgcatggact gaggcagaga gaaaggaatg 240 tggaaacagg agagagcagc gcacgatccc ctggttgttg ggcacttatg tgatcgctca 300 ttcctggggc cggagagctc gggaagtggg tactcagatg gaccctgagg cacctgagag 360 ggaattagaa agaggtcctc agatggtccc tgaggcatct gagagggaac caacacgtac 420 aatgcgggcc ttcacagaaa gggagactca ctatctaaag gacagatatg gagaaaggcc 480 agggaagtct tatgcagcct ggttggtgtg tttgtttgat aaagggacat tgcagatcca 540 aatgtctcag gctgaatggc gcagttagga atggggccaa ggtctccggg tccccaccgg 600 aggccagtgg ccctatactc ctgtcaagat aaaaggagaa aagaaaggaa ttcagacttt 660 tctggggttc ttggatactg gagcccacat gacaatattt ccaggtcccc ttaggggaaa 720 aattaaactg atgacatcgg gaggtttggg gacaaacatg gtgacccatg gtgcttattt 780 gcttatggtg cttatctgct tgtgggtggg gccctttggg ccatttcggg tgccagtgac 840 catggttccc accgctgagt gcattatagg cattgacatt ttggctgctt gtggcacaga 900 acatcaccgc tgcctgaggg ggtatgcccc ctcacagcta agaattcgag ccataacagt 960 ggggcatatc cactcctgcc tgccacctaa gctacccaag tcccaatggg ttattcaaca 1020 aaagcagtac tgcatactaa gtggagaaaa ggacattact ttgttaattc aggacttgct 1080 acagataaaa atgttacaaa ccaccctgtc acaatgtaac agcccagttt ggctggtcaa 1140 aaaggccttc ggggcatgga gactaacaat ggactgtcgc aggctgaatg ctgtagtaga 1200 cctattgaca ctcgtggccc agatatcacc acagtaattg aacacatcat ggaggcttcc 1260 aaccaatggt atgatgcagt tattgatctg gctaatggat tcttctcaat ccctttgagg 1320 gataagggca gagatcaatt tgtattcaca tggcaaagta tacaatatac atttacagtg 1380 ctgccacagg agtatttgaa ctcacctgcc atatgccacc agtgggtagg atgggatttc 1440 gccactgtgc ttttgcctaa agtggtcatg tgcattcatt acataggtga catccttatt 1500 gtggcccttg atgatccgat cacacaagag gccttggact tgatggtcac agggacgtga 1560 caagcagact gggaagttaa ccctaacagt cctgggatca gccaaactgg tgaccttttt 1620 caaggccact tgggcgggaa gccaaagaag tatcccagat acagtcaagc aaaaattgtt 1680 ggccctggcg gcatccacta ataaaaagga ggcccaacag ctggtaggcc tctttgggta 1740 ctggagacag catatacctc acctgggtgt tcttttggcc cccttagtca aggtgaccaa 1800 caaagccgcc aactttgaat ggggcccttt gcaacagcag gccttggaag ccattcaaca 1860 agtcgtggcc caggcactgc ctttaaaacc tttacagcct gctagcccga tggaattaca 1920 ggtgtccgca acctccatgc atgctgattg gagtctgtgg caacagaaaa ctgccactgg 1980 ggtgcaccag cctctcagat tttggacaca taagttgcct gaggcagcca ccagatatac 2040 ctcttttgaa tggcaactcc ttgcttgcta ttgggcactg gtggagactg agcatcttac 2100 ggccggagcg ccacgtgtga cgctgcaacc tgaactgccc attctcactt gggtgcttac 2160 aaaccccacc agtaaaattg gacaggctca acagagctca attatcaaat ggaaatggta 2220 cattcaagat cgggcccagc caggacccca agggaccagc gggctccatg aacaaatggc 2280 tagcttacca gaagggacca agcgacccgt aggggatgct ttggctcctc ctgtggctac 2340 ctggggccca agattcagag acatgcctac cgacggtatg gcatggggtt tactgacggc 2400 tctgcgaaac aacaagccag tgggtccact gggctgtggc caccatccag ccagtggatg 2460 gccatctttt gactgagact ggacatggac gttctgccca atgggccaaa ctacatgcag 2520 tggtgatggc catgcaggcc gcccctacca ccatatcttg ctacattttc actgactcat 2580 gggccattgc caacagccta gccatctggt caggagaatg gcaactgagt gactggacta 2640 ttaaaggatc ccctgtgtgg ggacaaggac tatggcaaca gcttgctgcc tggaagggac 2700 aaatatatgt cactcatgtg gatgctggga ctaccatggc cacccttgag aggaatttat 2760 gtcatgtttt tggatacccc atgggacttc actctgacca aggaacatcc ttcactgccc 2820 aagcaacatg acaatgggca cactctcatg gaacacgatg gactttccat gcaccctgtc 2880 atccacaggc caatggagct attgaacgat ggaacagccg actcacacag caactgaaga 2940 aaggacatca agacggcctg ctagtggggt ggtaccccca tctgactagg gcaatatgga 3000 cactaaacac tgcactccaa tgcaagggaa acacggcact gcagcgcatg ttgagaaaca 3060 ctgagcttgg tgggggtgga ggtggaccag gcagccgcct gattaggctg cgcctgcgaa 3120 atcccaatct cagtgttccc aaccattctt tttccttttt ccctttacag tgcacgtcct 3180 gggggtggtt tgcggttcag gccgccatag taccccagac agggcccccc gactctaatc 3240 tggaggcgat gcttcccctg ggtgcctccc ttctatggga tcccacagga gtgggggacg 3300 ggaccaagga ataccagggt gctagggtcc ctctagtggc gccggggaca tctgatcctt 3360 ccagtcgggt gggtgatgtt atcagacatg tcaagtttgt acaggacgtg acctcccttc 3420 ctggactgga cgactgaggc tgaaaggtct gggtcaagca acaagggcaa tggtgcccac 3480 agaggtagta gcctcaggac agggacagac agactgggtc gctacaccaa ctcagcccaa 3540 cccctatctg ataggtaggg aacacctgag accctggaag ggatgggggt ggggcactaa 3600 cctgtcagtc tgctttttcc acaaggacgt ggcagcagag gcctggaagc ataacgcctt 3660 tgttaggctc ttccaagctg tggccaccgc gggtaacctg acaaaatgct ggatctgcca 3720 tcccggacct cattctgtca cagaccagag ggaccctctc atcctgccag tggtaaacta 3780 caccagcatt cctaatgcca cagtgtacac caacagaacc cgagccctgg cttaccgagt 3840 gaggatctgg cacctgccac atgggaggga accggaggtg ccctgtttta acttaactga 3900 cttaaggtgg caaaatgtca cgaccacaac taacaaaacc ttggtgggct ggtactttga 3960 cgcaccacac tcctttgatt acatggacga gaagtgtccc agtggcgacg acgaaaacaa 4020 ggaccggact attgctagcc ctctgtgtag gggcttcatg aacaatattg tatggggaaa 4080 actgagctca tgcaactatg ccatcaatga gacttggctg gtgaatgcca atgcctccat 4140 acccatgaat gggtcactga acaataaaat gggaaagggt gtgctgtgtg cacccgaggg 4200 ctacatcttt ctctgtgggc ggtccgggag tgacccaaat acgggatggg caatgtcatg 4260 cctggaaagc tggcggatgg tgggatcctg cacgttgggc gtgctggggg tgcccctgga 4320 tatcacccct gggaatgaga tgcaccattg ggccagcagc ctaaagctgt acaccaggct 4380 tactagggac ctgccaggag gtgtaactga ctctgggttt atgtccttta tgagatcttt 4440 ggtaccatac ataggagtca gtgctcatga aaaaatgata agaaacctgt ccctgaccat 4500 ggcagatatt gcttcctcca ctgccactgc cttggcagcc cagcagacat ccctcaactc 4560 ccttgggaag gttgttttag acaacagaat tgctctagac tttcttttag cccaactggg 4620 aggagtgtat gcaattgcca acacctcctg ctgtacctgg ataaacacct caggtatcgt 4680 agaaacacaa gtagaggaga tccggaagca ggttcactgg ctgcagacag tggggccacc 4740 tgaaggatcc ttctttgacc tctttagcaa cttcttacct ggatcactgg gatcctgggc 4800 taggtcactg ctccaggcag gcctgatcat cctgcttgtg gtagtagtcc tcctgggccc 4860 agtgaaatgt attctggcta tggctcaatg atgttgcact gagattgtgt cagtcaaggt 4920 gctacatcaa tctgacaaga caaacctctg cctccagatc cggggaggtc ggtgggcata 4980 tgaaatggac tagctttgct aagggggata tctgggttgg ggg 5023 // ID LTR1C2 repbase; DNA; HUM; 783 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR1C2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-783 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 938-938 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 783 BP; 181 A; 248 C; 209 G; 144 T; 1 other; tgatacagaa gggctgggct cccggctaaa ccccaccctt aagcctggaa ccgcggccct 60 aagtgaaaac agccgacccc gtttttccgc ccaaatgttg ccttttccaa aaccacctgg 120 cctgccacgc ccctatcctg tgcccataaa aagacttcag ctggcagagc aacacaagcg 180 gctgagtggt agggatacaa gcagctgagc agcagggata caagcggttg agtggcaagc 240 agagaagcaa ctgagcttca gagactacgg atagacgcgg ctaacttcag acggtgcagc 300 ttcggagagg agttcggccg gggacggccg gacttcaggg aaagatcacc ttcttcccac 360 accatcccct ttccagctcc ccatcccgct gagagccact tccatcgctc aataaaatcc 420 tccgcataca ccacccttca atccgttcrt gtgacctgat tcttcctgga cgccggacaa 480 gaacccgggt gctgagaggg caggaggctg tcaccctcca ctgagctgtt taacacttga 540 gccgtccacg gatggcaaag ctaaaagagc actggttgga cactgctgcg gggcccgcac 600 agagcctgct cccgccagag aggagtgacc ggccggttcc agcgttcatt cgctctggtt 660 cctgcactcg ctcgctcgcg tgctccctct cgcaagggga ttgagcactg ggaggctgag 720 tgaaacgagc cacaccccta ttcccagtcc cgagaagggg gtcaagggaa ctatcccgtc 780 tca 783 // ID Tigger12 repbase; DNA; HUM; 1959 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE Mariner/Tc1 DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; KW TcMar-Tigger; Tigger12. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1959 RA Smit A.F.; RT "Tigger12 - Mariner/Tc1 DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 32% subst in dog-human Incomplete consensus (estimated 900 bp CC deletion at string of Ns in consensus), but too few copies have CC no internal deletions to make a consensus for the remainder CC (yet). ORF from 282- encodes a transposase 59% identical (75% CC similar) to that of Tigger7. XX SQ Sequence 1959 BP; 528 A; 396 C; 459 G; 532 T; 44 other; cagtagaccc ttggcattcg cggatttaac attcgcggtt tcgactattc gcgagcgacc 60 ccgaaggtcc atgacatgta gtaatttgta attttgctga ggcacgaatt tgaatcgcat 120 gcgctgcgag gctggtgtgc aggagcgagt cacttagcta gtgagtgagc ctagccgacc 180 gcccagcatc cgcatctcaa cgcggctttg ttgttctcta ctcatcgtcg catatgcagt 240 aactctcgtg aagtgataaa aactttgttt ctttgtgaaa aatggccccg aaaagaaagc 300 caactgctag tgctggtgat ggaagtgaag agaaagtgaa gaagtctaag aaagtgatgg 360 ttcttagcca gaaaatagaa gttttggata aattaaagag tggaatgtcg aattcggcgg 420 tggctcagat ctatgatgtg aatgagtcca ccatatgctc tatacggaaa caagaaaaag 480 cgattcgtga aactgtttca gcgagtgctc cagccagtgc aaaaattgct catcaagtga 540 gagataaaac tttagtgaaa gttgaaaagg cggttaactt gtggtgtgag gatatgcaca 600 ggaaacacgt gactctcgac ggaaatgtga ttcaggagaa agccaggagc ctgtacaaac 660 atttccatga agcaacaggt ggtgaaggca ccagtgcggc tactgaaccg acctttacca 720 tgagtaaagg ttggttcgag aattttaaga agcgtttttc tttgcataat gtgaagttaa 780 caggagaggc ggcatcagct gaccatgttg ccgcagaagc atttcctccc gagctgaaga 840 agctcataga ggagaagggt tataggccag aacaagtgtt caacgcagac gaaaccggcc 900 tatattggaa gaaaatgcct tcgcgaacat acatatccaa ggaggagaag cgagcatcag 960 ggtttaaggc ggccaaggac agactgactc ttctactttg tggcaatgcg gcaggcttta 1020 tgattaagcc aggcttgctc taccattctg cgaaccccag ggcattaagg ggcaagaata 1080 agaacctctt gcccgtatat tggcagtcca ataaaaaggc ttgggtcatg gcacaactct 1140 ttttggactg gtttcataag tgctttgtgc tagaagtgga gaaatatctt gcttcncaga 1200 atcttgaatt taaggttctg ctcatcatag acantgcacc gggtcatcca caaaatctga 1260 canttntatg ctgatctnaa tgttgangtg gtgttccttn ttccctaata ccatcacact 1320 ccttcagcct ttcaactgag agtgtaatac ataaattcat ggnatatgan atcgacatat 1380 attcgaccgn ctcgcagaat gaaatggaca aggatctcnn nnnnnnnnnn nnnnnnnncc 1440 tggtgctccc tcncncctnn cattcttncn cagtngtctc ctntatcttc cctnccattc 1500 gtcncccgtc tcttctgacn ttgatgccga cggcccncca gaangtcagg aggaccttgc 1560 tgagctgctg taacctgact tcatcctgct gtgcggtaca tttcatcatc gtcttcatcc 1620 atanagcaca tgtgctacac agcagcagtc atcatcattc atcatcatcg ctttggtttt 1680 gcagattcag gtaagttcat ggttaatgtt actacagtaa tgatgtaatg taatgtagtg 1740 tagagtttat tttagtggca gaatttattt taatagcttt ataaatgact ttagtcctgt 1800 atttatagaa tcattaaggg tctgaagggg tcacttaaat ttttcagtta tactttactg 1860 cattttatgg gggaaattat atgctatagt ggtattcgcg aatttgggga ttcgcgaagg 1920 tctcgggacg tatccctcgc gaatgtcaag ggtctactg 1959 // ID MamSINE1 repbase; DNA; HUM; 290 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.07, Created) DT 16-JUL-2008 (Rel. 13.07, Last updated, Version 1) XX DE tRNA from mammals. XX KW tRNA; Pseudogene; MamSINE1; SINE. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-290 RA Smit A.F.; RT "MamSINE1 - tRNA from mammals."; RL Direct Submission to Repbase Update (16-JUL-2008). XX DR [1] (Consensus) XX CC (tRNA-Ile) rnd-4_family-9836#SINE tRNA-Ile-ATT derived SINE. CC Perhaps a (CA)tail but hard to see anymore. 27/34% subst in CC dog-human, but many CpGs so substitution level overestimated. XX SQ Sequence 290 BP; 66 A; 77 C; 82 G; 63 T; 2 other; gtctgtggct ggttagctca gttggttaga gcacggtgct aatgaggcca aggtcacggg 60 ttcgatcccc gtgtgggcca gttagctttg ctctgttcca tggccacaga ctgcacccct 120 aaccccagcc agccgtctcg caaatgcgtg ctgttggtca caagggggac cggcagagag 180 tgtggatggn tcagcgcaaa tccatcmcca ctactggaaa aacaactcaa agcacatgtc 240 ctactgatag tgggtcagta gcgtcatctt cgtgtacgaa ggacagcaca 290 // ID LTR50 repbase; DNA; HUM; 795 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Putative long terminal repeat of an endogenous virus - a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; LTR50; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-795 RA Jurka J. and Naik A.; RT "LTR50."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC Distantly related to LTR41, LTR33 and partially to MLT2C2 and CC MLT2D. XX SQ Sequence 795 BP; 151 A; 244 C; 163 G; 231 T; 6 other; tgtgccagtt attaagctat tgtctctcag ctccaaaccc acccttctat actctgctct 60 gtgatgctgg ggctgggact cgactctgca aaccacattt ctgctttgcc agctggctct 120 ccctgttagg ctctgccaat agggggcgct agagggagac tgcaaggggc tggaggggag 180 gaagaaggga cttgctcctt cctgtctgct gctgtttcct gtctgcttcc tgttcctgtc 240 agcatcaccc cagcaatgct tcttcaccct ggcagcagtt gcttccagtt gattccagca 300 gcagcagttg attccagttt gcrsagttcc agtttccaac antttytccc aacactccca 360 gaaccagcct cattgtaccc cctcctcctc ctcagagaca ccagcaccag ctgggcagtg 420 ccccctcctc agaggtctga gtcccagctc catggggccc ctcctctgag ctcagagaca 480 ccagcaccag ctaggcagtg ccccctcctc agaggtctga gktcccagct ccatggggcc 540 cctcctctaa gcttctaagt tttaataatt ccaacctctt cccttttgtt cccccagccc 600 tagggggtgg tggtagctgc ttcctgcagt tactacctct gtgatacctt agtgttctct 660 ttttgccttt tcagttctct aatamacaac tttataccta gttaacctaa gttaacaatt 720 ctttatatta aattctctct gttaaaataa ctggtgtggt ttctgtcttc tcctgactgg 780 accctgactg ataca 795 // ID MIR repbase; DNA; HUM; 260 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 13-JAN-2009 (Rel. 2.03, Last updated, Version 3) XX DE Mammalian-wide interspersed repeat (MIR) - a consensus. XX KW SINE; Non-LTR Retrotransposon; Transposable Element; MIR; KW Repetitive DNA; MIR1; MER24; MB1. XX NM MIR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RA Degen J.S. and Davie W.E.; RT "Nucleotide sequence for human prothrombin."; RL Biochemistry 26, 6165-61677 (1987). XX RN [2] RA Donehower A.L., Slagle L.B., Wilde M., Darlington G. RA and Butel S.J.; RT "Identification of a conserved sequence in the noncoding regions RT of many human genes."; RL Nucl. Acids Res 17, 699-710 (1989). XX RN [3] RA Jurka J., Zietkiewicz E. and Labuda D.; RT "Ubiquitous mammalian interspersed repeats (MIRs) are molecular RT fossils from the Mesozoic era."; RL Nucleic Acids Res 23, 170-175 (1995). XX RN [4] RA Smit A.F. and Riggs D.A.; RT "MIRs are classic, tRNA-derived SINEs that amplified before the RT mammalian radiation."; RL Nucleic Acids Res 23(1), 98-102 (1995). XX DR [4] (Consensus) XX SQ Sequence 260 BP; 70 A; 53 C; 62 G; 75 T; 0 other; acagtatagc atagtggtta agagcacgga ctctggagcc agactgcctg ggttcgaatc 60 ccggctctgc cacttactag ctgtgtgacc ttgggcaagt tacttaacct ctctgtgcct 120 cagtttcctc atctgtaaaa tggggataat aatagtacct acctcatagg gttgttgtga 180 ggattaaatg agttaataca tgtaaagcgc ttagaacagt gcctggcaca tagtaagcgc 240 tcaataaatg ttggttatta 260 // ID L1ME3A repbase; DNA; HUM; 1156 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JAN-2007 (Rel. 3.09, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1ME3A) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW Repetitive sequence; L1 (LINE) family; L1M4; L1ME3A subfamily; KW L1ME3A. XX NM L1ME3A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-917 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-917 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX RN [3] RP 1..917 918..1156 RA Jurka J.; RT "Extension of the 3'-end."; RL Direct Submission to Repbase Update (24-JAN-2007). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 24%. XX SQ Sequence 1156 BP; 450 A; 198 C; 229 G; 268 T; 11 other; cttgtatcca gaatatataa agaacgccta caactcaaca ataaaaaaac aaacaaccta 60 attaaaaaat gggcaaaaga cttgaatagg catttcacca aagaagatat acagatggcc 120 aataagcaca tgaaaagatg ctcaacatca ttagtcatca gggaaatgca aattaaaacc 180 acaatgagat accacttcac acccactaga atggctaaaa ttaaaaagac cgacaayaac 240 aagtaytggc gaggatgtgg agcaaccgaa actctcatac attgctggtg ggagtgtaaa 300 ttggtacaac cactttggaa aattgttwgg cagtatctac taaagctgaa catacgcata 360 ccctatgacc cagcaattcc actcctaggt atatncccaa gagaaatgcg tacatatgtt 420 caccaaaaga catgtacaag aatgttcata gcagcactgt tcgtaatagc ccmaaactgg 480 aaacnaccca aatgcccatc aacagtagaa tggataaata aattgtggta tattcataca 540 atggaatact acgcagcaat gagaatgaac gaactacagc tacacacaac aacatggatg 600 aatctcacaa acataatgtt gagcgaaaga agccagacac aaaagagtac atactgtatg 660 attccattta tataaagttc aaaaacaggc aaaactaatc tatgstgtta gaagtcagga 720 tagtggttac ccttgggaag gggtagtgac tagaagggag cacatgaggg gctttctggg 780 gtgctggtaa tgttctgttt cttgatctgg gtgctggtta cacgggtgtg ttcastttgt 840 gaaaattcat cgagctgtac acttatgatw tgtgcacttt tctgtatgta tgttatactt 900 caataaaaag ttaaaaagca aacaataaat attttgcaaa tacatataca aacaaaaaga 960 tatacatcaa acacaataaa gtagttgcct atggggagga ggraaatggg aaagtggaat 1020 gggagataaa agaaaaaata aatagaagaa gagaagagct tggtgcattg gcttggacca 1080 rtgataataa tgtgccatga actgaggagt atgattaact caactctctg caccgaagtt 1140 caaaaagaaa aaagaa 1156 // ID MER110I repbase; DNA; HUM; 4728 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Internal sequence of retrovirus-like element MER110I - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 class; KW Internal sequence of retrovirus-like element; MER110I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-4728 RA Smit A.F.; RT "MER110I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of a retrovirus-like element with MER110 or CC MER110A LTRs. May miss a large fragment towards the 5' end. CC Best matches are to MER89-int, and more distantly to the class I CC elements HERV30 and HERV17. Average divergence from consensus CC >20%. XX SQ Sequence 4728 BP; 1384 A; 1016 C; 865 G; 1287 T; 176 other; attttggagg cccatnaaaa tccattcgaa acctcctcac taccacaggc cgagatccta 60 tcttaaccat aattctccan aagcttgcac taaacacact gctngaacga gacgctgaag 120 aaacgctgaa accaatcntt cagggctttt ataganaaag gantcatnat accctgcacc 180 agtccttgca atacnccnat cctcccagtn aaaaagccaa taggaaagga tatagatttg 240 tnaagacctc agggccataa ataaaatagt nattcctaga caccctgcgt tgtncctaca 300 ataccatttt actgttagcc tcctgncact gcaagccact tatacagttg tagatctgtg 360 ttntgcattt tttagcgtnc ttatagatna aaatagtcag tatttttttg ctttctcttg 420 ggaaaattan caatacacnt ggacagtcgt tatccccagg gntacgctga aagcnctact 480 nacttttatc aaatnctnaa ngcagaatta cgangacatt gaatttccaa attctactgt 540 agtctactct tatncagtat gtggatgatt tattgttgtg ttcccaaaga tggggtgagc 600 gctaagacgg acttcatcta tctantnact gttttagctc agnaagggca caggtttcca 660 aanacagagt nttgcctttg tagaagtaat gtccagtcct cggacatnac ttacctcggn 720 gagataaatc cgttactcnt gaccgaccac aggccgctca aaagtttncc gggccagtag 780 ttaagagaca antaaganga ttcccgagtc cgctgccccn aatgcaatgn gttctcagct 840 tttctgaant tgccannccn ctatatgacn nagctctcaa gtnccaagcn ncttccctgg 900 gacactgaac atgagcagac cctttgngga ttatcagcac tccttaacgg cctcccaccc 960 tggaatatct aattttcata aaactttata ctcatttgtn cntgagagat ntggacaagc 1020 ccctggtgnt ctgacaagag cctacccgcc ttgtaaaggc agcagctaac atggacatct 1080 ccaacttggt cttagggcct cttaagtcat ggccctcatc cctacagtct ctgccgctca 1140 ctgaaaatac agcttctcag caggaagctt gcttgtgaac cattttctaa tattccccgt 1200 ccataccgta gtactttaag tcctgcactt ctcattaccc gaaagaagaa actcgtctaa 1260 cctctgcccg caagctctct atgccccgag tgggtttatt agaaantctt taggagtccn 1320 gacttaatcn tatttgctga tgggtcatat cttaacagtg atatcgcagc taaattgaac 1380 gtaagaatan nacccctcac cggaagcaaa atctgtccag attgaagaac tnattgcatg 1440 cgccagagtc taccagttgc tagagatgaa aggataattt acactgaaat ggagatntac 1500 attttggaag gtagtcatgt ttggtaatgt tttgaaacaa gagttnttaa ccgcaacgag 1560 aactccaaag attggtcanc agaattaaag aactttcgat gctctaatgt ttctgaggag 1620 atacttaaaa gtaggagctc aaacaaangc gnataacatg gaggttnaag taaancccta 1680 cggctgntca cnntgcagac natcagnant cacnaagatc ctngccctna tgacantcca 1740 aagantctcc agaaanattc gaagaggcct tttaaatgtc agnnatcggc tccagantca 1800 gaaaagtagt actaggagaa aanatccgga tgtaaattgc atgaggataa tctctgatgc 1860 tctcaggatg nctgntagca ccggagaatt ttaaatggaa actttcataa aattttacat 1920 gaaattacca cnacagcaag gacaaattag caagtacana ttagccacta nattantggg 1980 gaaaatttca ccgaaattct gaggatatct ntggtgcatg tcttacctgc caccagcata 2040 atcctggcaa aactataaag gtnggacatg aacaagagcc naaatagaat ccctcngaat 2100 atctccaaat ggntttcata natctctcct gcaatngatt ttaaatatgt tctgtnatta 2160 tttgcttatt cttgggatgg gttgaagcnt ttccttgccg gagagctatg gctctaatag 2220 tagcagaaaa tnttgcttga ttttgtgttc ccaacttggg gaattcctga actattgctn 2280 cagtaacagn ggnacccatt ttactgggac tgttattnaa nagntttgca aagccttgcc 2340 gcttactcag aaactttact gtccatacca tcccaatctc nagaaangaa gaaagaacaa 2400 atggaattct gaagctnaaa ttagcaaagc tctcagagac tcttaagctt ccatggccta 2460 aggtattncc attggcttta atgacaatga gatcaactcc ttctgggatt cactgactct 2520 ccccttatga attagtanca ggccgnccca tgnatctaga aatatcatct ctgattctag 2580 attncgtnct attacaagca gacatggcca aatactgcaa gngactcatg caatacaccc 2640 agtctnatca tcaacaggta tgagcagcct ttcctcaaca tcctcctaaa caacncttgc 2700 atgacctaaa acntggagat attctctaaa agacatctga gaaagacggc ccttgaaccc 2760 cgatggaaan gaccccatca ggtactgtta actaacacag cggtaaaact tcaaggantt 2820 gatccttgga tcacatgtct cnctagcaaa agacataaca tccttgaatc actggaaanc 2880 cgttccnact ggagacctca agctgaggat tttaggaatc ctccagaagc ggacagtctt 2940 cggaagagac agcttccgcc aaaatctttg gancaagtag acaactgcat gaagtagaat 3000 tccacccaan gcccacagaa cannatccag ataactagag tcacagattt catgtttcaa 3060 tctgcattct ttgttcttta ttttcctagt atttcttttc tctttctgct taaggttctg 3120 gttattaagg tttaccttta gttatgttac ttataaggcc cctattaata ttgcttttta 3180 catccttagt cactccttgg tatgagttca ataccggana atttattatt aacagctagc 3240 aaaatatata ancaancnaa ccgtttttgc gtncattttc ctttgggagc cacncagctt 3300 cccttggtac cagtcctttt aataaatcat ttggtttcct gggtaattga actcaactan 3360 tagaagcatt ttttagatga aaaccaccaa caggccagag agccagaaat ctaaaacccc 3420 ctntcangtt gtatttataa agggaggttc ctgtctccac agaaacactt ngagnacctt 3480 tcgtgggagc tngcttttgt aacngaactt tcacagaaat agaatttgna agagaactag 3540 ggaacagatg gtatatattt ggaggctgtc tcactttcac agatcttaca agtaagacac 3600 actacttcac ttttgcttta gatctaccta atgatctcna tactacaaat ttcactgcct 3660 gacaccggac cattcttgac gagtggtgcc aaaacgttac aatacaatat ttcaatccca 3720 tggggntgtt ttggccgaaa acagatnatt ggtggccccc aatgactggt attggatttg 3780 nggcacaaaa gcctattggc tactacctgc aaactggaca ggancttgtt accttngtaa 3840 actgatgcct gtcttcagga tagtccctga ttatccagga tccattttng acccatcagt 3900 ttnccctcta ngaaaaagag gtcttagata cagattttaa gaagaaaaac cgggcatgac 3960 ctgntttgag aactaaaact taantactna aggggaattt tggattttct ttctcctagc 4020 ccttcacttt atacttttct aaaagtcnaa aagtagggaa atcctggatg ctataattca 4080 gagaatgcaa aanagctaga caatgtcacc anggcatagn actcctcgct taaaggagtt 4140 catgaaatcg ggcaggtggt ggttcagaac agagccgctt tagatataat attgacctct 4200 tgaggggaan nngtgctgtc ttaggggaag aatgttgtgc ttacatctct gcagacctct 4260 ctnaggtttt taatattaca aaaagactag agagcaaaca aagaaacata aaattagata 4320 atttggttaa taccccatat ctggttncgt nngctcttca gattggggat gggatctatt 4380 ctcttggttt aatntgngca ctcttggntc ctggctnaga agtggactat aaactctgat 4440 nataatcctt ctcatagtat tttctgcgtt acagcgttca gatgtgtgat cnccaggttt 4500 taagtgctgc tgcncagccn ctgtcagtca tcaaccagga tccaacaaat gatcatccaa 4560 caaaaagaac agaaaacctg cacattgtag aggttggaac aactaccacc agaaactcca 4620 cacgtgacca cgacatgtta aacagnagtg aagatctgaa ttgatcatgt ccccagacga 4680 caatggtctn tccttcagnt cgggntgaag aatgaccaaa ggagaaat 4728 // ID ALRa_ repbase; DNA; HUM; 172 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE SAT Satellite from primates. XX KW SAT; Satellite; Simple Repeat; Centromeric; ALRa_. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-172 RA Smit A.F.; RT "ALRa_ - SAT Satellite from primates."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX SQ Sequence 172 BP; 53 A; 29 C; 39 G; 51 T; 0 other; ttgtagaatc tgcgaaggga catttgggag ctcattgagg cctatggtga aaaagcgaat 60 atccccagat aaaaactaga aagaagctat ctgagaaact gctttgtgat gtgtgcattc 120 atctcacaga gttaaacctt tcttttgatt cagcagtttg gaaacactgt tt 172 // ID LTR16 repbase; DNA; HUM; 438 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 17-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR16. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-438 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 940-940 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 438 BP; 85 A; 144 C; 103 G; 104 T; 2 other; tgtagtggat gctgtggtgt gccacccaga tyatcccccc cttcaggact gaggcactca 60 ttcccccagc tgctgggagt gttggctgct gatagctctc agctgagttc ctctccagga 120 attgcccttg gctgaaggaa gctgccttgc ccaaggttac gcccccttcc caggggcagc 180 tcacatccaa tgactggtcg atgcaggggt acaaaggcct cagtcctcaa ttcaggacaa 240 ctctgaaggg ccatcccagc tccagagctc cccgtgggat cggctgaggc ytctgttgcg 300 actgcatcgc agttcaactt ctccctctgc ccaatcctgc ttccttcact ctctcacagg 360 tgttgatccc aagagcactc cccaataaac ttcctgcatg caaatctccg tctcagagtc 420 tgtttcccag ggaaccca 438 // ID HUERS-P3B repbase; DNA; HUM; 7418 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Primate HUERS-P3B repetitive element - a consensus. XX KW Endogenous Retrovirus; Transposable Element; Nonautonomous; KW HUERS-P3B; Nonautonomous retrovirus-like element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7418 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Genbank (APR-1998). XX DR [1] (Consensus) XX CC HUERS-P3B has LTR9B long terminal repeats. Bases 1-2100 are some CC 90% CC similar to the ENV region of HUERS-P3, bp 2200-5000 are ~90% CC similar to CC bp 1600-4500 of MER57I (interrupted by a LTR8 at 2643-3072), bp CC 5000-6650 CC are ~90% similar to bp 1600-3300 of MER61I, and bp 6650-end are CC some 85% CC similar to the end of HUERS-P3 again. Many shades exist with more CC or CC less sequence contribution from either the HERV or the MER4-group CC members. Generally the long terminal repeats of HUERS-P3 like CC sequences CC are LTR9, LTR9b or LTR25. XX SQ Sequence 7418 BP; 2121 A; 1469 C; 1562 G; 2175 T; 91 other; ttttggkgca tgggcgggaa aacsaaggta caacmttcat tggagtggtg agtatggagt 60 ggacctcaaa atctgtcctt tcatttcgag gctctcagcc tccattttaa aactaaatca 120 aacgggcgtc cttcagcctt ataaatatga ttagcattgg ctnccgttct aaagactcgg 180 atgtcaggct tgctggggag aacatggaga atcccccant actcacgggt tattgggnat 240 nttggccatg tttgaacnag cttcgtttca tagagaacct agccatcatg tgaggctggn 300 agaagtcctg gggcaactga gaatttccgg ccggggcaca ccctggcgtk attcaagggc 360 ctctggaccg acgcagcctc cgacagccgg gtgttagcaa aggatccnca gctatcctgt 420 cgccaaattt tcctcctttc tctatccatg gtctcttacc tctctctgtg tgttcaatgt 480 gcaggaatct ttacagttca gggaaaacag kcctgttwga maagatcagt gaatcacggc 540 agccagggat ataactcaaa gggaaggcat ctttgtgatt ttctaggaac agaacccccc 600 aacccttcca cagtaagcgt ttctcttggc ccttggtctg gagagcacat ggcatttcca 660 tgtcactctc tgcccttggt ctggagagca catggcagtt ccaggtctct ctccccttgg 720 tctggagagt acatggcagt tccaggtctc tctctgccct tggtctggcg agcacgtggt 780 atttctaagc cacctagtag gaataaggat cctctccatg aggcacattg ccggtcctct 840 acggaacact ncagcttcca attttccctt tttgcgctct tttactgcta cttctgtgaa 900 cgggaagact ctgctttcaa caattaggag taaaatgtcc tccgaagccg aattttagtc 960 tcgatactgt cccatcagca ggaaaacggc cattcggtcc ctacgttctt ttaaggcacc 1020 tattctgtct ccaattagga tggtacttaa ttagtaaggg gawttttaag tccggaagtt 1080 aaccggaacc attcttctat gggtaaatgc tttagcatag gccataatag caggatacag 1140 agttcaatct agcacgcccc ctcccttaaa ggggncttgc ccaattacat ggtttttctt 1200 gaaatccgtn ttttggaagg cacacaggcc acacaagtct agaaggtcaa agggaaataa 1260 aaggcagagg actagactgc ttggggamag cgtgactaag gaactnagtt cctctggtgc 1320 cacggcttgg agggtcacac ctgcagtcac gggtggcaca tttaannagg tgccgggaat 1380 ccggaancaa cagagagaaa atagttgggg ggacgccccc tactgttttc gtctccaccc 1440 tggatcacat accgaaagga aggagactaa aagnacgctt ttattctcac ttctctttct 1500 agatgggtan cagatcgtct tcaacgtgca ctcccctgga gtntattttg aagcactggg 1560 actccttcga ccctgaaact ttgaagaaaa agtggcttat tttcttttgc acaagggcat 1620 ggccttttta ctagaccttt gcaacattgc aaaatcaacc cagctctttt agcaatcata 1680 tcaggcaggc ccanggagaa tgattcccca aaattagaga agcaactttc aggggaanca 1740 tctgaggatt cctcttattt ggggcccctt caagttccct tctcattaca ggaccttagg 1800 caagtaaagg gagacttagg ccaattttct aacgaccctg ataggtatac agaagctttc 1860 caaaatttaa ctcaggtatt tgacctctca tggagggatg ttatgctgct gctaagccaa 1920 accctaactg cggctgaaaa acaggcagct ctgcaggcag magaaaattt tggagatgag 1980 caatatgtct cctatagtag gcmaaaaggg aaaagagaaa atagggaagg cgaagaaata 2040 ggggaaacam cattgccaat aggaagggag gcaatacttc ttgacaaccc taattggaac 2100 tccagamttt tctatggtgt ttttccttct ttcacggttt aaaatggctt ctatcttctt 2160 ttataatgtt cttccaacct gggaaaagtt aattttccaa accttaaaat gcttggctta 2220 gagttgagct agggggaagg gaacccagaa gcctgacatg ctggcaaaag ggtaaacatt 2280 tcttaccagt cgggcttttg gcttctctct ccctgtgcaa accggtaaaa gggataataa 2340 ggatcattgt ttatattctc tgtaaakttt taattaatga aaaaggattt gtgaggttgg 2400 tcttaagctg tagmcaatct ggtgtgcttt gcgtgtcttt ctgtatggtt ctgtcaaaag 2460 aaagggtacc ttaggttagg atgcaggccc aggaccccat aagcctgctg ttcaagccag 2520 cccaacaaaa tggtcagtaa caaacttggc tacaggcctc catcttgttt catgtccttg 2580 ggaacatgac ctgtaaccac atggcaatac tttgttttag tctccgccat tttacaatgg 2640 tggctgtctt cttgtgctaa gtcagttcct gggtgagggc cacaaaatca gataagccag 2700 tttgtcaatc tgggtggtgc cagctgatcc atcaagggca gggtttacaa aatatcttaa 2760 gcactgatct tgagagcagt ttagggaggg tcaaaatctt gtagcctcca gctgtatgac 2820 tcctgagcca tggtttctaa tcttgtggct agtttcttgg tctggtcccc aggcaagagg 2880 gaagtatatc ttgggaaggg gctgttatca tctttgtttt ggactataga ctgtaaacca 2940 ggcccctccc aaagttggtt cagcctacac ccagggatgg gcaaggacag cttgggggct 3000 ggaaacaaaa tggagttgtt tgggtsggat ctctttcact gtctcagtca cagttttgca 3060 atgacagttt caaaagctgc ctatcacccc tttaaaaata ccttgtacac tcgtggttaa 3120 gtcataacct aattaaggct cgttggtttc acctgtgagg ttactttttg taaagttcaa 3180 aagccgaaaa tcttaactgc ttggcatggc taaagtcgag taacaaggga tttaaaagga 3240 ttttcttaaa gagcgctcag cttaattaaa agtggatatt caagttatag gtatatttaa 3300 aaggccttta tgtttttctc ttcttgaatc ttgcttttct ggaaaagggs ttttcttctc 3360 agtcgactga attattttct ccnttttttg tcttgccact cttaatgcat gcatgagagg 3420 ccctaagata acttctggta gcatgggact ccttgggaaa aacagaggag gcgccacaga 3480 ccccgttttg ggaaaaaacc cctgttttcc tcatgaaacc ccaggaatta aaagcagata 3540 gttccctctc aaaatcaaag gctctgttct gttttgcatt gtgttatctg acagttttga 3600 gttttggggg catcagaatt acttcacatt atgagagagc tttggtgtgt aataactagg 3660 taggaaatac actktaaggg atgsctaata gtagttataa atcagagaag catgctcttg 3720 gccacctgaa agatatggaa acatccccac cccccactga gagatgagac tmccatgggg 3780 gatgggctga ttacaaaata agccaattgg ctttgggttg ccttgcaatg aaatgcatgg 3840 tagaagcact acactgtctt ctcccatagt atctccctcc ttttggggat ctaaaatcta 3900 gtataaaaag gcacacttaa ttttgggatc tgcctttgcc ttcagctgtg cttgcttatt 3960 ttgccctaga aatgcatgcc ttcctggcac tgttcctcca agggctccac cctgaagcaa 4020 gtaatccaat taagaaattg gcaaatacaa aaatcgtaca agtgttgaat cttctgtttg 4080 tggtcgctat aaatgtgttg tgtgtaatgt ctataaaaag agctctaatt gattggctta 4140 aagaaaaata ggcacttaag tcaaatattt tttagttcat atgactttaa tctttaagaa 4200 acaaaaatag tcttaagggt tattggtaaa atgcaagtgt catcaaaatt caaataggtg 4260 gtctaaatca tacaacttag atactaggtt tgctaaatgt tccaaggttg tattactggt 4320 tgctttacag ataggtaagg ccttggacac gtagagttag atactagaaa gagtcaaacc 4380 ttatctgtac ttctatctgg gtcctaggtt ccacacctgg taaataatta caatcactta 4440 ctaaccaggt ttttcaccaa tgtaaaaatt gctaagagtt aacagcgcaa catgtatttg 4500 agatgactaa acagttttat ctgcaaagtg tataaaaaca gtaaagtatg tcttttagta 4560 aaagattaca agaaagcata gaaatgtaaa ttttgcctag ggataaggga ttatcttaaa 4620 tttgatatga taaaggtaaa ggtttaagta agttgtggaa gattgtaaaa attaatcttg 4680 caaaaaatgt gtaaacatta actaaattca aaatagtata tatggtcttt tcacaaattg 4740 agcattgaaa taaaagcaca gcaaggakgt cttaagacac taatctgccc tttagcaaaa 4800 gggttataaa aggtttgtaa agatttcacc tcatggtcaa attggttaag attagatgga 4860 atnatctata aggtttcatn aaaacgaact ggggttaaca ttaataaact aatgcaaggg 4920 aaaaatttgg ctttgaacag gattttcatg taatagtaaa ggctaatgaa aggtttttgc 4980 cttttgagtc atcattttgg caaaataagt aatttatggc aatctggaat tctattttgt 5040 aacatcaagt gttttaannc tctaacactt aacagncncc ccaaaatcna acttcaagtt 5100 tcaaaattgt ctttcctgat gcctggcttt ctggatggtt cagagggccc ctgaaacatt 5160 cagaaaagag gtaaacagga tcgtttgaca tgtttagtca catgagattg ccaaaatgat 5220 gtccaatctt ctttaagtta tattttggtg aataatacta atatatgttc caaaattgta 5280 tgggatttct aaaattctaa tgtctaagta tatgctatca atcataatta agggtaaagt 5340 tattgtaaac cacggagata actaaacttc tttntcagtc atgtttttaa ctgtaactac 5400 cctggaaatt ttgtcattcg cagacaattg ttgtcttgct ttgttccttc tcaaaagatg 5460 gtttataatc aagctatatt aaggacttta acaggtgttc tcaaatgcag gtttttaata 5520 gctttgaaga ttgtaacatt ggaatagaga aagaacgtac aggactcatg aagaactgam 5580 atgttcacaa atatcaagca aaacaagagt taactaagtg gactgcactc agaaagttaa 5640 agcaaccttt ttgacttttg cttggaatat tgctaatcct tgttttgttt ttcagagtca 5700 aggaaactta ttttgaacta tttacggcct ttaataattg agtaaggtat actcctgtga 5760 acaaaatttg gagcatgttt gtttttctct gcctggttcc tctagaatkt ggaaactatc 5820 tgtgagtact cttaacttat ggcaatatag ttgtttgcat cagtgcaata cgaatccatt 5880 tttctttkkc aacaggacac aattggaaaa actggttatt ttaccaaggc tttgactgga 5940 agggtgtgct tccctttaag gagtcaakct tgacatgcag agccaataaa agccccttgg 6000 ggagaactgg cctcatacct tgtctacaca gtccccacac agggttcctg acctgtggtc 6060 agtaaagaat gtcactttct aacaggtcca ggagctccaa gtttatcttg ggaccttaag 6120 aggagaggat cacccaactc acaggtattt gaggatacga acccatggct gggctcggct 6180 ttaaggggtc ttatctgaga ttccttgtgg aacagagttc catcaaagcc aatccaaaag 6240 gcctatgtag aaataaccat tcttgctgca ctttatgcaa ataatcaggc caagtataag 6300 actaaagttt attctacaaa caacacagtc ctatcataat ttgtttttac caaaaatgag 6360 aactggagag aaaaattatg ccccaaagct tatcatacat ttgtcattaa atcctagtct 6420 cattaattgt ttttaagctt tttgcctacg ttttagacta accctgctta ttcctgtgaa 6480 tcamgtggtg atcttctgca gcttggaaka aaagaawagg gatgggkaak gtaaaaatst 6540 gaatcaatat gctggttctg ggcaattatc ctgcaaattc tgccaggtaa twaaagtgag 6600 tgagtagggt gcccatagcc tggaggtttc tttgtttggg aaaataaaac magggaactt 6660 catagacccc caaaggggaa ttctaatatc ttggcaagta aaattttagg tggaaattac 6720 ctgccacacc acacttgtgg gaactgctgt mctcacccca ctatttkcaa tagsgttaca 6780 cacggtasca ccttmwagct gaaatattgg acagagagtt tccattgccg tagtattctg 6840 cttaattatt atccttatag cagggatagt agttactgac gaaaaggaag catgaaagtt 6900 ttactatcac cgagtctgcc aggacttttt actgggttta gtgatgcast tttaaatgaa 6960 acatgctgct tctggattaa mamctctast aaagtagagg aaaatctacg sgtacttaga 7020 gatsaaatca aaatcattga caggctcagg gaaaatgccg gcttcagccc cgggtggcta 7080 caatccctct ttaatgaatt ccwgtcttct ttatggaatt ggttaacccc tttattaagc 7140 mctstcttgc ttatmtgtct tgtattgata tttggaccct gtatactcaa tactgtaact 7200 caaattgttt cctctcgcct agaagcaatc aaactccaaa tggtgctgca aaccgaacca 7260 cacgccwttc ttccaaggac ccttagatcg acccaggagg agccctagct gctgttmccc 7320 acwcgatgsc ccctttcagc aggaagtagc cagaaagagt catcgcccaa wccccccaac 7380 agcagttagk gtkgmmwctc casagsgggg agtgwtgc 7418 // ID L1ME3E_3end repbase; DNA; HUM; 989 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from placental mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1ME3E_3end. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-989 RA Smit A.F.; RT "L1ME3E_3end - L1 Non-LTR Retrotransposon from placental RT mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 96% identical to L1ME3D_3end. XX SQ Sequence 989 BP; 380 A; 162 C; 204 G; 241 T; 2 other; ttagtatcca gaatatataa agaactccta caaatcgata agaaaaagac aaacaaccca 60 atagaaaaat gggcaaaaga catgaacagg catttcacag aagaggaaac acgaatggcc 120 aataaacata tgaaaagatg ctcaacctca ttagtaatca gggaaatgca aattaaaacc 180 acaatgagat accattttac acccaccaga ttggcaaaaa ttaaaagtct gacaatacca 240 agtgttggcg aggatgtgga gcaacgggaa ctcttatacg ctgctggtgg gagtgtaaat 300 tggtacaacc actttggaaa acaatttggc attatctagt aaagttgaag atgcgcatac 360 cctacgaccc agcaattcca ctcctaggta tataccctag agaaactctt gcacgtgtgc 420 accaggagac atgtacaaga atgttcatag cagcattgtt tgtaatagca aaaaactgga 480 aacaacccaa atgtccatcg acaggagaat ggataaataa attgtggtat attcatacaa 540 tggaatacta tacagcagtg aaaatgaatg aactacagct acacgcatca acatggatga 600 atctcagaaa cataatgttg agcgaaaaaa gcaagtcgca gaagaataca tacagtatga 660 ttccatttat ataaagttca aaaacangca aaactaaaca atatattgtt tagggataca 720 tacatacgtg gtaaaactat aaagaaaagc aagggaatga taaacacaaa attcaggata 780 gtggttacct ctgggggggg gagggaagag ggggatgcga tcggggaggg gcacacaggg 840 ggcttcaaag gtattggtaa tgttctattt cttaagctgg gtggtgggta cacgggtgtt 900 cgttttatta ttattcttta tatcttacat atacgttnta tatattcttt gtatgtatga 960 tatatttcac aattaaaaaa caattaaaa 989 // ID MamRep488 repbase; DNA; HUM; 219 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; MamRep488. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-219 RA Smit A.F.; RT "MamRep488 - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 8 bp TSA, but no consensus à la Charlie. 27% subst in dog-human. XX SQ Sequence 219 BP; 47 A; 75 C; 45 G; 52 T; 0 other; cagtggcggc gccaaggggt ggcttggggg ggctttagct ccccctccca taatctccat 60 cagccccccc ccattctttg atatggacaa ttgacgtttt ctcaatctta tgtaaagtgc 120 tatgcaaacg cagcttcaag acaagtcccc tagccccccc ttccaaccag attgccgccc 180 ctaagcccct cctatataga aattctggag ccgccactg 219 // ID MamGypLTR2 repbase; DNA; HUM; 1189 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 02-JUL-2009 (Rel. 14.08, Last updated, Version 2) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; MamGypLTR2_LTR; KW MamGypLTR2. XX NM MamGypLTR2_LTR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1189 RA Smit A.F.; RT "MamGypLTR2_LTR - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; 35% subst in dog-human (!); pos 125-1189 (end) 70-80% CC similar to GypLTR1c. No idea if this is the 5' end; 3' end much CC better represented. Intermediates between 2a and 2b/c noted. CC rnd-3_family-480. XX SQ Sequence 1189 BP; 288 A; 310 C; 376 G; 201 T; 14 other; tgtaatangg ataatatttt tgaaaatatt tcccaattat gttcccttat tggtaaaccg 60 gtttctctcc ccctgcacca tccaccatta tggccccagg gagggggcaa ggctgatgcc 120 accctaggaa gaaggaggat atgacgtagg ggaagtccnt gccaganagg aagaggaagt 180 ggaaagcccg ccccttctag ccccggngga ttgtgggaag aagagagagg cggaagtaga 240 gcaaggaggt cagacgccag ggtcctcgct tcctcccctc cctgggcccg aacccaggat 300 gggggggggn gctttagaaa catccagata ggtatggggg agcccgagaa catcggggct 360 agtggcncgc ttccccgggc atagcngggg gaggctgcag gcctctagga gaagccccgc 420 atttggctcg gcgccacgtc caacatggcg cgggagcgat ggtgcagcgn tggcggaggg 480 aggtggctag atagatgagc ctgaggcagc gctcctggct ccccatggcc tgcgtgtggc 540 atgcagggga tccagaagtt cccgcgtgcc ccggtgaggg gacgcggagg tgctgagagg 600 gccggtggac cagcagaggc ctggggtcag gacaaagagg ccgcngtgng cggggacttc 660 gagaccagag gcaaatggcc gggaccacgg actccagcgg tgggtgccag cacatcaccc 720 caaaaggcca gatgggacca gtcgcacctc agcggtcacc agtccaggga gcagaccaga 780 ccagccactc cgcagcagag accagcgagg atccagagga cnccgcatgg atccgaggnc 840 cccctctccc ctnccgccac gaggtcacat gagcccacac tcccccatac acccagatgc 900 catcttggag aggagcaggg ggaggaggag gaaatctgaa agactgagca tttacctgaa 960 agagactgag tcatccaaaa gagactaatt tacctaaaag agactgtttg aattactgga 1020 ctggactaag tttaccagac tggactaaaa tttagtcgtt ctcncgcccc tcgctaccca 1080 gcggggtggg ggctcgtgag gaagatcaga tcagttatag agaaataaag aagctacatt 1140 ttctttgcac atctgagtgt agtgtgagta aatttgcgac cccgctaca 1189 // ID LTR84b repbase; DNA; HUM; 761 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR84b_LTR; LTR84b. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-761 RA Smit A.F.; RT "LTR84b - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC Classification only on 5 bp TSDs. Orientation based on AATAAA at CC pos 622-627 which is conserved in the related but otherwise <60% CC similar LTR83 consensus. LTR84a consensus is 90% identical. 31% CC subst in dog-human; rnd-3_family-1285. XX SQ Sequence 761 BP; 193 A; 190 C; 189 G; 183 T; 6 other; tgttatggga gaccctcggg aaaatcccct acatggggcc tgagaccccc tgacaccgcc 60 atgtaatgat ttttccttct catgggaagc agatgggatt aacagactgt gactattgtc 120 tattgttctt aagcaaggta cgccaagatc tntgtgcccc ttcccagaag ataggctgca 180 tatctgcaac gagggaggag aacatgtaac gtctgcaaat cccctgctta aagnccctct 240 ttgtttagaa atcatgcttg cttgcttttt atgtttctat aaaaaaatta gggagaaact 300 tgtccctcag tgtcccaaat gaggtaaaag aaagttgtga ttggatgtca ccatgggccc 360 acaatttctg ccctgaggaa agtaataaaa ggggtcagaa catccccncc ccctcctgga 420 acagtcgccc ggtcgtgcct gcagaggctc ggctgcaggc tgcgggcaac ccctctgtcg 480 tccgccccca atcaccaagt gagccacgcc agctctgggg cccaggaccg ttcggacagt 540 tgaagaatcc caccttcagg cagagggcng gaagcagtgc gggtaatatc tggatattgc 600 ttggcattgc atttgatagg gaataaaggg agagtgaaac cctttgaccg gtctctgtct 660 cttggtgtcc tgnaatttcc atctcattgc gatcaaaaga atcaaagtac ggtctngccc 720 agagagggga ggcatcccta attttggcag accctaaaac a 761 // ID LTR45B repbase; DNA; HUM; 489 BP. XX AC . XX DT 10-AUG-1998 (Rel. 3.07, Created) DT 10-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE Putative LTR from retroposon related to the MER4I-group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW endogenous retroelement; LTR45B; MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-489 RA Naik A. and Jurka J.; RT "LTR45B."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX SQ Sequence 489 BP; 132 A; 132 C; 104 G; 115 T; 6 other; tgtgtaacca caccagacca atctggttca acttttatgt aacaaagttg tgagttgttt 60 ttcagttgcc atggaccccc aggttgaagg tcatgtaacc tgagcatgcc cagatgaacc 120 aagygtgcaa ccacaggggg aacctaagtg ctcagaccga ggagtgggga ctgaattaag 180 aagtggacac cacatggcag gatccaggat ccaatcagat tgagccctgg catcacccca 240 tggcaggatc caatcagatc atgcctccca gcatcaccct cattgcaaga tccaatcaga 300 tcacacctca ttaccctatg cctataaaac ctgccccaga ccccagctca gggagacaga 360 tttgagcatt tcctcctgtc tccttgctag tcgacnnact tgcaataaag cttttctttt 420 ctcaaaagct ggtgccatag tattggcttc gcatcaggca gcagnnagcc cattgattgc 480 ttrgtaaca 489 // ID LTR43_I repbase; DNA; HUM; 4798 BP. XX AC . XX DT 19-JUL-2006 (Rel. 11.07, Created) DT 10-APR-2007 (Rel. 11.07, Last updated, Version 1) XX DE Internal portion of ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR43_I. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-4798 RA Smit A.F.; RT "LTR43_I - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC mer4 group. XX SQ Sequence 4798 BP; 1372 A; 1146 C; 874 G; 1402 T; 4 other; tttccggtgc catgactcag aggtttgtct gcttcgttgg tttcagtttc ccttcactac 60 tggtgagtac tatggcagcc agagacccct gattgactat cactgctttc cccagatcta 120 ttaaggtttt gggggaggac cttttaactc actcacattc tttgagcaac taattgtgat 180 tgctttccat ttggctgctg cttttacagt gtttacaatt accttatttg gatggaacgc 240 cctgattatt cagccttggg acttttgctg cttctgtttc actttttgtt ttgctgttcc 300 tcccaggact gcacctgatc tgtacttact ggctattgta acnacttgtt tgttaatcaa 360 gtaatctctt caaagatttt tgttcacctt gagggacaca ttagatctac ttttgccaac 420 agtccccatt cctccaggct ctgtgtgttc tgagactcct ctgagtctca gaggagtgtg 480 ttctgaacgt ctcctctgag aacaggagac gttccaagag gccatccatg ttgagtgcag 540 gatgtgtggc cacatggatg tgtagtcatg gggactataa ccaggcattc caagcatgat 600 gactggacat taaaaatggc agatcagtga aataaggaag ggcttgttgg tgagacatcc 660 aggctccccg gctggcagca gagatcactt cagttcagct tggagacgtc cagcaccagt 720 gagacctaga atggtgcatg gcaaatgccc atgacctcct agggcctcag tttcatgggg 780 attcaaggga acaccctgga ctccatcgtc cagcttagct cacagggatg ccgatgacct 840 cctggatttt ggtacatgtt tctgtggttg caggattctc ttgttaccta gaaagccacc 900 tcctctactg tcactgaaac acctctaggg tatatactaa acattggaat attttgaaac 960 tgtataaatt aaaagataat aggtnttttt tttaaataaa tataataaac aattgccaaa 1020 gagtaaaact attgatacaa tcctcaccac tttaaggctt aaggttttct tttccatcac 1080 tgagtctctc cctttcctct cattcttcca cttacaaatc tccaaaacaa ttctcacgca 1140 ctgtgacttt gctcccttca gctgatttat cagttcatcc tgatagcctg ataggtgaca 1200 agcagaggtg aggacttcaa agttcacacc aagtagatct agttcactgt ggccctcctt 1260 gacaggaggt ttgtgaagct ggcagggctt ccgtccaggc tgtgcactgt ctgggaatcc 1320 tcatttgcaa tgtctggaga tcttcatttt tcttactact aacaatcatc ttgttatgtt 1380 tgcacttctt tgcatttcac cccttttgaa ttctgtcctt ccatgaaaat ttattgtcct 1440 ttttgatcca tctgtattca cagactttca tttgctttct ttttctctct aacccgtaag 1500 actgataaaa attgtcctaa agtttctttc tttctgcttt gtgtgtcagg gctcctctgc 1560 ctttggtgag agcagagttt tatctttacc ggaagaaaac taattgctgg gtgaaatata 1620 ttttctacca aattcccctt acgagaccta gaaagcctaa tgaacatagc tacttacatg 1680 tcctaagctg ttattttaag gccaaaatta aaacattaag ggcacatata aggttggcca 1740 ttactaacct gaaaaaaaag ataaataaat ttccatgatt aggtcttttc aacactgcat 1800 agtcccaaac aatactgttt tacaattaga gtttttgttg ttgttgctgt ttttaaataa 1860 aaagaaagga agtttngagg atgatcaggg attttccaag ggcccagggg aacctgacat 1920 tattccccct actaaccaga cagctctata ctaagaccag tcccttagag actgatacca 1980 aatctattat gctcatgtta ttcaaaagaa tttggggaaa tctaacataa ttaatgactc 2040 tataataaga aatataccag ctgggtgcaa cagtgntacc tcctaccaac aactttcctc 2100 ccttacaatc tagtccaggg ttactcttca aacctcttaa gcttctactc ctgtagtcct 2160 tcctcacttg acacacagtc ttctgcaccc cgtccttatc agcttgttca ccaaacactc 2220 cctaaagagc ccagtcctgc tgggacaact catagcagag tatcctattg cccccctaaa 2280 acaaaaagca acctactctc actctctatc tgtatctccc tctctcaggt aacacacaga 2340 acaacaacca aatcctctta gagacctact tcatgagtca gtctgtccca gatatcagga 2400 aaaagtcaca aaactagtca taaatcccca agtcccaata aatgaactgc taaacctaac 2460 ttttggtgtc tttaattacc aagacagagt ggaaaaggca catagagatc aaagggaaga 2520 aaagagagac aaaagatagt cccaattttt ggccttcact cactatgcga aaactcccac 2580 ctccaggtca tcctgagtgg aacccaaggg ctattcctgc acttataaaa agcctggaca 2640 ccggagctaa gtaagtaaca aaggccttca ggcttgcaaa ccctctggag cctgtcatca 2700 atgtgacaaa gaagggcaat ggaagaagga ctgtctccaa ctctgaaggg aggagggact 2760 cctaattcct tattgtccct ggctaaagac taaagagacc aaaggcaaaa aacagctcct 2820 atgtggcaat cagccccagt cacagcaatg gagcctcgga tgaccctgga catgacaggc 2880 aaaaatatca atatcctttt aaagacagag gctggcctgt cagttctcac tgtctgccct 2940 gggcctctgt ctaccaaaca cgacactgtc attggtgtta atagcaaact ccagactagg 3000 attttcactc taccatgcag ctgaccaact tctgctgcag taaaacttag gggtgtaggc 3060 ctttggtgtg tttatcaaaa ataaaaaatg attcctttta agtcatcaca gaaacttgaa 3120 acaaagactc caagctattc ctatgaagca ctggaggatc taaggctcct gtccaaaaac 3180 agccaagacc caaaacatca ggcaattaat gttgcctcag cataagcttc tattcaagaa 3240 aacaactcac agtgaaatgt gatgttttta tttttttctt atttatttac tgtattttag 3300 gcgcttttag taaaacgacc ttatctgcta aagaaataat aaatcatact actaatttat 3360 aaaaattaac tcagtcttgc tggctttgca tgactaccaa aatttaaaaa tgtgcaaaac 3420 ctgtttctcg ggaagaatgg gccaacattc ctatacacct cctggaacaa actttggacc 3480 ataatgtgga aatatctgac taaacaaaca atacaaagag agttccttgg acctggccac 3540 tgccagttca aacttccatt tttatctatg aataatagct tcactctgcc aaggggaaaa 3600 ttgctttctt accttgcttt ttacccagag caattcccct tctgccttta cagcaaccat 3660 gccagtttca ctccttttat agaaaaactc cacaagagag tcagtatatc taaacctttc 3720 tcacagaatc atttatacac ctcatgatag aaccctaaag ggggaacttt atttcaaaaa 3780 gcttattaac accactcaac tctaccatcc tctaattagt ccagtgacca ccaaatttcc 3840 attactttta ccacctcgat gcaaaatgct tttgcagcac aaatttcacc atcacatata 3900 atttgcttgt gttggtattt gtggatcttc agcacgtcta caactccctc cacaatggaa 3960 gggacgatgt cccatagttt acatttcccc ttatctacct tttgcattgg ctaacaaatc 4020 tctccctttc cccatgtacc aacatcacaa gatccaccgc tgagcaggat tccttgttcc 4080 cttgggatta gtgctatcct ctctatcggg actagcagag ccagccacag agacagagcc 4140 ttgggaaccc agcataaact gtctcaggag accagagtgg ccctctgaca aacagcagag 4200 agcctcacta gacttcagca acagctggac ttcctggcag tcctacaaaa ccgaagagcc 4260 ttagaccttc tcacagttgg acaacgagga acatgtttgt atctagaaga agaatgttgt 4320 tttcgcatca atcaaattac aaatatatat taatagcatt ttcttggaat aagaaaatca 4380 ttacccaggc agacaaaatt gaatatttag gagcttccgt gggaacttgg aagcaatggc 4440 tgttttctgc cttgctccct ttaacaatgc cagtcattac catatgttta gctctaactt 4500 ttggtccaac tttgtttaaa atgctgattt cttgctttgt cacctacagc aaatcccggt 4560 tcatgtgatg gttttgcaag gcttccaacc tttggctgct aatgagctat ctcacatctt 4620 gcccaccagt cccctgaaag acatggctta cacactgtta gactaggcag gaaaagactt 4680 cagggcccag gttaggcaag gacaatgccg cactcagcag gaagcagctc tggaagaaat 4740 gacctagcct ctcatcctcc cgtatgatta tgggtcctaa gatcttttag ggaggaat 4798 // ID L1M1B_5 repbase; DNA; HUM; 1263 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE LINE1 repetitive element 5' end - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1-43_5; L1M1B_5; L1M3/4 LINE1; L1M3E_5; L1M3f_5; MER43. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-756 RA Jurka J. and Stewart K.; RT "L1M1B_5."; RL Direct Submission to Repbase Update (09-JUN-1998). XX RN [2] RP 1-1263 RA Smit A.F.; RT "L1M1B_5."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC 5' end of some L1MA4 subfamily LINEs CC ORF1 starts at pos. 818. XX SQ Sequence 1263 BP; 457 A; 315 C; 275 G; 215 T; 1 other; gagacttccg gttccaaaat ggcggcgtag aagcaagctg gcttcactcc ccccccccac 60 agaaaaccaa aaacaaatat acagcaccga gattatcacc agcaatatcc cagaactcaa 120 atatgaggat gagacagttc ccggggccac agagaagtga aaaaactctg agcagacggt 180 aagagaatcg gacttccata tccgcgatgc ccctcccccc aatctgcccg gcaccaagcg 240 cgcagaaaat tttcccccga ctcacggttt ctacactgga aaaagtgaga tcgaggtgga 300 caaccagctt ccccaccatc ttgggttccc tggcaggaga cctgtccctg cctcaaccca 360 cgggaagcat cangagtgcc tgaagggaga aatatccctg aggacagcca gagacaaagg 420 ggggaggtgg gactaccatc cccagccctg gaaactctgc tctgtaactc ggccaaagga 480 gacaccaaat cagagtggct gttcagcagc accacgctgt aggaggttcg ttccacaggt 540 cccctgggca cgaaccccta gccagccttc ccacactgcc gggatatccc ctttgggacc 600 tcccccattc gggacgggca gcgctctgat tgtttactag agccgaggca aacctgggct 660 taaggcgcca tctagtgccg aaaaggaggc agcgacctag cgggaaaaaa aaaaagaaaa 720 tcaacaggta aattacaaag aatctctaag caaacatacc caataaaaac caaaacaagc 780 cagacagaga agactggaat aaataactaa tccttcaatg caaagacata gacgtacatc 840 cacaagaaac aacagcaaac agggaaccat gacctcctca aacggacaaa gcaaggaacc 900 agtgactgac cctaataaga cggcgatatg tgagctctct gaccaagaat tcaaaatagc 960 agttttaagg aaactcagtg atctccaaga taacacagaa aagcaattca gaaatttatc 1020 agagaaattt aacaaagaga ttgaaataat tttaaaaaat caaacagaaa tcttggaact 1080 gagaaataca tttgctgaac tgaaaaattc attagaggct ctcaacagca gaatggatca 1140 agcagaggaa agaatcagtg agctcgaaga caggctattt gaaaatacac agtcagagga 1200 gaaaaaagaa aaaagaatga aaaggaatga agatcaccta caagatatag aaaattacct 1260 caa 1263 // ID HSTC2 repbase; DNA; HUM; 1893 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Non-autonomous Tc2-like DNA transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; HSTC2; MER104D; KW mariner/Tc1 superfamily; Tc2 family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1893 RA Smit A.F.; RT "HSTC2."; RL Direct Submission to Repbase Update (05-MAY-2000). XX DR [1] (Consensus) XX CC Tc2-related non-autonomous or partially reconstructed DNA CC transposon. CC TA target duplication site. 30 bp terminal inverted repeats. CC Average divergence from consensus 25-26%. CC The incomplete (but open) ORF from pos 279 to 1028 encoded a CC protein 47% CC similar (31% identical) to pos 24-259 of the C. elegans Tc2 CC transposase. XX SQ Sequence 1893 BP; 608 A; 338 C; 401 G; 525 T; 21 other; ccgtatttca tcgattctaa gatgcacatt ttttcacatt ttaacatctc tgaaatcggg 60 atgcatctta caatcgatgg catcttacaa tcgctgtcag ccaggcggca gtcgtgacgt 120 agttgtcatt gcctgcacgt gtgcgaactt ggtcatagct gttcatattg tcatcacttc 180 aattgagtta tgtgcattgt tggtactaca cgtgttgagt ttaattgcca tttaaaatgt 240 cttcaaaaag attacactat gattcagcat tgaaatgaaa agttattgtg tacacagaaa 300 ggcacggaaa cagagcagcg gggcgtaaat ttgatattag tgaagcaaat attcgtcgtt 360 ggaggaatga ccgcaattcc atattttctt gcaaagcaac aaccaagtgc tttatgggac 420 ctaagaaagg aagataccca caagtagatg aagctgtgtt acgttttgtt nctgagatac 480 gtgcaaaagg attgcctatc acacgccaag caatgcaact gaaggcagga gaaattgccn 540 aatcccncgg aatagatgaa agaaatttca aagcaanaag aggctggtgt gaccgattca 600 tgcgtcgtgc aggactatcg ttaaggcatc aaacatcaat ttgtcagaaa cttcctgctg 660 actttgaaca gaagctgctt aacttccagc aacacgtgat tcaattgagg aaaaaacgaa 720 actatgagtt tagtcaaata ggaaatgctg ataaaacctc ggtgttcttc aacatgcctc 780 aaaatnatac tgtcaatgct aaaggtgcta aagagatcaa gatcatgagc ataggttatg 840 aaaagcanca tatcactgtg angctgtgca taattgccaa nggccaaaag ttgttgccat 900 atttaatttt aaactacaaa ataattccna agaattcttc cccaaagatg ttatcgttta 960 tctgcatgct tgcacatana catgnagaca tagacgttag ncaaactgaa gaagaaatga 1020 ctcagtaatc tggaacggat gtctaagagc ccacataact caccaagcgt ataggttctc 1080 gatcgttttc agatgtgtat ctgaacagta aagaatangt tcactgaaaa gtgaattagg 1140 ttggtgtgat ccatnatgta gactccttcg caagactcca tcagcgaacc atttgacact 1200 tttgaggaag gaatatgagt cctggttgtt gtctgaaaac cttctgttga naccttctgg 1260 taagatcaag aaagcgccag catcaaaact tgcagaatgg gtgtcagcgg cttggaagaa 1320 aatcccggag acaatagtgg agcattcttt taactcctag aaaccaaatg gttgtgggna 1380 ngggagggag aaggagtgaa tcagacatgt ttagcaacat tcctnaagcg ggagtcaaaa 1440 gtaggctanc tctacataat tgcaaagccg gctcaggagc ccagcaccaa tggctctcag 1500 ttnttttatg gattctttta agaaatgctg catcaccaac gctcttgang cacagaggac 1560 gatattgtgt ggaaaaacac ggacatcgat gactctgagt cgaaaagtga ttcagaagag 1620 ttggactctg aatgtgaaga agttttagga ataccttaac caatttattt cgcttatatt 1680 ttccttttta tgtatgcaca agagtgatat atgataaaaa tctgtgtcta aataagtcta 1740 aaagagctct ttcaataagt ataaaataaa aattctaatg ataaggaaag cattgtgtca 1800 tagtttaatt ggcagcgttt tttctttctt agtggtacat aaaataatgg tgcgtcttac 1860 aatcgatggc atcttagatt cgatgaaata cgg 1893 // ID ZOMBI_B repbase; DNA; HUM; 468 BP. XX AC . XX DT 13-JAN-1998 (Rel. 3, Created) DT 02-OCT-2007 (Rel. 5.09, Last updated, Version 4) XX DE Medium reiteration frequency repeat; non-autonomous DNA DE transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW nonautonomous DNA transposon; MER46; ZOMBI_B. XX NM ZOMBI_B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 468-338 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 468-338 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247 (0001). XX RN [3] RP 1-468 RA Kapitonov V.V. and Jurka J.; RT "ZOMBI_B."; RL Direct Submission to Repbase Update (30-NOV-1997).. XX DR [3] (Consensus) XX CC 26 bp terminal inverted repeats, TA target site duplication CC [1,2]. XX SQ Sequence 468 BP; 153 A; 99 C; 71 G; 126 T; 19 other; caggttgagc atccctaatc tgaaaatccg aaatccaaaa tgctccaaaa tctgaaactt 60 tttgagcacc aacatgatgc cacaagtgga aaattccaca cctgacctca tgtgataggt 120 cacagtcaaa ayacaatcaa gactnnncna gcnnctncng ttgctnttnc tgccagncaa 180 cnacagnttg tgcacctngn tggcaragan actgacacat ttgctttctk atggttcagt 240 gtacacaaac tttgtttcat gcacaaaatt atttaaaata ttgtataaaa ttaccttcag 300 gctatgtgta taaggtgtat atgaaacata aatgaatttc gtgtttagac ttgggtccca 360 tccccaagat atctcattat gtatatgcaa atattccaaa atccaaaaaa atctgaaatc 420 caaaacactt ctggtcccaa gcatttcgga taagggatac tcaacctg 468 // ID MER47C repbase; DNA; HUM; 97 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Mariner DNA transposon from placental mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER47C; KW mariner; TIGGER5A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-97 RA Smit A.F.; RT "MER47C - Mariner DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC (Tigger5) 17%. XX SQ Sequence 97 BP; 21 A; 24 C; 25 G; 27 T; 0 other; cagacggtcc ccgacttacg atggttcgac ttacgatttt tcgactttac gatgggttta 60 tcgggacgta accccatcgt aagtcgagga gcatctg 97 // ID Tigger16a repbase; DNA; HUM; 933 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Mariner/Tc1 DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; Tigger; KW Tigger16a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-933 RA Smit A.F.; RT "Tigger16a - Mariner/Tc1 DNA transposon from mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC >33% subst level in borEut. 24 bp TIRs resemble those of CC Tigger6. Pos 443-526 also contain a (short!) match to the CC N-terminus of the Tigger6 transposase, indicating the CC orientation of this tough guy. family-1700. XX SQ Sequence 933 BP; 219 A; 279 C; 158 G; 270 T; 7 other; cagtacaggc attccccgag ttacgaacac ccgacttgtg aacgtcccgt atatacgaac 60 ggccggttgc acactcgccc tttcccttct cgacccactg caggccgctc cgctccccgg 120 acagcaacca agctgtcctg ggccgacggc gccacctggt ggccggcgcg gggaactgtc 180 tgacccgacg tctcttcccc accgcctcct tttttcccgc ccgggganac gttcccgcgt 240 cccccntcct ctccttcttc actccgtccc gggcaattca tctctcataa gcnctcatat 300 ncctttacgc ctctttctcc ttccncttct ctcaaccttt ncctcaggaa aatctttctc 360 anctttcttc tccttttcct tccctctccc tcttttcgtt ccatttgtga gccaaaaata 420 cgaccctaat catggctgat aagcgtaaga gtagcgctag tgatacacct gtatcaagga 480 aaaggaaagc cgtaagtttt gaagtgaaat tagacgtaat aaagaaccag tgccatcaac 540 ctctaaagcc cttgaaagtg cccagaagtc cccttcagaa tctccacaaa agtctccatc 600 tacctcctca tcctcctcta attaaacctg cttttcctca agcaccagca ttcaagataa 660 ataaaaccaa tattcttatt caattttatt gtttttctgt ttcgtttaat tactagtatt 720 gcaacagtat tgttttctac tatttttcat tgcaaatgta cagtatttca gctacattat 780 gggttaaata ggcttttgtg ggctagcctg ggaacctaac caccatttat aacattgttt 840 ctatgggaaa atgcgttccg agttccaaac aaccgactta caaacgaact tttggaacac 900 aacccgtttg taagttgggg actgcctgta ctg 933 // ID LTR71B repbase; DNA; HUM; 610 BP. XX AC . XX DT 14-SEP-2000 (Rel. 5.08, Created) DT 03-OCT-2000 (Rel. 5.09, Last updated, Version 2) XX DE Long terminal repeat of the HERVP71B endogenous retrovirus - a DE consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVP71B_I; KW LTR71A; LTR71B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 610-1 RA Jurka J.; RT "LTR71B."; RL Direct Submission to Repbase Update (SEP-2000). XX RN [2] RP 1-610 RA Kapitonov V.V. and Jurka J.; RT "LTR71B."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [2] (Consensus) XX CC LTR71B and LTR71A share an 85% identical ~225-bp 3'-terminal CC portion. XX SQ Sequence 610 BP; 161 A; 165 C; 135 G; 149 T; 0 other; tgaaggaaat aatgtataca gtggtccatt tccaagacaa agtgccttga atcggcttag 60 gtcagcaaac tacagaagaa acaggatata ctaggcccct gcttggatag ccgatgcctg 120 cttgtcggcc tcccccttcc cccttcctcc cccccccctt agttgccctc acccaaacca 180 aagaagttta gtctaagatg aaagtttact agcctgcaaa atagctcgct ttgtctgttc 240 ttatcagcct gcccagctac ttaggtcata agtcaaatac ttgaagagcc cctgagctaa 300 ctaggattgc aatgcattgt gggctgcaac aaaatgcagc aagacaaccc taaagaaaac 360 acctaaagcc cctacccaac aaccaatagg cgacgtccgg gaagattgtg accccatagt 420 actcagccta tgaggaaccg ggggagggac ctgcgcacta ggggataaat tgcttgttga 480 aactgtgctg ggtgtgcctg cccatcagac acccgatctt gcaagaccgt cattaaaagt 540 ctcactttcg ctgttctccg ggtctctgag tccattcttt gggtttggac gggtgagttt 600 gtttctcaca 610 // ID LTR8B repbase; DNA; HUM; 820 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 13-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR8B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-820 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 829-829 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 820 BP; 202 A; 226 C; 175 G; 215 T; 2 other; tgaaaccgcc tttgcaaaga ttatgacagt gagagaaatc tagcatggct gactccatct 60 tgcttctagc ctcacaggct ggctgtcctc gctcattcct gggcgtaggc caagctaacc 120 atgggaggaa tttagtttat agtttaactt tgaagcaagg atgataatag tccctcccta 180 aaactgaccc cctccttgyt cggggactga aaccgccttt gtaagactaa tgaaaggcca 240 cgagattagg attatgggag gggcctgaat tctgctaaaa tgtaggcata gttaaacgat 300 aaccagccat tgtccctagc ttgcttttct ataatccctt actgctcagg agtcatgtgg 360 ccagaggtca caagatttgt gacttcccca attgctccta tagataacat cactattgta 420 gaacctaaga ttggtctttt gagatgtttt tcagactttt gcattctggc aaccgactga 480 ccccacccgg acccgtgact catgactcaa cyggtcctgt ggccaccccc ggcccccacc 540 cagaggcgga ctcagcgcac gaggacctgt tttccacacc cctatgattt gcatccccaa 600 ccaatcagca gcacccattc cctagtcccc tgcccaccaa attatccatg aaaaacccta 660 gcctccgagt tctcggggag actgatttga gtaataaact ccagtccttc cgcttggccg 720 gccttgcgtt aattaaactc tttctttact gcaataccgc tgtctcagtg aattggtttt 780 gtctgtgcag cgggcaagaa gaacccgtcg ggcgattaca 820 // ID L1MC5 repbase; DNA; HUM; 2174 BP. XX AC . XX DT 14-MAY-1998 (Rel. 3.04, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MC5) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1MC5; L1MC5 subfamily; Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1351 RA Jurka J.; RT "L1MC5."; RL Direct Submission to Repbase Update (05-MAY-1998). XX RN [2] RP 1-2174 RA Jurka J.; RT "L1MC5."; RL Direct Submission to Repbase Update (AUG-2000). XX DR [2] (Consensus) XX SQ Sequence 2174 BP; 844 A; 289 C; 363 G; 623 T; 55 other; ttaaagrana aarakctctw tggrcttstn gcaaaaagaa catgtgactt ataagagaaa 60 aaaaaaatta gattatcatc agacttttca acagcaatnt tttatgccag aagaaaatgg 120 agtaacatat ttaagatact caatgaaaga aaatgtaagc caaggatttt atatccaagc 180 aaaantgact ttcaagtata aannacagac aaactgttat caacatgcaa gaactcaggg 240 aatattgttc ccatganccc ttcctaaggm atctactaaa gaatragctt cagacaacca 300 aaaattagag caacatcaac ataaggatgn tgatgagcat taaatatnta naactaagan 360 gantaaatga gggttaaaan ggagagagta tagtatataa tgactatgnt ctgataataa 420 tagatatrgt anaattataa aataatgggg gaaaatgana aaaaaatatg taaaaaaata 480 ttttaattat ttttagtaat cataaattat tagtggtggt ntagtattag tattgttatt 540 ctgagactgt tgtgtgtnna ntgtgtaatg tggaataaag caaatgagta attatgggat 600 attctaattc ctatcatttc ctgtgtcctt gagaaccagg attctcagtg tggaagaaag 660 gagatacaga tgtaatatag aagangttaa gtaaaaaacc ctgtagtcct gaatttgaat 720 tgnnaanttg gaaatatcag tatraactca tgaggtattt tatctttaaa natatatata 780 tacatataaa atatatntat acatatagaa aaatctatat ataaaaaaaa aaayacattt 840 ctascctttc cactgaaaag ncctagaaac aatgactaat ccaatagcaa tgagtaccct 900 yaggacccag attgtggtct ctaaatacca tttcccacta aaaggaacca gggctccttg 960 gagaaatggc taattccagg tctggggcag gaaatgtaca agatgagcct ggaacatctt 1020 gtcataccag atagcaagga agctataaaa ctactagggt tgtgtcaaaa ggactcagga 1080 gccaacttac tggccaaaga tgggacaatt tgagcatcaa taataactgc aatttaacac 1140 atcaaatatr tttaaatcca tgagtttata ataaaaaaat ctaattggtc acctttggag 1200 tgatgctagg gaaccaactc attattttga aaactggtaa ataaagggaa agaatcaagc 1260 atttatcttg cctttcctat ataaactgta cctcwgggta accaaatagt wgatgaggga 1320 aatttctctt tatagaagta ttccagctaa taaatgaaga aaaaattaga attagaatat 1380 caccattttg caacccctaa tgaattaatg gatctaggca atgatcatca atggctgcta 1440 acatcacaaa aactarasat ytgcctcctg atggaartaw acaacaccac ctatgaaata 1500 ttagtcttgc caaaaaaaaa tcaaacctga atctgatcaa gcctctagat ctaactacca 1560 atttacagga aatacagagg acagaggaac atgttaaatg acaccatrgg gatgcaatca 1620 gcaaaatcca gactgtggga aactctacag gacaaatrtt aacttttctt caacaaataa 1680 attatgagaa aaaaaagatg gaagaagaac ctatagatta aaagagactt aaaagacata 1740 tcaaccaatt acaatgtatg gaccttattt ggatcctgat tcaaamaaat rtaaactata 1800 aaaatatatr tgtatacaat tggaaatttg aacactgact agatatttga tgatattaag 1860 gaattattgt tatttttagg tgtgataatg gtattatagt tattttataa aatagtcctt 1920 atcttttaga gatacatact gaaatattta tagataaaat katatgatgt ctgggatttg 1980 cttcaaaata atccaggagg gaggaagtag gtggagctat agatgaaaca aaattggcca 2040 tgaattgata attgttgaag ctgggtgatg ggtatgtgga agttcattat actattctct 2100 ctacttttgt atatttgaaa tttttctaat wttaaaaata aagaccaatt tgttggacat 2160 taatttgttg gcaa 2174 // ID MER57I repbase; DNA; HUM; 7537 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Medium reiteration sequence MER57I, putative retroelement MER57I DE - a consensus. It is flanked by LTR MER57 and is similar to the DE MER4I, MER41I and MER65I retroelements. XX KW Endogenous Retrovirus; Transposable Element; KW Internal sequence of retrovirus-like element; MER4I-group; KW MER57I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7537 RA Kapitonov V.V. and Jurka J.; RT "MER57I."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-7537 RA Smit A.F.; RT "MER57I."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX CC MER57I is flanked by MER57 LTRs. CC Simple repeats: 3453-3510. XX SQ Sequence 7537 BP; 2153 A; 1404 C; 1606 G; 2262 T; 112 other; gatggcgtca gaagcgggat ccgaagtaga gcttctaacg acccccggga gcactgagcg 60 accaaagcga ggtasctgcw ggacmcactt gtgtccattg atctctcgga gcagctgggg 120 atcatggtaa gttctctctc ggatttcgga gctcnacgga tttgtgtttc gagctctccg 180 agtttctttg agcaaatttc tgatccaaac tgggtttgga agtcgtgaca gaaactggac 240 tgggtccagg antggattng atccggtaat taaccggctt ggatccagtt agaggnctct 300 tacatctgac tgggtcagaa agaaactggt agtaaatggt aatattgcag ggggtgtaaa 360 atttggcttt tgaaaattcg cggggatttt tgtgttctac ccctttgttt catttttctt 420 gcacgcttag gtaggaaaaa atcattggct aagttgatca agggaatctg agagtaaagc 480 caatatttga ggtaaaaatg ggatccttaa tttctgaaga actgagttcc ttctggctta 540 tacgcgcaca agtgttaggc cccnaaagcg gcgaagtctt acagaaatgg cgaaatctta 600 ctaaagataa cttasagtgg aacgttccga atgaacgaca ctgcactgaa gtgcatttga 660 aaatgagggc tcccaaatta gtctcatcta gggatgccta ttgatatgca gaagcttcta 720 aaaakatttc agtattttta tttaaagact ttatgaaagg caaataaaaa gcttaagcga 780 ctaattgatt wwaaaattaa atctgctaac cttttagctt agttactatc ctcatccaaa 840 ggaaacagac tgcagcacca attggctgac tttgggtaag tagtggggta cattttacct 900 gagtaaagga tgggattggg ttagaggccc tcccctcagt aaagtccctc ttggttaaaa 960 atggatttgg cactatggga tgttaaccgc tattctcttt ggattaatct gccttgtact 1020 ntttgctgac ggctgtgagt gacaggatta ggcatgtaca ggaccatggg acatggggaa 1080 ctttttyctc ctnaaaaggg gaaacttgag agctgatgng actgctggaa aagatncctt 1140 cgtgaccgac aagcggccgc ctgaactttt gattcagtgt cgctgcgagt gngtctttct 1200 ctggcctccc tgagctcctc gccttcccca ccccgccaca ggcaatgctt ttctcccttc 1260 ctctcctttc cctttcctat cttttctgtt actcagggca gccatcttgc ccagagacca 1320 catgttaaat ctcctggtgg gtggttggat taaagatgac agggcccaac cgggggcaag 1380 tttgagcctt gccagttcga tattgggcgc tgagcggggt ggctaatgtc tatgntttgt 1440 cacatgtatt ttgctctggc cggaatggaa aatgttaatt tggttacccc atgcarcccg 1500 ttgggcggca tcttgcaaaa ttgagaggct tttgcctgtg gttccatgaa acggaaaaag 1560 atgattttct tttgtgatgt ggcttggccc ccagagctat ggcgcggnga gctgggtcat 1620 caaagctgct cagggaaggg gaacccagaa gcctggcacg ctggcaaaag ggtaagaatt 1680 tcttaccagt caggcttctg gcctctctct ctctgtgcaa actggytgaa tgaatggtaa 1740 aaatcactgt ttatctcctc tgcaaagttt tgattaatgg gaaaaaggat tcgcgaggct 1800 agtcttaagc tgtagcgaat ctggtgtgct ttgtgcgtct ttctgtgtcg ttctgtcata 1860 aagaggggta ccttaggata gaacacgggc ttaaaacccc ataagctcgc tgctcaagac 1920 ggcccagcaa gctggtcagt aacaaacttt gctgcaggtc cctgaaacaa acaaaaaaac 1980 tggatgaggt ctccatcttg ttttatgtct ttgggagctt gaccttgtaa ccgtgtggcg 2040 gtactttctc ttggtctccg ccwtccaggg aacaggaatt ttggggttca tgtcatagtt 2100 agctctaaaa attatcttga gtagttaaaa gcctttgcaa gctcaaaatt gactgctcta 2160 gactccttcc gggaagggca acggagactg cccagtgctg tagctcagca gctaaggctt 2220 cgccatttta caatggtggc ccgggttcaa tcctggctta gggaatgagt actttctggt 2280 tgatatctgt gtgaccttta ccatttgttg attctcttcc cctccacgaa caacttctag 2340 ctttccttct tgaattttcc tttctctgag ctacccttga agattctaga ttttgtagaa 2400 actncttacc acctctttga aaatatctcg tacactcgtg gttnagtnat aaccttagtt 2460 gaggcttgtt ggtttcacct gggaggttac ttttggtaaa gttcaaargc cagaaatatt 2520 ggccgtttgg cccggctaaa gtcgggtaat aagnaattta aaaggacttt twcttaaaga 2580 gcgctgtggt taaaagtcag cttaattaaa agtggatatc caagctatac gtatatttaa 2640 aaggccttta tgtttttttt tctcttcttg gmtcttattt ttctggaaaa ggtttttttc 2700 ttttcagtca actgaattrc ttttctccat tttgtcttct cgccactctt gatgcacgca 2760 tgagaggacc taagataact tctaatagcc tgggactcct cgggaaaaac agaggaggcg 2820 ccacagaccc cgttttggga aaaaactctg ttttcctcat gaaaccccag gaattgraag 2880 cggatagatc cctctcaaaa tctaaggctc tgttctgttt tgcattgtgt tatctgacgg 2940 ttttgagttt tgggggtatc agaaattact tcgcattatg agagagcttt ggtgtgtaat 3000 aactaggtrg gaaatacacw tttagggatg gctaatggca gttatggggg atactcggct 3060 ctttgcacat ttggatnaga gaagcatgct cttggccacc tggaaggtat gaaaatgtcc 3120 ccacccccca ctgagagatg agactcccat gggggatggg ctgattacaa aatgggctaa 3180 ttggctttgg gttgccttgc aatgaaatgc atggtaaaag cattgcaccg tcttctccca 3240 tagcatttcn ntctttttgg ggatccagga tccaatataa aaatgggacc nttaattttg 3300 gggntctgct tgccttccag ctgtgcctgc ttattaggcc ctagaaactg catgctttcc 3360 tggccctgtt cctcgaagga ctccgccctg aagccagtaa tccaattaag aaacttaaaa 3420 actggcaaat gaaaaatctt acaactactg gatcttcttc nnnnnnnnnn nnnnnnnnnn 3480 nnnnnnnnnn nnnnnnnnnn nnnnnnnnna agagctctga ttaattggct taaagaaaaa 3540 taagcgctta aatcaaatat tttgwmagaa aaataaaaac tstaatgcct tttagytcac 3600 gtgactttag taatctttgg gaaataaaaa cagttttwaa agattaytgg taaaataaag 3660 acatttggtc taaattaggc aggtcagata ttaggtttgc taaatgcttt aaggtcataa 3720 actgcttctt tgacttttga aaattgttca acttacctgc tttggagcca ttagattcta 3780 gataaggcct ggggacatgt ggagttagcc atgcccctag ctatgctgga aagagtcgga 3840 ccttatctgc acttctgtct gttgtcctag gctccaaacc tagtacataa ttaaaatcac 3900 ttaccaggtt tttcaccaaa aataaaaatt gctaagagtt aacattgtaa catgtaattg 3960 agactactga aaaaaacagt tttacatgca aggtgtgtga ggaaagtgaa atgtgctttt 4020 ggtaaaagat tataagaagg catgggaatg tacatttttg cctagtttag agggttaaag 4080 gattgtttta arttagatag gataaagctg aargtttgag caagttgtgg aaggtttgta 4140 aaaattaatc ttgtaaaaga aattctgcgt gtgaacatat tggctaaatt taaaggggta 4200 ttattcagtt ttttccgtaa attgaacatt graataaaag cacaacaggg ttttcttaga 4260 gcactgatct gctctttaac aaaaatttgt aaagggttat aaaaggttta tgagaatctc 4320 accttatggt caaactgatt aagattggat agatttgtct ataaggtttt attaaaaatt 4380 ggggttgaca ttaatagtat actaatgcaa gggtgaaatt tggctttctc tcttgaacga 4440 gattttcatg taatattaaa ggataatgaa agatttttgt ttgccttttg aataaactac 4500 wggaaaagaa gggaaagaca agagacagat cgtttggaaa gctaagtctt tcctctatca 4560 atgagtaaag gtttttgcct ttttaaaatt tktgagtcat cattttggcg aaatgaatga 4620 cttatggtga cctggaattc tatttcataa tatcaagtgt tttaaacctt taacatattt 4680 gacaggcttc tcaaaatcaa atttcagctt caaaattaag tcttttttga cctctaactt 4740 tgggatgcta cagagggctc ctgaagcatc caaaagagag ataaacagga ttatttgana 4800 tgttaagtta catgggaagc atcgtcaaaa taaaaataat gtttaacctt cttcaggtta 4860 tattttagtg aataatatta atatatgttc caaaatttta tgggatttct aaaattctga 4920 tatgtctgag tatatgctat caatcataat tatggttatt atgttaaktt attgtagacc 4980 acagaaataa ccaaatttcc ttgtcaattt tgtctttaac twcgactatt taaagtcatt 5040 tccacagkta attgcttaat gctgatgcag tttctgaaaa tttcacaagc acgcaaaatc 5100 ctagaatatg gtgtctttta ggaggttcgt gaaaggatgg aaaggacccc gaaaagcgct 5160 cttgaataca ggtttctaat aactttagaa tcgcatcatt tggactgggt aagaattcct 5220 ggaactttaa tgaaaagact gactggttta taaaactgct aacccaagta gaacaaaaat 5280 taattgaata ccaagaagat actttgccag attatcatgc taaatcagcc aatactgaaa 5340 ttgtttagat atacaatttg aatgaactcc atggtctaag tcaaatgacc tatgataacc 5400 catcagttat cagtgctatg cacctaaatc ggagaaacaa ctggtattca agaggacata 5460 agtccaatgt taagcatgga ctcatggaga accaggacgg ctgccttgtc cttcctgagt 5520 ccttaaagct tttgttatta aaagttctgc attccatgac tcatcatgga aaagataaaa 5580 tgatccaaat taaatatata ttggtgtggt gacttntaca ttgctaaaat agtttatgac 5640 caatgtttgn tttgtcaaac ccatattcct gggaagacaa tcaaagcttc aggtacattc 5700 ggctacctga tgggccattt aaacatttat agagggattt cattcaattg tcattttcaa 5760 tgcatgtttt ctggttgtat aaaagctttc ccatgcaaga gggstgatgt tataacagta 5820 gattattacg ccacagtgta ttttcaccag gtaaagaaag ctttttatga ttcactgact 5880 gaggacaatc agccccttca caatctagaa cccaaagact ggatcttctg agaacatcag 5940 agaaagactg cccttgccat ccacactgca gcaaaacttc gggactttga accttgggtt 6000 cataatctca caactgagaa gggtccctcc acactcttgg aactgtacac ccgttggaac 6060 ccttaaggta aagctaacca gggaagtttc tccccagaag aagatgscat ccttgatgtg 6120 aacagctttt cccaagatca cggatcaaga cttctctact atcatgagac tcttatcttt 6180 aaatattttt cccttgctta tgcctctatg aacaatagaa gtgaaaaggg ggtctgttgt 6240 gtgcacttat gtggtatact tttattcgtg aaggattttg cagccagcct tatacgtgga 6300 taaccttata ccttgataga tgaaagatga aggcccaatg taggtgagaa actttaatgg 6360 tacatacatt gcctcgtaat cagtcagaaa cagaacgttg gttcactcct cttaacccac 6420 atcatgggtt aaagagaacg ttgccaggag gccttcactc ttctagaagg gcatcattcg 6480 ttaggtcmtt tttccgtggt ttggagtaaa agaggcaatg attagaaatg tatccctcat 6540 gataggctct atagcagatt ctactgtaaa ggctatggtt acacaacaga ctttaaattc 6600 tcttgtgaaa gttatgctaa ataatagaat tgctctagat tacttactgg ctaaacagag 6660 aagtatctgt gcagctgctg gcgcttgtgg cctatggaga aatacawcac attaggtatt 6720 atasagattc agttgtaggg gattaacgaa gagaccgctt agttaagcga gtagactctt 6780 tatctagctc attctttgat ctatttgatt ttaggtggtt tggtttatgg ggaccctggg 6840 taaggagcat actccaaact cttggtatta tcctcctaat agtcataata gtagtctccc 6900 tggtgcgctg tattctctcg aaggttttaa atgtttgcat gcagccatct ctagaatgtc 6960 aaatggtctc tcttcaactg gaatgacaag agctgaagga aacgtgtgac catgagggca 7020 ccataaccta tgaatgacat gctgagacca gaaacccaaa atgatggtaa ctgagagtgg 7080 cgctaaggcc ctaagttttg gtcacactct cacctaagtg agaacctgac caaaaagggg 7140 gaatttttta aaacaaaatt atgggaggcc attgttttgg actgagctca tgcactaggc 7200 cccaacagac caraccaaac caaaatggag tcgctcgtgc taaatgtgac ataatcaaac 7260 taagacttta aggaaacaca tagatcctag aacagaccag gttttgtttt tctcctgtaa 7320 acagaatgtt ccagcataag gaggtaccct ctactctaac ccttacaaaa aaawaatgac 7380 ctgaagtcct tgttcccacc ttgcaaaacc cactgttcta ctgtttccca gtgggtttca 7440 agaccaaata agtacattta tgatggtgat agtgacatca atgactaaag ttttggtcaa 7500 tctctcaaaa ttgagaaaat gaccaaaagg ggggaat 7537 // ID MLT1F2 repbase; DNA; HUM; 523 BP. XX AC . XX DT 28-MAR-2001 (Rel. 6.02, Created) DT 28-MAR-2001 (Rel. 6.02, Last updated, Version 1) XX DE MALR long terminal repeat (MLT1F2 subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1E; KW MLT1F1; MLT1F2; retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-523 RA Jurka J.; RT "MLT1F2."; RL Direct Submission to Repbase Update (MAR-2001). XX DR [1] (Consensus) XX CC LTR of MLT1FR retrovirus-like MaLR element. 5 bp target site CC dups. CC Closest homologues are MLT1E and MLT1F1. ~24% divergence from CC the consensus. XX SQ Sequence 523 BP; 123 A; 128 C; 119 G; 141 T; 12 other; tgtggtaggc agcctctaag atggccccca atgatcccca cctcctggta ttcatgccct 60 tgtgtaatcc cctccccttg agtgtgggct ggacctagtg acttgcttct aatgaataga 120 atatggcaaa agtgatggga tgtcacttct gagattaggt tataaaagac tgtggcttct 180 atcttgctct ctctctcttg ctctactcac tcacttgctc tgangaagct gccatgttgt 240 gagctgccct ntggngagga actcarggct gtctctggtc aacagcactg aggaactgaa 300 tcctgccaac agcnnnrtga gtaagcttgg aagcngatcc tcccctcnag ttgagccttg 360 agatgagact gcagtcctgg ctgacacctt gattgcagcc ttgtgagaga ccctgagcca 420 gaagacccaa ctaagctacn cctagattcc taacccacag aaactgtgag ataataaatg 480 ttgttttaag ccactaantt tgggggtaat ttgttataca gca 523 // ID MER30 repbase; DNA; HUM; 230 BP. XX AC . XX DT 21-APR-1997 (Rel. 2.03, Created) DT 21-APR-1997 (Rel. 2.03, Last updated, Version 1) XX DE Nonautonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; MER30; KW Repetitive sequence. XX OS Vertebrata OC Eukaryota; Metazoa; Chordata; Craniata. XX RN [1] RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 1-230 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [2] (Consensus) XX CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. CC Fragments of MER30 have been found in frog, snake and chicken. XX SQ Sequence 230 BP; 70 A; 51 C; 55 G; 51 T; 3 other; caggggtgtc caatcttttg gcttccctgg gccacactgg aagaagaaga attgtcttgg 60 gccacacata aaatacacta acactaacga tagctgatga gctwaaaaaa aaaaaamaat 120 cccamaaaaa tctcataatg ttttaagaaa gtttacgaat ttgtgttggg ccgcattcaa 180 agccatcctg ggccgcgtgc ggcccgcggg ccgcgggttg gacaagcttg 230 // ID MER1A repbase; DNA; HUM; 527 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Nonautonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; KW Interspersed repetitive sequence; MER1; MER1A; KW PAI-1/t-PA element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Wakamiya T., McCutchan T., Rosenberg M. and Singer M.; RT "Structure of simian virus 40 recombinants that contain both host RT and viral DNA sequences."; RL J.Biol. Chem 254, 3584-3591 (1979). XX RN [2] RA Bosma J.P., Van den Berg A.E., Kooistra T., Siemieniak R.D. RA and Slightom L.J.; RT "Human plasminogen activator inhibitor-1 gene. Promoter and RT structural gene nucleotide sequences."; RL J. Biol.Chem 263(19), 9129-9141 (1988). XX RN [3] RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [4] RA Kawashima I. and Takiguchi Y.; RT "Characterization of the primate-specific repetitive DNA element RT MER1."; RL DNA sequence 2(5), 313-318 (1992). XX RN [5] RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [5] (Consensus) XX CC Described as MER1b in [3]. CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. XX SQ Sequence 527 BP; 129 A; 147 C; 129 G; 120 T; 2 other; caggggtccc caacccccgg gccacggacc ggtaccggtc cgtggcctgt taggaaccgg 60 gctgcacagc aggaggtgag cggcgggcga gtgagcgaag cttcatctgt akttacagcc 120 gctccccatc actcgcatta ccgcctgagc tccacctcct gtcagatcag cggtggcact 180 agattctcat aggagcgcga accctattgt gaactgcgca tgcgagggat ctaggttgcg 240 cgctccttat gagaatctaa tgcctgatga tctgtcgctg tctcccatca cccccagatg 300 ggaccgtcta gttgcaggaa aacaagctca gggctcccac tgattctaca ttatggtgag 360 ttgtrtaatt atttcattat atattacaat gtaataataa tagaaataaa gtgcacaata 420 aatgtaatgc acttgaatca tcccgaaacc atcccccccc cctggtccgt ggaaaaattg 480 tcttccacga aaccggtccc tggtgccaaa aaggttgggg accactg 527 // ID MSTA repbase; DNA; HUM; 428 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 4) XX DE Long terminal repeat (MSTA subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MSTA; KW MaLR family; MstII; retrovirus-like MaLR element. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX CC LTR of MSTB retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 12%. Intermittent subfamily CC between THE1C and MSTB; 85% similar to MSTB over the entire CC length. CC See MSTB for full references. XX SQ Sequence 428 BP; 83 A; 112 C; 105 G; 128 T; 0 other; tgatatggtt tggatctgtg tccccaccca aatctcatgt tgaattgtaa tccccagtgt 60 tggaggtggg gcctggtggg aggtgattgg atcatggggg tggatttctc atgaatggtt 120 tagcaccatc cccttggtgc tgtcctcgtg atagtgagtg agttctcgtg agatctggtt 180 gtttaaaagt gtgtggcacc tcccccctcg ctctctcttg ctcctgctct ggccatgtga 240 cgtgcctgct cccccttcgc cttccgccat gattgtaagt ttcctgaggc ctccccagaa 300 gccgagcaga tgccagcacc atgcttcctg tacagcctgc agaaccgtga gccaattaaa 360 cctcttttct ttataaatta cccagtctca ggtatttctt tatagcaatg cgagaacgga 420 ctaataca 428 // ID MER6B repbase; DNA; HUM; 210 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER2-group; KW MER6B; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-210 RA Smit A.F.; RT "MER6B."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC Smallest MER6 element. See there for annotation and references. CC MER6B corresponds to bp 865<-800, 1->66, and 784->865 of MER6. XX SQ Sequence 210 BP; 59 A; 43 C; 45 G; 63 T; 0 other; cagtaagtcc tcacttaacg tcgtcgatag gttcttggaa actgcgactt taagcgaaac 60 gacgtacagc aggtcctcga ataacgtcgt ttcgttcaac gtcgtttcgt tataacgttg 120 atgaggaaaa aattggtttc gttatacatc atttcgctta aagtcacagt ttccaagaac 180 ctatcgatga cgttaagtga ggacttactg 210 // ID LTR70 repbase; DNA; HUM; 1286 BP. XX AC . XX DT 13-SEP-2000 (Rel. 5.08, Created) DT 13-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE A long terminal repeat of a mosaic human endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR23; LTR56; KW LTR70; Long terminal repeat; MER67C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1286 RA Jurka J.; RT "LTR70."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC LTR appears to be a mosaic including LTR56, MER67C and LTR23. XX SQ Sequence 1286 BP; 377 A; 281 C; 205 G; 407 T; 16 other; tgtagcagag tgaaagccta ccttcagcag gcacctggct tcaagttgca aaactacctc 60 ctgtyatgaa gatgtgaaaa gtttattttg tcattgaata taagcaatta gcatacacag 120 atggcctcty caattnccag gtgaatttag gatgaactat gtatgacatg gtgctgtaaa 180 ttcttctact tgtggactaa ttatggtgac catctttctg tctttgcart ctcttaagca 240 gattgactat gatgcatgtc acattcaagt ttaattgtgt aataaaacaa ttttctttct 300 gttctattat tgtggagttt ctctggggct ggagaaaatt tttcttttaa ttattttttc 360 caaacactgt ctagaattac cagacatgat ataaacacat aaggtgccaa ccagaattta 420 ctctagaggg gactttccct ctcaggcttc cagtcaactc acaattgtgc wgcaaagtgc 480 atgctgtccc ctaaatatgc aggcagaatt gtgtctctgc ctatttggta tctatagtcc 540 tctacagtca cttctagaga ggctagayca gatttctaca aacttcacag ggcagcaatc 600 aatcatttta cctctttcag tgactcttgt atcttcagac ctgaaactga ttcagagacc 660 atggggccca gaaacccaat cagagtaaca tgtgtgcatt gagtagacat gtagacatga 720 gaatctccac tttccccttc ctcctcttgc taaaatgccc acaaatgtgc aggtaacacc 780 tgctgctact ccagccattc aggccctaaa tctgcagctc caaattttga atccaggtct 840 tgagatttgg gaaataaaaa aaaactttta tctgaraaat gcaagtcctt ttggttatca 900 aactcagaga gacattaaaa tgaaagyrca gttatgtctt tctcccccct ttgaactatg 960 tattcatctc ttgaaactgt tcrctattgc cacaagtagc tataaattaa actaataatg 1020 ccacactgga cactatawcc cataccctaa accwtaacga trtatatcca atcaataatc 1080 aatgttattt ctgtaaataa ataaaaattt ctgacaaaca actttgtatc agcccactct 1140 ctgtccctct ctttttgtct ttacaaatcc tcttgtaact gctgctaatc aaagtgtaga 1200 ttccaggcaa cttgaatctt tgctcccagg ttayaatcct naagcttgrc ccaaataaac 1260 tgtctactta tattcatgtt gtgtca 1286 // ID MER5A1 repbase; DNA; HUM; 160 BP. XX AC . XX DT 29-OCT-2001 (Rel. 6.09, Created) DT 29-OCT-2001 (Rel. 6.09, Last updated, Version 1) XX DE Nonautonomous DNA transposon. Medium reiteration frequency MER51 DE repetitive sequence - a consensus. XX KW hAT; DNA transposon; Transposable Element; MER5; MER5A; MER5A1; KW Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-160 RA Jurka J.; RL Direct Submission to Repbase Update (25-OCT-2001). XX DR [1] (Consensus) XX CC This is a MER5 subfamily 90% identical with MER5A. It has a 23bp CC internal CC deletion and 2 base substitutions in its TIRs relative to MER5A. XX SQ Sequence 160 BP; 46 A; 42 C; 36 G; 36 T; 0 other; tgctactcaa agtgtggtcc acggaccagc agcatcagca tcacctggga gcttgttaga 60 aatgcagaat ctcgggcccc accccagacc tactgaatca gaatctgcgt tttaacaaga 120 tccccaggtg attcatatgc acgttaaagt ttgagaagca 160 // ID MER44D repbase; DNA; HUM; 705 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER2 family; KW MER44B; MER44D; Repetitive sequence; TIGGER7. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 705-443 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 705-1 RA Naik A. and Jurka J.; RT "MER44D."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [3] RP 1-705 RA Smit A.F.; RT "MER44D."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [3] (Consensus) XX CC Internal deletion product of TIGGER7 MER2-family DNA transposon. CC 23 bp terminal inverted repeats, TA target site. CC Consensus sequence reversed from [1,2] in agreement with Tigger7. XX SQ Sequence 705 BP; 186 A; 175 C; 139 G; 205 T; 0 other; cagtagtccc cccttatccg cggtttcgct ttccgcggtt tcagttaccc gcggtcaacc 60 gcggtccgaa aatattaaat ggaaaattcc agaaataaac aattcataag ttttaaattg 120 cgcgccgttc tgagtagcgt gatgaaatct cgcgccgtcc cgctccgtcc cgcccgggac 180 gtgaatcatc cctttgtcca gcgtatccac gctgtatacg ctacccgccc gttagtcatc 240 gacatcgtct gctcctgaca tccaaccatc gacatcgtca tggctcgatg atccaggatc 300 acccgaagca gatgatcctc cttctgacgt atcgtcagaa ggtcaatagt agcctaacgc 360 tacgtcacaa tgcctacgtc attcacctca cttcatctca tcacgtaggc attttatcat 420 ctcacatcat cacaagaaga agggtgagta cagtacaata agatattttg agagagagac 480 cacattcaca taacttttat tacagtatat tgttataatt gttctatttt attattagtt 540 attgttgtta atctcttact gtgcctaatt tataaattaa actttatcat aggtatgtat 600 gtataggaaa aaacatagta tatatagggt tcggtactat ccgcggtttc aggcatccac 660 tgggggtctt ggaacgtatc ccccgcggat aaggggggac tactg 705 // ID LTR10C repbase; DNA; HUM; 586 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 1) XX DE Putative LTR from endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR10C; KW Long terminal repeat related to the HERV-I endogenous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-586 RA Smit A.F.; RT "LTR10C."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC Bases 346 to 570 are 80% similar to bases 320 to 543 of LTR10A. XX SQ Sequence 586 BP; 172 A; 130 C; 93 G; 190 T; 1 other; tgtaaaaagt aaagtagagg ttcctcttca aagactttcc tccccatcta attaggaata 60 aatagtaact tctcttaaaa gcaaaattta ttcaaagacc tgtgctaaca ttcttaaata 120 tctgctagcc ataataaaga aatcaatgta ctttatattc ttagctccca caatttagcc 180 taaatatttg ccctggcatg cttatactag tccaagcaag cattaggtca tagcctgttc 240 ctcttcctta tttgaaggtg tttttacctt tctcagcatt ccacaagtta cttcctcctt 300 cctttgttct cctctgcctt tgcctctttt aaaaagttct aagttgctag ccaatcagga 360 caaatacaga atgtgaggtc ctgttccagc caatagaaac tggacacagc agtagggtgg 420 acgcgtcagg ttataaatga ccctgtctcc tttgttcagt gtactctcat ggcaaaactg 480 ctggtgagtg taccctttct gcagaaagta taaawatggc cttgctgaga aaattaaatt 540 tatgttcaag tgctatttct ttacagcacc acaagcattt caaaca 586 // ID CHESHIRE_A repbase; DNA; HUM; 224 BP. XX AC . XX DT 13-AUG-1998 (Rel. 3.07, Created) DT 13-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE Nonautonomous DNA transposon; HAT superfamily - a consensus. XX KW hAT; DNA transposon; Transposable Element; CHESHIRE_A; KW DNA transposon fossil; hAT superfamily; MER58A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 224-1 RA Kapitonov V.V. and Jurka J.; RT "CHESHIRE_A."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-224 RA Kapitonov V.V. and Jurka J.; RT "CHESHIRE_A."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [2] (Consensus) XX CC CHESHIRE_A is a nonautonomous derivate of CHASHIRE transposon. CC 8 bp target site duplication; 16 bp terminal inverted repeats. CC Original orientation [1] has been changed accordingly to the CC internal sequence [2]. XX SQ Sequence 224 BP; 57 A; 56 C; 51 G; 60 T; 0 other; caggggtcgg caaactatgg cccatgggcc aaatctggcc caccgcctgt ttttgtaaat 60 aaagttttat tggaacacag ccacgcccat tcgtttatat attgtctatg gctgcttttg 120 cgctacaacg gcagagttga gtagttgcga cagagaccgt atggcccgca aagcctaaaa 180 tatttactat ctggcccttt acagaaaaag tttgccgacc cctg 224 // ID LTR91 repbase; DNA; HUM; 199 BP. XX AC . XX DT 22-MAR-2011 (Rel. 16.05, Created) DT 22-MAR-2011 (Rel. 16.05, Last updated, Version -1) XX DE Ancient LTR from human. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR91. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-199 RA Kojima K. and Jurka J.; RT "Ancient transposons from mammals."; RL Repbase Reports 11(5), 1464-1464 (2011). XX DR [1] (Consensus) XX CC ~71% identical to consensus. TG-CA ends and 5-bp TSDs indicate CC it is a solo LTR. No copies in opossum. XX SQ Sequence 199 BP; 52 A; 51 C; 44 G; 52 T; 0 other; tgtgtgatgc caggaaaagg agttttaaag cccctttggc ggaagagtcc ttcctgcttg 60 gagtccgaac tgaaaacgga tcccccattt gcacagcgcc atgacacttc ctgtgtaaca 120 ccattaaaca ttccccaggc agcagtagct tgggacatta ctgtttaatc acttcatgcc 180 caatatcatg tgggttaca 199 // ID Helitron1Nb_Mam repbase; DNA; HUM; 1116 BP. XX AC . XX DT 07-MAY-2008 (Rel. 13.04, Created) DT 07-MAY-2008 (Rel. 13.04, Last updated, Version 1) XX DE Helitron1Nb_Mam. XX KW Helitron; DNA transposon; Transposable Element; Nonautonomous; KW RC/Helitron; Helitron1Nb_Mam. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1116 RA Smit A.F.A.; RT "Non-autonomous mammalian helitron."; RL Direct Submission to Repbase Update (07-MAY-2008). XX DR [1] (Consensus) XX CC Description: Identical to Helitron1Na_Mam, except pos 696-913 is CC an unrelated sequence replacing pos 696-859 of Helitron1Na_Mam. CC 23/28% subst. XX SQ Sequence 1116 BP; 409 A; 179 C; 218 G; 308 T; 2 other; tctatctata taaaatactt aggtatgttt ccccaaggtt cagctgggcg tggttttcac 60 gtgatcactc cagccaatga acacgcaagc atccagtgat cacgtgaaaa ccacgcctgt 120 taatttataa atgttgacac tgacaggtga caggtaggta gtgactgttt ataagaattg 180 tatgcatttc tgagcattta tttacttaat ctttttgaaa ttaagcttag aatttctaca 240 acgtgtaacg ttaaacatgt gtcacctatt ttgaacttaa tacagtgcat aaaagtattt 300 ataagaattg tatgcatttc tgagcattta tttacttaat caaaaatttt atgtgttttg 360 agcatttatt tacttaatca aaggtttaaa agttttaaga agtgtaaaaa tggctgaacc 420 atgtgtaaga actctgagaa accatagaag aaatgctaat gaaacattag aggagagatc 480 aaatagacta cgagaccgaa atgaaactct acgatgacga agacggacag agaacactga 540 agaaagagaa gaacgattgg aaatgagaag aaaaagagcg aaacgcctag gactaatcaa 600 atagaagtac cggatgcgaa taatcaacaa gctgtaatca actgtggaag agcataacat 660 aggaaatatg tgttacaact gtgagcactg caatgcaaga tattggggac aagagttaaa 720 cacatcgaat aaatacacta aatgctgtca tgatggaaag gtttcactcg acccactgtc 780 tgagacacct actcnattat aagagctgct tacagggaat acatgcnaag aaacaaaaaa 840 ctcacagaga acatatacga gagtacaact cagcaatggc gttcacatca gtgggcgcca 900 agattaaatc accacctgta tttagtcacg gacaactata tgttgctctc tcaagagttc 960 gatcattgga ctcattaagt gttgtatctg agaagaataa gattgttaat tgtgtttaca 1020 atgaaatata tgaataaata aataaaatgc gttaatattt tattaataac tattaagatc 1080 tgctagaacg gcgtatgtta cgccgggtac agctag 1116 // ID ERV3-16A3_I repbase; DNA; HUM; 5226 BP. XX AC . XX DT 07-JUN-2008 (Rel. 13.06, Created) DT 07-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Internal portion of the ERV3-type endogenous retrovirus - a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of endogenous retrovirus; ERV3-16A3_I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5226 RA Jurka J.; RT "A new ERV3-type subfamily of endogenous retroviruses."; RL Repbase Reports 8(6), 614-614 (2008). XX DR [1] (Consensus) XX CC This sequence was reconstructed from the human genome, but it is CC shared by all placental mammals. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 5226 BP; 1496 A; 1146 C; 1382 G; 1156 T; 46 other; catgaatggt gccgggagtg gtctgtagaa arcaggcgrt aagatggggt tttgggactg 60 gctcactcac cgcttagtgg acagaggata cyatcctgat acaaggtggc ggcccagttg 120 rtaaaaattt cactggtggt gacttgggaa aatgtgtccc agaaattraa aggggaatgc 180 ccttgcgggt gcaatgattc aggcatttga aagatatggg gagagaattc ttacaaggac 240 aacggagttg gctggttatt gctaagttgt attgatgccc tagaaagaga taatgaaaaa 300 ctgagggcta ttaacaagca attaaaagct aagtgtgara gccagagggc ctctttgctg 360 gtagcttaca aagargtcct tatctcctgc agtgaaagaa cagacaaagc tgagsagcag 420 actcaggatc tratagttag agttacagag ctccagagac gtttaaatgc tcagccaagg 480 cgagaacttt tatgctaaag gtaaggctct tggttgggaa aacctggrac agaacacagg 540 atggggacat ctaggtggat gcccctaaag atgttggctc tctagactcc tctgaaccct 600 ctgagcytgc agaagtggcc caccyctccc tastaagagc tagcactcct cttgcaccca 660 cactggaaga camtgcagag gcctctcccc acaaggcaac aggtgccccc tctyaagact 720 tgcccccacc tctcctcctg gctactaggc caataactag ggttaagtcm cagcataacc 780 cagctgggga catgctgggc ctgataaggr aggaaaggga ctatacccca aaggagctgc 840 aagaattagc cagcatgtac cagcaggagc caggggagta tacacatggg actggatttt 900 gagggtgctt gatcaaggag gcyagaatat aagcagtaag attagataat ggaagaattc 960 attgacttgg gagcactttc tcgggataca ggatttaaca ccctggcaag gaccccagga 1020 gatggtgcaa acttactgct aggatggctc ctagaagcaa gaaaaatggc ccatgctgag 1080 tgaagttgaa atgccagaat tgccmtggca gatggtagag gaaaggatta aaggctcagg 1140 gaagtgggca tgctagaata gatatcatta tgtaaggcta gaagacccac cagaggatta 1200 tgttccatgg aarggcccac accattcacc aaggccatca ggaatgtact ggtgagaggg 1260 gcaccagcaa atcactaaga agttcagtgg tggctctcct ctgcaggcca gggctgatgg 1320 taggagaggc cattacacaa cttggctcat tratagcaat ggggatgata agaccctaaa 1380 acaatagagg ccaggtggta gcacttaact gccagaagcc aggaggctgc aattattata 1440 atgaccagaa ggtcagagtg gcagccaagg gggcttgacc cargagagtt gtggagatgg 1500 ttaatagaac atggtatccc taggggcaaa atagattgac aagagtgctr cttaacttgt 1560 aacagcagaa aaaatctggg aggctgaggg tagtcactcc aataaaaaag tcatgatccc 1620 ttgctcagtt tctagacctg agccaatttt cagatctaga acccattgac tgaagaggtg 1680 gycaggtccc taggagraag gacactgcaa tgattcttct ctttcctcct gcagagacct 1740 atagccattt actcaggtaa ctgtacactg gagaaaggga atacccagac atttygagga 1800 ctattggaca cagggtctga gttgacattg atacctagag acccaaagca tcatcatggc 1860 ccactgttag agtggggaca tataggggcc aggtaataaa tggaatcctg gctaaagtct 1920 ggctcacagt ggatccactg ggtccaagaa ctcagtggtc atttccccag tccctgaatg 1980 tataattggg tagttagagt aaccatcaca ttgggttctt ggcctgtggg gtaagagcta 2040 tcatagtggg aaaggccaag tggaaacctc tgaaactgwc caccaccacc attcctagcc 2100 aagatagtaa attattatat cctctcaagg aagtggtgga tgcagattag tgccatcatt 2160 aaagatctaa aagatgcagg ggtggtggtc cctatcatat ctcyatttaa ttcaccagtt 2220 tggcccctgc agaaactgga tggatcctgg agaatgactg tagactacca caagctcaac 2280 caagtagtag ccctgattay agctactgtg ccagatgtgg tatctttgct agagcagatt 2340 aataaggcct caggtacatg gtatgtagcc attgatttgg tgaatgcatt cttttctatt 2400 ccaatcagaa aagaggatca gaaacattca cataaacagg aaaaaatata catttacagt 2460 tttgcctcag ggctatgtta tcttctcctc tgtcataata agtccgaaga gatctggacc 2520 acctggacat cctacagaac atcacactga tccattacat tgatgacatc atgctgattr 2580 gacaggatga gcaagaggtg actatattag gccttggtaa gacacatgca ctgagggtgg 2640 agataaccct atgaagattc agtggaggga cctgccactt cagtaaagtt tttaggggtc 2700 cagtggtcag gggcatgcta ggatatcccc tccaaagtaa aagacaaatt gctgcatctt 2760 gcatccccta ccacaaagaa ggaagcacaa tacctggtag gcctctttgg gttctggagg 2820 caacatattc cacacctagg aatactgctc tracccatat acyaggtgac ataaaaggct 2880 gccagctttg agtgggccta gagcaggaaa gggctctgca gcaggtccag gctgtagtgc 2940 aagcagccct gccacttggg ccatatgatc tagcagaccc tatggtgttg gaggtgtcag 3000 tggtgggaaa agatgcagtg tggagtttat ggcaagctcc agtgggagaa tcacaatgca 3060 ggcccctggg gttctggagc aaggctgcaa gtcttttgaa aaatagctct tctaatgcta 3120 ctggtaaaga ggaaatgctt actatggggc actaagtgac acaaaacaaa atgtaccttg 3180 ttatgagctg gcttctgttg gacccaccaa gtcataaagt caggtaggcc cagcagcaat 3240 ccattgtaag atggaaatgg tacatctggg atyaagcaca aagaagacca caagcaagct 3300 gcatgagcag gtagcccaga ctcccatgtc actcaccaca gttgcaccag trctccttca 3360 gctcacacct atggccatat ggagcagagg tgtggtcttg atcaaccagc tgaaggaaga 3420 agaaaaatgc ctaagcttgg tttatggatg ggtcagctya gtatgtgggt gcaagctaaa 3480 aatggacagt ggcttgcatt acagccacat tcaggggtgg ccttgaaaga cagtggagag 3540 gaaaaatctt cccaatgggc agagctttaa gtggtgcacc tggtcatcca ctttgtgtgg 3600 aaggagaagt ggcctaaggt gagaatatat atagactcat gggcagtggc caatggcctg 3660 gctggctggt caggggcctg gaaggaaaaa gactggaaga tcagagacaa ggaggtctga 3720 ggattagagg catgtggatg gacatatggg agtgggcaca aagtgtgaag atctttgtat 3780 cacatgttaa tgcccaccag aaagcatcca ccatagaaga ggcactaaac aaccaagtag 3840 acaaaatgac ttggccagtt gatattagcc agcctttgtc attrgccacc ccaagtgctg 3900 gcacaatggg cacatgaatr gagtggccat ggtggcagag atggaggcta tgcatgggcc 3960 caacagcatg gacttccact taccaaggct gatctagcta cttrctgcct catctgaatg 4020 tccaacctgt cagcaacaaa gactgatcct caatatggca cyattcctca aggagaccaa 4080 ccagccactt ggtggcaagt tgactacatt gggccccttc catcctggaa gggccagtag 4140 ttcattytca caggaataca tattctgggt atgggtttgc ctttcctgcc tacagagcct 4200 cagccagcac cactatctaa gggcttacag aatgcctgat ccacaggcat ggaatcccac 4260 acaacatagc atccraccag ggacccactt cacagcaaag gaggtacagg aktgagccca 4320 tgaccatggg atccactggt catatcacat actgcaccat ccagaagctg ccagcctgat 4380 agagcactgg aatggccttc tgaaggcaca gctgaagtgc cagcttggag acaatactct 4440 gcaaggatga ggtaccatcc ttcaggatgc agtgtcccca ataggaagaa tacatggatc 4500 caggaaccaa ggggtggaag caggaatgta gccccactta ccatcactcc caatgaccca 4560 ctgggggact ttgtgcttcc catccctgca actctgggct ctgcagggtt rgaggtcctg 4620 gtccccaaag ggggtacact cttgccaggg gacacagtgt cccattgaac tttacagcta 4680 cagctgctac ctgggcactt tggactcctt gtgtccaggg accagcaggc aagaagagga 4740 gtcaccatct tggcaggggt aattgaccct gatcatcagg aggaggtagg gctgctttta 4800 cacaatgggr gcagggagga atatgtgtgg aactcaggtg atccacttgg gtatctcttg 4860 gtactccctt gcccaattgt aactgtgaat ggacaagtgc agcaacccca gcctgagaag 4920 ggtatgatta ccaggggctc agacccctca ggaatgargg tttgggtcat accaccaggt 4980 aagccaccaa gaccagcaga gtgatagctg agggtgaggg gaatttagaa tggatagtgg 5040 aggagggaga taatgratat cagttgtggc cctaagacca actgagcgat gggggctgta 5100 gtttatccca ctaacctccc tcttctaagt ttcccttagg aagagaggcc cacaggaacc 5160 ctggaggagc tgctcctgaa ccgaacgtgt atggagaagc ggatccgcgc ggcgcaaggg 5220 gtggac 5226 // ID CHARLIE3 repbase; DNA; HUM; 2710 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 31-MAR-1998 (Rel. 3.02, Last updated, Version 2) XX DE Primate CHARLIE3 repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; CHARLIE3; KW DNA transposon fossil; HAT supergroup; MER1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F.; RT "CHARLIE3."; RL Direct Submission to Repbase Update (1997). XX RN [2] RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-1998). XX DR [2] (Consensus) XX CC CHARLIE3 is a hobo-Activator-TAM3 (hAT) like DNA transposon. CC The open reading fram from 625 to 2526 encodes a transposase 59% CC identical to that of CHARLIE1. Copies differ from the consensus CC by 8.5% on average. Common internal deletion products of CHARLIE3 CC are CC pos 1-272<>2456-2710 (MER1A) and 1-96<>135-272<>2621-2710 CC (MER1B). CC For detailed references to MER1, see MER1 entries. XX SQ Sequence 2710 BP; 775 A; 613 C; 619 G; 671 T; 32 other; caggggtccc caacccccgg gccacggacc ggtaccggtc cgtggcctgt taggaaccgg 60 gctgcacagc aggaggtgag cggcgggcga gtgagcgaag cttcatctgt akttacagcc 120 gctccccatc actcgcatta ccgcctgagc tccacctcct gtcagatcag cggtggcact 180 agattctcat aggagcgcga accctattgt gaactgcgca tgcgagggat ctaggttgcg 240 cgctccttat gagaatctaa tgcctgatga tctgaggtgg agctgaggcg gtgatgctag 300 cgctggggag cggctgcaaa tacagattaa cattagcaga gaggtttgac tgcacagaga 360 ccataataaa tcaattgctt gcagactcat atcaaaaccc tatcagtgag tggcaagtga 420 caattaagct gcatctggtg gcaggcttta tagtggcaag tgagttgatg tacttcaatt 480 gtacagctgc atctggtggc aggctttaag tcagaatccg acacttattt tagtccgcgc 540 gtggcctgct cattatttta tttaccactt ccatccgcgc ctctttcccg cactgcgcac 600 ttgtctcagt cacagttttg gtaagcccac aagctaaccc tagccaaaat gagtaaaaaa 660 caaacgtcac tggagagctt ctttgaaaag ggggaaagac ccaatgatga gacagcagaa 720 gactctaaga ctgccaamaa aaanaangct gcatttaaaa gaaaatacca agagtcctac 780 ttaaattacg ggttcattgc aacaggtgat tcacattctc caagcccgct ttgtataata 840 tgtggtgacc agctatccaa cgaagccatg aaaccttcaa aactgcttcg ccacatggag 900 accaagcacc ctgcattaga agacaagcct ttggagtttt tcaaaagaaa aaantgtgaa 960 cacgaagaac agaagcaatt attgaaggcc accacttcat caaatgtgtc tgcactgaga 1020 gcatcattct tagtggctaa ccacattgct aaagctaaga agccctttac tgttggtgaa 1080 gagkktgatc ctgcctgctg ccaagssaca tttgtcatga actctwagga gasgmtgcms 1140 ttcaaawggt ggcatgtgtt cmtctttcak ctttcagcca ccacaacmag acgaactggt 1200 gaaacagcag aggatattga ggcacagttg ttagagagga tkaatgagtc accgtggtat 1260 gcaatccagg ttgamaagtc taccagtgtt aacaacaakg maacaakgct tgcttttgtg 1320 kgatatattt ttcaggagga tgcgcawgag gatatgttat gtgcactttt gttgccaacc 1380 aacaccacag ctgcagaatt attcaagtct ttgaatgatt acatatcagg aaaactgaat 1440 tggtcatttt gtgtcggtat atgcacagac agagtggctg ccatgactgg atggctttct 1500 ggtttcacta ctcgggtcaa agaggtcgct tctaaatgtg agtctacaca ctgcgtcatc 1560 catagagaaa tgctggctag ctggaaaatg tcacctgaac ttagcmacgt tttgcaggat 1620 gtsmttaaaa ttatcaacca cattwaagta catgccctta actcacatct gttcgcgcag 1680 ctctgtgagg agatggacgc agngcacaca cgtcttctct tatacacaga agtgagatgg 1740 ctttctaaag gtagatcact ggccagagtt tttgagttac gagagccgct ccagagattt 1800 cttttagaaa aacagtcacc actggcagca catttcagtg acatagaatg ggtcgcaaaa 1860 cttgcttact tgtgtgacat attcaacctg ctcaacgaac tcaatctgtc acttcagggg 1920 agaatgacaa ctgtgttcaa gtcggcagat aaagtggctg cattcaaagc caaactggaa 1980 ttatgggggc gacgagtgaa cattgggatt tctgacatgt ttcaaacatt agcagagatt 2040 ttgaaagaga ctgagccagg gccttctttc tcccagctgg tgcatgatca cctatctcag 2100 ctttcaaaag agtttgagca ttacttccca accacaaagg accccagaac tgggaaggaa 2160 tggatccgcg acccatttgt gaataagcca gstgaatcga ctttgtccgt gctagaagag 2220 gatcaactgc ttgagactgc aaatgacggt ggccttaaaa gtatgtttga gacaacttca 2280 aatctccata cattctggat taaagtcaaa gcggaatatc ctgagattgc cacgaaagca 2340 ctgaaaagcc tgcttccatt tccagcatcc tatctttgtg aagcagggtt ttctgcagtg 2400 acagcaacca aaacgagatt acggagtaga ctggacataa gcaacacact tcgggtgtcg 2460 ctgtctccca tcacccccag atgggaccgt ctagttgcag gaaaacaagc tcagggctcc 2520 cactgattct acattatggt gagttgtrta attatttcat tatatattac aatgtaataa 2580 taatagaaat aaagtgcaca ataaatgtaa tgcacttgaa tcatcccgaa accatccccc 2640 ccccctggtc cgtggaaaaa ttgtcttcca cgaaaccggt ccctggtgcc aaaaaggttg 2700 gggaccactg 2710 // ID L1MA3 repbase; DNA; HUM; 1058 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MA3) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M1; L1MA3; L1MA3 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1058 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1058 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 10.5%. XX SQ Sequence 1058 BP; 418 A; 170 C; 211 G; 257 T; 2 other; ttaataacca gaatatataa ggagctcaaa caactctata ggaaaaaatc taataatccg 60 attaaaaaat gggcaaaaga tctgaataga catttctcaa aagaagacat acaaatggca 120 aacaggcata tgaaaaggtg ctcaacatca ctgatcatca gagaaatgca aatcaaaact 180 acaatgagat atcatctcac cccagttaaa atggctttta tccaaaagac aggcaataac 240 aaatgctggc gaggatgtgg agaaaaggga accctcgtac actgttggtg ggaatgtaaa 300 ttagtacaac cactatggag aacagtttgg aggttcctca aaaaactaaa aatagagcta 360 ccatatgatc cagcaatccc actgctaggt atatacccaa aagaaaggaa atcagtatat 420 cgaagagata tctgcactcc catgtttatt gcagcactgt tcacaatagc caagatttgg 480 aagcaaccta agtgtccatc aacagatgaa tggataaaga aaatgtggta catatacaca 540 atggagtact attcagccat aaaaaagaat gagatcctgt catttgcaac aacatggatg 600 gaactggagg tcattatgtt aagtgaaata agccaggcac agaaagacaa acttcacatg 660 ttctcactta tttgtgggag ctaaaaatta aaacaattga actcatggag atagagagta 720 gaaggatggt taccagaggc tgggaagggt agtggggtgg gggggaagtg gggatggtta 780 atgggtacaa aaatatagtt agawagaatg aataagatct agtatttgat agcacaacag 840 ggtgactaca gtcaacaata atttattgta catttwaaaa taactaaaag agtataattg 900 gattgtttgt aacacaaaga aatgataaat gcttgaggtg atggataccc catttaccct 960 gatgtgatta ttacgcattg tatgcctgta tcaaaatatc tcatgtaccc cataaatata 1020 tacacctact atgtacccac aaaaattaaa aattaaaa 1058 // ID MER83AI repbase; DNA; HUM; 4285 BP. XX AC . XX DT 16-JUN-2000 (Rel. 5.05, Created) DT 20-APR-2006 (Rel. 11.05, Last updated, Version 2) XX DE Primate MER83AI repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER4I-group; KW LTR retroelement; MER83A; MER83AI. XX NM MER83AI. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-4285 RA Smit A.F.; RT "RepeatMasker release June 1998;."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC Internal sequence of a MER4I-group retrovirus-like element CC flanked CC by MER83A LTRs. It is similar to MER83BI over pos 1-1358 (92%) CC and CC 3957-4285 (78%). At the protein level, pos. 795-1320 and CC 3224-4066 CC match the gag gene and C-terminal half of the env gene of HERV17. CC Sequences are on average 15% diverged from consensus. XX SQ Sequence 4285 BP; 1122 A; 1083 C; 866 G; 1149 T; 65 other; cacccgcaac attttggtgg cccgtacggg gactctctct ccttacgggg aactctctcc 60 cctgctcnnt tttctctttc ccaacttggg accctcggtg gacagcatct aagcacggag 120 acaattgtag gtctctggcc ggggctacac tccggtggga ctgaaaggtg tccgtgtgga 180 agcgtctgac cgccacgccc attcgggtga ggnacctgag ttnnttttct ctnttcagtn 240 tttcagcggc cagcttctag tatctctctg gcaattgatg gtaactggcc agggccgctc 300 tccggtgttg cctgaaggcc agagagtgaa cagagntagc tgccttgccc ggaaggggga 360 agactctctc ctntcttttc tngtcanaag tccctaattc ctacgtgtga cgtaactggc 420 agcggaagct cgttcagagc gaattcacac acgtttcggg tgactcagac cntctctttc 480 tcattctgaa ttctccnatg gagtcagcca gccatcctgt tctggacgtt gctgaatnag 540 gtgatctcgg acagcctcag aacggtgagt ctcccctncc tgccccttct cctgggccgg 600 caccaggcgg agttcttcct ttaccctttt tcctcgtacc tgggctgatc acccagcgta 660 agtgagtacc tggactggcc atccagcgta aggcccccaa gtggccgaga ggtcttttct 720 aataggtggg atgccccttt agaaagtgca cccgagtccc ttagcggacg naagtggaac 780 cctttttatc ttggcgggac gccccaagag aaaatgcggt tcgattagct ccaagcggtt 840 cattttccag tcccaccatg ggacaagccc catcnattcc ttcagactca cctctaggct 900 gcattctaaa gcattggaac aaatttnacc ctcaaactct caaaaagaaa catctaattt 960 ttttgtgtaa tacggcatgg ctcctatgca ggnaatcctc aaattagcct cctcagtntt 1020 ttataaccaa gagcagnata aggaggacag gnctaaggag agagaaaaan gcagggacaa 1080 gaggcaggct taactgttgg ctgctttaca agcccccagc cccctccagg ttgccctaag 1140 gacnctcctc cagataaccg ccaccggngc agaagggcag gcnagnagaa aggcaaagtg 1200 ncccaatggg ataaanggga aaangccccg catggcttgc cccctctgcc gcaagctcga 1260 ccagtggaaa cgggactgcc ctgagagcca aagggccccc gggacaaaat cccaacccct 1320 aatggcctta agctgaaggg gctctctgct ctggctggaa acagctcacc ttaactggtg 1380 actngcagag gtgggaggaa ttcgtcccac actgtgtaaa tctggggtgc taaggctctc 1440 cctgatggga gataaacgaa ggtggtagag gtgctggccc cacaccgtgc agtggctgga 1500 aggctcacaa gtcctcccgt aaaanttaac ctttctctct ccattccttt cattttttct 1560 ctttttctgt tcaatccaaa ngtccagcct taaaagggaa agacagtttc taacgtccta 1620 acccctgatt ttgtcattct ctttaaaact ccagctggtt acatattatg gcccgttttt 1680 gtgcacattt taaactgatg ggcaaattac aacgagaaaa attcagagct caaatggtta 1740 acctgcacta tagagttaag tagagtcttc taaagctctc tgtcttcctc tctttttttc 1800 tgcctgcttt aaatctgccg ttactaagct gctggtgctg agactcatta tttatggtct 1860 aactagaatg taaacattgg aaactcattt aaagttaaaa aaaagggtaa aanaggtttt 1920 gttaaaccaa acaacctaga atttttaacc tcccttaaag ttaatggaaa taaatccagc 1980 acctccctta aacnttattc ttaaagctga ctctttttat tcaattctac tgcaagctct 2040 cagtaattat ccaactgcct ctcttgagca gcttcaccct cttgatatta atgcttttat 2100 aagggagata gtacanaatt gctatttgca gggngacctc caaaactact gcccagatga 2160 aatttcttta tatttgtcct agtaatgtta tttaccccca naccacaaca tcgatatgct 2220 aaggtactag gtatttttta acgttttgtt ttcttatact ctttacagcc cttcttcttt 2280 cctgtctccc tgagtttact atatattgtc attttcctta aatatggctc tgtttttatn 2340 ntgtctgtca tggctaacta ttgcctcaat ggctncaccc aggcacccgc tctanccagt 2400 aatatctcag gttgctaaca taacacacng tactaactgc tggatatgcc cacgtaggca 2460 ggcactcgag aatgacatta cactcctagc agtcccacta tctatagaag aaatngctaa 2520 cacgcaagcc caatgatctg gattcgacta cactatgtac acgcacacca aaaacacagg 2580 tttaggaggg gnacctaggc caatcgatcc ctcatgncaa tcatccactg taaccgagcg 2640 aatagggaag gcaccagaga atggcctgta angctgcttc agaaactcca aggagtctgg 2700 ccctttccta ggggctttaa cacaagccca ttgnaattac accntcaact ataatcaaac 2760 acaccaggaa tgggagccgt acgatgactg tgacgagttc actgtgtacc tccacagntt 2820 ttctctatgg tggggaaaca acaaagttaa tgccagcaan atttataacg attcctttat 2880 gcctataaat agttcagcaa ccgggatgga atatatagga ataggggtcg aaactggaca 2940 acttcttaac ctcactaaca catctacatc ttttcctcga ttttccctta tcccattaat 3000 atttanaaat cttatctgtc aggccccaca ttcacataac acaacaagtc aaacttttac 3060 ccccttatgc gtggataact actttttggg tcattgccca tccacattta atccccgggg 3120 accatgggat ccctntattt atgcaaatta tactggaatc caaactaatc acacctatgc 3180 ctggttacga ggtccctcct cgggagtttc attaaaagga actgggttct tctttttatg 3240 cggatccaac atgtttctag ccttgcctat taagtggana ggcacntgca ctacagttgc 3300 agccatacct ggagtgcata tatataactc ctcagacttc ataacctcta gccaagttcc 3360 aaatttagna tccttcctaa gtcgggccct ccaaaggnca tcagaagaaa acagaagcgg 3420 nacttaacct cccatcattt ggcatcctcg ccactgataa tcccgtnata gagagaaatg 3480 gtctaggaca ttctgtagcc agtgcaatct tttggtttgc aggtataccc atgcttaagc 3540 gcagcattcg taatctcacc atcctagtcc agcaatcttg ggaagctaca gtcacagcca 3600 ttgagggcca anaacaggcc ctaaattcat tggcaggggt tgtcttgcag aatcaacgcg 3660 ctttggatgt gcttaccgcc gaggcaggag gcacttgcgc gctgttaaat gaaacttgtt 3720 gcttttacat caatacctca ggtcaagtag aagaaagttt agaaaagata aaaganaaca 3780 tcaagatatc agagggcctt caaaaaagag ttcctcaaga ttcctttttt gcacaactat 3840 ttcaaagntt ctccagttgg gtttggccat gggttgccca acttctcctg cctataataa 3900 tgctcatatt agtttgttta tttgcancac gtattgttaa tgctatatat ctcattttgt 3960 gtcttctaga atacaanaat ttcaaaccaa aacgttactg cagcaaggat atcagctact 4020 aagagaactc cataactctc ctttggacgc agcagaacaa aattttaggc tgcaaatgct 4080 gttcncccat agtctcacag caaccctgcc caatttaagt cccaactcag ggatttaggt 4140 ccacgtaacc tcctgaccga ctaacaatcc taggtagggc caactctacg cccctggtca 4200 gcaagaagca gttggaagat gagaccttca cccacacgcc aaagatttgt cattgttgct 4260 ctgtcagggg gggatgtgga atcct 4285 // ID MER28 repbase; DNA; HUM; 434 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Nonautonomous DNA transposon. XX KW DNA transposon; Transposable Element; MER28; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 1-434 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [2] (Consensus) XX CC Internal deletion product of Tigger2 element. CC 24 bp terminal inverted repeats, TA target site. XX SQ Sequence 434 BP; 115 A; 96 C; 80 G; 138 T; 5 other; cagttgaccc ttgaacaaca tgggtttgaa ctgcgtggrt ccacttatac gcggattttc 60 ttccatctct gccaccctga gacagcaaga ccaacccctc ctcctcctca gcctactcaa 120 cntgaagacg angaggatga agacctttat gatgatccac ttccacttaa tgaatagtaa 180 atatattttc tcttccttat gattttctta ataacatttt cttttctcta gcttacttta 240 ttgtaagaat acggtatata atacatataa catacaaaat atgtgttaat cgactgttta 300 tgttatcggt aaggcttcca gtcaacagta ggctattagt agttaagttt tkggggagtc 360 aaaagttata cgtggatttt tnactgcgcg gggggtcagc gcccctaacc cccgcgttgt 420 tcaagggtca actg 434 // ID L1MB8 repbase; DNA; HUM; 925 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MB8) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M4; L1MB8; L1MB8 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-925 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-925 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 16%. XX SQ Sequence 925 BP; 361 A; 152 C; 187 G; 223 T; 2 other; cttgtatcca gaatatataa agaactctta caactcaaca ataaaaaaac aaacaaccca 60 attaaaaaat gggcaaaaga tttgaataga catttctcca aagaagatat acaaatggcc 120 aataagcaca tgaaaagatg ctcaacatca ttagtcatta gggaaatgca aatcaaaacc 180 acaatgagat accacttcac acccactagg atggctgtaa tcaaaaagan agacaataac 240 aagtgttggc gaggatgtgg agaaattgga gccctcatac attgctggtg ggaatgtaaa 300 atggtgcagc cgctttggaa aacagtctgg cagttcctca aaaagttaaa catagagttg 360 ccatatgacc cagcaattcc actcctaggt atatacccaa gagaaatgaa aacatangtc 420 cacacaaaaa cttgtacacg aatgttcata gcagcattat tcataatagc caaaaagtgg 480 aaacaaccca aatgtccatc aactgatgaa tggataaata aaatgtggca tatccataca 540 atggaatatt attcagcaat aaaaaggaat gaagtactga tacatgctac aacatggatg 600 aaccttgaaa acattacgct aagtgaaaga agccagtcac aaaagaccac atattgtatg 660 attccattta tatgaaatgt ccagaatagg caaatccata gagacagaaa gtagattagt 720 ggttgcctgg ggctgggggg aagggggaat ggggagtgac tgctaatggg tacggggttt 780 cttttggggg tgatgaaaat gttctaaaat gattgtggtg atggttgcac aactctgtga 840 atatactaaa aaccattgaa ttgtacactt taaatgggtg aattgtatgg tatgtgaatt 900 atatctcaat aaagctatta aaaaa 925 // ID L1P4c_5end repbase; DNA; HUM; 1583 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from primates. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1P4c_5end. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-1583 RA Smit A.F.; RT "L1P4c_5end - L1 Non-LTR Retrotransposon from primates."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC L1PA16. XX SQ Sequence 1583 BP; 378 A; 518 C; 443 G; 226 T; 18 other; gggttcaaga tggcggacta gaagcagcta gtgtgcgccg ctctcacgga gaggaaacaa 60 agtggcgagt aaatactgac tcttcaagcg gatcgtctaa gaaaccatgt caggatccat 120 caagggagca aggggacaca cggagaacag agaagagcga agctgggcag ccgcccaccc 180 gggaccagcg cggagccagg agaagctccc taacacaggg aaagggtgag ngagtgagag 240 cccccagggg atccacactt cccacaggga cctgtgcaat cctgggaacg ggagaaccct 300 cctgaccccc ncgggcctct agactgatac agagagccgc ccagagtttt tgcggaggca 360 acactcaagn ccacagggag ccccacaggc cttggatccc ngagcagccc ggcgccagct 420 gccatagccc caatagaggc cacagtcgtg gtgccnggga gcagtcagat tgctccactc 480 ctcttcgcca gacaaggctc ggcnccagct tccagcacag tggccccgcc tctgcctgaa 540 ctctgtgggc aggcacagct ctgtgttccc cgggaagcac cnggacggcg gancgggcga 600 ctccacccac ccccgctgct cntagccggg cgggncncgc cggctngggc ttccagcaca 660 gcagncccgc ctctgcctga actctgcggg tgggcacagc tctgtgttcc cccgggaagc 720 acccagatgg cagatcgggt gactccaccc acccccgctg ctcctagcca ggcgggacnc 780 gccagcttgg gcttccagca cagcggcccc gcctctgcct gaactctgcg ggcgggcaca 840 gctctgtgtt cccccgggaa gcacccagat ggcggattgg gtgactccac ccacccccgc 900 tgctcctagc cggacgggac tcactggctt gggcagcgcc caagcaggag ggagccccca 960 ctctcagaac actgagaggg gtgagacgcc tgggttcatg ggctggcggg ggagcagggt 1020 gtgcctccct ccgcagggcc agcccaggaa gggtatggcc tgtctgccag ccgcggcccc 1080 tgcctgaggg agccccgcgg cccagaacac ctaacaaagg aaatgcaggc acggcgccag 1140 tgatcagang gggctcctcc aaggcccagg agcggacctg gtgagggggt catctctctc 1200 cccacccnac cacagagcac tactgcgaac tgcgccaaaa tacaaaagag ccacgtggct 1260 gagtaagagc ctatctgccg gccatcactc ttaagcgcca cctactggat cgcagcccaa 1320 attacaacac caaaaatatt ttgccagtat acagcgcctg tgaaacctaa ggcaaaaatc 1380 cagccacaaa taaagatcct gtacagagcc ctggccttct gaaagcaccc agaaatgaag 1440 ccaactgact atactcaact tacatcacag ttaaaggaac accagccctc ncagatgaga 1500 aagaatcagc acaagaactc tggcaattca aaaagccaga gtgtcccctt acctccaaan 1560 aaacacacta gtcccccagc aat 1583 // ID L1MDB_5 repbase; DNA; HUM; 1422 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Expanded 5' end of L1MD2 subfamily - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1MD; L1MDB_5; KW L1MDE_5; L1ME. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-503 RA Jurka J.; RT "L1MDB_5."; RL Direct Submission to Repbase Update (JUN-1999). XX RN [2] RP 1-1422 RA Smit A.F.; RT "L1MDB_5."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC 5' end of LINE elements with L1MD2 subfamily 3' ends, comprising CC the CC 5' UTR and start of ORF1 (pos 937-end). CC 73% similar to individual repeats. ~1000 copies per genome. XX SQ Sequence 1422 BP; 478 A; 396 C; 320 G; 216 T; 12 other; ttaaaaagac ttctggtcta gacaagatgg cgtggacccg tttctccctg ctcctccccg 60 ctaagtacaa ctataaaccc tggaaataac gcaagaggca accaaaggag aactctgaaa 120 ggtggtaaga ggaaggcgaa ctggtttggg accccaggac tggaggaaca gcacagcggc 180 agggtgtctt acgtcccccc acccaacaga agaaggtgac ccagacccgg cgtttcccaa 240 cccccgacct agcaacagaa ggcagcccag gnaggctcat tcctctcctg gatcgaatgg 300 gagtccctcc gacaacacca ggtgagccca gcgccaccgg caagggggat caatcgggag 360 ccccgctaac aataagcagc caggggaagc gctctccttc cccaccgggc ctgagactcc 420 cctcccctgc cgagagacac tgaggctgnc aaggcagcac cggcaagagg gatcctgcca 480 caacaagcag cctggtccgg gaagcctctt tgtccccatg ggcctgagac tcccctcccc 540 tacccagaga cactggggnn gcaggcggca ccggcaaagg ggatcccgcc acaacaagcg 600 cccggcccgg gaagcctctt cgtccccacg gacccgagac tcccctcccc cgcccaccac 660 tcccttcccc caccnagagg caccnggcgg cccggcctgg ggaaacccct tctgccccct 720 caggcagcac cagcagggac cagtgggagc cccagcggca ccagataaac caagcagacc 780 aaaataacac cgcaaaggct ctgaaaatta aactgtcatt ggaaccacag cccacaaaag 840 taggccagga cctgcatgct aaacctaaac agggtgactg cctgctaaaa taaaagattt 900 aaataggacc cagagtctcc taacataata gacaaaatgt ccaggataca atnaaaaatc 960 acccgtcata ccaagaacca ggaaaatcac aacttgaatg agaaaagaca atcaactgan 1020 accaacaccg agatgaatca gatgttggaa ttatctgaca aggattttaa agcagccatc 1080 ataaaaatgc ttcaacaanc aattacaaat tctcttgaaa caaatgaaaa antaaaaatc 1140 tcagcaaaga aatagaagtt atnaaaaaga accaaatgga aattatagaa ctgaaaaata 1200 caataacaga aattnaaaac tcactggatg ggctcaatag tagagtggag atgacagaag 1260 atagaatcag tgaacttgag gacagatcaa tagaatttac ccaatctgaa caacagagag 1320 aaaatagact gaaaaaaaaa tgaacagagc ctcagggacc tgtgggacaa taacaaaaga 1380 tccaacattc atattatcag agtcccagag gagaggaaaa ag 1422 // ID LTR18A repbase; DNA; HUM; 357 BP. XX AC . XX DT 08-MAY-1997 (Rel. 2.04, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus HERV18 - a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; HERV18; LTR; KW LTR18 subfamily; LTR18A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-357 RA Kapitonov V.V. and Jurka J.; RT "LTR18A."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-357 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of class III (HERVL) endogenous retrovirus HERV18 [1]. CC 5 bp target site duplications [1]. CC Copies on average 14-15% diverged from consensus. XX SQ Sequence 357 BP; 80 A; 105 C; 93 G; 74 T; 5 other; tgtaaggaaa atggmtgcgc tktagtcagg agtaggccga ggcagmcwtc cggtncagca 60 tgactcagcg ggtttggagc gcaggcgcac aaccccgcac attatgtaac cacgccacgt 120 gaggcgcatt aggtgatcac ccacgtgagc tcgtgcttgg ctcggagcca ctattgtctg 180 taaaaggtat aattaccctg ctaacgctgt acatacggct tgcgcccagg ctcactcgcg 240 cccagagaga gagtaaagcc atgtcgaaac tgtctacgat tcctcgagtg tttttccagc 300 tacccgccac tcgcccaccg actcccctcg gacctcagtt tgggctagaa cctgaca 357 // ID TIGGER5_A repbase; DNA; HUM; 351 BP. XX AC . XX DT 31-MAR-1998 (Rel. 3.02, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE Medium reiteration frequency repeat; non-autonomous DNA DE transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW MER47; MER47A; Repetitive sequence; Tc1/mariner superfamily; KW TIGGER3; TIGGER3_A; TIGGER5_A; TIR; nonautonomous DNA transposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-351 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX DR [1] (Consensus) XX CC 22 bp terminal inverted repeats; TA target site duplication. XX SQ Sequence 351 BP; 115 A; 69 C; 62 G; 102 T; 3 other; cagatgctcc tcgacttacg atggggttac atcccgataa acccatcgta agttgaaaat 60 attgtaagtc gaaaatgcat ttaatacacc taacctaccg aacatcatag cttagcctag 120 cctaccttaa acatgctcag aacacttaca ttagcctaca gttgggcaaa atcatctaac 180 acaaagccta ttttataata aagtgttgaa tatctcatgt aatttaytga atactgtact 240 gaaagtrara aacagtatgg ttgtatgggt acttgaagta cggtttctac tgaatgtgta 300 tcgctttcgc accatcgtaa agttgaaaaa tcgtaagttg gggaccatct g 351 // ID MER34 repbase; DNA; HUM; 546 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 5) XX DE Human medium reiteration frequency MER34 repetitive sequence - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER34; KW MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Toth G. and Jurka J.; RT "Repetitive DNA in and around translocation breakpoints of the RT Philadelphia chromosome."; RL Gene 140(2), 285-288 (1994). XX RN [2] RP 546-1 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-546 RA Kapitonov V.V. and Jurka J.; RT "MER34."; RL Direct Submission to Repbase Update (JUN-1998). XX DR [3] (Consensus) XX CC Putative LTR [3] of retroelement related to the MER4I-group; CC it has 4 bp target site duplications [3]. CC MER34 elements share common fragments with MER39 and LTR29. CC Original orientation [1,2] has been changed accordingly to the CC internal sequence [3]. XX SQ Sequence 546 BP; 152 A; 128 C; 101 G; 157 T; 8 other; tawtgaagga gatcagaata tgccacccca aaatatgcca ctttggcata aggattattt 60 tgagctaaag gcacttgaga aacagcagrt gcaagaagag cactctgacc ttcctctttt 120 cttcctgaaa gcaggagata aaactcccat gtgaaagacg ttctctctat accaggagga 180 aggaaacatt cttatcgtca gagacgggga gtcgaggccg agggaaatct gtacgaacaa 240 accttgttaa actaacycty atcttcctag tcacttctcc acgatgaacc gccctagccc 300 aaaccccttt gtcttgtcac gttttcacaa tttactactc tttgtccaac ctagtatawa 360 agcgttcgac tctaaccgct tctttgggtc ttcatttcct tatgagggct cccatgtaca 420 tgtaaaacat acttaaataa atttgtatgc ttttctcctg ttaatctgtc ttatgtcagt 480 ttaattatcg ggcccagccg gaaactctaa gagggtagag gwaaaatttt tccttcyctn 540 ccatgg 546 // ID LTR35 repbase; DNA; HUM; 652 BP. XX AC . XX DT 31-MAR-1998 (Rel. 3.02, Created) DT 31-MAY-2008 (Rel. 13.06, Last updated, Version 2) XX DE Long terminal repeat of LTR-retrotransposon related to the DE MER4I-group; a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; retroelement; LTR35. XX NM LTR35. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-652 RA Kapitonov V.V. and Jurka J.; RT "LTR35."; RL Direct Submission to Repbase Update (24-MAR-1998). XX DR [1] (Consensus) XX CC LTR35 is a LTR from LTR-retrotransposon related to the CC MER4I-MER57I-MER41I-group. Internal sequence of the CC retrotransposon was found in GenBank sequence AC002990 (position CC 36463-47129). XX SQ Sequence 652 BP; 170 A; 190 C; 117 G; 171 T; 4 other; tgagacagag taggaatggg gcttggcttc agctcacccc cactagagag akcattcttt 60 catgcattcc cactgatcac aaaacccaca ccactacctc actgatgcta tacccactaa 120 cccyaaggct ttagtcatac aaagaaaata gccattctat attgttctct gtgctctcat 180 aatgtttaac catgcctttt acttaaagaa ttccagaaac tggccttagg agatccaaaa 240 tatcaaacca aggttgcaga gtgtcccacc ttgggaagga atgctgaaca attgatttac 300 agccttgttg ccrccaacct ggccagacca ccaggtggtc ccattactca agataaccat 360 cgcaaccaga tatgctgacc tgcataccct acccctcacg tgctttgccc agcccagcct 420 gcatacccta cccctgatgt caattcccat tgcgctttgc ctaataaaaa aaatccctac 480 yggctctttt cagggagtca gccagagaat cctctctctc tctttgtctc tgctgtgctg 540 cctcccttgt gctcgagcac aagctccaat aaaagccttg tctgggaaat ctcttttggc 600 cccgtgttaa tttctattac atggggagcc caagagcctg tggtctgtaa ca 652 // ID MER76 repbase; DNA; HUM; 688 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Primate MER76 repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER76. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-609 RA Smit A.F.; RT "MER76."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-688 RA Smit A.F.; RT "MER76."; RL Direct Submission to Repbase Update (1997). XX DR [2] (Consensus) XX CC Probably an LTR (5 bp duplication sites, ATTAAA poly A signal). CC Average divergence from consensus is 20%. XX SQ Sequence 688 BP; 135 A; 207 C; 159 G; 180 T; 7 other; tgaggagtcc agctcctggc yaaaaaccta cgtgtgattt ttcaggcctg accataggca 60 attacaaagg ctttacctgg caggcctcat gggggaaagc tgccctcccc acaccagact 120 tggtgcacag ccagtgcatt gcagtctctg aagggagttg cagtcaagga ctcaggcccc 180 cctggccggc cacgctctta cacatatctg cattcctagc ccaggcgcct ccgttcggag 240 gcctctttat tcggggcctt ctgcagaggt cttcctcagg cgcctctgcc gagacctctt 300 tatgaggggt ggaagcggga gccttgaaga catttntctc cactctgact cagtactcag 360 tgcttttcca ctcctatccc ttccctntcc tcncctccat gacccacggg tccataaaac 420 tgcaggagcc ttttgttcag ggctccctca acagtgagat gacccccatg tctgtgccga 480 tccacctgac ccttgaccgg tgccatttcc atgnggaaaa atggaacatg gggagtcggt 540 actttctctg gttttagcct cttgcttata ctatcgaagk aagtgattaa agatttgact 600 gttactttca ttttggcttg ttgccttaat cggctnctct gacacccggc agctcagctc 660 tctctccagc tcagctgagc tcctgaca 688 // ID HERV15I repbase; DNA; HUM; 8735 BP. XX AC . XX DT 01-FEB-1999 (Rel. 4.01, Created) DT 01-FEB-1999 (Rel. 4.01, Last updated, Version 1) XX DE Internal sequence of endogenous retrovirus flanked by LTR15 - a DE consensus sequence. XX KW Endogenous Retrovirus; Transposable Element; KW Endogenous retrovirus HERV15; HERV15I; HERV15I.; HERV3; HERVE; KW HSRIRT; LTR15; MMLV; RRHERV-I; an internal portion; env; gag; KW pol. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-222 RA Kannan P., Buettner R., Pratt R.D. and Tainsky A.M.; RT "Identification of a retinoic acid-inducible endogenous RT retroviral transcript in the human teratocarcinoma-derived cell RT line PA-1."; RL J.Virol 65(11), 6343-6348 (1991). XX RN [2] RP 1-8735 RA Kapitonov V.V. and Jurka J.; RT "HERV15I."; RL Direct Submission to Repbase Update (JAN-1999). XX DR [2] (Consensus) XX CC LTRs flanking HERV15I are listed in REPBASE as LTR15 sequences. CC Bp 1-18 constitute primer binding site of Ile-tRNA [1]. CC The consensus sequence has been reconstructed based on several CC individual copies of HERV15I [2]. Gag, pol and env polyproteins CC encoded by HERV15 retrovirus are related to MMLV and ALV-like CC viruses. Its human relatives include HERV3 and HERVE CC retroviruses. CC There is ~5% divergence between HERV15I individual copies and its CC consensus sequence. XX SQ Sequence 8735 BP; 2589 A; 1937 C; 2202 G; 2004 T; 3 other; tttctggtgg cccagatggg gattggagac gacagattta ctgtctcctt tgcctgtggg 60 actagagccc cggggccggg ggagacccgg catccaaggc gtgccacggg ggagcttcac 120 ccggacggag accggctctc cccgcatccc ggcggcctgc ccggcagtgc aacggaaccg 180 gggatggggc tgcaggacga taccagcact tcaggaaccg cggtaaggag caagggccca 240 aggcaggaaa gcccatccca tagggacgaa ggggagcttg atcacctccc agggaccgac 300 cactaatcca acccagagtg gctgggggtg gcaggagtgg cctgccaatt tggatgaacc 360 tcgtgtcccc ctaacaagtg aaagtggttc actggtggag aaaatgggcc gatagagcgg 420 caagtccagc aaggaagagc ttgctggcag ggtggcaaga gtggcttgcc accccaactg 480 ggagtgtgtg ggtgtgtgtg gacctaccca ggacatgaga gaggctcgtt tcgtccgatg 540 aggagtcctg gggtaggagt ggtgtgtgta tgtgtgtgaa tgtgggagcc taactaggct 600 cacccgggac acgggagagg cctgtttcgt ccgatgagga gtcctggggc aggraaggtg 660 tgtgaaagag acggtctcgg gagaggccaa tgcggggagt aatgtgggga ggcacagatc 720 ccttagcgcg ggctgtgtgc tccgaggcga gtgtggggga aatcagacct aggacgttgc 780 atatggctga taggaccagc ttcacggccg cagcaggctg tgacagggga aggcacattc 840 ctggctaagc agtgtccgaa actcccgtaa taggacccgg tctggtggac ctgagagtga 900 aagtgagagg gaaagtgcac cacaagggag gaaatgggag gaaaagcatc gaaaccaact 960 cctttggagt gcatgataaa gaattttaaa aaaggattta gaggtgatta tgggatgaaa 1020 ctggatgctc aaaagttaag gacatactgt gaaatagatt ggcctgcttt taatgtgggg 1080 tggccctctg aaggtacaat agacagggaa ttaattggcc gtgtgtttaa ggtggtcact 1140 ggagttggag gacaaccagg atatccagac cagtttccct atatagactc ttggctcagt 1200 gtggcacaaa ctcaccccaa gtggctacag ccctgcctag agggatattg caaggcatta 1260 gtggctcagg cagcccaacc aaaggaagca gaggaaccta aagcccctag agtctctcag 1320 gaaaaggaat ccctgaagcc tcagctgaaa ccagttcttc aggctccacc tgaggaaagg 1380 gaatgtccgc ccccatatat gtgccagtct acctgtcttt ggccagaata aggcaggagg 1440 cagagtcagg agcatccaca gagtcaggct gagaggaaag tgaggcccag tctcccccaa 1500 ccccagagga acaaaagcct cccttagaaa aaaaccagga agatggacag agcaaggcag 1560 ctgggtgcct ccgctcaggc tgaccacagg ctttgcagat gccacttcga gagaacagga 1620 cacaagttta tgatgaccaa gggcagatac aaggaggctc taggctttat gtttatcagc 1680 ctttctccac tactgatctc ttaaattgga aacagcacgc ccccttgtat gcagaaaagc 1740 ctcaggctgt cattgatttg gtgaattcta ttattataac acaaaaccca acctggccag 1800 attgtcaact acttttgcta actttaatac agaggagcat aggagagtta atcaggcagc 1860 tctcagctgg ttagaagggg aagccccaga ggccacccgt aacccatgcc agttctccgt 1920 ggagcgatac ccaaatgagg accctaactg ggacccaaat gaggcagggg acatggaaca 1980 gctgcattat atagaagggc actcctgaac aggataaaag caggaggaag gaaggcattg 2040 aatatccata acatatcaga agtgggccaa aagcctgacg aaagccgcag tgcattctat 2100 gaaaggcttt gtgaggcata gaggctgtac actccaatta ttccagaggc tcctgaaaac 2160 caaaatatga taaatatgac ctttgtcagg caagctcagg gagacataat acgaaagctt 2220 cagaagttgg aaggcttttc agggaaaaat attagtaaac tcctggaaat agcaaacaaa 2280 gtattaaaaa actgggaaga agaggcagag aaaaaggaag aaagaaaaac gagaaataga 2340 aacaaagaga cagctcaatt tctgctgcac tagcagaaag taaccctgga tttgctagag 2400 ggcgtggccg aggcagaggc caaggaacag ggcagacaag acccggagat gaaagccagt 2460 cccagttgga caggaatcaa tgtgaaaggt gcaggcaaat gggccactgg aaagatgagt 2520 gccccgaaaa ggaaaaggat gatgatggtc agtggtctaa cacccaagtg cggtgttagg 2580 ttgctagcag tggtacttcc aaggcagatc ccgatctgat cggcttggca ggggccgaga 2640 atttagagga ctcagacaga ccaggctcca tccttttagg ccttgtggag cctatggtct 2700 ctatggaagt agggggccga ttaatgaatg gattttttgg tcaatactgg tgctgatttc 2760 tctgtggtaa ctcacccaat tagccccccc tcaaagaact gtgctactat cgtaggggct 2820 acagaggcca aagaaaagag acctttttgc aattccagga gatacgttat tgggggacaa 2880 gaagtgcagc atgagtttct atatatgcca aattgtccag tgcccttgtt ggggagagac 2940 ttactccaga aactgcaggc acaaatttcc tttacacctg aagggaatac gacaccggaa 3000 tttggaaagt ctaaggcaat ggtattgatt ctaactgtcc cagaggctga ggaatggcag 3060 ctctctgaac tgtgtgccag aaggataccg gagctggacc tacacagtat gtagggaatg 3120 cttttcaagg ttccaggtgt atgggctgag gacaatcctc ctggacttgc tgtaaacaga 3180 cacccagtgg taatagagct taacactcat gctgccctgg tatgagtctg tcaataccca 3240 ctacccaaag aggtaattga aggcataaca caacatctaa atcggctcta tgaacaaggg 3300 attatagtaa aatgcaagtc ctcttggaat actcctctgc agcctgtgca caagccaaat 3360 ggtgaataca ggccagtgca ggacttctgg gtggcaaaca aggccactgt cactatctat 3420 gccatagtac ccaacccata caccatgtta ggacagattc ctgctgaggc catgtggttc 3480 atgtgtctag acttaaagga tgttttcttt gcttgagact tgctccccaa agtcagccta 3540 tatttgcctt ccagtggggg caattgtaat atacctggac aagactgcca caaggattta 3600 agaattctcc cattatcttt gaggacgctt tggctaccaa ccttgaagct tttgcaccat 3660 ttagtgacaa ttctgtggta ttacaataca ttcatgattt gctattcgct gcccccagga 3720 gggaggaata tctccaagga atagagaggc ttcttcacct gctgtgtgaa gctggttaca 3780 aagtgtccaa ggacaaggca aaagtctgtt ttctggaggt tggatatcta ggattcatgg 3840 tatcccaaag cctgcacagg cttggaagtg catgcaagga ggctttatgt gcattgccca 3900 cctcagttac aaggcagcag gtcagggaat ttctgggtgc agtgggattg tgccgaatct 3960 ggattccaaa cttctccctt atagcaaggc ccttatttga ggctagcaaa ggaaaggaaa 4020 gagagcccct cctatgggaa aaagaacagg aaaaggcctt caaggatata aaggaagctc 4080 tcatccaggc cccagcacta gggttgccag atgttaaaaa acccttcttt ttgtatgtgg 4140 atgaatgaaa gggaatggta tttggagtct taactcagtt gttaggctct tggcatcagc 4200 cagtagcata cttttatcca agagactgga cttggtggcc ttaggttggc cccattgcct 4260 cagggcactg gcagctaccg cgatccttat agaagatgcc aacaagctag ccctaggtca 4320 gaagataata ttccgggtgc cacacactgt agtcacctta atggagcaaa gaggacgtcg 4380 ttggctgtcc cactctagaa tgctaaagta tcaagggctt ctgtgtgaga atctgcgggt 4440 aacactacag actaaatacc ttgaacccag ctaccctgct gcctgtggag gaacccgatt 4500 ggaagcatgg tgggttgcct caatgctggc aggaccttcc ccactgttgc ataaatatgg 4560 tggatgaagt gttcttgagc tgggaagatc tcagagatac ccccttggag agcccagatg 4620 ttgaatactt cactgatggt agcagtttca taacagatgg ggtgtgatat gcagggtatg 4680 cagtagtaac acaacactca gtagttgagg ctcaagcctt accttctggg acttccgctc 4740 agaaggctga attaatagca ttaaccagag cactgttatt ggccaagagg aagaaagtaa 4800 atatatatac tgactcaaga tatgcttttg caaccctgca tgcccatggg gcaatataaa 4860 aagagagagg actattgact actgaaggaa aagatataaa aaataaagaa gaaattttgc 4920 aattattaga agacatatgg gctccagaga aggtggctgt cattcattgc aaagggcacc 4980 aaatcaggaa aagctatgag gcacagggca acagaaaggc agaccaagag gctcagcagg 5040 cagcaatgag caaggtttta cctgaagaaa gaactccagc aatgcctctc cttatagagc 5100 cccctttact ggaggtaccc aattactctt caagtgaaaa agcttgtttt catcaggaaa 5160 caggaaacat atattaaaga tggttggtgg ctgttctctg acgggaggct agccatccca 5220 gaaacaatag ccccaaggtt tgtgaagcag atccatcaag gaacacacat tggaaggacg 5280 gccctagaga ctttgatagg tcagcatttc tatgtgccat ggctgtctgc catcacccat 5340 gctgtttgtg aacaatgtct atcctgtgtc cggaataatc caaaacaagg acctactcga 5400 cccccaggaa tacaggaaat gggagctgtg ccttgtgaga acctgcttgt agactttacc 5460 gagttacctc gagcaggagg ttaccggtat atgctagtgt ttgtttgcac cttctcgggg 5520 tgggttgagg ccttccccac caggactgaa aaggcacgag aggtgacaaa ggtgctacta 5580 aaagacatca taccaagatt tgggttgcct ttaaccctag gatcagacaa tggtcctgca 5640 tttgtggcag aagtagtaca acagttgact caacttttaa agatcaaatg gaaactgcac 5700 acagcctact gaccacagag ttcagggaag gcgraacgga tgaaccagac actcaaacag 5760 ctactaaaaa agttttgcca ggaaactcac ttacaatggg atcaggtctt gcccatggtc 5820 ctcctccagg tcaggtgtac acctacaaaa caaactgggt atttgtccta tgaaatattg 5880 ttcggaaggc cacccccaat cattaatcaa attagagggg atttaaagga gttaggagag 5940 ttaaccctta agagacagat gcaggcttta ggagtggcaa tgcaggaggt gcaaagctrg 6000 gtaagagaaa ggatacctat aagtctaaca gacccagtgc atccacataa gccgggggac 6060 tctgtctggg ttaaaaggtg gaatccaaca accttgggac ccttatggga tgggccccat 6120 attgtaatca tgtctactcc cactgctctt aaagttgcag gtgtcacacc ttggattcac 6180 catagctggc tgaaaccagc ggcagcagtg actcccgatg acgaccagtg gattagccaa 6240 caagacccag atcgccccac ctgaatagtc ctacggcgaa acccaaccac cggtaagaag 6300 gacaactgcc ctgctccgac cacaccggag gctggtcagt ctacgcatgg ctgaagcttg 6360 aagatcctgc aagctctgct ctagtcacat cccggaagct gactagtcaa tgcacagccg 6420 aagctaagag gaccatctct ggataagtaa atgtggatac aattcataac cctagttata 6480 attctgttaa tactgattgt tctgttgtta cgttaccact gcaaatgctg caaatgtcta 6540 tgcccagagg gaggtttgcc atgcccatgt gtagtgtaag catgtttcta ttacatacac 6600 tgatgttgtt accatttctg cctatactaa aaggggagga atctctagaa agatgcccac 6660 actgtgtaca tactacctgg gtaaggaata ccatagttaa aactctactg taccatacct 6720 acagtacagg aaccaagtta ggaacctgcg catacaacca gaccacctct tcagtctgtg 6780 acccaggaaa taatcagcta catgcatgtt atgaccctaa gcgcttaccc tatgaattct 6840 ggtttgaggt acatattaaa tcagagggag aaaaagaagg agagcttata gctcgaacca 6900 aagaagcccc tccctcctat aaaaggccta tttccttgta ctttgatgcc tgccatgccg 6960 catatgttca taatcctaaa aaaccaaaag cagtctgcaa tggtttaaca caagagaggc 7020 ttagcaggag cagccctaaa catctgtact gagaaccaca aattggatgc ccagactgta 7080 acattcagtg gtctatgcta acacagctcc aacacttata ttcaggaagg actgctctgc 7140 taagtagtat gtcagccaaa ccaaattgta agacaaggac atgcaatcct ttaaatttta 7200 ctatcttaaa gccagagcta cctttctggt ctacaggaca gacagcacta ttacgagttg 7260 atagacaagg agcaggcctt ggagttccac tactaattgt caaaaagact agaaggactc 7320 aaatgtgtcc aaccctgcaa ttctgggtcc ataagtcatt ctgtaagcat tttgatcagt 7380 cagtgcctga gcttccccta tcaaccaaaa acttatttgc tcaactagct gaaaacatag 7440 ctggcagctt aggaatttcc tcatgctatg tacgtggagg aactaatatg gggaaccagt 7500 ggccatggga ggcaaaggaa ttaatgccac aagataactt cacttcgcct aaccctgcca 7560 gtgaaccaac agcctcagcc agtgtttggt tgttaaaaac ctccataatt ggaaagtact 7620 gtatcgcccg ttggggaaag gctttcacag aggcagtagg agaaacaacc tgcctagggc 7680 aacagtatta tgatgagact aaaaacaaaa ctctatggag aaacacccag aattactcct 7740 acttaccaga tccaaatcct ttctcttgat tctctaccct aagccacact tggcatcagc 7800 tagaggttcc aaatgcttgg aaagcaccct ctggcctata ttgggtctgt ggagcatggg 7860 catatcggca actgctggct aaatggacag gggcatgtgt gttagaaaca atcaagccat 7920 ccctcttttt aattcctcta aagcaagggg aactcttagg gtatccagtt tatgatgaaa 7980 ataaaagaac tagaaaaagc ataatcacaa aaatagacac aaatgtcaaa aaggatgcag 8040 acataggaga ctggaaggat aatgaatggc ctcctgaaag aatcattaaa tagtatgggc 8100 ccgctatctg agcgcaagtt gggtcatggg aataccgcac cccaatctat atgctcaacc 8160 gcatcataag gttgcaggca gtccttgaaa taataaccaa tgaaatgtca aggaaactag 8220 atttattgat aacacaagca acacaaatga gaaatgctac atatcagaat agattggctt 8280 tagattacct cttagcctca gaaggaggag tatgtggaaa atttaattta accagttgtt 8340 gcctagaaat ggatgataat ggccaagctc taatggaaac cacagctaga atgtccaagt 8400 tggcccatgt tccagttcag acttggtctg gatggtccct ggattccttg tttggaggat 8460 ggttctcaat gtttggggga ttcaaaaccc tcattggtgg gtttttgttt attcttggca 8520 tctgcctcat cctcccttgc cttttacccc tgtatattag gagtatttgt caactataga 8580 ggcagtagta acccgaaaca ctaccatgct attgacggca ttaaccaaat atcagccact 8640 gccaataaaa gaaacagctc agctccggga agagatggca aatagtggtg ctttctatta 8700 acatctttgt tttaaaaagc accaaagggg ggaaa 8735 // ID LTR39 repbase; DNA; HUM; 794 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate LTR39 repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR39; KW Long terminal repeat; MER4-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-794 RA Smit A.F.; RT "LTR39."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC LTR39 is a long terminal repeat of the MER4 group of CC non-autonomous CC retrovirus-like elements. Bases 425-609 are 80% similar to bases CC 691-874 CC of MER4D, bases 616-761 are 70% similar to bases 429-571 of CC LTR26. CC Average divergence of copies from consensus is 16%. CC 4 bp duplication sites. XX SQ Sequence 794 BP; 210 A; 208 C; 168 G; 200 T; 8 other; tgagacggag cagggacccc ctcttagggg cctgcngggc actccccccc caagcatgga 60 aataaaggaa aatcttgagt tccttcaagg gaaattccag gcacctagct agccctgaga 120 agtaaatgag caacttgata agcaagaagg taatagtagc ttaaaacaat agccaaggaa 180 gttagagtca cgrgatgttt ggttccccta tagaaactaa agataacatc ttaacatatg 240 tccctgagtt gtttttcaga aacccggacc cccaccaaat ggaaaatgcc atccgctggc 300 acgtagacct cagataaggg ggaactgagg actgaactct gaccaccgtt ctttgttcta 360 aatttcttcc tgaggggcct ggaggaagtc acgcccacga gccagagcta acattctttt 420 ctgctgaccc caaattttta gacaaagctt cgcttcctta accaatcgca aatcagaaaa 480 tctttgaatc yacctatgac ctgtaagccc ccgcttcaag atatcccgcc yttttaggcc 540 aaaaccaatg trtaacctcc atgtattgat ttacgatttt gcctgtaact tctgctttcc 600 tgaaatttac ccctgccttt aaaaaccctt acctgtaagc catcggggag gtcgggtctt 660 aagcgtkagc tgcccgattc tccttgcttg gcgccctgca aataaacgcc ttmctttctc 720 ccgctgcaaa atctcggtgt sgatgtttgg ttttactgcg ccgggcgagc ggaccccagt 780 tcggttcggt aaca 794 // ID LTR1F1 repbase; DNA; HUM; 729 BP. XX AC . XX DT 01-MAR-2009 (Rel. 14.06, Created) DT 18-JUN-2009 (Rel. 14.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR1F1. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-729 RA Smit A.F.; RT "LTR1F1 - ERV1 Endogenous Retrovirus from primates."; RL Repbase Reports 9(6), 1176-1176 (2009). XX DR [1] (Consensus) XX CC 9.5% subs, 45 copies. XX SQ Sequence 729 BP; 172 A; 241 C; 203 G; 112 T; 1 other; tgatacggac aggagacagg gaaatactgg gtagaagagg gcggttcccc ggcaaaggcc 60 ccaccctcaa gcctggaaac ccgcggccct aaatgggaac aggcattcct gttttcgcgc 120 ccaaangttg ccttttggcc cgccacgccc ccctatcctg tacccatata aaccccaaac 180 cccaggctcc acgagcagac gagcagaaga gcagaagagc ggcagagcgg cgcggcagag 240 aaggagagaa gagaaggagc gtctgaacgt cgagaggagt tcggctgggg acggtcggag 300 aggagatcgg ccgctggacg gccaaactcc aggggaagat catcttccca ctccatcccc 360 tttccagctc cccatccatc ccgctgagag ccacctccac cactcaataa aacccccgca 420 ttcaccatcc ttcaagtccg tgtgacctga ttcttcctgg acgccggaca agaacccggg 480 taccaagagg gcactgagct ggttaacact taagccgtct gcggacggca gagctaaaag 540 agcactaatt gtaacacacc cctagatgct accgtggggc cggagcccaa aagcgctcgc 600 cccggctcct gcacctgccc gtctgcgtgc tccccctccc gtaaggggtt tgagcgcgcg 660 gcggccgaac agacgagcca cacccctgtc gcacgtcctg cgagggggtc agggaactct 720 cccgtttca 729 // ID LTR10B repbase; DNA; HUM; 522 BP. XX AC M34038; M92067; XX DT 18-APR-1997 (Rel. 2.03, Created) DT 14-AUG-2008 (Rel. 13.09, Last updated, Version 2) XX DE LTR from endogenous retrovirus HERV-I. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW HERV-I endogenous retrovirus; LTR10B. XX NM LTR10B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Maeda N. and Kim S.H.; RT "Three independent insertions of retrovirus-like sequences in the RT haptoglobin gene cluster of primates."; RL Genomics 8(4), 671-683 (1990). XX RN [2] RP 1-522 RA Jurka J.; RT "Consensus."; RL Direct Submission to Repbase Update (14-AUG-2008). XX DR [2] (Consensus) XX CC LTRs from endogenous retrovirus HERV-I. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 522 BP; 113 A; 156 C; 100 G; 152 T; 1 other; tgttaaatac agtaagaaat tcttcttcaa aggtttagct tgtttaagtt tccttgtcct 60 ttgttccctg ctttcaaggc cagacttcct tactctctgt gtccccctgc cctggtttca 120 gtaaacaact ttcccgccgg tccttatcta tagagcccac attccacatc tgctacccac 180 tctgtaaatt acccctcccg tcgcaacggc tcctcccgcc gaaactgccc ttcctgccaa 240 aactgttccc aygccagtgt aaccgcattc ctgcactttt caagttagcc aaccgggttc 300 agcttagatt gtgcggtcca actccagcca atggaggcag gacacagtag cagggacaag 360 ctgcgttagg gataaaaacc cctgctttcc tttgttcggt gtgctctcgt ggcgaccaga 420 cctgcgagaa gcacccttct gcagaagtaa atttgccttg ctgagaaatc ctttgtttaa 480 gtgctcgttc ttctttgcga caccgagcat ttatttccaa ca 522 // ID LTR37A repbase; DNA; HUM; 426 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate LTR37A repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR37A; KW Long terminal repeat; MER4-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-426 RA Smit A.F.; RL Direct Submission to Repbase Update (MAR-1998). XX DR [1] (Consensus) XX CC LTR37 is a putative LTR of the MER4 group of retroviral like CC elements CC It is found flanking sequences resembling the MER31 internal CC sequence CC 4 bp duplication sites. Average divergence from consensus 24 %. XX SQ Sequence 426 BP; 118 A; 74 C; 64 G; 160 T; 10 other; tgtagggaaa aattgtgctt caatggaaaa ctatgcattg tctagagcac acccttccgg 60 gttatctgat tctagctctg tcattgtctt tgagctattt tacaactctg taarttgtag 120 ataactgata gcaatgcaaa ataattcttg tctatagana tgcaaataaa ttntgtccgg 180 trgaggttca attgacttcc ttcccccact gtggaaaaag ccagttttgc ntcyatttgc 240 aaattcattt caatattcct gattncctat aaatgtgtst gttctttgaa ttctcctttg 300 aaccggttrt aacatcttac tggttccctc attaattaat gagttaaata aaatctttaa 360 cacgtgttca ttttatatyt gtatgagagt catgatttta ccttttttga aaattatcct 420 ttaaca 426 // ID MER4E repbase; DNA; HUM; 766 BP. XX AC . XX DT 24-NOV-1999 (Rel. 4.1, Created) DT 29-JAN-2001 (Rel. 6, Last updated, Version 3) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4-group; MER4E; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-742 RA Kapitonov V.V. and Jurka J.; RT "MER4E."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-766 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX RN [3] RA Kapitonov V.V.; RT "Direct submission."; RL Direct Submission to Repbase Update (JAN-2001). XX DR [2] (Consensus) XX CC Bp 128-742 are 85% identical to MER4D, bp 354-748 88% to MER4B. CC The old MER4D consensus [1] contained a chimaeric 5' end, CC including CC the 5' end of MER4E. Average divergence from consensus 14% [2]. CC The "real" divergence is ~7% [3] (see comments for MER4E1). XX SQ Sequence 766 BP; 213 A; 193 C; 116 G; 244 T; 0 other; tgaggactaa gctctgattt ttttatcttg cccaaattcc tatctaaggg gtctggggag 60 tcatgcccta caaaccataa attctcatca gatgggtttt atttaaccct gtatatcgtg 120 acttactttc caatctgact ctggcataac attagagaca aggaagaaaa tcaaaatatt 180 ttaccccaaa atatatttcc ttgccatacc ttgaaattgc cctgcaaagt ctcttgtggg 240 aaaaatccac attctataga gaatcccctt tcccctttgt ttttctttcc ttccttccca 300 gatccaggag ataatcaact aagagccagg caccctttta ggtccgataa gaaacatttt 360 acaacctgct ctctctgaag tctgctatct gagagcttcc tctgcacaat aaaacttggt 420 ctccacaatc ctttatctta acctgaacat ttcctttcta ttgatcccag gtcttcagat 480 aaactcaacc aattgtcaac cagaaaatgt ttaaatttac ctatagcctg gaagcccccg 540 ctttgagttg tcccgccttt ctgaaccaaa ccaatgtatt tcttaaatgt atttgattga 600 tgtctcatgc ctccctaaaa tatataaaac caagctgtac cccgaccacc ttgggcacat 660 gttctcagga cctcctgagg gctgtgtcac gggccatggt cactcatatt tggctcagaa 720 taaatctctt caaatatttt acagagtttg actcttttcg tcaaca 766 // ID PABL_AI repbase; DNA; HUM; 5015 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Primate PABL_AI repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 class; KW Internal sequence of retrovirus-like element; MER4I-group; PABL_A; KW PABL_AI. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5015 RA Smit A.F.; RT "PABL_AI."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of a non-autonomous, MER4-group retrovirus-like CC element with PABL_A LTRs CC PABL_A is a non-autonomous product of a recombination between a CC PABL_B-like ERV and MER4- and HERV19-like elements CC Bp 682-2200 are 92% identical to bp 1502-3083 of MER4I. CC Bp 2405-4624 are 95% identical to bp 2345-4531 of HERV19I. CC The LTRs and internal regions preceding and following above CC matches CC are derived from the PABL_BI ERV (85-90% identity), which it CC otherwise CC does not resemble. CC Copies are on average 8% diverged from the consensus sequence. XX SQ Sequence 5015 BP; 1607 A; 792 C; 941 G; 1658 T; 17 other; aaatttggca agncagccag gagagactgg gatggtgctg cgttcagtgg ccagcggctt 60 gcgacgagac agtcttcagg aggatcccag cagctgccgg gtgagatttt cccggggacc 120 ctcccgaggg ctgttccntg tncaaaactg cacatccctt tcactactgg ggaagaacgg 180 agatcaggag cggatgcgct caaagggtga gttaactgga tcgtatgccg ggagcctatt 240 gttttcctat ctgggcttgt taagccattt gtccggtacc gccaagggaa gcaatagggc 300 tcgctcatac acccgctttg cattttggtt gagatcaggt tttgagttgg ttttgagtct 360 gttttgcctg agtgcactcc cccttgtgtt gtccaaaatt tgtctccact tgtttgtgta 420 tctgtcttgt tccttttgat accatgtaaa cttgaaaatg ggaggtattg ggtccattcc 480 tgctgagagg cctctgggaa ggaaaaanat ttttttagga gctcaatggt taaaagtcag 540 cttaattaaa agctancatc caagatgtgt atatgtatgt gtgcatgttt gtatttaaaa 600 ggccttcatg tttttgttta tttctctcct aggaccttgt ctttttgagc aaaagttttt 660 ttcttctcag ttgactgaat tctgttttct tcattaatag ctattgcaac agaagctact 720 ctggggtttt taagaaaaag tgtaatttag acacttagaa atgtctttgt ttggaaaaaa 780 attttaagtg cactgtaaaa gcatcacatg gtctagcctc ataataattc tccctttttg 840 aaaacccagg attcagtgtg ggctctgccc agagctcaaa gatccagtta aaagataggt 900 agtcaatatc taaataaagt tagtctcctt atacagtcct acgataaatt tctataattt 960 tatgtttgat ctggcatcca tctttaatct ccctctagca ccaccagact ttttctctgt 1020 gtaccttgag atgtaaatct tgccatttga tttttcacct aagagttgtt tccttcaata 1080 tgcagattta gggctactta gctgacaant gccagagtaa taaaccaggt tatcaagagt 1140 ttgcaagtct aagataggaa aaaggaggtc ttatgaatct ataaaatgta cttctattgg 1200 catgcctaat acgtctatgt atttatgtct tgtgtacacc atgtttcact actgaaaata 1260 tataaaagag ttctaattaa ttggctcaaa gaaaaataaa agcncttaaa tactttaaca 1320 gaaaaaagga aagactagtc aaatgctttt tcaagtttat gtgacttaag taaaatcttt 1380 aataaataag ctagctttaa aaattattgg taaagtaata ttagaaatgt cttaagagtt 1440 gccagcatac atttttgttt gcatttattg atcaagcaat ttcatactta tctctgccaa 1500 atactataag gtgtcaaaat ttggcataga ggctacaaaa ctataactca gcccaaaaca 1560 gaatgatctt tgcttgtgta atttttaata aataaaacat taatattggt ttaatgaaga 1620 tagctacatc ttgaattatt tagtaaaata ccctaacttc taatcttgtg gccttaggca 1680 gtctagtcca cagacatgaa ggaagtttgt tctgggaaag gactgttatc atctttgttt 1740 caaagctaaa ctataaacta agttaatgaa caagaatagc ttggaggtta gaagcaagat 1800 ggagtcagtt aggtcagatc attttcactg tctcagttat aattttgcaa tggcggtttc 1860 ataactttaa atgatgacta tcgcagtttt cataaataat ctaggtaaat gattaaaata 1920 aataattaga taaatgtaat gggataaata ctcgtaaaca acttgtcata atttagaatc 1980 taaagttata ttaaattaaa caacagatat ttcattattt gggtattttc caataaaaat 2040 atattgtagg aaaacattct ttctaaaaat tgtgtccttt ttaaagggta actaattttt 2100 gtctaattca aagcttattt aaaggttata tataaaacaa ggtaaaagaa accaggaaat 2160 aagagagata taaagaaagt tataaaaata aaagagtttt aaagattatt ggtgaaataa 2220 aaatatcttc aaaaatgtaa acatttggtc taaattatgc aggtcaaata ttaggtttgc 2280 taaatgcttt aggtcataaa ctgcttcttt gacttaaaaa ttgttcaatt tattttggag 2340 tgttaaattc tagataagnc ctggggacat ataaaattag ccatgccccc tagctatgca 2400 aaaaggtatt aaagaaaaga gantttatat aagaaaggat cttgtatggt aaattcttgt 2460 cctaaagtaa aataactggt tgtttaaaaa gagggatgtt taggacaagt cagaaagtca 2520 aggcatgtca tagcttgtct gtgtaagtca tgaaagaatt tatgaaaggg aatttatgca 2580 agaaatgttg tacaatttaa aggtgattag gcctcctaaa tgctttataa aatgccacta 2640 tgactcttag ctgtacaact tgcctgcttt acagctaggt aaggcctggg acacatggag 2700 ttagacgctg gaataagtca gaccttatct gcacttctgt ctaggtccta ggctccacac 2760 ctagtacata attaaaatcc caaacttacc aaggttttca ccaaaagtaa aggttgctaa 2820 gagttaacag tgtaacatgt atttaagact actgaagaaa cagtttacat gcaaggtgtg 2880 taaggaaagt aaaatatact tttggtaaaa agattataan gaggcatgag aatgtggatt 2940 tttgcctaga ttaaaaggtt aaaggattgt tttaagttgg ataaaataaa gntgaaggtt 3000 taagcaagtt gtggaaggtt gattgtaaag gaaattctgt gtgtaaacat attggctaaa 3060 gttaaagggg tatcatccag ttttttctgt aaattgagca ttaaaataaa agcacaacgg 3120 gtttctctta gagcactaac ctgctcttta acaaaaattg taaagggtta taaaaggtct 3180 ataaaaatct taccttatgg tcaaacatta aaattgggta aatatgtcta taaggtttta 3240 ttaagaattg ggtttaacat taatagtaca ctaatgtaaa ggtgaaattt ggcttatttg 3300 gtataaaaat catacaggaa gcattgtcaa atatgaaatg gtgtttggct ttctttgggc 3360 tatatttgtg taaatatgtt attggtatgt gttccaaagt tatgggaaac tcctataatt 3420 ctgatatatc ttagtgtacg ttatcagtaa taattataat tgttatgtta aattattgtg 3480 tgccacagag gtaacagatt tccttgtcaa ttgtgtcttt aactatggct accctaaaac 3540 tttttgtcat ccataaacaa ttgttgtctt gttttggtcc tctttagaag gtggttttat 3600 aatcagctat aaagctctaa caggtgctct tgaatgcagg tttctgataa ctttggagat 3660 tgtgacatca gaatagagga aaaacgttca ggactcttga agagctaaaa tgttcattaa 3720 tatcaagcag gacaggaatt aactgcatga actgaactaa taggagactg aagtgatctt 3780 tttgactttt tgcttaaaat gttgctaatc ctttgttttg cttttcagag tcaaggaaac 3840 ttttcttttg agctattgac agcttttaac aattaagtaa agtatactcc tatgaacaaa 3900 atttggagca tatttntttc tctctacctg attttctcca gaatttggaa actatttgtg 3960 agtattctta atttatggca atatagttat ttgcataagt gcaataagaa tctgttttct 4020 tttgtaacag gacacaattg gaaaaactgg ttatttttac caaggctttg actggaatga 4080 tgtgctttcc tttaaggaat caaacttgac ttatggagcc aataaagccc ttggaaaact 4140 ggcctcatat tttgtgtaca cagtccctgt acagggtttc tgatctgtgg taagtaaaga 4200 atgtcacttt ctgacaggcc aggaacccca agttatcttg gaacctcaag aggagaggaa 4260 ttcacccaac tcataggtat ttgatggtac aaatccatgg ctgggctcgg ctttaaaaag 4320 gtcttatctc agattccttc tatggaacaa agttccatca aagccagttt aaaaggccta 4380 tgtgaaaaat aattattctt gctgcactnt atncaaataa tcnggccaag tataataaag 4440 caaaccagtc ctaccatgat ttgtctttta ataaaaatgg gaaactggag agagaaaaat 4500 atgtttcaaa aactatagta cacctgttgt taaattctag tcttgcctga tgtttttcag 4560 tttttattat tttctacagt ttggattaaa ttctaatttt tctggctaca antctccaaa 4620 ataatgtttt caattttttc ctttttcttt tcctttttcc ccatttttcc taattggaaa 4680 tcactgaaac ctaagctgtg ctttcttaaa gccctgtgaa ctgaagacta gacaacttaa 4740 acttcagaag aaaacagcag caacctattt atatgtgttg ctgttgcata ctattatgtt 4800 tcagcaggng ctgcctctaa gcccccaaaa cagagagtgc taccgggaac aaatcgacct 4860 cttccactcc agcgctgcgt tcggtgcccc ataacgatga ccctctctca gcaggaagta 4920 gccagaaaga ttatgatgcc ccatctccct acgattctca tgataaataa atatacaagc 4980 atgatagaaa tcatgcgcaa attgacagtg gggat 5015 // ID GOLEM repbase; DNA; HUM; 3029 BP. XX AC . XX DT 13-JAN-1998 (Rel. 3, Created) DT 01-OCT-2005 (Rel. 5.09, Last updated, Version 7) XX DE Autonomous DNA transposon; MARINER/POGO superfamily. XX KW Mariner/Tc1; DNA transposon; Transposable Element; 35S; GOLEM; KW MER17; MER29; MER7; MER7B; TIGGER3. XX NM GOLEM. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 3029-2724 RA Drinkwater D.R., Burgoyne A.L. and Skinner D.J.; RT "Two human repetitive DNA elements: A new interspersed repeat RT found in the factor IX gene, and a satellite 11 tandem repeat RT sequence."; RL Nucleic Acids Res 14(23), (1986). XX RN [2] RP 3029-2724 RA Kaplan J.D. and Duncan H.C.; RT "Novel short interspersed repeat in human DNA."; RL Nucleic Acids Res 18(1), (1990). XX RN [3] RP 2713-2608 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [4] RP 2327-2128 RA Skalnik G.D., Strauss C.E. and Orkin H.S.; RT "CCAAT displacement protein as a repressor of the myelomonocytic- RT specific gp91-phox gene promoter."; RL J. Biol. Chem 266, 16736-16744 (1991). XX RN [5] RP 2787-2607 RA Rubin M.C., Leeflang P.E., Rinehart P.F. and Schmid W.C.; RT "Paucity of novel short interspersed repetitive elements (SINE) RT families in human DNA and isolation of a novel MER repeat."; RL Genomics 18, 322-328 (1993). XX RN [6] RP 2327-2128 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [7] RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [8] RP 1-3029 RA Kapitonov V.V. and Jurka J.; RT "GOLEM."; RL Direct Submission to Repbase Update (JAN-1998). XX RN [9] RP 1-3029 RA Smit A.F.; RT "GOLEM."; RL Direct Submission to Repbase Update (JAN-1998). XX DR [9] (Consensus) XX CC 23 bp terminal inverted repeats and TA target site [7]. CC GOLEM's non-autonomous elements are GOLEM_A (MER7A) and GOLEM_B CC (MER7B) repeats. CC Orientation of the repeat has been determined based on the CC reconstruction of its internal sequence encoding transposase [8]. CC The ORF from pos 442-2307 encodes a protein 39% identical (57% CC similar) over the full-length to the Tigger1 product. XX FH Key Location/Qualifiers FT CDS 463..2304 FT /product="GOLEM_1p" FT /translation="MAPKRTKSTANVASKRPHRVTDLETKLKVIKDYEGGK FT SVMVIARQSGMSHSTIATILKNKNKVTEAVKGSASLKATRLTKIREGPISD FT MEKLLMTWIEDQTQKHIPLSTMTITAKAKSLFAMLKEKAGPDYDVEFTASS FT GWFKRFKNRYSLHNVKVSGESASADVKAAEEFLETLDKLIVEENYLPEQIF FT NMDETSLFWKRMPERTFIHKEAKSMPGFKAFKDRITVLLGGNVAGYKLKPF FT VIWHSENPRAFKHINKHTLPVYYRSNKKSWMTQLLFQDALLNCYASEMEKY FT CLENNIPFKILLIVDNAPAHPPFIGDLHPNIKVVFLPPNTTSLIQPMDQGV FT IAAFKAYYLRRTFAQAIAATEEDTEKTLMQFWKDYNIYDCIKNLAWAWGDV FT TKECMNGIWKKTLKRFVRDFKGFAKDEEVAKINKAVVEMANNFNLGVDEDD FT IEELLEVVPEELTNEELLELEQERIAEEEAREKETAGEEKEEPPRKFTVKG FT LAEAFADLNKLLKKFENMDPNTERFSLIERNVHGALSAYKQIYDEKKKQTK FT QTTMDIFLKRVTPPQEEPQAGPSGGIPEEGIVIIGDDSSMRVIAPEDLPVG FT QDVEVEDSDIDDPDPV" XX SQ Sequence 3029 BP; 968 A; 580 C; 659 G; 820 T; 2 other; cagtcatgcg ccgcataacg acgtttcggt caacgacgga ccgcatatac gacggtggtc 60 ccataagatt ataatggagc tgaaaaattc ctatcgccta gtgacgtcgt agctgtcgta 120 acgtcatagc gcaacgcatt actcacgtgt ttgtggtgat gctggtgtaa acaaacctac 180 tgcgctgcca gtcgtataaa agtatagcac atacaattat gtacagtaca taatacttga 240 taatgataat aaatgactat gttactggtt tatgtattta ctatactata ctttttatcg 300 ttattttaga gtgtactcct tctacttatt aaaaaaaagt ttactgtaaa acagtatgcc 360 gtgttacacc ggcagcagcc tcatacatct cgtgtttacc gcgtctcttg attgcatcat 420 tttctcttgt gcttgattta atctcgtgtt gttttgttca tcatggcccc taagcgtaca 480 aaatccacgg ctaatgttgc cagtaagagg ccacatcgag tgactgacct ggaaacgaaa 540 ttaaaagtga ttaaggacta cgaaggtgga aaatcagtga tggttattgc tcgccagtca 600 ggcatgtccc attccaccat agctacgatc ttgaagaaca agaacaaagt gacagaagct 660 gttaaaggat ctgcttcatt gaaggcaacg agactaacaa aaattcgaga agggcctata 720 tcagatatgg agaaacttct aatgacctgg attgaagacc agacacagaa gcatatccct 780 ctcagcacca tgacgatcac ggccaaagca aaaagtttgt ttgcgatgtt gaaagaaaag 840 gctggacccg actacgatgt tgaatttact gctagctctg ggtggtttaa acgattcaag 900 aatcgttatt cattacataa tgtgaaagtg agtggtgagt ctgcgagtgc tgatgtgaag 960 gcagctgaag aatttttgga aactctagat aagctgattg tggaggaaaa ttacttgcca 1020 gagcaaatct tcaatatgga tgaaacctcc ctattctgga aacggatgcc tgaaaggact 1080 ttcatccata aggaggccaa gtcaatgcca ggtttcaagg cttttaagga caggataaca 1140 gtcttgcttg ggggcaatgt tgcaggctac aaattgaaac cctttgtgat ctggcacagt 1200 gagaacccca gggccttcaa gcatatcaat aagcacacac tgccagtgta ctacaggagc 1260 aataagaagt catggatgac ccagctcctc ttccaagatg ccctcctgaa ttgctatgcc 1320 agcgaaatgg agaagtactg tttggagaat aacatacctt tcaagatttt gcttattgtt 1380 gataatgctc ccgcacatcc tccttttatt ggtgatcttc atcccaatat caaagtggtg 1440 tttctccctc caaacaccac ctctttgatc caaccaatgg atcaaggagt tatagcagct 1500 tttaaggcct actacctgag gaggaccttt gcccaggcta ttgctgcaac tgaggaagac 1560 actgagaaga cactgatgca attctggaag gattacaaca tctatgactg catcaagaac 1620 cttgcttggg cttggggtga tgtcaccaag gagtgtatga atggcatctg gaagaagaca 1680 ctcaagaggt tcgtccgtga cttcaaagga tttgccaagg atgaggaggt tgcaaaaatc 1740 aacaaggctg tggttgagat ggcaaacaac tttaacctgg gtgtggatga ggatgacatt 1800 gaggagctcc tagaggtggt tcctgaggaa ttgactaatg aggagttgtt ggaactggaa 1860 caggaacgca tagctgaaga agaggcaaga gaaaaggaaa ctgcaggaga agaaaaagaa 1920 gaacccccaa gaaaattcac agtgaagggt ttagcagaag cttttgcaga cctcaacaag 1980 ctccttaaaa agtttgaaaa catggacccc aacaccgaaa ggttttcatt aatagagagg 2040 aatgttcatg gtgcattatc tgcttacaag caaatctatg atgaaaaaaa gaaacaaacc 2100 aagcaaacca ccatggacat atttctgaaa agagtgacac ctcctcaaga agagcctcag 2160 gcaggtcctt caggaggtat tccagaagaa ggcattgtta tcataggaga tgacagctcc 2220 atgcgtgtta ttgcccctga agaccttcca gtgggacaag atgtggaggt ggaagacagt 2280 gatattgatg atcctgaccc tgtgtaggcc taggctaatg tgtgtgtttg tgtcttagtt 2340 tttaacaaaa aagtttaaaa agtaaaaaaa aaataawttt aaaaatagaa aaaagcttat 2400 agaataagga tataaagaaa gaaaatattt ttgtacagct gtacaatgtg tttgtgtttt 2460 aagctaagtg ttattacaaa agagtcaaaa agttwaaaaa attaaaaagt ttataaagta 2520 aaaaagttac agtaagctaa ggttaattta ttattgaaga aagaaaaata ttttaaataa 2580 atttagtgta gcctaagtgt acagtgttta taaagtctac agtagtgtac agtaatgtcc 2640 taggccttca cattcactca ccactcactc actgactcac ccagagcaac ttccagtcct 2700 gcaagctcca ttcatggtaa gtgccctata caggtgtacc attttttatc ttttataccg 2760 tatttttact gtaccttttc tatgtttaga tatgtttaga tacacaaata cttaccattg 2820 tgttacaatt gcctacagta ttcagtacag taacatgctg tacaggtttg tagcctagga 2880 gcaataggct ataccatata gcctaggtgt gtagtaggct ataccatcta ggtttgtgta 2940 agtacactct atgatgttcg cacaacgacg aaatcgccta acgacgcatt tctcagaacg 3000 tatccccgtc gttaagcgac gcatgactg 3029 // ID MER4B repbase; DNA; HUM; 611 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER4B. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER4B; KW MER4I-group; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 362-611 RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [2] RP 1-611 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RA Erickson M.L. and Maeda N.; RT "A new family of retroviral long terminal repeat elements in the RT human genome identified by their homologies to an element 5' to RT the spider monkey haptoglobin gene."; RL Genomics 27(3), 531-534 (1995). XX DR [2] (Consensus) XX SQ Sequence 611 BP; 165 A; 163 C; 105 G; 156 T; 22 other; tgtaaaccaa aaataaaatt ctaagkcccc caaccgtctg aatggacycc tcctctyggc 60 caagggcayt ccaaagytaa cctgraaaac tagttcaggc catgatggga agtgggggtc 120 ggacacgcct cattataccy tccyycttct ggaattcagg cacaactgac cagcattaac 180 atcaacacag acnttaagtc tgataagaaa cagtttacaa yctrttctct ctgaagcctg 240 ctanctgaar gcttcatctg cacgataaaa cttggtctcc gcaacccctt atntcataac 300 ccggacattc ctttccattg atctyaantc ttcaaccart tgccaatcag aaaatctttg 360 aatctaccta tgacctggaa gcccccgctt cgagttgtcc cgcctttccg gaccgaacca 420 atgtacatct tacatgtatt tgattgatgc ctcatgtctc cctaaaatgt ataaaascaa 480 gctgtrcccc gaccaccttg ggcacatgtk gtcaggacct cctgaggctg tgtcacgggt 540 gcgtccttaa ccttggcaaa ataaactttc taaattgayt gagacctgtc tcagatactt 600 ttgggttcac a 611 // ID MER4BI repbase; DNA; HUM; 6758 BP. XX AC . XX DT 20-AUG-1998 (Rel. 3.07, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE MER4BI LTR-retrotransposon - a consensus. XX KW Endogenous Retrovirus; Transposable Element; KW Internal sequence of retrovirus-like element; LTR39; MER4B; KW MER4BI; MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 2897-5309 RA Kapitonov V.V. and Jurka J.; RT "MER4BI."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-6758 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC MER4BI is a class I retrovirus-like element of the MER4I group CC flanked by MER4B-LTR39 LTRs [1]. It contains partial matches to CC the CC gag (pos 3349-4080) and pol (4455-4865) genes of ERVL (class CC III)[1]. XX SQ Sequence 6758 BP; 2137 A; 1163 C; 1397 G; 2021 T; 40 other; ataatttggc gcccaaacac gtggggcctc agagaagact caggaccccg aaggagttgc 60 ccgaactcgg agctaaggta ccagcagggg cccactgaag cctccccgan ttcgagcttc 120 tcctccggtg gaactggtaa gtcctcctga gccccggacc tccctttggt tgacggtcct 180 tgatttattc tgagctgttt tttttttctc ctaggaagtt gttgtttagg atcctaattc 240 tagttcggag atgcattcta aagggtcttc tctattgctt tttctcccaa aattaatctc 300 aattcggctt gtctgtgcgc atttgcgtga ggaactgaac tgtcgttttc atagataaat 360 gagagactga gtttcctcag ctccgaagag aaagggcatt ttgctcctcc cagccgaaag 420 gcgcccctgg gtgaccgggg gcctcgtggg agtgtctggg gggttgaccc cccgtgacgt 480 gcagcggccc tacagggaaa cccccaacaa aaattagttt aaaaaggctc atccaggaaa 540 cgcatataag agctgatcac ccggcgtttt gagccctctc ggaggtnata gacctccgga 600 gagagaaact gagacacgta agagggcgga aacgactcag tggtgacaca ctgtggagtc 660 ccgcccacaa ncagcacaca tcgatccacc acacaaaaac cctaggccac agctcagttc 720 ctccttttaa gaaaagtggg aaacaaataa tctaagaatg aggagaaaac aaggagaatg 780 accccctttc gagcaccccg tnggttttat ggcacctcta cttgccagag tttgtgtaaa 840 atggaagggc acgccaggtt ttctaatact ccagctggtt acacatttgg tcttcttgtg 900 cacattttaa actgatgggc aaattacatt aaggaaaatt cagagcccta aggtcgacct 960 gcaaactata gagttcctaa gttctctatt tctctatttt cttttctgcc tgctttaaat 1020 ctgctgttac ttttctactg agataaaaac cactgtttgg atccaacntt ttttttnttt 1080 ttttgcaagc cggtgaattt gtattaatat ctcatggcta aagttctgaa gtaaaagcta 1140 taggatcttt gtgtgtgtga gtgtgtatgt gtgtgtttat gtgtacatac atgtattttg 1200 ttatgtgttt tggccacaag gtaccaaatt ggcttaaaga gtactcataa attaaataat 1260 aagcccaaat gcttttcaag ttcacgtgac ttaagtaaaa nctttaataa actggcttta 1320 aaaattactg gtaaagtaat attagaaatg tcttaagaat tgtcagcatt tttgtgcatt 1380 tattggtcaa gttttcatac ttatgaaata ttataggtgt aaaattggca taagttaaaa 1440 atatctaaaa ttgtcgattt tgtttgcatt tattgatcaa gtggtttcat gcttatccct 1500 gcagaatact ataaggtgtc aaaatttgcc ataagggtta taaaactata aacccagccc 1560 aaaacagaat gatctttgct tgtgtaattt ttgataaata agacatttaa tattgttggt 1620 ttaatgaaaa cagctaaatc ctgagttatt ggtaaaatac ccatatattt aaccttaagt 1680 ttcttactta ggtaaacacc tgaaattcac aggctataaa aatggttaac agggaaataa 1740 ctttaaataa tgactatcac agttttcgta aataatctag gtaaactatt aaataaataa 1800 tcaggtaaat gtaanggaat aaatgcttgt aaacaaactt gtcataattt agaatctaag 1860 gttatattaa ataatagtat tattaaatat ctgggtaatt tccaattaaa aattatagga 1920 aaacattttt aaaaatatgt tcttattaaa aggtaaatat tttttgtcta attcaaaggt 1980 tatgtataaa acaaggtaaa aggaaccagg aaataaagag atgtaaagaa agttacagat 2040 ataaagaggt atttttggta agaaagatta aaagaaaagt aattttatat gagaaagaat 2100 cttgtgtggt aaatttttgt cctaaaataa aatgactggg ttgttcaaga aagagggata 2160 tttaggacaa accagaaagt ccaagcatgt tgtgaatggt ctatgtaagt cgtaataagg 2220 ttagtaaaaa aggaatttnt aaaggngttg tataattnag ttggctataa ttaaaatgaa 2280 attataatag tctttctaga aatgggnctt tgatattaaa aatacactaa tacaaaacta 2340 aataattggt tagaacaaga ttttacaatt aaaaatattg acttattttt aatgcaagaa 2400 gtttttaatt tttaaattct ataatctgtt tctttttgaa attcttcaga ttgatatctc 2460 agaagttcaa ctcctgtcgc ttcagtcttt ctttcttttg aaaaggcctn ggatggtaac 2520 tctctccttc accttttgtt ggctcctgta acttttttta attaatagtc taaagtaagg 2580 gagagaattt ttgaaaacag gcaaataaaa aatcttttgg acctgccttt ttattctgca 2640 tgtctgttat atctatatnt ttatatgtgt catgtggaag tgatatttca ctaccaaact 2700 atatgaaaga gctctaatca attggcttaa agaaagtaag tgcttatcag attggtagaa 2760 gctagctcag atgcctttta attcacatga ccttggtaat ctttggtaag attaatttgg 2820 taaatttaat ctcaaaattc tctccagtaa tttaaaatct taaagtcatg ttatgttaaa 2880 ttaagtaacc ccgggttttc tcactgggaa tttgggttac taagagttaa aatagtagga 2940 gaataaaatg tgtttttggt aaagtttata aaacacaagg atgtngnttt tgctaaagaa 3000 aatgtatttt tttctagttt agagactatt taagagtcgc tttaaaatga aggaaaaaat 3060 tatacagata aaactaaatg gataaagaga aaaataaaag ggtggggaat gagaaacctt 3120 tgattcctgg gtggccacgt ggtcacccat ggtatggagc tgcagctgtg ctgcactcag 3180 ttactaaagg taaaagttac cagtggaatt tagagatgga tccaactccc agggagttgg 3240 ttcactggat gcataaggaa atgcaaacta ataaggaaaa agtgaaatat tcaatccctt 3300 ggttattgtt atctgtaata gctaaaatga aagtaaaaga gtgctgggtt gggccttgag 3360 gctggaccaa gctcagatgt gggtctgtct gagctcaggc cactagcctc aaagctaccc 3420 acaaagggga aaattangcc agggcaacaa aaantacctc tgagacctgt ggttaccaag 3480 aaggtagtca atgtggggga agggcaaaac caagtaacta ttaaaaccag agggtataat 3540 gtaaaggaat tgttccattt tgtagattgg tatcatcagc ttcctgagaa acctttacta 3600 naatggattg taaaaataac tantttaagg acagnatcct taattttaaa tgctacagaa 3660 tgnaagagca tgtttgggtt gatgcaggac ccacagctca ctattgaaca atcacngatg 3720 agtatatgtg atccagacgc acaggaggtt attcctgaga gaacagccag cctagtggac 3780 tggataaang ccactgtaag gtctgtttac cctgagaagg ggactgccca actctcccta 3840 taaaatgcca agtggagcac cccagatgaa gcagctgata tgcttcatat gcaagccatg 3900 tgggactggc tttatgatga ccgggatatt ctcccactga atatgcctat tacccaggtc 3960 atggtaaatg ctggggttaa gggggcccct tttacatggg cgccccakgt gacattactc 4020 ccgcagaatc atacgactgt ttgagaagcc ttatcaaatt tgctgtccct catgggtctt 4080 acagatgctt aataaaacat tagggtaatt aacaaaaaaa aaatggaaag gcaaaaggga 4140 gtcaaaggac tcgtcccaga agggtggaaa tctttagatg gttattaaga aatgaaatga 4200 ataaaatgaa aattgatggg gttaaaacaa aggtctttac aacactatcg aaggttgggt 4260 ggaccaaagg gagcccctgc tggtccccca acattaaaag gccccaaacc agttttctgc 4320 atttgcccca gattggagaa atttaagaaa aatcaaaagg caaaggttat aatgagaaag 4380 ctgacattgc ctggggcaat gctgaggcaa attaagataa agattgacaa aagggcctgg 4440 gtcccttggc tcaactccct gctgggaacc caaatccttt ttcaccagaa aaggtaaaat 4500 ggtctggggg tagaaaagaa aagttcctgg gaccagaaca taaaaatgta naggttgata 4560 gaattatgaa atttgagatg tttaaacagg ctttatgtaa ggtagttgtg actcctttac 4620 ctaaatgtct tatgaaaatg ggtattgtat ctgactgggg gatgtttccc ctatctagta 4680 ctataaaact gaaggcatgt aaatctgccc tttgagaaat gttaattgga catgctaaat 4740 gggaactagt aagattgcct gagcccacag agtgtagggt agaagctgga gtgctagtcg 4800 ggacaaatcc tccacttcat agccctttgt ggagcattta ttggggctta tggcaaaagc 4860 ctgtgagcac ttcccaatga caacgactgg actagagaat ttccacttga ggggcattta 4920 ctgccttgct atggaatgtt aactgaagct acccctatgc taatggaaat aatggtgccc 4980 aaaagagttc catgataaaa taaaaatggt ttacatagga tcttgctacc tggggatgca 5040 aggaggagat actcatgagc agggagcctc ttttccccta ggactgactc taactatgtg 5100 aggagctgct agattctaca gtgcctgata gacagctctc atctgacaag agctgcttgg 5160 tttgtgaatg gcagttccaa ggtgaacaaa caacatcttg tttggaaggc tgctgctctg 5220 gttaaagaag agtcaagaaa atctttttct tttgagttat ttacagttta gagcawttgg 5280 gtgaagtatg tttttgtaag caaatttacc tttctctcta tctgagttct ccaaaattcg 5340 gattgtgatt ttatgacaat atagttattt gcataagttc agtaagagtc ttttttttaa 5400 aacaggacaa ttggagacac tggttatttt accaaggctt tgactagaat agcatatttt 5460 taggtaaagt tccagcaaag ccaacttaaa aggagcctat atggccaatc aattcttgct 5520 gcactttatg caaataatca ggccaagtat aataagccta aaacttattt tgcacacaaa 5580 ttggtcttac tataatttct ctttagtaga aaaggagggc tagagagaga aaaattgttt 5640 caaaggaaaa gtgtaacact tgntactaga tttcagccct gacttttgtt tttgagtgca 5700 gattgaatca tgaattattt cttggctaca ataatcctct aaagagtacc agattataat 5760 ttttcttcat atttttagtt ggtgccctaa tggaataggt tcctttttct gttctgacac 5820 acaaatnctc ttttgattgt caaantatta atgttattta tctctccttg ttttacttcc 5880 gaggaaacca aaatcatggt attctgaaga ccagagatgt gaatctccct catttggcat 5940 cccactgggc ccgatctgtt tttcactgca aatgccctgc tgctaaaact atacaagcac 6000 cctccctcta ggcccaggga ctatcgcgga agaggtgggc gcgtgagatt ntaagggccg 6060 gttttgaggg atagaattag gtcaaggtca ggccctccaa atcaaggagg ggtacaaaga 6120 tgcctaaaca gctggtaaaa caagggactt tgccttctaa gctattatgt gtcacctttn 6180 catccacccc aaccataaag aattttctgc ttcctataga attaaaagaa aatanttact 6240 ganaggataa agatacctcg tgacaaagcc tcctgggtat aatactccca gttatgagtt 6300 tgtgnagata gatatatntt aaaaaatttt tatcagctta ggatacaaga aaaaatcacc 6360 atcttaaatt ncttttaaaa aacaatgctt atgttttgta tagctaattg ctataagtct 6420 gtaactaaaa ccaagnttac agtagctcaa cacatagaag ttaaaaataa gtcagttttg 6480 taacctcgcc tttggctttt tgtttgttgg ctttttactt aaaataataa ttttaagggg 6540 taatgaatgc ctgtccacat ccattcctat ctggcctaga acanttaatt ggctgtaagt 6600 cttttgactc tnagtccctc ggccataggg ggtcccaccg agggacagga tggacccagg 6660 gcaggcagcc atgccacccc ggcaatgcta tgggacaaaa taaaaatttg gtggccattg 6720 atgttgcctc tggcaaatct tggccagaag ggggagaa 6758 // ID HERVIP10F repbase; DNA; HUM; 7737 BP. XX AC . XX DT 28-MAR-2001 (Rel. 6.02, Created) DT 27-JUL-2005 (Rel. 10.08, Last updated, Version 2) XX DE Internal portion of HERVIP10F, an endogenous retrovirus flanked DE by LTR10F - a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; C type; KW HERVIP10E; HERVIP10F; LTR10F; RNase H; endonuclease; gag; KW protease; reverse transcriptase; tRNA Ile/Pro. XX NM HERVIP10F. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7737 RA Kapitonov V.V. and Jurka J.; RT "HERVIP10F."; RL Direct Submission to Repbase Update (MAR-2001). XX DR [1] (Consensus) XX CC HERVIP10F is an internal portion of the HERVIP10F endogenous CC retrovirus. CC Average similarity between HERVIP10F copies and the consensus CC sequence CC is 94%. Proviral copies and solo-LTRs are flanked by 5-bp target CC site duplications. LTR is deposited in Repbase Update as LTR10F. CC There is 78% identity between HERVIP10F and HERVI. HERVIP10F was CC an active endogenous retrovirus ~30 Myr ago. The consensus CC sequence CC was reconstructed based on multiple alignment of 9 copies. CC Overall, CC there are about 20 copies of the HERVIP10F internal sequence CC present in the human genome. The HERVIP10F consensus sequence CC carries 3 ORFs. ORF1 (position 504-2216) encodes gagP71A, CC a 571-aa gag-like protein, closely related to gag proteins CC encoded CC by the C-type leukemia retroviruses. CC ORF2 (position 2220-5720) encodes polIP10F, an 1167-aa CC polyprotein CC composed of protease (140-aa), reverse transcriptase (517-aa), CC RNase H CC (140-aa) and endonuclease (270-aa) domains, respectively. CC ORF3 (position 5621-7735) encodes envIP10F, a 705-aa env-like CC protein CC which is most close to env proteins encoded by the leukemia CC retroviruses. CC It's not clear what class of tRNAs has served as a primer: tRNA CC Pro CC or tRNA Ile. XX FH Key Location/Qualifiers FT CDS 504..2216 FT /product="gagIP10F" FT /note="gag" FT /translation="MGNTPSKTGSKGDKDGNKDIPPDSPLGLMLKHWKDNE FT RTKHRKKQQMIKYCCFIWTQGPILKPSIFWPKFGSNEDVMCQLLIRYVNDK FT SPVSQEELGYALCWRQGPALLFPLKTNREEPNLAPQNEKSEEPALMPKDSS FT AWDPLDYLPPLSVPNLSPQTATAASDPIPNPPSTHVIPPPYNPDSWELPSH FT QPVPSQPKYPSLKGLQREVEQCKKDIQNFPFPSVPKRSAPTLFPLKEVPQG FT GGGEGIGFVNAPLTSSEVRNFKKELKPLLDDPYGVADQIDQFLGPQLYTWV FT KLMSILGILFSGEERSMIRRAAMVVWEREHPPGENVPTADQKFPTRDPRWD FT NNNADHRENMQDLREMIIKGIRESVPRTQNLSKAFDIQQEKDEGPMRFLDR FT LREQMRQYAGLNLDDPLGQGMLKLQFVTKSWPDISKKLQKIDNWEDHPLSE FT LLREAQKVYVKRDEEKQKQKTKLMFSTFQQMAPNPGTSRQSFQGARNYKGS FT EPSFKGPQPPSGGPRSSSTRPPKEYGGAGLKNPRTKREEGQDRCYRCGRTG FT HFKRGCPELRKEKEALPLMTFEEE" FT CDS 2220..5720 FT /product="polIP10F" FT /note="pol" FT /translation="GGQGLCLFYLESHQEPLINLEVGPKHELITFLVDSGA FT ARSSVCFPPSNVVSSSEELLVSGVKGEGFRAKILESTEVRYQDRSAHIQFL FT LIPEAGTNLLGRDLMLKLGIGLQVSPRGFLTSLNLLTTADEKYINPNVWSK FT EGNRGKLQVPPIHIKLKTPGEVVRRKQYPIPLEGRIGLKPIIEGLIKDGLL FT EPCMSPYNTPILPVKKSDGSYRLVQDLRAINQIVQTTHPVVPNPYTILSKI FT PYNHQWFTVIDLKDAFWACPLAEDSRDIFAFEWEDPHSGRKQQYRWTVLPQ FT GFTDSPNLFGQILEQVLEKVVIPEQICLLQYVDDILISGEDIEKVTDFSTH FT ILNHLQFEGLRVSKRKLQYVEPEVKYLGHLISAGKRRIGPERIEGIVSLPL FT PQTKQELRKFLGLVGYCRLWIDSYALHSKLLYQKLAQEKPNRLLWTSEEVD FT QVEKLKERLITAPVLALPSLEKPFHLFVNVDSGVALGVLTQEHRGRRQPVA FT FLSKVLDPVTCGWPQCIQSIAATAILVEESRKLTFGGKLTVSTPHQVRTIL FT NQRAGRWLTDSRILKYEAILLEKDDLTLTTDNSLNPAGFLTGNPNLRREHT FT CLDLIDYHTKVRPDLGETPFWTGRHLFIDGSSRVIEGKRHNGYSVIDGETL FT VEIESGKLPNSWSAQTCELFALSQALKYLQNQEGTIYTDSRYAFGVAHTFG FT KIWTERGLINSKGQDLVHKELITQVLNNLQLPEEIAIVHVPGHQKSLSFES FT RGNNLADQVAKQAAVSSEMRIFHLTPYLPPPTIIPIFSSTEKEKLIKIGAK FT ENSEGKWILPDQREMLSKPLMREVLSQLHQGTHWGPQAMCDAVLRVYGCIG FT IYTLAKQVTDSCLVCKKTNRHTIKRLPLGGRNPGLRPFQSIQVDYTEMPPI FT GRLKYLLVIVDHLTHWVEAIPFSNATANNVVKALIENIVPRFGLIENIDSD FT NGTHFTTHIIKKLSQTLDIRWEHHTPWHPPSSGRVERMNQTLKNHLTKLVL FT ETRLPWTKCLPIALLRIRTAPRKDIGLSPYEMLYGLPYLHSTADIPTFETK FT DQFLKNYILGLSSTFSSLKTKGLLAQAPPLEFPVHQHQPGDHVLIKSWKEE FT KLEPAWEGPYLVLLTTETTVRTAERGWTHHTRVKKAPPPPESWAIVPGENP FT TKLKLRRI" FT CDS 5621..7735 FT /product="envIP10F" FT /note="env" FT /translation="MDSPHPSQESATPSRVVGHSPRGKPYQTKAKKNLTLF FT HLFYYSFFFPRSIADHLVINITKSISPQTIAFDACLVIPCGDLSSQRQLST FT SEKYLCPSWLSSDWALVNWDHLIWGDFDKDPSGNQESCPHDVELLCRSWSN FT VLWTTKEQGWTAPTSFCNFLKPYIHFTKGTAPPNCQLNQCNPIQVIISSPQ FT SSSPFLSRFPSLSRFYGMGAEVSGTDPIGFFEMHFFDPPPPAPASKPFSKT FT SHNGTIVPPPSNDKAKIAMVEVKDLKQTLAIETGYQDVNAWLEWIKYSIRT FT LNKSNCYACAHGRPEAQIVPFPLGWSSSRLGMGCMVALFQDSTAWGNKSCQ FT ALSLLYPEVRHPAGQPPRAIQLPSPNTKFTSCLSRQGGNLAFLGDLKGCSE FT LKNFQELTNQSALVHPRADVWWYCGGPLLDTLPNNWSGTCALVQLAIPFTL FT AFHQPEEGKIRHRKAREAPYGSFDSHIYLDAIGVPRGIPDQFKARNQIAAG FT FESIFWWVTINKNVDWINYIYYNQQRFINYTRDAVKGIAEQLGATSQMAWE FT NRIALDMILAERGGVCIMIKTQCCTFIPNNTAPNGSITKALQGLTALSNEL FT ASNSGVNDPFTGWLEKWFGKWKGIIASILTSLVAVIGVLILVGCCVIPCIR FT GLVQRLIEMALTKTSLNYPPPYPEKLLLLENQAEQLSQDMLNKFEEKAVRK FT MQEEE" XX SQ Sequence 7737 BP; 2326 A; 1843 C; 1695 G; 1873 T; 0 other; atttgggggc tcgtccagga ttacattccc ctccgggggc ggtctctggt tctctcttgt 60 gaggaggcac gccccgcccc cttgtggcag cctcaggggg gagaaatcag gacccaccca 120 gtgcgaggaa taacccgagc tctcagcaat gcggaaagaa actggccagc aacctagctt 180 aaaggatcct cacatactgc ggcgacgact ctgtgcacag accaaggaag gagaagccgc 240 gggagccggt aaagtatttc cttggtggtc aggaccaagg taagaaagcc gcgggggggc 300 ggtgaagtac tccttggtca gggtggctta gaggttaaaa agaggtgaga catccccact 360 ggtgggggat tgaacctcac acaaacctcc agtagtagaa aaggcaagaa atttccagtg 420 ggggaaattg agcctcaccc caaaaggcga gaaatttcca gtaagggaaa ttgaaccttg 480 aaccttaccc caaaaccatc aagatgggaa ataccccaag caagacaggg agcaaggggg 540 ataaagatgg taacaaagat atccccccag atagccccct aggtctcatg ctaaaacact 600 ggaaggataa tgaaaggact aaacatagga aaaagcaaca aatgataaaa tattgctgtt 660 ttatttggac tcagggaccc atcctcaaac cctcaatctt ctggccaaag tttgggtcga 720 atgaggatgt aatgtgtcag cttctaatcc gatatgttaa tgataaaagt ccagtgtctc 780 aagaagaact aggctatgcc ctttgttgga ggcaaggacc tgccctcctt tttcccttaa 840 aaacaaatag ggaagaaccc aatctggcac ctcaaaatga aaagtcagag gagccagctc 900 tcatgcctaa agactccagt gcatgggatc ccctagacta tcttcccccg ctcagtgtcc 960 ccaatctttc ccctcagaca gccactgccg cctcagatcc cattccaaat cccccctcta 1020 ctcacgttat ccctcctcct tataaccctg actcttggga attaccatcc caccagcctg 1080 ttccctccca acctaaatac ccctctctaa aaggactcca gcgtgaggta gaacaatgta 1140 aaaaagatat tcagaatttc ccatttccct ccgtacctaa gaggtcagcc ccaaccctct 1200 tccctttgaa agaggtacca caaggagggg ggggggaggg cattggcttt gtaaatgctc 1260 ccttaaccag ttcagaagtc cggaatttta aaaaggagct taaaccgcta ctagatgacc 1320 cttacggagt ggcagaccaa attgaccaat tcttaggacc tcagttatac acttgggtca 1380 agttaatgtc catcttgggc atcctctttt caggggaaga aaggagtatg attcgtaggg 1440 ctgctatggt agtttgggaa cgtgagcacc ctcccggtga aaacgttcct accgcagacc 1500 agaaattccc cacccgagac ccccggtggg acaataacaa cgcagatcac cgggaaaata 1560 tgcaggacct aagggagatg ataataaaag gaattcggga atcagtaccc cgaacccaaa 1620 atctttctaa agcatttgat atacaacagg aaaaggatga agggcctatg agattcctag 1680 acagactgag ggagcaaatg aggcaatatg caggcctcaa tttggatgat ccccttgggc 1740 aaggaatgtt gaaactccaa tttgtcacta aaagttggcc agacatttca aaaaagttac 1800 aaaagataga caattgggaa gaccatcccc taagtgagct tctcagggaa gctcagaaag 1860 tatacgtgaa aagggacgaa gaaaaacaga aacaaaagac aaaacttatg ttttccacct 1920 tccaacagat ggctccaaac ccaggtactt ctagacagag cttccaggga gccagaaact 1980 ataaagggtc cgaaccctct tttaaaggac cccagcctcc atctggagga ccaaggtcct 2040 cgtctaccag gccccctaaa gagtatgggg gagcagggtt aaagaatccc agaactaaga 2100 gggaggaagg acaagatagg tgctatagat gtggaagaac aggccacttc aagagaggat 2160 gtcctgaact aagaaaggag aaagaagccc ttccactcat gactttcgag gaagaatagg 2220 ggggtcaggg gctctgtctc ttttatcttg agtcccacca ggagcccttg ataaatttgg 2280 aggtgggacc taaacatgag cttatcacct ttttagtcga ttcaggggct gctcgctcct 2340 ctgtttgttt ccccccatct aatgttgtct cctcctcaga ggaactttta gtctccgggg 2400 taaaagggga aggatttaga gcaaaaattt tagaaagcac agaagttaga taccaggatc 2460 gctcagctca tattcagttc ttgttaatcc ctgaagcagg aactaattta ctggggaggg 2520 atttaatgtt aaagttgggc ataggtctac aagtcagccc aagaggattc ctcacctcat 2580 taaacctact caccactgca gatgaaaaat atattaatcc taatgtctgg tccaaagaag 2640 gaaaccgagg gaaactccaa gtccctccga tccacatcaa gctaaaaacc ccgggagaag 2700 tagtaagaag gaagcaatac cctattcccc tagaaggtag gatagggttg aaacctataa 2760 tcgaaggcct tattaaggat gggcttctcg agccctgtat gtccccttat aacaccccaa 2820 tactgccagt caagaaatca gacgggtcat accggctagt acaggacctt agagctatca 2880 accaaatagt ccagactacc caccccgttg tccccaatcc ttacaccatt cttagcaaga 2940 ttccatataa tcatcaatgg tttactgtaa tagatttgaa ggatgctttt tgggcatgtc 3000 ccctggctga agatagccga gatatatttg cttttgagtg ggaggatccc cactcagggc 3060 ggaaacaaca atatcgatgg acagtcttgc cccaagggtt cacagactcc cctaatcttt 3120 ttggccaaat tttagaacaa gtactagaaa aagttgtcat cccagaacaa atatgccttc 3180 ttcagtacgt ggacgacatt cttatatctg gtgaagatat agagaaggta actgacttct 3240 ctacacatat tcttaaccat ctgcagtttg aggggctacg agtctcaaaa agaaagcttc 3300 agtatgtaga gcccgaagtt aaatatttag gccacttaat aagtgcaggc aagcgaagaa 3360 tagggcctga acgaatcgag ggaatcgtgt ccctaccctt gcctcaaact aaacaagaac 3420 tcaggaaatt tttagggtta gtcggatact gccgcttatg gattgactca tatgcactgc 3480 acagtaaact gttatatcaa aaacttgccc aggagaagcc taaccgtctc ctgtggactt 3540 ctgaggaagt tgatcaagtc gagaagctga aggaaaggct cataactgcc cctgttttag 3600 ccttaccctc cctagaaaag ccattccacc tttttgttaa tgtggacagt ggggtagctt 3660 taggagtgct gactcaagaa cacagaggcc gccggcagcc cgtagccttc ctatcaaagg 3720 tcttagaccc agtcacttgt ggatggcctc aatgcatcca gtccatcgcg gctacggcaa 3780 tactagtcga ggaaagcaga aagttaacct ttggaggaaa attgacagta agcacgcctc 3840 accaagttag aactatctta aaccagagag cagggagatg gcttactgac tcgagaatct 3900 taaagtatga ggccattctg ttagaaaagg atgatttaac attgaccact gataattcac 3960 tcaacccagc aggtttccta acagggaatc caaatctaag gagggaacac acatgtttag 4020 atttaattga ttaccataca aaggttcgac cagacctagg agaaaccccc ttctggactg 4080 gacggcactt attcatagat ggttcctccc gggtgattga gggaaaaaga cacaatgggt 4140 attcagtgat tgatggagaa actctcgtag aaatagagtc aggaaaattg cccaacagtt 4200 ggtctgctca aacgtgtgag ctgtttgcac tcagccaagc cttaaagtac ttacagaacc 4260 aggaaggaac catctataca gattccaggt atgcctttgg agtggcccat acgtttggga 4320 aaatttggac tgaacgaggt ctcattaata gtaaaggtca agaccttgtt cacaaggagc 4380 tgatcaccca agtattgaat aatcttcagt tgccggaaga aatagctatt gtccatgttc 4440 ccggacacca gaaaagcctt tcttttgaaa gtcgaggaaa taacctagca gatcaggtag 4500 ccaagcaggc tgctgtgtct tctgaaatgc gtatttttca cttaactccc tacctccctc 4560 ctcctaccat aatccccatt ttctcttcca ccgaaaaaga gaaactaata aaaataggcg 4620 ctaaagagaa ttcagaagga aagtggatac tgccagacca gagagaaatg ttgtctaaac 4680 cccttatgag ggaagtctta tcccaactac atcaggggac ccactggggg ccccaggcca 4740 tgtgtgatgc agttctcaga gtttatggtt gtataggaat ttataccctg gccaaacagg 4800 ttacagatag ttgcttagta tgtaagaaaa ctaatagaca tactataaaa agattacctc 4860 tcgggggaag gaatccaggc ttaaggccat tccaaagtat ccaagttgat tacacagaaa 4920 tgcctccaat aggtcgtcta aaatatttac tagtgatagt agaccacctc actcactggg 4980 tcgaagctat ccccttttca aatgcaacag ccaataatgt agttaaggcc ctaattgaaa 5040 atatagtacc caggtttgga ctaatagaaa atattgactc agacaatgga actcatttca 5100 ccacacacat tattaaaaag ctatcccaaa cattagacat tagatgggaa caccatactc 5160 cctggcaccc accctcatca gggagagtag aaagaatgaa tcagactcta aagaaccact 5220 taaccaaatt agtcttagag actcgattgc catggaccaa gtgtcttcct atcgccctgc 5280 tgagaattcg aactgcacca cggaaagaca ttggtctttc tccttatgag atgctctatg 5340 gattacctta tttgcactcc actgctgata ttcctacctt tgaaacaaaa gatcaattcc 5400 ttaaaaatta tatacttggt ctatcttcta ctttctcttc tcttaaaact aaaggtctat 5460 tagcacaggc gccacccttg gagttcccag tgcatcaaca tcagcctggg gatcacgtcc 5520 tcatcaagag ctggaaagag gagaagcttg agccagcctg ggaaggtcct tacttagtgc 5580 tcctaactac tgaaaccaca gtccgcacag cagagagagg atggactcac cacacccgag 5640 tcaagaaagc gccaccccct ccagagtcgt gggccatagt cccaggggaa aaccctacca 5700 aactaaagct aagaagaatt taactctctt tcatctattc tattactctt tcttctttcc 5760 tcgctctatc gctgaccatc tagttattaa cataaccaag tcaatttcgc ctcaaactat 5820 tgcatttgat gcttgccttg ttataccctg tggggatttg tcaagtcaaa gacagctctc 5880 tacttcagaa aagtacctct gtccctcctg gctctcctca gactgggcat tagtgaattg 5940 ggaccattta atctggggag atttcgataa agaccccagt ggcaaccagg agtcttgccc 6000 ccacgatgta gagcttttat gccgtagttg gtccaacgtt ctgtggacca ccaaagagca 6060 aggatggact gccccaacca gtttttgtaa tttcctaaaa ccatacattc attttactaa 6120 agggacagcc ccccccaact gtcagctaaa ccagtgcaat cctatacagg ttattatttc 6180 gagcccccaa agttcttccc cttttctaag ccggttccct tctttaagcc ggttttatgg 6240 tatgggggct gaggtttcag ggacagaccc tattggattc tttgaaatgc atttctttga 6300 tcccccgccg cctgcacctg cctctaagcc tttttccaaa acctctcaca acggaaccat 6360 tgttcctcct ccatctaacg acaaggccaa gatagcgatg gtagaagtta aagacttaaa 6420 acaaactttg gcaattgaga caggatacca agatgtaaat gcctggttgg aatggatcaa 6480 atattccatc cgcacgttaa acaaaagcaa ttgttatgct tgtgcacacg gcaggccaga 6540 ggcccagatt gtcccctttc cactagggtg gtcctccagt cgactgggca tgggctgcat 6600 ggtagctctt ttccaggatt ctacagcctg gggtaacaag tcgtgccaag ctctctctct 6660 gctatatccc gaagtccgac accctgcggg tcagcccccg agggccatcc agcttccatc 6720 tcccaacacc aagttcactt cgtgtctctc acgacaggga ggaaacttag cgttccttgg 6780 agacctgaag ggatgcagtg agcttaagaa ttttcaagag cttaccaatc agtcagccct 6840 tgttcatccc cgagcggatg tgtggtggta ttgtggtgga cctttactgg acactctgcc 6900 gaataactgg agtggcactt gtgctttagt ccaattggct atccctttca ccctggcatt 6960 tcatcaacca gaggaaggaa aaataagaca tcgtaaagcg agagaagccc cttatgggtc 7020 tttcgactct cacatctatt tagacgcaat tggagtccca cggggaatac cagatcaatt 7080 taaagcccga aatcaaatag ctgcaggatt tgagtcaata ttttggtggg tgacaattaa 7140 taaaaatgta gattggataa actacatcta ttacaaccaa cagcgattta ttaactacac 7200 tagagatgct gttaaaggaa tagctgagca attaggggct actagccaga tggcttggga 7260 aaataggata gccttagaca tgatattagc agaaagagga ggagtttgca tcatgattaa 7320 aactcaatgt tgcaccttca tcccaaacaa caccgcccct aatggaagta taacaaaggc 7380 attgcaaggt ctgactgctc tatccaatga gttagccagc aactcagggg taaatgaccc 7440 ctttacagga tggctagaaa agtggttcgg taaatggaaa ggaataatag cctcaattct 7500 tacctccctc gtagccgtaa taggtgtact tattcttgtc gggtgctgtg tcataccatg 7560 catccgtggg ttggtgcaga ggctcataga aatggcactt actaaaacct cccttaacta 7620 tcctccacct tatccagaga agcttcttct tttggaaaat caagcagaac aactaagtca 7680 agacatgtta aataagtttg aagagaaagc tgtaagaaaa atgcaagagg aggaagt 7737 // ID LTR21C repbase; DNA; HUM; 511 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR21C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-511 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 941-941 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 511 BP; 118 A; 180 C; 95 G; 117 T; 1 other; tggaatgtta gggtcacccc aaccggaccg ttccccctcc cttcccatag gtcttacaat 60 gcagtccttt gtgacctccg cacagctccc caaaggccaa aaagtaaaac cccctacccc 120 gaacccgcct gtaactgttt gaccagaggc cagctgttcc aggatgcagt taagacgtct 180 gttcaccttg cataacagaa ctggcaagaa aaacatctcc aggaagcggt caagacacct 240 ggcacaaagg actcactccc ccaccccgwc tcagcccttt tgcacacagc tcagttcccc 300 gaccccgcag ccctcctttt cacccaactc agctccttca ccctgaccca gttctacgcc 360 ctataaaacc ttgctatagc ctgtaagcgg ggctgcctcc tctgcttttg tcaagaggta 420 gcccggcagg actgacaata aatcagcttg cctgaacttg ggtctattgg cctcattcct 480 ttctcggctg tccttccaat tatcccttac a 511 // ID LTR29 repbase; DNA; HUM; 622 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR29; KW putative MER4I-MER41I-MER57I-MER65I group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 604-4 RA Kapitonov V.V. and Jurka J.; RT "LTR29."; RL Direct Submission to Repbase Update (21-NOV-1997). XX RN [2] RP 4-604 RA Kapitonov V.V. and Jurka J.; RT "LTR29."; RL Direct Submission to Repbase Update (JUN-1998). XX RN [3] RP 1-622 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [3] (Consensus) XX CC Putative LTR of retroelement related to the MER4I-41I-57I-65I CC group. CC LTR29 elements share common fragments with MER39B, MER39, and CC MER34. CC The average similarity of LTR29 sequences to the consensus CC sequence CC is about 80%. LTR29 has 4 bp target site duplications. CC Original orientation [1] has been changed accordingly to the CC internal CC sequence [2]. XX SQ Sequence 622 BP; 157 A; 175 C; 101 G; 184 T; 5 other; tgttggggct cagaaaccga taccccaaaa tatggcgttt tgacatgctg aactgaagaa 60 gcctcaaggt ctctctgacc tccccccata ccccccaccg tctctcccaa aacactggat 120 aagttgttct ctgaagttcc cttatctgcc taaggtccag acccaccaag gagaacaatt 180 gttttttntt cccctccctg ttatctcatt atctattgca ggaaagaaga ccaagaatgt 240 aaccacacct gaacagaccc ttttncaaga taatgactgt ctccaaggat catttaaatt 300 ccaaagagaa ctatttacaa gttaatctct gttccccgga tccantcatt ctccctagta 360 atcatttatt gcccctcaat agaattcctc ttctccccct tcccataacc tgttttgcca 420 ggatccaagc ccccattctt tctgtaacct caagatggta tataagcttc tgnacctcat 480 tgggaggttg ggtcttcatt ctgaaggctc ccgtgtatac acgttaaata aatttgtatg 540 ccttttctcc tattaatcaa tctgccttnt gtcagtgatt tttcagcgaa ccttcagggg 600 gccaagggcc ttggccccca ca 622 // ID MLT1A0 repbase; DNA; HUM; 374 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 03-FEB-2007 (Rel. 5.09, Last updated, Version 6) XX DE Mammalian long terminal repeat (MLT1A subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; KW retrovirus-like MaLR element; MaLR family; MLT1A; MLT1A0. XX NM MLT1A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX DR [1] (Consensus) XX CC LTR of MLT1A retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 17%. Intermittent subfamily CC between MSTD and MLT1C. The subfamily MLT1A differs from this CC consensus by two small inserts and a few substitutions. XX SQ Sequence 374 BP; 96 A; 87 C; 97 G; 93 T; 1 other; tgctatggac tgaatgtttg tgtcccccca aaattcatat gttgaagccc taatccccaa 60 tgtgatggta ttaggaggtg gggcctttgg gaggtgatta ggattagatg aggtcatgag 120 ggcggggccc tcataatggg attagtgccc ttataaaaga gaccycagag agctcccttg 180 ccccttccgc catgtgagga cacagtgaga aggcgccgtc tacgaaccag ggaatgagcc 240 ctcaccagaa actgaatctg ccggcgcctt gatcttggac ttcccagcct ccagaactgt 300 gagaaataaa tttctgttgt ttaagctacc cagtctatgg tattttgtta tagcagcccg 360 aacagactaa gaca 374 // ID MER66C repbase; DNA; HUM; 555 BP. XX AC . XX DT 23-APR-2001 (Rel. 6.03, Created) DT 23-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I-group; subfamily MER66C. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW Long terminal repeat of retrovirus-like element; MER41A; MER41B; KW MER4I-group family; MER66A; MER66B; MER66C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-555 RA Jurka J.; RT "MER66C."; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC 82-83% identical to MER66A and MER66B, except of the CC 5' end which distantly resembles MER41 and numerous indels. XX SQ Sequence 555 BP; 150 A; 149 C; 115 G; 134 T; 7 other; tgaggtagga gactggcagg acttgttttc tggtcacaac cctgctgacc aaaacaggat 60 ctggtccaga caggataaag tgaagaaacn rgcaggaacc agcagatggt gacaaaagyg 120 atccctagct gccctcattg ctcattagca taagacactc ccaccagcgc catgacagtt 180 tacaaatgcc atggcaatga cccngaagtt accacccctt tccatggcaa tgacctggaa 240 gttactgccc ctttcctaga aagttctaaa taacctgccc ctcaatttgc attgacccac 300 cccttaattt gcatgtaatt gaaagtgggt ttaagtgagt ataaatacag ttgccaagag 360 cccatacatt gcngactctg ggtgcactgc ctatgagtta gccctgctct gcaaggagca 420 gtaccgttca ataaaagatt gctgtctaac accactggct cacccttgaa ttctttcctg 480 ggtaaagcca agaaccctcc tgggctaagc cccaattttg gggcttrcct gtcctgcatc 540 atctgnctac catca 555 // ID HERV17 repbase; DNA; HUM; 8626 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE Internal sequence of endogenous retrovirus HERV17. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERV-W; HERV17; KW Internal sequence of endogenous retrovirus HERV; LTR17. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-8626 RA Smit A.F.; RT "HERV17."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-8626 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTRs of the class I HERV17 (aka HERV-W) are listed as LTR17 CC sequences. CC HERV17 is related to HERV9/pHE1 and was relatively recently (<20 CC Mya) CC active as copies of the younger subfamilies are < 6% diverged CC from the CC consensus (primarily at CpG sites). CC ORFs: 1938-3143 (gag), 3670-6912 (pol) and 6940-8568 (env). A CC copy of CC the latter has been exapted as the human syncytin gene CC (gb|AAF28334.1, CC see Curr.Opin.Genet.Devel.9 (6), 657-663 (1999) and references CC therein). XX SQ Sequence 8626 BP; 2527 A; 2211 C; 1899 G; 1985 T; 4 other; ttttggcgac cacgaaggga cctccaaagc ggtgagtaat attggaccac tttcgcttgc 60 tattctgtcc tatccttcct tagaattgga ggaaaatacc gggcacctgt cggccagtta 120 aaaacgatta gcgtggccgc cggacttaag actcaggtgt gaggctatct ggggaagggc 180 tttctaacaa cccccaaccc ttctgggttg ggaacgttgg tctgcctgga gccagcttcc 240 gctttcaatt ttcctgggga agccgagggc cgactagagg cagaaagctg tcgtcccgaa 300 ctcccggcat tagccggttg agatcatggc gcagccagaa gtctctactc aacagtcgcc 360 catgcgtgcg cccctacctt tccttctgac ccatacctcc tgggtcccga ccacgacttt 420 cttgaaagtg tagccccaaa attctcctta cctctgaatc tacttcctct gatccctgcc 480 tcctaggtac taatggttca gactttcatt tcctctagca agttgtatct ccaaagggat 540 ctaaggaagc tctacgctgc gtccttaggc acctaggcta tgaacccagg gagtcttgtc 600 cctggtgtcc ctcccaattt aggcatacag ctctcgacat gggcagttat gtgggacccg 660 ttccccacca cccttgccag ggccccaagt ttgtaaatgg ctaagggaaa agagagacag 720 aggagagaga gagagacgga ggagagagag agagagacag agaggagaga gagacaggag 780 agagacagaa gagagagaga gacagagagg agagagagag agtcaaagag agaaagaaag 840 agawagaaat agtaaagaaa aaacagtgtg ccctattcct ttaaaagcca gggtaaattt 900 aaaacctata attgataatt gaaggtcttc tccgtgaccc tataacactc caataccacc 960 ttgttgtcag tgtaaacaag ggcgtagccc gaaagcactg aggccactga caacccgtag 1020 ccttcctatc aaaaatcctt aacccagtaa cccgcggatg gcccaaatgc attcagtcng 1080 tagcggcaac tgctttgcta acagaagaaa gtagaaaagt aacttttaga ggaaacctca 1140 ttgtgagcac acctcaccag ttcagaatta ttctaagtca aaaaagcaaa aaggtagctt 1200 actaactcaa aaatcttaaa gtatggggct attctgttag aaaaaggtaa tttaacacca 1260 accactgana attcccttaa cccagcagat ttcctaacag gggatttaaa tcttaattac 1320 catacaaagg tccgaccaga cctaggagga actcccttca ggacaggacg atagatggtt 1380 cctcccaggt gattgaggaa aaaaaccaca atgggtattc agtaattgat agggagactc 1440 ttgtggaagc agagttagaa aaattgccta ataattggtc tcctcaaacg tgcgagctgt 1500 ttgcactcag ccaagcctta aagtacttac agaatcaaaa gactatctca atcctgactc 1560 aaaaggttac ctacaccctc tctgaaacga atttgcataa gaactgttgt ttatgggaat 1620 gcatcttgat ggggcagctg ggttgttatg aaatactcag gaacccagcc cagctctagg 1680 actcacccct gagcgcaaag gcaatgttgg gcacgctggt aaaggaccac tagaatccag 1740 cagcccggac ccctttcttt gtggtcaaga aaggcgggaa aacaggtgca ggactgctac 1800 atcggtgagc gtaactaatc cgataagcag aggtccatgg gtggttacgc accctggaaa 1860 ggaataagca ttaggaccat agaggacgct ctaggactaa tgctcatcgg aaaatgacta 1920 ggggtgctgg catccctatg ttcttttttc agatgggaaa cgttcccccc aaggcaaaaa 1980 cgcccctaag atgtattctg gagaattggg accaatttga ccctcagacg ctaagaaaga 2040 aacgacttat attcttctgc agtaccgcct ggccacgata tcctcttcaa gggggagaaa 2100 cctggcctcc tgagggaagt ataaattata acaccatctt acagctagac ctcttttgta 2160 gaaaagaagg caaatggagt gaagtgccat atgtacaaac tttcttttca ttaagagaca 2220 actcgcaatt atgtaaaaag tgtgatttat gccctacagg aagccctcag agtctacctc 2280 cctaccccag cgtccccccg actccttccc caactaataa ggacccccct tcaacccaaa 2340 cggtccaaaa ggagatagac aaaggggtaa acaatgaacc aaagagtgcc aatattcccc 2400 gattatgccc cctccaagca gtgggaggag gagaattcgg cccagccaga gtgcatgtac 2460 ctttttctct ctcagacttg aagcaaatta aaatagacct aggtaaattc tcagataacc 2520 ctgatggcta tattgatgtt ttacaagggt taggacaatc ctttgatctg acatggagag 2580 atataatgtt actgctaaat cagacactaa ccccaaatga gagaagtgcc gccataactg 2640 cagcccgaga gtttggcgat ctctggtatc tcagtcaggt caatgatagg atgacaacag 2700 aggaaagaga acgattcccc acaggccagc aggcagttcc cagtgtagac cctcactggg 2760 acacagaatc agaacatgga gattggtgcc gcagacattt gctaacttgc gtgctagaag 2820 gactaaggaa aactaggaag aagcctatga attattcaat gatgtccact ataacacagg 2880 gaaaggaaga aaatcctact gcctttctgg agagactaag ggaggcattg aggaagcata 2940 cctctctgtc acctgactct attgaaggcc aactaatctt aaaggataag tttatcactc 3000 agtcagctgc agacattaga aaaaaacttc aaaagtccgc cttaggcccg gagcaaaact 3060 tagaaaccct attgaacttg gcaacctcgg ttttttataa tagagatcag gaggagcagg 3120 cggaacggga caaacgggat taaaaaaaag gccaccgctt tagtcatggc cctcaggcaa 3180 gcggactttg gaggctctgg aaaagggaaa ggctgggcaa atcgaatgcc taatagggct 3240 tgcttccagt gcggtctaca aggacacttt aaaaaagatt gtccaagtag aaataagccg 3300 ccccctcgtc catgcccctt atgtcaaggg aatcactgga aggcccactg ccccagggga 3360 cgaaggtcct ctgagtcaga agccactaac cagatgatcc agcagcagga ctgagggtgc 3420 ccggggcaag cgccagccca tgccatcacc ctcacagagc cccgggtatg cttgaccatt 3480 gagggccagg aggttaactg tctcctggac actggcgcgg ccttctcagt cttactctcc 3540 tgtcccggac aactgtcctc cagatctgtc actatccgag gggtcctagg acagccagtc 3600 actagatact tctcccagcc actaagttgt gactggggaa ctttactctt ttcacatgct 3660 tttctaatta tgcctgaaag ccccactccc ttgttaggga gagacattct agcaaaagca 3720 ggggccatta tacacctgaa cataggagaa ggaacacccg tttgttgtcc cctgcttgag 3780 gaaggaatta atcctgaagt ctgggcaaca gaaggacaat atggacgagc aaagaatgcc 3840 cgtcctgttc aagttaaact aaaggattcc gcctcctttc cctaccaaag gcagtacccc 3900 cttagacccg aggcccaaca aggactccaa aagattgtta aggacctaaa agcccaaggc 3960 ctagtaaaac catgcagtag cccctgcaat actccaattt taggagtaca gaaacccaac 4020 ggacagtgga ggttagtgca agatctcagg attatcaatg aggccgttgt ccctctatac 4080 ccagctgtac ctaaccctta tactctgctt tcccaaatac cagaggaagc agagtggttt 4140 acagtcctgg accttaagga tgcctttttc tgcatccctg tacatcctga ctctcaattc 4200 ttgtttgcct ttgaagatcc ttcgaaccca acgtctcaac tcacctggac tgttttaccc 4260 caagggttca gggatagccc ccatctattt ggccaggcat tagcccaaga cttgagccag 4320 ttctcatacc tggacactct tgtccttcgg tacgtggatg atttactttt agccgcccgt 4380 tcagaaacct tgtgccatca agccacccaa gcgctcttaa atttcctcgc tacctgtggc 4440 tacaaggttt ccaaaccaaa ggctcagctc tgctcacagc aggttaaata cttagggcta 4500 aaattatcca aaggcaccag ggccctcagt gaggaacgta tccagcctat actggcttat 4560 cctcatccca aaaccctaaa gcaactaaga gggttccttg gcataacagg tttctgccga 4620 atatggattc ccaggtacgg cgaaatagcc aggccattat atacactaat taaggaaact 4680 cagaaagcca atacccattt agtaagatgg acacctgaag cagaagcggc tttccaggcc 4740 ctaaagaagg ccctaaccca agccccagtg ttaagcttgc caacggggca agacttttct 4800 ttatatgtca cagaaaaaac aggaatagct ctaggagtcc ttacacaggt ccgagggacg 4860 agcttgcaac ccgtggcata cctgagtaag gaaattgatg tagtggcaaa gggttggcct 4920 cattgtttac gggtagtggc ggcagtagca gtcttagtat ctgaagcagt taaaataata 4980 cagggaagag atcttactgt gtggacatct catgatgtga acggcatact cactgctaaa 5040 ggagacttgt ggctgtcaga caaccgttta cttaaatatc aggctctatt acttgaaggg 5100 ccagtgctgc gactgcgcac ttgtgcaact cttaacccag ccacatttct tccagacaat 5160 gaagaaaaga tagaacataa ctgtcaacaa gtaattgctc aaacctacgc cgctcgaggg 5220 gaccttttag aggttccctt gactgatccc gacctcaact tgtatactga tggaagttcc 5280 tttgtagaaa aaggacttcg aaaagcgggg tatgcagtgg tcagtgataa tggaatactt 5340 gaaagtaatc ccctcactcc aggaactagt gctcagctgg cagaactaat agccctcact 5400 cgggcactag aattaggaga aggaaaaagg gtaaatatat atacagactc taagtatgct 5460 tacctagtcc tccatgccca cgcagcaata tggagagaaa gggaattcct aacttccgag 5520 ggaacaccta tcaaacatca ggaagccatt aggagattat tattggctgt acagaaacct 5580 aaagaggtgg cagtcttaca ctgccggggt catcagaaag gaaaggaaag ggaaatagaa 5640 gggaaccgcc aagcggatat tgaagccaaa agagccgcaa ggcaggaccc tccattagaa 5700 atgcttatag aaggacccct agtatggggt aatcccctcc gggaaaccaa gccccagtac 5760 tcagcagaag aaatagaatg gggaacctca cgaggacata gtttcctccc ctcaggatgg 5820 ctagccaccg aagaaggaaa aatacttttg cctgcagcta accaatggaa attacttaaa 5880 acccttcacc aaacctttca cttaggcatt gatagcaccc atcagatggc caaatcatta 5940 tttactggac caggcctttt caaaactatc aagcagatag tcagggcctg tgaagtgtgc 6000 caaagaaata atcccctgcc ttatcgccaa gctccttcag gagaacaaag aacaggccat 6060 tacccaggag aagactggca actagatttt acccacatgc ccaaatctca gggatttcag 6120 tatctactag tctgggtaga tactttcact ggttgggcag aggccttccc ctgtaggaca 6180 gaaaaggccc aagaggtaat aaaggcacta gttcatgaaa taattcccag attcggactt 6240 ccccgaggct tacagagtga caatggcccc gctttcaagg ccgcagtaac ccagggagta 6300 tcccaggcgt taggtataca atatcactta cactgcgcct ggaggccaca atcctcaggg 6360 aaggtcgaga aaatgaatga aacactcaaa cgacatctaa aaaagctaac ccaggaaacc 6420 cacctcgcat ggcctgctct gttgcctata gccttactaa gaatccgaaa ctctccccaa 6480 aaagcaggac ttagcccata cgaaatgctg tatggacggc ccttcctaac caatgacctt 6540 gtgcttgacc gagagacggc caacttagtt gcagacatca cctccttagc caaatatcaa 6600 caagttctta aaacattaca gggaacctgt ccccgagagg agggaaagga actattccac 6660 cctggtgaca tggtattagt caagtccctt ccctctaatt ccccatccct agatacatcc 6720 tgggaaggac cctacccagt cattttatct accccaaccg cggttaaagt ggctggagtg 6780 gagtcttgga tacatcacac tcgagtcaaa ccctggatac tgccaaagga acccgaaaat 6840 ccaggagaca acgctagcta ttcctgtgaa cctctagagg atctgcgcct gctcttcaag 6900 cgacaaccgt gaggaaagta actaaaatcg taaatcccca tggccctccc ttatcatatt 6960 tttctcttta ctgttctctt accccctttc actctcactg caccccctcc atgccgctgt 7020 acnaccagta gctcccctta ccaagagctt ctatggagaa tgcggcttcc cggaaatatt 7080 gatgccccat cgtataggag tttttctaag ggaaacccca ccttcaccgc ccacacccat 7140 atgccccgca actgctataa ctctgccact ctttgcatgc atgcaaatac tcattattgg 7200 acagggaaaa tgattaatcc tagttgtcct ggaggacttg gagccactgt ctgttggact 7260 tacttcaccc atactggtat gtctgatggg ggtggagttc aagatcaggc aagagaaaaa 7320 catgtaaagg aagtaatctc ccaactgacc cgggtacata gcacccctag cccctacaaa 7380 ggactagatc tctcaaaact acatgaaacc ctccgtaccc atactcgcct ggtaagccta 7440 tttaatacca ccctcactgg gctccatgag gtctcggccc aaaaccctac taactgttgg 7500 atgtgcctcc ccctgcactt caggccatac atttcaatcc ctgtacctga acaatggaac 7560 aacttcagca cagaaataaa caccacttcc gttttagtag gacctcttgt ttccaatctg 7620 gaaataaccc atacctcaaa cctcacctgt gtaaaattta gcaatactat agacacaacc 7680 aactcccaat gcatcaggtg ggtaactcct cccacacgaa tagtctgcct accctcagga 7740 atattttttg tctgtggtac ctcagcctat cgttgtttga atggctcttc agaatctatg 7800 tgcttcctct cattcttagt gccccctatg accatctaca ctgaacaaga tttatacagt 7860 tatgtcgtac ctaagccccg caacaaaaga gtacccattc ttccttttgt tatcggagca 7920 ggagtgctag gtggactagg tactggcatt ggcggtatca caacctctac tcagttctac 7980 tacaaactat ctcaagaact aaatggggac atggaacggg tcgccgactc cctggtcacc 8040 ttgcaagatc aacttaactc cctagcagca gtagtccttc aaaatcgaag agctttagac 8100 ttgctaaccg ctgaaagagg gggaacctgt ttatttttag gggaagaatg ctgttattat 8160 gttaatcaat ccggaatcgt cactgagaaa gttaaagaaa ttcgagatcg aatacaacgt 8220 agagcagagg agcttcgaaa caccggaccc tggggcctcc tcagccaatg gatgccctgg 8280 attctcccct tcttaggacc tctagcagct ataatattgc tactcctctt tggaccctgt 8340 atctttaacc tccttgttaa gtttgtctct tccagaatcg aagctgtaaa actacaaatc 8400 gttcttcaaa tggagcccca gatgcagtcc atgactaaga tctaccgcgg acccctggac 8460 cggcctgcta gcccatgctc cgatgttaat gacatcgaag gcacccctcc cgaggaaatc 8520 tcaactgcac gacccctact acgccccaat tcagcaggaa gcagttagag cggtcgtcgg 8580 ccaacctccc caacagcact tgggttttcc tgttgagagg ggggac 8626 // ID THE1B repbase; DNA; HUM; 364 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 4) XX DE Long terminal repeat (THE1B subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LRS; LTR; KW MaLR family; O-repeat; THE1B; retrovirus-like MaLR element. XX OS Hominidae OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini. XX RN [1] RA Sun L., Paulson E.K., Schmid W.C., Kadyk L. and Leinwand L.; RT "Non-Alu family interspersed repeats in human DNA and their RT transcriptional activity."; RL Nucleic Acids Res 12(6), 2669-2690 (1984). XX RN [2] RA Paulson E.K., Deka N., Schmid W.C., Misra R., Schindler W.C., RA Rush G.M., Kadyk L. and Leinwand L.; RT "A transposon-like element in human DNA."; RL Nature 316(6026), 359-361. XX RN [3] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX DR [3] (Consensus) XX CC LTR of THE1B retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 9 %. Intermittent subfamily CC between THE1A and THE1C; 90% similar to both over the entire CC length. XX SQ Sequence 364 BP; 74 A; 92 C; 88 G; 108 T; 2 other; tgatatggtt tggctgtgtc cccacccaaa tctcatcttg aattgtagct cccataattc 60 ccacgtgtcg tgggagggac ccggtgggag gtaattgaat catgggggcg ggtctttccc 120 gtgctgttct cgtgatagtg aataagtctc acgagatctg atggttttat aaaggggagt 180 tcccctgcac awgctctctt gcctgccgcc atgtaagacg tgmctttgct cctccttcgc 240 cttccgccat gattgtgagg cctccccagc catgtggaac tgtgagtcca ttaaacctct 300 ttcctttata aattacccag tctcgggtat gtctttatta gcagcgtgag aacagactaa 360 taca 364 // ID GOLEM_A repbase; DNA; HUM; 335 BP. XX AC . XX DT 25-FEB-1998 (Rel. 3.01, Created) DT 01-OCT-2005 (Rel. 5.09, Last updated, Version 4) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW 35S; GOLEM; GOLEM_A; MER7; MER7A; nonautonomous DNA transposon. XX NM GOLEM_A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Drinkwater D.R., Burgoyne A.L. and Skinner D.J.; RT "Two human repetitive DNA elements: A new interspersed repeat RT found in the factor IX gene, and a satellite 11 tandem repeat RT sequence."; RL Nucleic Acids Res 14(23), (1986). XX RN [2] RA Kaplan J.D. and Duncan H.C.; RT "Novel short interspersed repeat in human DNA."; RL Nucleic Acids Res 18(1), (1990). XX RN [3] RP 335-1 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [4] RP 1-335 RA Kapitonov V.V. and Jurka J.; RT "GOLEM_A."; RL Direct Submission to Repbase Update (1998).. XX DR [4] (Consensus) XX CC Differs from GOLEM and GOLEM_B by internal deletions. CC 23 bp terminal inverted repeats, TA target site [3]. CC Orientation has been changed based on the reconstruction CC of GOLEM internal sequence [4]. XX SQ Sequence 335 BP; 94 A; 73 C; 67 G; 100 T; 1 other; cagtcatgcg ctgcataacg acgtttcggt caacgatgga ccacatatac gacggtggtc 60 ccataagatt ataataccgt atttttactg taccttttct atgtttagat acacaaatac 120 ttaccattgt gttacaattg cctacagtat tcagtacagt aacatgctgt acaggtttgt 180 agcctaggag caataggcta taccayatag cctaggtgtg tagtaggcta taccatctag 240 gtttgtgtaa gtacactcta tgatgttcgc acaacgaaat tgcctaatga cgcatttctc 300 agaacgtatc cccgtcgtta agcgacgcat gactg 335 // ID L1ME1 repbase; DNA; HUM; 913 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1ME1) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M4; L1ME1; L1ME1 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-913 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-913 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 672; average divergence of copies from consensus: CC 21%. XX SQ Sequence 913 BP; 351 A; 156 C; 176 G; 216 T; 14 other; ctngtatcca gaatatataa agaacnctta caactcaaca ataaaacaaa caacccaatt 60 aaaaaatggg caaaanattt gaacagacac ttcnccaaag aagatatacg gatggcnaat 120 aagcacatga aaagatgctc aacatcatta gtcattaggg aaatgcaaat taaaaccaca 180 gtgagatacc acttcacacc tattagaatg gctaaaatta aaaagacnga caataccaag 240 tgttggcgag gatgtggagn aactggaact ctcatacatt gctggtggga atgtaaaatg 300 gtacagccac tttggaaaac agtttggcag tttcttanaa agttaaacat anacttacca 360 tatgacccag caattccact cctaggtatt tacccaagag aaatgaaaac atatgtccac 420 acaaagacct gtacgcgaat gttcatagca gctttattca taatagccaa aaactggaaa 480 caacccaaat gtccatcaac nggtgaatgg ataaacaaat tgtggtatat ccatacaatg 540 gaatactact cagcaataaa aaggaatgaa ctactgatac atgcaacaac atggatgaat 600 ctcaaaagca ttatgctaag tgaaagaagc cagacacaaa agactacata ctgtatgatt 660 ccatttatat ganattctag aaaaggcaaa actataggga cagaaagcag atcagtggtt 720 gccaggggct gggggtgggg gnaggggatt gactacaaag gggcatgagg gaactttttg 780 gggtgatgga aatgttctat atcttgattg tggtggtggt tacacgantg tatacatttg 840 tcaaaactca tcgaactgta cactttaaaa nggtgaattt tactgtatgt aaattatacc 900 tcaataaaaa aaa 913 // ID L1PA5 repbase; DNA; HUM; 901 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA5) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P2; L1PA5; L1PA5 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-901 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-901 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 4%. XX SQ Sequence 901 BP; 341 A; 180 C; 189 G; 186 T; 5 other; ctaatatcca gaatctacaa wgaactcaaa caaatttaca agaaaaaaac aaacaacccc 60 atcaamaagt gggcgaagga tatgaacaga cacttctcaa aagaagacat ttatgcagcc 120 aacagacaca tgaaaaaatg ctcatcatca ctggccatca gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagttaga atggcgatca ttaaaaagtc aggaaacaac 240 aggtgctgga gaggatgtgg agaaatagga acacttttac actgttggtg ggactgtaaa 300 ctagttcaac cattgtggaa gwcagtgtgg cgattcctca gggatctaga actagaaata 360 ccatttgacc cagccatccc attactgggt atatacccaa aggattataa atcatgctgc 420 tataaagaca catgcacacg tatgtttatt gcggcactat tcacaatagc aaagacttgg 480 aaccaaccca aatgtccawc aatgatagac tggattaaga aaatgtggca catatacacc 540 atggaatact atgcagccat aaaaaaggat gagttcatgt cctttgtagg gacatggatg 600 aagctggaaa ccatcattct cagcaaacta tcgcaaggac aaaaaaccaa acaccgcatg 660 ttctcactca taggtgggaa ttgaacaatg agaacacttg gacacaggaa ggggaacatc 720 acacaccggg gcctgttgtg gggtgggggg aggggggagg gatagcatta ggagatatac 780 ctaatgtaaa tgacgagtta atgggtgcag cacaccaaca tggcacatgt atacatatgt 840 aacaaacctg cacgttgtgc acatgtaccc tagaacttaa agtataataa waaaaaaaaa 900 a 901 // ID MER11A repbase; DNA; HUM; 1126 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-OCT-1997 (Rel. 2.09, Last updated, Version 3) XX DE LTR from HERVK-related endogenous retrovirus HERVK11. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK; HERVK11; KW LTR; MER11; MER11A; subfamily MER11A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-1126 RA Kapitonov V.V. and Jurka J.; RT "MER11A."; RL Direct Submission to Repbase Update (17-OCT-1997). XX DR [3] (Consensus) XX CC MER11 is a retroviral LTR [3]. It has been proliferated by CC HERVK-related CC retrovirus HERVK11 [3]. 6 bp target site duplications [3]. XX SQ Sequence 1126 BP; 299 A; 235 C; 234 G; 352 T; 6 other; tgttgcggga agtcagggac cccgaatgga gggaccggct ggagccrygg cagaggaaca 60 taaattgtga agatttcatt ttaatatgga catttatcag ttcccaatta atacttttat 120 aatttcttat gcctgtcttt actgcaatct ctgaacataa attgtgaaga tttcatttta 180 atatggacat ttatcagttc ccaaataata cttttataat ttcttatgcc tgtctttact 240 ttaatctctt aatcctgtta tcttcgtaag ctgaggatgt acgtcacctc aggaccactg 300 tgataattgt gttaactgta caaattgatt gtaaaacatg tgtgtttgaa caatatgaaa 360 tcagtgcacc ttgaaaaaga acagaataac agcgatttta gggaacaagg gaagacaacc 420 ataaggtctg actgcctgca gggtcgggca aaatagagcc atatttttct tcttgcagag 480 agcctataaa tggacgtgca agtaggraag atatcgctaa attcttttcc tagcaaggaa 540 tattaataat taataccctg ggaaaggaat gcattcctgg ggggaggtct ataaacggcc 600 gctctgggaa tgtctgtctt atgcagttga gataaggact gaaatacgcc ctggtctcct 660 gcagtaccct caggcttact agggtgggga aaaaaccccg ccctggtaaa tttgtggtca 720 gactggttct ctgctctcga accctgtttt ctgttgttta agatgtttat caagacaata 780 ygtgcaccgc tgaacataga cccttatcag tagttctgat tttgcccttg tcctgtttcc 840 tcagaagcat gtgatctttg ttctcctttt tgccctttga agcatgtgat cttgtgacct 900 actccctgtt cttacacccc ctcccctttt gaaatcctta ataaaaactt gctggttttg 960 aggctcaggt gggcatcacg gtcctaccga tatgtgatgt caccccygga ggcccagctg 1020 taaaattcct ctctttgtac tctttctctt tatttctcag ccrgccgaca cttatggaaa 1080 atagaaagaa cctacgttga aatattgggg gcaggttccc ccgata 1126 // ID LTR22B repbase; DNA; HUM; 542 BP. XX AC . XX DT 15-SEP-1998 (Rel. 3.08, Created) DT 28-AUG-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR; LTR22; KW LTR22B. XX NM LTR22B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-542 RA Jurka J.; RT "LTR22B."; RL Direct Submission to Repbase Update (31-AUG-1998). XX DR [1] (Consensus) XX SQ Sequence 542 BP; 132 A; 116 C; 142 G; 149 T; 3 other; tgttggggtt cagtcaggct ggtgggaaaa atattagaga tagttataga gatagmcaca 60 aaccttcttg gaaggcctga gaagtttgca taacttcggt aatagatctg gctgaaggcg 120 gcctggtccc tttaccttta gttaaataaa ttaaagtagt aacaaaggaa tgcggggtag 180 tttatctagc tagcttgttt actcatgtgg tcttaagact aacctttgat gtaccgcggg 240 tgcttaaktg ctttctactc gggaagtcca caatgtcaat taccctctag tggtgttgac 300 tcaagccttt gtcaattaat ctttactgaa taaatgcgag tctcactagc tgrtcagggc 360 cacggtcgca actgtttaca gcactctgca gggagtctgt aagcggcccg gacgcactca 420 gctggactgg caaagcagaa tatctgtgtg tcagtgtact ttattcatcc gtcgttgggt 480 caggggtctg caagggacag accccccgca gctggtgccc ccgtgtgagg agcgctgcca 540 ca 542 // ID MER106 repbase; DNA; HUM; 236 BP. XX AC . XX DT 10-AUG-1998 (Rel. 3.07, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE MER106 is a hAT-like DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; DNA transposon fossil; KW MER106; hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-236 RA Jurka J.; RT "MER106."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-236 RA Smit A.F.; RT "MER106."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC MER106 has been found originally as an unclassified repeat [1]. CC It has been classified [2] as a hAT-like DNA transposon based on CC identification of 14 bp imperfect, terminal inverted repeats, CC and 8 bp target site duplications (with a preference of CC NTCTAGAN). CC The 5' region has similarity with MER20. CC 20% divergence from consensus, about 500 copies in the genome. XX SQ Sequence 236 BP; 77 A; 35 C; 68 G; 55 T; 1 other; catgcattct caacgggggc gatatcgccc ccaagggggt gaaaattggt tcttgggggg 60 agaaaaaatc ttagatatta caatggtttg tggccctcca aagggccaca gtacataaac 120 agatatacag tatatctgtg gtattaaaat ttcatggngg gggggggtga ttaggaaaaa 180 aatgtctaaa aaggctcctt aggggggcga taatgaaaaa aggttgagaa acactg 236 // ID TIGGER1 repbase; DNA; HUM; 2418 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Autonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER37; KW Repetitive sequence; Tigger1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 108-229 RA Iris F., Bougueleret L., Prieur S., Caterina D., Primas G., RA Perrot V., Jurka J., Rodriguez-Tome P., Claverie J. et al.; RT "Dense Alu clustering and a potential new member of the NFkappaB RT family within a 90 kilobase HLA class III segment."; RL Nature Genet 3, 137-145 (1993). XX RN [2] RP 1-550 RA Lutfalla G., McInnis G.M. and Uze G.; RT "Structure of the human CRFB4 gene: comparison with its IFNAR RT neighbor."; RL J. Mol. Evol 41, 338-348 (1995). XX RN [3] RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [3] (Consensus) XX CC 23 bp terminal inverted repeats, TA target site CC ORF1: bases 425 to 1789; ORF2: bases 1811 to 2206. XX SQ Sequence 2418 BP; 753 A; 472 C; 517 G; 668 T; 8 other; caggcatacc tcgttttatt gcgcttcgct ttattgcgct tcgcagatac tgcgtttttt 60 acaaattgaa ggtttgtggc aaccctgcgt tgagcaagtc tgtcggcgcc atttttccaa 120 cagcatgtgc tcacttcgtg tctctgtgtc acattttggt aattctcgca atatttcaaa 180 ctttttcatt attattatat ctgttatggt gatctgtgat cagtgatctt tgatgttact 240 attgtaattg ttttggggtg ccacgaaccg cacccatata agacggcgaa cttaatcgat 300 aaatgttgtg tgtgttctga ctgctccacc gaccggccgt tcccccgtct ctctccctct 360 cytcgggcct ccctattccc tgagacacaa caatattgaa attaggccaa ttaataaccc 420 tacaatggcc tctaagtgtt caagtgaaag gaagagtmrc acatctctca ctttaaatca 480 aaagctagaa atgattaagc ttagtgagga aggcatgtca aaagccgaga taggccaaaa 540 gctaggcctc ttgcgccaaa cagttagcca agttgtgaat gcaaaggaaa agttcttgaa 600 ggaaattaaa agtgctactc cagtgaacac acgaatgata agaaagyaaa acagccttat 660 tgctgatatg gagaaagttt tagtggtctg gatagaagat caaaccagcc acaayattcc 720 cttaagccaa agcctaatcc agagcaaggc cctaactctc ttcaattcta tgaaggctga 780 gagaggtgag gaagctgcag aagaaaagtt tgaagctagc agaggttggt tcatgaggtt 840 taaggaaaga agccatctcc ataacataaa agtgcaaggt gaagcagcaa gtgctgatgt 900 agaagctgca gcaagttatc cagaagatct agctaagatc aytgatgaag gtggctacac 960 taaacaacag attttcartg tagatgaaac agccttctat tggaagaaga tgccatctag 1020 gactttcata gctagagagg agaagtcaat gcctggcttc aaagcttcaa aggacaggct 1080 gactctcttg ttaggggcta atgcagctgg tgactttaag ttgaagccaa tgctcattta 1140 ccattctgaa aatcctagag cccttaagaa ttatgctaaa tctactctgc ctgtgctcta 1200 taaatggaac aacaaagcct ggatgacagc acatctgttt acagcatggt ttactgaata 1260 ttttaagccc actgttgaga cctactgctc agaaaaaaag attcctttca aaatattact 1320 gctcattgac aacgcacctg gtcacccaag agctctgatg gagatgtaca aggagattaa 1380 tgttgttttc atgcctgcta acacaacatc cattctgcag cccatggatc aaggagtaat 1440 ttcgactttc aagtcttatt atttaagaaa tacattttat aaggctatag ctgccataga 1500 tagtgattcc tctgatggat ctgggcaaag taaattgaaa accttctgga aaggattcac 1560 cattctagat gccattaaga acattcgtga ttcatgggag gaggtcaaaa tatcaacatt 1620 aacaggagtt tggaagaagt tgattccaac cctcatggat gactttgagg ggttyaagac 1680 ttcagtggag gaagtaactg cagatgtggt ggaaatagca agagaactag aattagaagt 1740 ggagcctgaa gatgtgactg aattgctgca atctcatgat aaaacttgaa cggatgagga 1800 gttgcttctt atggatgagc aaagaaagtg gtttcttgag atggaatcta ctcctggtga 1860 agatgctgtg aacattgttg aaatgacaac aaaggattta gaatattaca taaacttagt 1920 tgataaagca gcggcagggt ttgagaggat tgactccaat tttgaaagaa gttctactgt 1980 gggtaaaatg ctgtcaaaca gcatcacatg ctacagagaa atctttcatg aaaggaagag 2040 tcaattgatg cggcaaactt cattgttgtc ttattttaag aaattgccac agccacccca 2100 accttcagca accaccaccc tgatcagtca gcagccatca acatcaaggc aagaccctcc 2160 accagcaaaa agattacgac tcgctgaagg ctcagatgat cgttagcatt ttttagcaat 2220 aaagtatttt taaattaagg tatgtacatt gttttttaga cataatgcta ttgcacactt 2280 aatagactac agtatagcgt aaacataact tttatatgca ctgggaaacc aaaaaattcg 2340 tgtgactcgc tttattgcga tattcgcttt attgcggtgg tctggaaccg aacccgcaat 2400 atctccgagg tatgcctg 2418 // ID ALR_ repbase; DNA; HUM; 171 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE SAT Satellite from primates. XX KW SAT; Satellite; Simple Repeat; Centromeric; ALR_. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-171 RA Smit A.F.; RT "ALR_ - SAT Satellite from primates."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX SQ Sequence 171 BP; 49 A; 29 C; 33 G; 55 T; 5 other; ttgtagaatc tgcaagtgga tatttggasc kctttgaggm cttcgktgga aacgggaata 60 tcttcacata aaaactagac agaagcattc tcagaaactt ctttgtgatg tttgcattca 120 actcacagag ttgaacmttc cttttgatag agcagttttg aaacactctt t 171 // ID MER67C repbase; DNA; HUM; 710 BP. XX AC . XX DT 08-FEB-1999 (Rel. 4.01, Created) DT 08-FEB-1999 (Rel. 4.01, Last updated, Version 4) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I-group; subfamily MER67C. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; MER67B; MER67C; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-710 RA Smit A.F.; RT "MER67C."; RL Direct Submission to Repbase Update (1996), 1997). XX DR [1] (Consensus) XX CC MER4-type LTR. Duplicates 4 bp. Average divergence from consensus CC 21%. CC Identified in humans and rodents. XX SQ Sequence 710 BP; 193 A; 137 C; 138 G; 238 T; 4 other; tgtaagggca aatacaaatt aaaaataaga ggcttnaatt ctccctggtg cgaaaagaga 60 aagacaccct cctctccctt ttcttagagc atttacttta gaaaacttgt aattgtgaat 120 cctttctctg tccctttgaa atgtatgtaa atctttttaa aagctaaata agcctcttgc 180 cagctttacg acccaggaat gtctttctca aggacctggg agccatctct ttgaaatgta 240 awcatcaagg aagatagtac ccctatctcc cagtttctgt gggagggtag gagcctaact 300 tcagtgggca ccttgctcca agttgcaaaa ctacctcctg tcataaagat atgagaagtt 360 tatttttcct ttggataaag ccaattagct aacacagatg gccaccccaa ttaccaggtg 420 aatttaggat gaactatgtg tgacaaatgg tgctgtcaag tcctcttact tgaggactag 480 ttattgttta tcttgagaac atgtatgtaa tgggctgtat ctgctcggct atataaaagg 540 gtgagatttc tttctgtstt tgcaatctct tagcagattg cctgtgatgc gcatcacatt 600 ctggtttaat gcttattcaa taataaaacg tgttttcttt ctcttctacc tttgtggaga 660 ggttttctgg gttgggagra gattttgttt ttaattatat ttccccaaca 710 // ID Charlie16a repbase; DNA; HUM; 342 BP. XX AC . XX DT 07-MAY-2008 (Rel. 13.04, Created) DT 07-MAY-2008 (Rel. 13.04, Last updated, Version 1) XX DE Charlie16a. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW DNA/MER1_type; Charlie16a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-342 RA Smit A.F.A.; RT "Charlie16a - consensus."; RL Direct Submission to Repbase Update (07-MAY-2008). XX DR [1] (Consensus) XX CC Description: rnd-3_family-3051 16 bp TIRs; Pos 1-44 are 90% CC similar to Charlie2 1-44. XX SQ Sequence 342 BP; 95 A; 71 C; 91 G; 84 T; 1 other; cagtgcttct caaactgggg tatgcgtacc cctgggggta tgcagtggca gaggggcagt 60 acgaagccac aggataaaca tggcgcatct tcctggagca tcaattttac tcgaagattt 120 gggggggaaa cacattattt ttatattaaa acaaacacgg atatattatg gagtagaatg 180 caaaattcac atgaattttt aagataaaac angagacttc aaagaaattt cgcgcttgtg 240 gcagggctgc ttcgggctat gcccccagac cccccggggg gtacgcattc actctcctct 300 gccgttaggg gtacttcggg tggaaaagtt tgagaagcac tg 342 // ID GOLEM_B repbase; DNA; HUM; 1205 BP. XX AC . XX DT 25-FEB-1998 (Rel. 3.01, Created) DT 01-OCT-2005 (Rel. 5.09, Last updated, Version 5) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW 35S; GOLEM; GOLEM_B; MER17; MER29; MER7; MER7B; KW nonautonomous DNA transposon. XX NM GOLEM_B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1205-944 RA Drinkwater D.R., Burgoyne A.L. and Skinner D.J.; RT "Two human repetitive DNA elements: A new interspersed repeat RT found in the factor IX gene, and a satellite 11 tandem repeat RT sequence."; RL Nucleic Acids Res 14(23), (1986). XX RN [2] RP 1205-944 RA Kaplan J.D. and Duncan H.C.; RT "Novel short interspersed repeat in human DNA."; RL Nucleic Acids Res 18(1), (1990). XX RN [3] RP 932-825 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [4] RP 546-326 RA Skalnik G.D., Strauss C.E. and Orkin H.S.; RT "CCAAT displacement protein as a repressor of the myelomonocytic- RT specific gp91-phox gene promoter."; RL J. Biol. Chem 266, 16736-16744 (1991). XX RN [5] RP 1004-824 RA Rubin M.C., Leeflang P.E., Rinehart P.F. and Schmid W.C.; RT "Paucity of novel short interspersed repetitive elements (SINE) RT families in human DNA and isolation of a novel MER repeat."; RL Genomics 18, 322-328 (1993). XX RN [6] RP 79-546 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [7] RP 1205-1 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [8] RP 1-1205 RA Kapitonov V.V. and Jurka J.; RT "GOLEM_B."; RL Direct Submission to Repbase Update (1998).. XX DR [8] (Consensus) XX CC Replaces MER17, MER29, MER7B. CC Differs from GOLEM and GOLEM_A by internal deletions. CC 23 bp terminal inverted repeats, TA target site [7]. CC Orientation has been changed based on the reconstruction CC of GOLEM internal sequence [8]. XX SQ Sequence 1205 BP; 386 A; 208 C; 217 G; 367 T; 27 other; cagtcatgcg ctgcataacg acgtttcggt caacgatgga ccacatatac gacggtggtc 60 ccataagatt ataatggagc tgaaaaattc ctatcgccta gtgacgttgt agtgcaacat 120 atyactcakt actcacgcgt ttgtggcgat gctggtgtaa acaaacctac tgcgctgcca 180 gttgtataaa agtatagcac atacaattat gtacagtaca taatacttga tagtgataat 240 aaatgactat gttactggtt tatgtattta ctatactata ctttttatta ttattttaga 300 gtrtactcct tctacttatt aaaaaaaaaa gttaactgta aaacagnctc aggcaggtcc 360 ttcaggagat attccagaag aargcatcgt tatcatagga gatgacagct ccatgcatgt 420 tattgcccct gaagaccttc cagtgggaca aaatgtggag gcggaagaca gtgatattra 480 tgatcctgac cctgtgtagg cctaggctaa tgtgtgtgtt tgtgtcttag tttttaacaa 540 aaatntttta aaaaataaaa aaatwaaaaa tttwwaaata gaaaaaagct tatagaataa 600 ggatataaag aaagaaaata tttttgtaca gctgtacaat gtgtttgtgt tttaagctaa 660 gtgttattac aaaagagtca aaagttaaaa atgcaaaagt ttataaagta aaaaagttac 720 agtaagctat ggttaattta ttgctgaaaa arwwwwwwww wwwwwataaa wttagtatag 780 cctaagtgta cagtgtttat aaagtctaca gtagtgtaca gtaatgtcct aggccttcac 840 attcactcac cactcactca ctgactcacc cagagcaact tccagtcctg caagctccat 900 tcatggtaag tgcyctatac aggtgtacca ttttttatct tttataccgt atttttactg 960 taccttttct atgtttagat acacaaatac ttaccattgt gttacaattg cctacagtat 1020 tcagtacagt aacatgctgt acaggtttgt agcctaggag caataggcta taccayatag 1080 cctaggtgtg tagtaggcta taccatctag gtttgtgtaa gtacactcta tgatgttcgc 1140 acaacgaaat tgcctaatga cgcatttctc agaacgtatc cccgtcgtta agcgacgcat 1200 gactg 1205 // ID MER95 repbase; DNA; HUM; 431 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE MER95 repetitive element - a consensus. XX KW LTR Retrotransposon; Transposable Element; MER95; putative LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-431 RA Kapitonov V.V. and Jurka J.; RT "MER95."; RL Direct Submission to Repbase Update (MAY-1998). XX DR [1] (Consensus) XX CC MER95 resembles putative LTR with 4 bp target site duplication. CC Final classification needs more individual copies. CC Individual copies are ~80% identical to the consensus sequence. XX SQ Sequence 431 BP; 140 A; 97 C; 59 G; 125 T; 10 other; tgtttaagaa aataaaaatg gaggccacag tttagatata ccccaaggcc aaccgcccat 60 agccacgtaa ccaaaattta agtcatcctg atttccccaa aacgctagct ctaatcataa 120 acataacaca aaacgtaagc tttacatcct tgtcagcgtg attcagtgaa attaaaccaa 180 tcagctatag acaaatcagc ttaaacagct ctacttgccc taaaaagaat gttaatgtat 240 aacagccaat cacgaaaaag gtcaaaatac ttcctccttt atgctttata aactgtgcta 300 tgactgccgt ragnngagct tcttaccact ttcrgyttga rgtctcccgg ttcgcgarct 360 gtwctttctc tyattgtatg cacaataaac tttaaaattt ttcctaactt gatctgattt 420 tawttttgac a 431 // ID L4 repbase; DNA; HUM; 1960 BP. XX AC . XX DT 27-JUL-2006 (Rel. 11.07, Created) DT 24-MAR-2010 (Rel. 15.04, Last updated, Version 2) XX DE RTE Non-LTR Retrotransposon from mammals. XX KW RTEX; Non-LTR Retrotransposon; Transposable Element; RTE; L4. XX NM L4. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1960 RA Smit A.F.; RT "L4 - RTE Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 35-40% substitution level. A real challenge. The ORF from pos CC 1-1773 matches the N-terminus of RTE class pol proteins CC (specifically BovB and Expander). There may be some fortuitous CC double frameshifts after pos 1250, as similarity to most RTE CC elements ends there. Bp 1432-1593 match the R2 element CC RNAseH-domain again. L4 probably predates mammalian evolution. CC No SINE with it yet. The 3' UTR contains a conserved core of 40 CC bp, pos 1711-1751 in the current incomplete consensus. This CC sequence tends to correspond with regions that are highly CC conserved between mammals (some resemble exons upon first look). CC The substitution level in this region is on average only 22%, CC and reaches as low as 6% (2 substitutions). A candidate for a CC widely exapted repeat fragment?. XX FH Key Location/Qualifiers FT CDS 1..1770 FT /product="L4_1p" FT /translation="DSVSMVPSGWTQSVVYSIFXKGXSLPPPNYRPTXLLD FT IPSKXYASFLLDKLQVWVSQANILHEEQXGFRHGXSTIDHCYTLYHLVEKS FT VRNNVRLFAAFIDLSSAFDSMDRNQLWAKLYELNIDSWLLMLLQSLHLNTT FT XRIRVGRNGLLTDQIPILSGIKQDCVLPTLLFNLYLNNLIXLLDELDACPP FT AIANRKTSILLYADDMVLLSRTRSGLXRQLXLLXNYCQKERLXINXXKTKI FT IVFGRHSPTFXWLISNNSIQQVNSFSYLGVHFAANSSWRAHQEAXLLKIRY FT STGALLRFFYGRGGRLVTPALKIFQAKIISAMLYGVELWGLDRAFVXVLEQ FT IQNCFLRKILALPAGTPAAHLRAEVGWPSIRARXXVRLLNFHXRMSTLPPA FT RLVSKAYGSXLNQQHRIPALQALVREXNLELXAIQLLSKARLREXIFKEDX FT LKDMLSIHSSRYSKFYPWIKLDHQKATYLDHISLAPCRXAFTELXFNVMPS FT AFIEGRYKKQPYEXHFCIXCKXVVEDIVHYITQCPLYKXPREKFLLEFSAR FT KSFVSPEELVCFLLSDNENYVTXHVSLFALAARKLRAKFXAQP" XX SQ Sequence 1960 BP; 502 A; 445 C; 369 G; 585 T; 59 other; gattccgtna gtatggtccc atcnggntgg actcaaagtg tagtctattc tatctttnaa 60 aagggcaant ctctacctcc cccaaattat agacctactn atttactgga cattccntcn 120 aaantntatg ccagtttcct ncttgacaaa ttgcaagtct gggtttctca ggccaatatt 180 ttacatgagg agcaggnagg ctttaggcac ggctnttcca ctattgacca ttgttatact 240 ctttatcacc ttgtggagaa atctgtcagg aataacgtaa gactgtttgc agcttttatt 300 gatctttcct cggcctttga ttctatggac aggaatcagt tatgggctaa gttgtatgag 360 ctcaatatag actcctggct actgatgctt ctncaaagcc tgcatcttaa taccactnca 420 agaatcagag taggtaggaa tggtctcttg acagatcaga ttccaattct aagtggtata 480 aaacaggatt gtgtcctgcc taccctcctt tttaacttgt acctnaataa cttgatacng 540 cttttagatg aactggatgc atgcccncct gccatagcaa acaggaagac aagcatcctc 600 ctctatgctg atgacatggt tttattatca cgaaccagga gtggcctcaa nagacaactg 660 gncctgctgn ctaattactg tcagaaagaa cggctcaana tcaactntnc taaaactaaa 720 atcattgttt ttggcagaca ttctccaaca tttaantggc tnatatcnaa caactccata 780 cagcaggtca actcattcag ttacctgggg gtacattttg cagctaattc atcctggcgg 840 gctcaccagg aagccatnct gctcaaaatt agatattcta cgggagcntt actgagattt 900 ttttatggcc gaggcggccg attggtaaca cctgctttga aaattttcca ggccaaaatc 960 atttcngcca tgctctatgg cgtggaactc tggggnctcg atcgagcatt tgtccangtg 1020 ctngagcaga tccaaaactg cttcctgagg aaaatcctgg ctttacctgc aggtactccc 1080 gcggcccacc tccgtgcaga ggtgggatgg ccctccatcc gggcaagaat ncnggtcagg 1140 cttctcaatt ttcataanag aatgtcaacc ctgccacctg ctcgtctggt ttctaaagca 1200 tatggatctn ccctcaatca gcaacacaga ataccngcac tccaggcnct tgtcagagaa 1260 tncaaccttg aactgnctgc tatccagctc ctgtcaaaag cccggctgag agaantgata 1320 tttaaggaag atngtctaaa ggacatgcta tccatccatt cctctaggta ctctaaattc 1380 tatccttgga tcaagttaga ccaccagaaa gctacatacc tggaccacat tagcttagct 1440 ccctgcagaa ntgccttcac tgaattgnac tttaatgtta tgccctcggc ttttatcgag 1500 ggtcgntaca agaaacagcc atatgaaann cacttctgca tttnctgtaa aantgttgtt 1560 gaggacattg tccattacat cactcagtgt cccctatata aagncccacg tgagaaattt 1620 cttttagaat ttagtgccag gaaaagcttt gtctctcctg aggaactggt atgcttcctc 1680 ctttctgaca atgagaatta tgtaactnat catgtttccc tttttgcctt ggctgccagg 1740 aagctcagag ccaaatttga ngctcaacca tagcaactat gtaggncctt atggcctgca 1800 tatttgtgtc cttgnttttc tattggtctt gaccttctat tctactntgt tttccttgtt 1860 cctgattttt taaatttata ttttttaatt ttattgcgtg ttttntgtta taagctacct 1920 caaatccttt gtggaangag gcgggntata aataaataaa 1960 // ID LTR81C repbase; DNA; HUM; 1153 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR81C_LTR; LTR81C. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1153 RA Smit A.F.; RT "LTR81C - ERV1 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; >35% subst in dog-human; different and 200 bp shorter CC 5' end than LTR81A and B. Otherwise 90% similar to LTR81A. XX SQ Sequence 1153 BP; 281 A; 301 C; 367 G; 193 T; 11 other; tgtaataggg ataatatttt tgaatatctc ccgatgtatn ttcccttatt ggtaaaccag 60 tttctctcct gcancccatc cgccattatg gccccaggga agggggaggg caaatgccat 120 ctcgggaagg aggaggatat gacgtagggg aagtccctnc cagacaggaa gaggaagtga 180 aagccnaccc cttctggccc tagnggantg tgggaaggag aaggaggagg aggcagggca 240 gagaggtcag acgcnagtgt ccttgcttcc ccctctcttg gggtgaacct cgagaggggg 300 gggcgcnata gaaacatcca gataggtatg ggggaacccg agaacatcgg ggctagtggc 360 ccgcttcccc gggcatagcc tggggaggct gcaagcctct aggagaagcc ccgcattcgc 420 tggcgccacg tccagcatgg cgcgggagcg atagtgcagc actggcagag ggaggtggct 480 agatagatga gcctgaggca gcgctcctgg ctccccacgg cctgcgcgtg gcatgcaggg 540 gatccagaag ttcccacgtg ccccggtgag gggacgcgga ggtgctgaga ggaccggtgg 600 actagcagag gcctggggtc gggacgaaga ggccgcagng tgcagggact tcgcgaccag 660 aggcaaatgg ccgggaccat ggacttcagc ggtgggtgcc agcacgatgc cccaaaaggc 720 cagacgggac cagtcgcacc tcagcggnca ccagtccagg gaccagacca gaccagccac 780 tccgcagcag agaccagcga ggatccagag gacaccgcgt ggatccgagg ccccttcccc 840 cngccccatg aggtcacgta agcccccccc ccatacaccc agatgccatc ttggagagga 900 gcagggggag gaggaggaaa tctgaaagac tgagcattta cccgaaagag actgagtcat 960 ccaaaagaga ctatttaaac cggaagagac tgagatacca ttaattggca agtttaagtt 1020 tctccctcct tttccccgct acccagcggg gtgggggctc atgaggaaga ttagatcagt 1080 tatagaaaat aaagaagcta cattttcttt gcacatctga gtgcagtgtg agtaaatttg 1140 cgaccccgct aca 1153 // ID MER97d repbase; DNA; HUM; 1205 BP. XX AC . XX DT 30-NOV-2007 (Rel. 12.11, Created) DT 30-NOV-2007 (Rel. 12.11, Last updated, Version 1) XX DE hAT DNA transposon from placental mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; MER97d; KW hAT-Tip100. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1205 RA Smit A.F.; RT "MER97d - hAT DNA transposon from placental mammals."; RL Repbase Reports 7(11), 1183-1183 (2007). XX DR [1] (Consensus) XX CC Alternative deletion product of Zaphod-like element (Zaphod3 for CC now). Tiny bit of coding region left at 678-866, matching Zaphod CC transposases N-terminal region 60%. XX SQ Sequence 1205 BP; 368 A; 201 C; 231 G; 405 T; 0 other; cagtggcgta ccaagggcgg ggcggtggga gcggtccgcc ccgggtgcag gcaataaggg 60 ggtgcattgt ctgtagagaa tttaaaaaca ataataaaac cgactaaaag tcggtctgct 120 ttttattatc accatgcgcc ggcaattcta aacaatgtca gtgataaaat actcctcccc 180 gaaaaatctt ttgttggtct aagttctaaa caattgctgc ggttactgtt gagttttaat 240 aatatatatg taagcttcaa attagcacat ttttattact tatcctttaa taaacattgt 300 attctacatg gaagttaatt cggagaactc ccagttatac agtcggcccc cgacacacgc 360 ggactcagct acacgcgttc gtttcgagag taagttcgta acggttcgga atcgttcgag 420 ctcgcttcgg gcgcagttcg tgtctccaac ccctgtggta ctacatattc ctgcgtttaa 480 acagtagatt cgaaataaac aatgatagca cagtgattgt aaagacgaag aaacagaact 540 tgagttactt caattctgtc attctatgtg accacttgga gtttttattt gtgtttaaaa 600 tttaaaacag tgaaacagag tgcgaactgc gaggtgtaat atttttgttt ggtaagtgca 660 aattttagac ttttcatatt tgtatatctg ttgcttcatg tgaaagaaac ttttcgaaat 720 taaaattaat aaaaagtgtt cttcgatcaa ctatgagcga agatagattg acaaatctgg 780 ctatactgtc tattgaacat gaatatgcga agaagatcaa ttttgacgaa gtcattgaca 840 aatttgcaga agttaaggct cgaaaacaga aactgtaatg ttattattca ttactgcgac 900 agaccaatat gtaggtataa ttttttcctt ttttcaaaaa atacattaat gtaattaaaa 960 agtattaatc cattactttt tttccttttt tgtactgtaa tatttatttt ttatttttta 1020 tactggcatg attatatata cgaagttcaa taaaagaaaa ttttcactgt ctgcgtttct 1080 tttctggcca ttattattat tcgtttcatt tcatgattat tactgaaaat aattttgtcg 1140 tatagaggag gggggtgtta aaaaatgatc cgctccgggt gtcaaatacg ctaggtacgc 1200 cactg 1205 // ID MER4I repbase; DNA; HUM; 6387 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 2) XX DE Medium reiteration sequence MER4I, putative retroelement MER4I - DE a consensus. It is flanked by MER4 LTRs and is similar to the DE MER41I, MER57I and MER65I retroelements. XX KW LTR Retrotransposon; Transposable Element; MER4I; KW Repetitive sequence; retroelement; internal portion. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6387 RA Kapitonov V.V. and Jurka J.; RT "MER4I."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC LTR8 fragment inserted at position 2496 is marked by *. XX SQ Sequence 6387 BP; 2006 A; 1007 C; 1040 G; 2211 T; 123 other; tggtaaccat ggaagggatt ctgagtggag atgcccctga cctttgacaa atctcctatc 60 ggtgcttggt accagcatga gctaacttta tggcycaagc tcaarwtrtc tttatkgctc 120 aaaccaatag gacaatttgc tgaggtctgr gagcatctcc ctccagagaa tccctgatct 180 cccaaaattt ggtcgagatc taargtttat tttgctgtac aactcctctt tttttggagt 240 tttacttgct tccaacacaa ggaaggcgag tttttcctgc ttccatgatg atggaaggca 300 ggtaactcct ttmtggagtt tsagctcgct tccaacaggg aagrtgagtt ttttttcctg 360 cttctaggat ggtagagagc agtcttcagc ctgagaccca ttcctaggta agtaactgaa 420 ttggggtttg tcttggaaat tctccttctt ggctaaaagt taagattaac aatcttggaa 480 attctcctta argactaaaa gttaagatta acaaccagct ggtcttaatt tctccttacc 540 attagagcgc tcagtaatca tataagttgt gcgatcattt gttttgctta actgcttytg 600 tttttgttgt ttttgtttgt ttctgttttt gttgttgttt cwgtcttttt cctattgggt 660 ttgaccaact ctatccgact tgatcagtgt ggtgggggga gaaaaacggc cagcaaaagg 720 aaaaaattga ncttgtttac tttgactact aaatctgaag gagaattcca aattatgggg 780 aacaaggcct ctgaagtggc taaattccca caaaaaaaaa aaaaaamaaa aaaaaaacaa 840 ggcyagcttt ttgctagcca ggccaaactg aaagagcaat ggctgtcacc ycacgctgca 900 gttcwatagc taaggtyctg cntttttttt ttttttcacc gtgacagcct gggtttggtt 960 cytaaatcaa gccctttctg gtttgatast tggtacttct gaaatagcag cwgtttgtcc 1020 tagctaaaat atggtaatga gatttkaaag gattttttta aaggagctca atggttaaaa 1080 gtcagcttaa ttaaaaggct aacatccaag atgtatgtgt gtatgtgtgc gtgtgtatgt 1140 gtgcatgtgt gcgtgtttgt atttaaaagg ccttcatgtt tttgtttcgt cgtttgtttt 1200 tctctcctaa gaccttgtct ttttttgagc aaagtttttt tcttctcagt tgactgaatt 1260 ctgttttctt catttacttt tcttccaccc tgttcctcct tccctttgcc atcttykgya 1320 ccaagtgaar rgayctagar aaggcttcta atracttgag accccttaaa gaacwcagaa 1380 aaaggtgcca cwcacccctt tttgaggrta aacttctgtt tttccttatg ggacctcaaa 1440 agtagtaaah agacagattc ctctcaggtc taaagctctg ctytcttttg yattgcgtta 1500 cctgattttt tgactaaaat agttattgca acagaggcta ctcttgggtt tttaaggaag 1560 agtgtagtgt agacacttag aaatgtcttt gtttaaaaak ttaagtrcac tgtaaaagca 1620 tcatrtggyt tagyctcatr ataattctcc ctttttrgag acccagcatt cagtgtgggc 1680 tctgcccaga gctcagtgrt ccagttaaaa ataggtagtc tctatytaaa taaaattggt 1740 ctccttataa aatcctatga tagatttcta taattttatg tttratttgg catcaatytt 1800 taatcttcct ctagcaccac cagacttttt ctctctgtac tttaagatgt aaattttgct 1860 atytgatttt tcacctaaga gttgtttcct ttaatatgca aatttagggc tatttagctg 1920 acaactgcct agggtaatga aacaggttat caagaatttg aaagtctaag ataggaaaaa 1980 aaggrggtct tataaatcta taagatgtac ttctatcagc atgcctaata cgtctatgta 2040 tttatgtgtt gtgtacacaa tgtttcacta ctaaaaatat ataaaagagc tctaattaat 2100 tggcttaaag aaaaataaaa gtgcttaaat caaatacttt atcaggaaaa aagaaaagac 2160 tagtcaaatg ctttttcaag ttyatgaaat gctttttcaa gtttatgtaa cttaagtaaa 2220 atctttaata aataagctag ctttaaaatt attggtaaag taatattaga aatgtcttaa 2280 gaattgccag catacatttt tgtttgcatt atattaatca agcartttca tacttatccc 2340 tgccaaatac tataaaggtg tcaaaatttg gcataggggt tayaaaacta taaacccagc 2400 ccaaaacaga atgatctttg cttgtgtaat ttttaataaa taagacattg atattggttt 2460 aatgaaaaya gctrcatctt gaatttagta agattaccat aacttctaac cttgtggctt 2520 taggcgrtyt ttaaatgatg actatcgcag ttttcataaa taatctaggt aaacaattaa 2580 taaaataatt aggtaaatgt aatgggataa atacttgtag acaaacttgt cataatttag 2640 aatataaagt tatattaaat taaataatag atawttwatt atttgrgtat tttccaataa 2700 aaatatattg taggaaaaca ttcttkctta aaaaaaagtg tgtccttttt aaaaaaatgg 2760 tgaataagtt ttgtctaatt caaagcttat ttaaaggtta trtataaaac aaggtaaaag 2820 gaaccaggaa ataaaaaaaa tgtaaagaaa gttataaaaa taaagaggta ttttttgnar 2880 gtaaaaaagc tgaaaragaa ataattttat atgagaaaga atcttatatg gtaaatttat 2940 gagaaagaat cttgtatggt aaatttttgt cctaaaataa aatgactggt ttttaagaaa 3000 gaggwtgttt aggacaaatc agaaagtcca agcatgttat waatggtctg tgtaagtcat 3060 aataaggttt gcataaagag aaattaaaaa awtttatatg attaagttgg ctataattaa 3120 aagraaatta tttataatag tctttctaga gattgakgtt tgatattaaa aatacactaa 3180 tacactaaaa attkgttaga aaaacaaaat tttcttaaag tattgattta ytcataaaat 3240 tacaagagat tttaatttta atccaaaaat tcaactttta ttgcatctca ctgttttcaa 3300 gctttttctc ctctttgaga aggcctgaga taataactct ctccttcaac ttttttgtca 3360 gctcctgtaa ttttttcctc hggttctaac tgytgttgtg gcctgatgct aaaaatgttt 3420 tatyttaaag gtctaaaagm aatgttttct tccaatataa cattctgtac tckkcttttc 3480 ttgatgtgtc tgaattgttc catgaaacca gaaaacttca ctcataaccc tggayacact 3540 cttccttgtc taattaattc aagtactatt ttcatcagtt tgacttcagg ttatctaaag 3600 ggcttcccat aaggagaagc aatcacactg cagaaggttt ttcttttsct ttttggtaac 3660 tggcctaaga aaaagatttt atgttttatc aagataattt ttgtgttatt attattaagt 3720 ttttgatttg cttaggaaaa ctgagattaa aattttttaa attaaggtta ttacatccat 3780 gtatctttct gtattgcttt taaagtcctt gtgacattga gttacagggc tttaactcct 3840 gggtctaaaa aggacaccaa gtcctgctaa atcttaaaca ctgacagcaa ttaaagccyc 3900 atcttcaggc ccgtagaaga tgccaatcaa aataaactgc attcctgaga cacaggaaat 3960 taaagctatt caactcctca aggcccaggg actatccaga agaggtgggc acgtgagatt 4020 gtaagggcca attttgaaag ataaaataag ttcaragttt ctctataaat taatcattaa 4080 aagtttctct ataaattaat cattrawatc aaaggcacac tgatgcaaga ccagcatatg 4140 ggcccctgtg tcagattaac aaggttttct tgaagcatta acckactcct taataaaggt 4200 tgtaaaggtt ataaaaggct tatgraaatt atatcttatg gtcaagatta aaattttata 4260 gattgtttat aaaattttga aaaacaaatt taattggctt catgctgttt ttattagggc 4320 ttattgtttg gaaaattaag tctcctctct caaagaatga aggtttttgc cttttttgaa 4380 atccttgagt tatcactttg gttaaatgaa tgacttattt tacaatgacc tgtgattcta 4440 ttttgtgata tcaagtgttt taaacctttg atatttgaca aactttccaa aatcaaatta 4500 taaattatgt ctttctgacc taattaatcc tttaagatat taggttcctt aaagtccaaa 4560 aatgacataa tttggcttat ttggtacaaa aattatayag gaagcattgt caaatatgaa 4620 aaatgtttaa ncytctttgg gttrtatttg tataaatatg ttattggtat atgttccaaa 4680 attatatgaa actcctataa ttctgatatr tcttagtgta tattatcart aataattata 4740 attattatgt taaattattg tatgccacag argtaaccaa atttcctcgt caattgtgtc 4800 tttaactatg gctgttctaa gacttttgtc atccacggac aattgtttta ttttgrtcct 4860 ytttaaaagg tagtttataa tcagctatag ractctaaca agcgctctta aatrcaggtt 4920 tctgataact ttggagattg tgacatcgga atagaggaaa aactttcagg actcatggar 4980 arctaatgtg ttcatgagga ttgctaaccc aacatcgagc aagcagaaca ggaattaact 5040 gcatggactg aaccaataga agabtgaaad aatctttttg actttttgct taaaacgttg 5100 ctgatccttt gttttgtttt tcagagtcaa gaaaactttt cttttgagct atttacagct 5160 tttaacaatt gagtatagta tactcctatg aacaaaattt ggagcatatt tgtttctctc 5220 tacctgattt ctccagaatt tggaaactat ttgtgagtat tcttaactta tggcaataca 5280 gttatttgca taagtgcaat aagaatctgt tttcatttgt aacaggacac aattggagaa 5340 actggttatt ttaccaaggc tttgactgga atggtgtact ttcctttaag gaatcaaact 5400 tgacttatgg agccaataaa agcccttgga aaaactggcc tcataccttg tbtacgcagt 5460 ccctgtacaa ggtttctgac ctgtggtaag taaagaatgt cactttctga caggcccagg 5520 agccccargt ttatcttgga acctcaagag gagaggaaat tcacccaatt cataggtatt 5580 tgawggcgca aatccatggc tgggctcggc tttaaaaaag tcttatctga gattccttct 5640 atggaaaaaa gttccakcaa agccaattta aaaagagcct atataamaaa tmattattct 5700 tgctgcactt tatgcaaata atcaggccaa gtataataag astaaaactt attttrhaaa 5760 caaattggtc ctaccatgat ttgtctttag taaaaatggg aaactggaga gagaaaaatt 5820 atgtttcaaa aactatagta tacctgttat tagattctag ttgtttttca atttttatta 5880 ttttctacag tttggactga attctaaatt ttttcctggc tacaagtctc caaaataatg 5940 ttttcaatac tttttctttt tttccttccw tttttcccat ttttcctaat ttaaaatcac 6000 traaaactaa agctgtgctt ktcttaaagc cctgcaaact gaarctagac aacttaaact 6060 tcagaagaaa ataatagcaa cctatttaca tacataagcc actttcatac ctgcctactg 6120 atgtatngac ttcagagtaa tgtgrcctrt rtcaattttc caggattgtt cttttgtttg 6180 ttgttgtttt tctcccttcc tcctcctatt ttstcttcat aggacatgag acttcacaac 6240 ctgctaaaaa tragctttcc taawawctcg ggacctaccc gtctaggaat aaactatcct 6300 agccacgaga gatcagacga aacctgagac cagagactca ttttcttcta aaatgctttc 6360 tccaaaagat tttagaaaag aagggaa 6387 // ID MER105 repbase; DNA; HUM; 204 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Non-autonomous DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; MER105. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-204 RA Naik A. and Jurka J.; RT "MER105."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX SQ Sequence 204 BP; 58 A; 40 C; 42 G; 64 T; 0 other; cagcctttct caactagggt tctatgagag aattaagccc taatgcccta aggcatccat 60 tgtatgtaat gaattaactt ctctcctatg catcctagaa tggtactagt tatataccat 120 ccttgggaga attgagaaaa tagtcactca aatcattttc tgtgttctgt ggttcagatg 180 aggaaccctg gttgagaaag gctg 204 // ID L1MEe_5end repbase; DNA; HUM; 1164 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from placental mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1MEe_5end. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1164 RA Smit A.F.; RT "L1MEe_5end - L1 Non-LTR Retrotransposon from placental RT mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC Only contains 3' half of ORF1, linker region, and 5' 300 bp of CC ORF2. ~25% subst level; closest to L1MEc 5end, though still 23% CC different. Probably to be merged with L1MEg_5end. XX SQ Sequence 1164 BP; 536 A; 160 C; 206 G; 244 T; 18 other; ccaaancaga acatanaaaa aaacncacac ctagacacat cataatgaaa ctgcagaaca 60 ccaaagacaa agagaaaatc ttaaaaacaa cacagaagaa aanacagata ccttaaaaga 120 antaatatta gactgacagc tgacttctca gnagcaacaa tggaagccag aagacagtgg 180 aataatatct tcaangtgct gagggaaaat aactgccaac ctagaattct atacccagcg 240 aaaatatctt tcaagaatna gggtaaaata aagacatttt cagacaaata aaaactgaga 300 gagtttacca ccaacagacc cncactaaag gaaattctaa angatgtact tcaggaaaaa 360 gggaaatgat cccagatgga aggtctgaga tgcaagaagg aatgangagc aaagaaaatg 420 gtaaacatgt gggtaaatct aaacaaatac tgactgtata aaataaaata ataatgtcta 480 atttgtgggg ttataaaaaa gatagaacta aaatactgga caacaatagc atataagtca 540 ggaggggggt gatcggagtt aaagtgttct aaggtccttg tattgttcgg gaggagggta 600 aagatattga ttaactttag actttgntaa gttaagtatg catgttaaaa tttctaggat 660 aaccactaaa agaatagaaa tagagtatat aacttccaaa ctaatagaag ggaaaaaatg 720 gaatgagaaa gaaaaaacac tcaatcaatc caaaagaagg caagaaagga gagaaaaaga 780 aacatagaac aaatagaaag cacagaataa aatggtagaa ataaatccaa atatatcagt 840 aatcacanta aatgtaaatg gacaaatcta tccagttaaa agacaaagat tgtcagantg 900 gattaaaaaa acaattccag ctatatgctg tttacaagag acatatctaa aacataaaga 960 cacagaaang ttgaaagtaa aaagatgaga aaaatatacc angcaaatac taaccaaaga 1020 aagctgatgt atggctatat taatatcaga caaaatagac tttaaggcaa aaagcattac 1080 tagagataaa gaaggtcact acgtaatgat aaaagnttca attcaccagg aagatataac 1140 aattctaaat ttgnatgtac ctaa 1164 // ID D20S16 repbase; DNA; HUM; 98 BP. XX AC . XX DT 01-JUL-2003 (Rel. 8.06, Created) DT 17-JUL-2008 (Rel. 13.07, Last updated, Version 2) XX DE Human centromeric satellite. XX KW SAT; Satellite; Simple Repeat; Centromeric; D20S16; KW Satellite repetitive element. XX NM D20S16. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 25-98 RA Smit A.F.; RT "D20S16: Human centromeric satellite."; RL . XX RN [2] RP 1-98 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [1] (Consensus) XX CC CC [2]. XX SQ Sequence 98 BP; 23 A; 36 C; 17 G; 22 T; 0 other; cagctccaca aaaatcaatc tagaacaaga cctctcctcc ctgggtcgcc agcttcctga 60 ccctcgaact gcaacaacgt tgctcctgcc tgggtctt 98 // ID L1MB3 repbase; DNA; HUM; 930 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MB3) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M3; L1MB3; L1MB3 subfamily; MER12; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 672-890 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 1-930 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [3] RP 1-930 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 15%. XX SQ Sequence 930 BP; 360 A; 149 C; 197 G; 222 T; 2 other; ttaatatcca aaatatataa ggaactccta caactcaaca acaaaaaaac aaataacctg 60 attaaaaaat gggcaaagga cttgaataga catttctcca aagaagacat acaaatggcc 120 aacaggcaca tgaaaagatg ctcaacatca ctaatcatta gggaaatgca aatcaaaacc 180 acaatgagat accacctcac acccgttagg atggctatta tcaaaaaaac agaaaataac 240 aagtgttggc gaggatgtgg agaaattgga acccttgtgc actgttggtg ggaatgtaaa 300 atggtacagc cgctatggaa aacagtatgg cggttcctca aaaaattaaa aatagaatta 360 ccatatgatc cagcaattcc acttctgggt atatacccaa aakaattgaa agcagggact 420 cgaacagata tttgtacacc catgttcata gcagcattat tcacaatagc caaaaggtgg 480 aagcaaccca agtgtccatc gacggatgaa tggataaaca aaatgtggta tatacataca 540 atggaatatt attcagcctt aaaaaggaag gaaattctga cacatgctac aacatggatg 600 aaccttgagg acattatgct aagtgaaata agccagtcac aaaaggacaa atactgtatg 660 attccactta tatgaggtac ctagagtagt caaattcata gagacagaaa gtagaatggt 720 ggttgccagg ggctgggggg aggggggaat ggggagttak tgtttaatgg gtacagagtt 780 tcagtttggg aagatgaaaa agttctggag atggatggtg gtgatggttg cacaacaatg 840 tgaatgtact taatgccact gaactgtaca cttaaaaatg gttaaaatgg taaattttat 900 gttatgtata ttttaccaca attaaaaaaa 930 // ID MSTB1 repbase; DNA; HUM; 432 BP. XX AC . XX DT 24-JUL-2000 (Rel. 5.06, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 1) XX DE Long terminal repeat (MSTB1 subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MER10; MSTA1; KW MSTB1; MaLR family; MstII; retrovirus-like MaLR element. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-432 RA Jurka J.; RT "MSTB1."; RL Direct Submission to Repbase Update (APR-1999). XX RN [2] RA Smit A.F.; RT "MSTB1."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MSTB1 retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 15%. Intermittent subfamily CC between MSTB and MSTC; 90% similar to MSTB over the entire CC length. CC See MSTB for full references. Name changed from MSTA1. XX SQ Sequence 432 BP; 92 A; 120 C; 102 G; 118 T; 0 other; tgctatagtt tggatgtttg tcccctccaa acctcatgtt gaaatttgat ccccagtgtt 60 ggaggtgggg cctaatggga ggtgtttggg tcatgggggc ggatccctca tgaatagatt 120 aatgccctcc ctcggggtgg ggatgagtga gttctcactc tattagttcc cgcgagagct 180 ggttgttaaa aagagcctgg cacctccctc ctctctctct tgcttcctct ctcgccatgt 240 gatctctgca cacgccggct ccccttcacc ttccgccatg agtggaagca gcctgaggcc 300 ctcaccagaa gcagatgctg gcgccatgct tcttgtacag cctgcagaac cgtgagccaa 360 ataaacctct tttctttata aattacccag cctcaggtat tcctttatag caacacaaaa 420 tggactaaga ca 432 // ID MER58B repbase; DNA; HUM; 341 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE hAT DNA transposon from placental mammals. XX KW hAT; DNA transposon; Transposable Element; CHESHIRE_B; MER58B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-341 RA Smit A.F.; RT "MER58B - hAT DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 22% div. XX SQ Sequence 341 BP; 101 A; 75 C; 74 G; 91 T; 0 other; caggggtcgg caaactacgg cccgcgggcc aaatccggcc cgccgcctgt ttttgtacgg 60 cccgcgagct aagaatggtt tttacatttt taaatggttg aaaaaaaaat caaaagaaga 120 ataatatttc gtgacacgtg aaaattatat gaaattcaaa tttcagtgtc cataaataaa 180 gttttattgg aacacagcca cgctcattcg tttacgtatt gtctatggct gctttcgcgc 240 tacaacggca gagttgagta gttgcgacag agaccgtatg gcccgcaaag cctaaaatat 300 ttactatctg gccctttaca gaaaaagttt gccgacccct g 341 // ID MER41C repbase; DNA; HUM; 554 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 4) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER41C. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER41C; KW MER4I-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-554 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX DR [1] (Consensus) XX SQ Sequence 554 BP; 143 A; 124 C; 108 G; 167 T; 12 other; tgtcagaggc gttcgaacca gagcgactcc atcttgaatg agggctagga aaatgaggct 60 gagmcttgct gggctgcatt cccagraagt caggcattcc taacctctag atgtttacgg 120 ttaagggaac agattaataa tgtttactaa acagacccag acttgggagt gtccagatat 180 cccgatatct kgagaacaga ggcattccta atttckcttt aaagataata atattgattc 240 ttgcaaaaka tagtaattaa gcaaagatkr rcaatccttt gtcacaagcc cttgtagcag 300 agcacatctc ccccgtaatg ttctttggct ttgttatcct atatataaac aagcattgta 360 cctagggtgg acgcsttcct cctsttgctt tcgggaacgc cctgctctgt ctatggagta 420 gccgttcttt cactmcttta ctttcttaat aaacttgctt tyactttaca ctgtggaatc 480 accctgaatt ctttcttgca tgagatccaa gaaccctctc ttggcggttg gatcaggacc 540 cctttcttgt aaca 554 // ID L1MC4 repbase; DNA; HUM; 2761 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MC4) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1MC4; L1MC4 subfamily; L1MC4a; MER42C; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 2162-2761 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1150-2761 RA Smit A.F.; RT "L1MC4."; RL Direct Submission to Repbase Update (1996). XX RN [3] RP 1-2761 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 668; average divergence of copies from consensus: CC 22-23%. XX SQ Sequence 2761 BP; 1026 A; 428 C; 556 G; 692 T; 59 other; ctaatatacc taatatacaa aaaactctta aaattgaagg ataaaaagnc aaaaaccnaa 60 tannaaaatg ggnaaaagac atgaacagac aattcacnaa aaatnataaa atggccctta 120 agcatataaa aagatgttca ncctcacnta taattagaga aacgcaaatt aaaactacac 180 cgagatacca tttctcaccc ancagatcgg caaaaattaa aaagtatggc aatatannct 240 gttggcgagg ctgtggggna acnggnactc tcatacactg ctggtgggag tgcaaattgg 300 tacaactnct ttggaagana atttggcagt ntctaataaa actacacntg cntttacact 360 ttgacccatt agtcccactt ctagaaattt accctanaga aatacttcta acagntcaaa 420 aatacacatg tacagggatg ttcatagcag tnttattnnt aatngtaaaa nattggaaac 480 aatcnaaatg tccatcagca ggagaatggn tgaataaact atggtncatc cacacaatgg 540 aatactatnc agctgtaaaa aagaatgagg aagatctctg taataatgtg gagngatttc 600 ggaacatnnt nttnagttga aaaagcnang cgcaaaagag tatatatant atgctaccct 660 tcatataaga aagaagggga tatgagaaaa tatacatata tctgctcatt tgtgcaaaaa 720 gaaacacaga aaagataaan caganactaa tgagattggt tacccacagg gaannggtgg 780 gaatggggag gaaaggacgg aaggaatggg gggcagtgac acttttctga gtataccttt 840 ttgtatagtt ctaacttttg naaccatgtt aatgtttcac atactcaaga aatgaataan 900 taaaatcaac aaggatgggg ganaactcaa aatgaaatac aaacagaaac aaatgaaccw 960 aactgtattt caaatgaata acataaccac actgaagggg gtnaggaaga aaagaactaa 1020 cccaagtaac ttttgaacac agtattttga ctatatgccc tcaggctaaa gacaaaaaga 1080 actntaaaca aatattgaac tctagttagt aggcttattt tccgcagngg catgggttag 1140 caattctgaa actactttct gtatattcta ggactgagca aataagtaaa tatattgngg 1200 ataatgggag ccaggtttct cactgtcgga gaagggagtt acaaatatgg aaagggggaa 1260 gactagaatg aaccctgtgg tgttggattg gaattggagg tatcagtgtg aactcatggt 1320 ttttaatata natagatata cagacagaca gatatagaaa tagatataga tatatatgtg 1380 tntgtgtata tgtgtatgta tatacgtaca tatatttcct agctctgtcc actgagaggg 1440 cctagaagca atgacacccc agtagcaatg agcacaccta gcgcccagat cttggtttct 1500 aaataccatt ctccactaaa aggaaccagg gctccttgga gaaatggctg attccagggc 1560 tggggcaggg aaagtacaag atgagcctgg aacatcttgt tgtgccagaa agtaaggaag 1620 tgctcaaaga atgatgggga catgtcaaaa ggacacagga gccagcttga aggggctccc 1680 actggccaaa tctgggacaa tttgagcatc aaaataaata atgatagtaa tggattataa 1740 cccattgaat aaaataagaa tccatgagtc catactgata taaataaata aataaataaa 1800 tgggggagaa gggaaagctc ttccttacag tagaatgcca actaataaat gtagaaggaa 1860 tgatggaatt agaaaatcac catttggcaa ccatcatagt aataattgat tcaggcaaga 1920 atcatcaatg gatgctaaaa ctagtgggtg aaagtttgat gagnaacagg atatttacat 1980 agtctcaaag tatctcccca caaaatactt attaattaca aaggggaaaa tagtaacttt 2040 acagtggaga aacctggcag acaccacctt aaccaagtga tcaaagttaa catcaccagt 2100 aatgggacaa atcgacatca tgtgcctcct gatatgatgc actgagaagg acacaacatc 2160 acttctgtgg tattcctgcc aaaaatgcat aacctgaatc taatcatgag gaaacatcag 2220 acaaacccaa attgagggac attctacaaa ataactggcc tgtactcttc aaaaatgtca 2280 aggtcatgaa agacaaagaa agactgagga actgttccag attaaaggag actaaagaga 2340 catgacaact aaatgcaacg cgtgatcctg gattggatcc tggaccagan ttttttttgc 2400 tataaaggac attattggga caactggcga aatttgaata aggtctgtag attagataat 2460 agtattgtat caatgttaat ttcctgattt tgatnattgt actgtggtta tgtaagagaa 2520 tgtccttgtt tttaggaaat acacactgaa gtatttaggg gtaanggggc atcatgtctg 2580 caacttactc tcaaatggtt cagaaaaaaa aatatgtata tgnanacaga gaatgataaa 2640 gcaaatgtgg caaaatgtta acatttgggg aatctgggtg aagggtatac gggaattctt 2700 tgtactattc ttgcaacttt tctgtaagtc tgaaattatt tcaaaataaa aagttaaaaa 2760 a 2761 // ID MLT1C repbase; DNA; HUM; 467 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 4) XX DE Mammalian long terminal repeat (MLT1C subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1C; KW MaLR family; STIR; retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Rouyer F., de la Chapelle A., Andersson M. and Weissenbach J.; RT "An interspersed repeated sequence specific for human RT subtelomeric regions."; RL The EMBO Journal 9(2), 505-514 (1990). XX RN [2] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX DR [2] (Consensus) XX CC LTR of MLT1C retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 17%. Intermittent subfamily CC between MLT1B and MLT1D; 92% similar to MLT1B, except for a 67 bp CC deletion in MLT1B (pos 264-330). XX SQ Sequence 467 BP; 139 A; 105 C; 113 G; 108 T; 2 other; tgttatgggt tgaattgtgt ccccccaaaa ttcatatgtt gaagtcctaa cccccagtac 60 ctcagaatgt gaccttattt ggaaataggg tcgttgcaga tgtaattagt taagatgagg 120 tcatactgga gtagggtggg cccctaatcc aatatgactg gtgtccttat aaaaagggga 180 aatttggaca cagacacgca cacagggaga acgccatgtg aagatgaagg cagagattgg 240 ggtgatgcnt ctacaagcca aggaacgcca aagattgcca gcaaaccacc agaagctagg 300 ggagaggcat ggaacagatt ctccctcaca gccctcagaa ggaaccaacc ctgccgacac 360 cttgatctcg gacttctagc ctccagaact gtgagacaat aaatttctgt tgtttaagcc 420 acccagtttg tggtactttg ttacggcagc cctagnaaac taataca 467 // ID MER97C repbase; DNA; HUM; 1090 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE MER97C repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; MER108; KW MER97C; nonautonomous DNA transposon; hAT-superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-642 RA Jurka J.; RT "MER97C."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-1090 RA Smit A.F.; RT "RepeatMasker release June 11 1998."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC The repeat has been classified as a hAT-like DNA transposon [2]. CC A portion of MER97C has been independently deposited in Repbase CC Update CC as MER108 [1]. To avoid a confusion, MER108 is deleted from CC Repbase CC Update (June 2000). XX SQ Sequence 1090 BP; 329 A; 167 C; 185 G; 382 T; 27 other; cagtggcgta ccaagggcgg ggcggtggga gcggtccgcc ccaggtgcag gcaataaggg 60 ggtgcattgt ctgtagagaa tttaaaaaca ataataaaac tgactaaaag tcggtctgct 120 ttttattatc accatgcgcc ggcaattcta aacaatgtca gtgataaaat actcctcccn 180 naaaaatctt ttgttggtct aagttctaaa caattgctgc ggttactgtt gagttttaat 240 aatatatata tgtaaacttc aaattagcac atttttatta cttatccttt aataaacatt 300 gtattctaca tggaagttaa ttcggagaac tcccagttat acagtcggcc cccgacacac 360 gcggactcag ctacacgnat tcgtttcgag agtaagttca taanggttcg gaatcattcg 420 agctcgcttc gggtncagtt cntgtctcca acccctgtgg tactacatat tcctgcgttt 480 aaacagtaga tttnaaataa acaatgatag cacagtgatt gtaaagacga agaaacagaa 540 cttgagttac ttcaattctg tcattctatg tgaccacttg gagtttttat ttgtgtttaa 600 aatttaaaac agtgaaacag agtgcgaact gcgaggtgta atatttttgt ttggtaagtg 660 caaattttag ttcatacatg aaatatttta ctgaatttga ataatatctt taaaatngaa 720 atttattctt cttnaaattg ttaattattt gttttttatt taatwgctat aacattattt 780 attattgtga canatcagtg taacaggcma ttntttcctc tcnttcaaaa aaaatacatt 840 aatgtaatta aaaagtatta atccattact tttttccttt tntttwaatg ttatttattn 900 ttnatttttt actacnggca tgattatata ntgaagttca ataaaatgwa antttgcttt 960 ctnnntattt ctntgtatta ttattactga ttattacatg attattactg aaaataattt 1020 tgtcatatag aggaagggng tgttaaaaaa tgatccgctc tgggtgtcga atacgctagg 1080 tacgccactg 1090 // ID ALR1 repbase; DNA; HUM; 171 BP. XX AC . XX DT 27-SEP-2000 (Rel. 5.08, Created) DT 27-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Human alpha repetitive DNA subfamily 1 - a consensus. XX KW SAT; Satellite; Simple Repeat; ALR1; Repetitive sequence; KW satellite DNA. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-171 RA Jurka J.; RT "ALR1."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX SQ Sequence 171 BP; 44 A; 30 C; 36 G; 59 T; 2 other; tcattctcag aaactrcttt gtgatgtgtg crttcaactc acagagttta acctttcttt 60 tgatagagca gtttggaaac actctgtttg taaagtctgc aagtggatat ttggacctct 120 ttgaggcctt cgttggaaac gggatttctt catataatgc tagacagaag a 171 // ID CHARLIE10 repbase; DNA; HUM; 2822 BP. XX AC . XX DT 27-DEC-2001 (Rel. 6.11, Created) DT 27-DEC-2001 (Rel. 6.11, Last updated, Version 1) XX DE Primate Charlie10 repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; CHARLIE10; KW DNA transposon fossil; MER1_type family; hAT family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-2822 RA Smit A.F.; RT "A few more common, ancient interspersed repeats in the human RT genome."; RL Repbase Reports 1(4), 19-19 (2001). XX DR [1] (Consensus) XX CC Consensus for an autonomous member of the MER1 branch of hAT DNA CC transposons, closely related to the Charlie3 element. CC MER5C is an internal deletion product of Charlie10. MER5A and B, CC with 65000 copies by far the most numerous DNA transposon CC remnants in our genome, have closely matching termini, but a CC dissimilar (short) internal region. Charlie10 may have caused CC their distribution, in analogy to the transposition of Ds1 by CC Activator. CC The gene KIAA1923 is a domesticated Charlie10 DNA transposon. CC There are a few dozen full-length copies in the genome; average CC substitution level of the copies is 22-23% (19% divergence from CC consensus). XX SQ Sequence 2822 BP; 961 A; 431 C; 512 G; 906 T; 12 other; cagtgctact caaagtgtgg tccgtggacc ggtgccagtc tgcgaactgt ttgttaccgg 60 tccatgatga gataagtaca gaaattgaga gtaagcgttt agaaactttt atagcaattt 120 gacattgccg cgacatccaa gcacatgatc agtggactca tctcattgaa cagggtatag 180 accagtttgg gtgttgtcga actcgcgtgg tgagtcacat gtggcgcnag ctgcgtacta 240 gtcatgcgca gtaggaccac attacaacgt gtgatatttt aaggttagtt tgtcaactgt 300 aacccaaaag tatataaaaa tctgagaaaa tataagcatt tatttatttt tataacttat 360 ttatttttat aattanttta anttttaatc aagcctagtt tttaatttat ggtttaacat 420 tattagctaa attagggaag taaaatttgt attatttatt tttaacccta atttacagat 480 ggcgaaacaa gcttcactgg acttttttgt caagaaaaga cacgcctttt ctgaatgcag 540 cagtagtagt aaaccaaatg atgacgatgg aagtgattct gaagaaanga aaaccaaaag 600 agtttgtact agttttactc ggaagtatga tccctcatat actgagttcg gttttgtagc 660 cataattgat ggngaagtgc taaaaccaca gtgtgttatt tgcggagatg tactggctaa 720 tgaagcaatg aaaccatcaa aacttaagcg gcatttacat acaaaacata aagaaataag 780 ttcaaaacca aaagaattct ttgaaagaaa gagtantgaa ttaaaaagcc gacagaagca 840 gatgttcaat atttcacata taaacattag tgctttgcgg gcttcttata aagcagcact 900 tcgggttgct aagactaaaa caccatacac aattgccgag acattagtaa aagactgcat 960 caaagatgtt tgcttggaaa tgttgggtga atctgcggca aagaaggtag ctcaagtacc 1020 actttccaat gacaccatag ctcgatgtat tcaggaactg gctaatgata tggaagacca 1080 actcatagaa caaataaagc tagcaaagta tttttcattg caacttgacg aatgcacaga 1140 tattgctaac atggcaattc ttttagtata tgtgcgattt gaacatgatg gtaatatgaa 1200 ggaagaattc tttttttcag cttcattgcc gacaaacaca actagctctg aactgtataa 1260 aactatgaag gattacattg tcaacaaatg tggtttggag tttaagtttt gtgtaggagt 1320 atgttctgat ggcacagctg caatgacagg aaaacattct ggagtagtta cccagattaa 1380 ggagcttgcn ccagaatgta aaccaacgca ctgcttcctt catcgagaaa gtcttgctac 1440 gaaaaaaata tcagctgaac taaacagtgt gcttagtgac atagtaaaaa ttgtgaatta 1500 cgtaaaggct aatgcgttaa atttgagatt attctcttta ttatgtgata atatggaagc 1560 tgatcataaa caactgttat tgcatgctga ggtacgatgg ttatcgaggg gaaaagttct 1620 gtcgagaatg tttgaactac gaaacaaact cttagtgttt ctgcaagata agaaaccagt 1680 ttggtcccaa ctttttaaag atgtgaattg gacagccaga cttgcttatt tgtctgatat 1740 cttcggtatt tttaatgatc ttaatacttc catgcaagga aagaatgcaa catgtttttc 1800 aatggcagat aagatcgaag ggcaaaaaca aaagttagaa gcttggaaga acagagtttc 1860 tacagattgt tatgacatgt ttcataattt aacaacaatt atcaatgaag taggtgatga 1920 tcttgatatt gcacatctgc aaaaagttat caccgaacan cttanaaatt tgatagaacg 1980 ttttgaattt tattttccat caaaagaaga tccacacata ggaaattcat ggatccggaa 2040 tccatttctt tcattaaaag ataatttaaa tttaactata actttacagg ataaattgtt 2100 ggaactggct actgatgaag gattgaagat gaattttgaa aatacagcat cacttgcttc 2160 attttggata aaagttaaaa atgaatatcc tgagcttgct gaaattgctt taaaatctct 2220 tcttccattc ccatcaacat acctctgtga gactggtttc tctactatga atgttattaa 2280 aacaaaacat agaaacagtt tagatataca ttatcccctg caagtagcgc tgtcatcaat 2340 ccaacctaga ttagataagt taacaagcaa gaagcaagct catttgtcac attaaaaact 2400 ttaaatattg atatacatgg tgttcgttca aagtgtgcat ataggcattt aatatggaga 2460 atcgctattt cacttcataa ctttttgttt agttataatt gcagaacnac aaaaaattat 2520 gagtgtaaca gnaattttct atattaattg cctatatgca cactttcaat gaacaatgtg 2580 tacagttttt ataattctnt ttttcctcat atttgttgta tttattaaaa tataatttta 2640 tgtctgttga atctaataat aaaaaatttt gggcttgtat tttgtatgtc tttttttttt 2700 aaatttcatt tttctagtaa ttcattttta ttgtatttta caaaagtatt agtctgtgat 2760 agattggaaa ttaaaaaaaa aaaaaaactg gtccttcacc acagatagtt tgagaagcac 2820 tg 2822 // ID Zaphod3 repbase; DNA; HUM; 2623 BP. XX AC . XX DT 30-NOV-2007 (Rel. 12.11, Created) DT 30-NOV-2007 (Rel. 12.11, Last updated, Version 1) XX DE hAT DNA transposon from placental mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; Zaphod3; KW hAT-Tip100. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-2623 RA Smit A.F.; RT "Zaphod3 - hAT DNA transposon from placental mammals."; RL Repbase Reports 7(11), 1187-1187 (2007). XX DR [1] (Consensus) XX CC ORF 821-2293 encodes a protein equally close (ca. 30% identity, CC 50% similarity) to the transposases of Zaphod and Arthur. Could CC call it Slarti, but am restraining myself. First couple of 100 CC AA are not in the consensus though a deletion or are very CC diverged (no ORF either). Very few copies contains pos 800-1100. CC Internal deletion products are named MER97a-d in the database. CC There either are a dozen or wo copies in the opossum genome, or CC a related element was active independently. Considering the CC relatively high (500-1000) number in eutherians, I'm considering CC it eutherian-specific. XX SQ Sequence 2623 BP; 847 A; 431 C; 498 G; 837 T; 10 other; cagtggcgta ccaagggcgg ggcggtggga gcggtccgcc ccgggtgcag gcaataaggg 60 ggtgcattgt ctgtagagaa tttaaaaaca ataataaaac cgactaaaag tcggtctgct 120 ttttattatc accatgcgcc ggcaattcta aacaatgtca gtgataaaat actcctcccc 180 gaaaaatctt ttgttggtct aagttctaaa caattgctgc ggttactgtt gagttttaat 240 aatatatatg taagcttcaa attagcacat ttttattact tatcctttaa taaacattgt 300 attctacatg gaagttaatt cggagaactc ccagttatac agtcggcccc cgacacacgc 360 ggactcagct acacgcgttc gtttcgagag taagttcgta acggttcgga atcgttcgag 420 ctcgcttcgg gcgcagttcg tgtctccaac ccctgtggta ctacatattc ctgcgtttaa 480 acagtagatt cgaaataaac aatgatagca cagtgattgt aaagacgaag aaacagaact 540 tgagttactt caattctgtc attctatgtg accacttgga gtttttattt gtgtttaaaa 600 tttaaaacag tgaaacagag tgcgaactgc gaggtgtaat atttttgttt ggtaagtgca 660 aattttagtt catacatgaa atattttact gaatttgaat aatatcttta aaattgaaat 720 ttattctttt taaattgtta attgttttaa aactaaagaa cgaatcaaga aaataaaata 780 ttacatcagt ggtacgattt agtagttgcc taaattttaa aagcataatt taggaattnt 840 ttttgntagc actccgcatg cttcacacac ggatcaaacg cgaaaagtga tcaaatatgt 900 ctatattgaa gatganaaag tcgaaataaa ggaattcttc ttgggcttct ttgatatttc 960 taggaaaact gctgctgagc ccacagaaaa gatatcgaag caactngatg gtgntggact 1020 ggacataaac ctctgccgtg gtcaaggata tgacaatgcc gnanctatgg ccagtactca 1080 ctgtggtgtt cgggcaaaaa tcaaagaaat taatcccaaa tccttatttg tgccttncgc 1140 aaatcattct ctgaaccttt gcggagttca ctcttttgga agtntttctt catgtgtgac 1200 attttttgga actttggaaa aaaattattc attcttttca gtctcacctc atcgatggaa 1260 aatgctgcag aatgtaggta taacagtgaa aagactttcc cagacgagat ggngtgctca 1320 ttatgaagct gtgcgcgcag taaagacaaa ttttgaaaag ttaatctcaa cctttgaagt 1380 actgtgcgat ccaaaagaaa atgtggacac aagagaatca gctcagattt tgctctctgc 1440 tgtatgcgat ttttcttttc tgagttatct ttttttctgg tgtgaagttt tagatgaggt 1500 taatcagaca caaaaatatt tgcaaacagc cagaatcagc cttgaacaat gtacagtgaa 1560 acaccaagct ttaaaattgt tccttgaaga tcggcgcaca gaaattgtgg agaaggccat 1620 taactatgca acaacaaaat gtaaggaaat ggacatttac atagaaaaaa gaatcaaatt 1680 tcgaagaaga atgccaggag aaacgacaaa agatgctggt cttacattgc cagaagaaat 1740 caaaagggca atgtttgaat gcctcgatcg ttttcaccaa gaactggaca ctcgttctaa 1800 agcaatggat caaataatgt caatgttcgc tatcattcag ccattttctc tgatttttgc 1860 agaagaagaa aaacttcgga agtttttacc aaatataata gaaatttatg atgaattttc 1920 tggtgaagat attttagtgg aaatttttcg actgcggaga catttgaaag ccgctagaat 1980 cgatcccgaa gaaacaaaga catggacagt attgcaattt ctggaattta ttgtgaaatg 2040 ggatttttat gaatctctgc caaacttatc cttatgttta agacttttcc taactatttg 2100 tatatctgtt gcttcatgtg aaagaaactt ttcgaaatta aaattaataa aaagtgttct 2160 tcgatcaact atgagcgaag atagattgac aaatctggct atactgtcta ttgaacatga 2220 atatgcgaag aagatcaatt ttgacgaagt cattgacaaa tttgcagaag ttaaggctcg 2280 aaaacagaaa ctgtaatgtt attattcatt actgcgacag accaatatgt aggtataatt 2340 ttttcctttt ttcaaaaaat acattaatgt aattaaaaag tattaatcca ttactttttt 2400 tccttttttg tactgtaata tttatttttt attttttata ctggcatgat tatatatacg 2460 aagttcaata aaagaaaatt ttcactgtct gcgtttcttt tctggccatt attattattc 2520 gtttcatttc atgattatta ctgaaaataa ttttgtcgta tagaggaggg gggtgttaaa 2580 aaatgatccg ctccgggtgt caaatacgct aggtacgcca ctg 2623 // ID LTR16B1 repbase; DNA; HUM; 480 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW LTR16B1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-480 RA Smit A.F.; RT "LTR16B1 - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC Closely (92%) similar to LTR16B. XX SQ Sequence 480 BP; 77 A; 175 C; 116 G; 112 T; 0 other; tgtggcggcc atggaggtgc gccgctcaga tctcccttca agagaacctg ctgcggggag 60 catagttggc tgacagcctc cagctgccgc acctttggat ccaccgcagc gttcacgccg 120 aggccacact tcccccgggc tgctcccagc caatgactga gcacggcggg ggtactagag 180 ccgggccatt cctgcccgac gtgggactcc tctaatgggc aacctttgct cggggactcc 240 ccatcggcct ggccgagact ttctcagaac tgcgctgcag tctgaggctc ttcctaccca 300 atcctccttc cttccctctc tcctttcaca ggtgtcagac ctgcatcgtg gtctgaaggc 360 tctccctgcc tactcctgct ccctctcccc tttatccttc acaggcgttt cccccaataa 420 atctcttgca cgtctaatcc cgtcttggcg tctgcttctc ggaggacccg aactgacaca 480 // ID LTR1C repbase; DNA; HUM; 760 BP. XX AC . XX DT 27-SEP-2000 (Rel. 5.08, Created) DT 13-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like sequence - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; MER61; LTR1; LTR20; LTR27; LTR28; MER61B; KW MER61C; MER52A; MER52B; MER52C; LTR1B; LTR1C. XX NM LTR1C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-760 RA Jurka J.; RT "LTR1C."; RL Direct Submission to Repbase Update (31-AUG-2000). XX DR [1] (Consensus) XX CC Similar to a number LTRs listed in keyword (KW) section. XX SQ Sequence 760 BP; 155 A; 253 C; 215 G; 136 T; 1 other; tgatacagaa gggctgggct cccggctaaa ccccaccctt aagcctggaa ccgcggccct 60 aagtgaaaac agctgacccc gtttttctca cccaaatgtt gcctttttgg cctgccccgc 120 ccctatcctg tgcccataaa aagacttcag ctggcagagc aacacaagcg gctgagcgtc 180 gaggatacaa gcggctgagc ggcgagcaga gaagcaactg agcgtcggag actacggata 240 gacgcggcta acttcagacg gtgcggcttc ggagaggggc ccggccggag acggccgggc 300 ttcagggaaa gatcaccttc ttcccacacc atcccctttc cagcctccct ttccgctgag 360 agccacttcc accgctcaat aaagtcttcc gcattcatca cctttcaaac agttcgtgtg 420 acctgattct tcctggacgc crgacaagaa cccgggtgcc gagagggcag gggctgccac 480 cctgaccctc cactgagctg gttggcactt ggccgtcccc ggacggcaga gctgaaagag 540 cattggttgt aacacgcttg gacgctgctg cggggcccgc acagagcctg ctcccgccag 600 agaggagcga ccggccggtt ccagcattcg ttcgctccgg ttcccgcact cgctcgctcg 660 cacgctccct cccgcgagga gtggccagca ggcgggctga gtgaaacgag ccactccagt 720 tcctgcccgc gaagggggtc aagggaacta tcccgtctca 760 // ID PTR5 repbase; DNA; HUM; 630 BP. XX AC X15674; XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Human PTR5 mRNA for repetitive sequence; part of LTR. XX KW LTR Retrotransposon; Transposable Element; LTR12; PTR5; KW Repetitive sequence; KW endogenous retrovirus HERV9 internal sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-630 RA La Mantia G., Pengue G., Maglione D., Pannuti A., Pascucci A. RA and Lania L.; RT "Identification of new human repetitive sequences: RT characterization of the corresponding cDNAs and their expression RT in embryonal carcinoma cells."; RL Nucleic Acids Res 17(15), 5913-5922 (1989). XX RN [2] RA Lania L., Di Cristofano A., Strazzullo M., Majello B. RA and La Mantia G.; RT "Structural and functional organization of the human endogenous RT retroviral ERV9 sequences."; RL Virology 191, 464-468 (1992). XX DR GenBank; X15674; Positions 743 1372. XX CC PTR5 is a transcript from the human endogenous virus HERV9 (see CC ref.[2]). XX SQ Sequence 630 BP; 88 A; 222 C; 211 G; 109 T; 0 other; tgagaggtgg cagtgtgctg gcagccctcg cagccctcgc tcactcttgg ctcctcctcg 60 gccttggcgc ccactctggc catgcttaag gagcccttca gcctgccact gcactgtggg 120 aacactggcc aaggccagag ccagctcact cagcttgtgg ggaagtgtgg agggagaggc 180 gcaggcggga actggggctc gatgcggcgc ttgcgggcca gcgtgagttc cggtggttgg 240 tggcttggcg ggccccagac tcggagcggc tggcctgccc tgctggcccc aggcagtgag 300 gggcttagca cccaggccag cagctgtgga tggtgcgctg agtctcccag cagtgctggc 360 ccaccccacc agcactgcac tcgatttctc gccaggcctt agctgcctcc ccgcaggcag 420 gccttgggac ctgcagccca ccatgcctga gtctcccctg ctgccgccgt gggctcctgc 480 gtggcccaag cctccccgac gagcactgcc ccctgctccc cggtgcctgg tcccatcgac 540 cccaagggct gaggagtgca ggtgcatgct gcgggactgg caggcagctc cacctgcggc 600 cccatgcagg aagccagctg ggctcctgag 630 // ID L1MA7 repbase; DNA; HUM; 1038 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MA7) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M2; L1MA7; L1MA7 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1038 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1038 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 14%. XX SQ Sequence 1038 BP; 413 A; 157 C; 202 G; 263 T; 3 other; ttaatatcca aaatatataa ggaactcaaa caactcaaca agaagaaaac aaataacccg 60 attaaaaaat gggcaaagga cctgaataga catttctcaa aagaagacat acaaatggcc 120 aacagatata tgaaaaaatg ttcaacatca ctaatcatta gggaaatgca aattaaaacc 180 acaatgagat atcacctcac acctgttaga atggctatta tcaaaaagac agaagataac 240 aagtgttggc gaggatgtgg agaaaaggga acccttgtat actgttggtg ggaatgtaaa 300 ttagtacagc cattatggaa aacagtatgg aggttcctca aaaaactaaa aatagaacta 360 ccatatgatc cagcaatccc acttctgggt atatatccaa agganttgaa atcagtatgt 420 cgaagagata tctgcactcc catgttcatt gcagcactat tcacaatagc caagatatgg 480 aatcaaccta agtgtccatc aatggatgaa tggataaaga aaatgtggta tatatacaca 540 atggaatact attcagcctt aaaaaagaag gaaatcctgt catttgtgac aacatggatg 600 aacctggagg acattatgct aagtgaaata agccaggcac agaaagacaa ataccgcatg 660 atctcactta tatgtggaat ctaaaaaagt cgaactcata gaagcagaga gtagaatggt 720 ggttaccaga ggctgggggg tggggggaat ggggagatgt tggtcaaagg gtacaaagtt 780 tcagttagac aggaggaata agttttagng atctattgca cagcatggtg actatagtta 840 ataataatgt attgtatatt tcaaaattgc taagagagta gattttaaat gttctcacca 900 caaaaaaatg ataagtatgt gaggtgatgg atatgttaat tagcttgatt taatcattcc 960 acantgtata catatatcaa aacatcacat tgtaccccat aaatatatac aattattatt 1020 tgtcaattaa aaataaaa 1038 // ID CHARLIE4 repbase; DNA; HUM; 1961 BP. XX AC . XX DT 21-SEP-2001 (Rel. 6.08, Created) DT 21-SEP-2001 (Rel. 6.08, Last updated, Version 1) XX DE Autonomous DNA transposon CHARLIE4. XX KW hAT; DNA transposon; Transposable Element; CHARLIE4; MER80. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-303 RA Smit A.F.; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-1961 RA Smit A.F.; RL Direct Submission to Repbase Update (MAY-2001). XX CC 23% divergence from consensus. XX SQ Sequence 1961 BP; 674 A; 326 C; 314 G; 646 T; 1 other; caggggttct taacctggag tctatggata gaattcaggg ggtccgtgaa cttggatggg 60 gaaaaaantt acatctttat tttcactaac ctctaactga aatttagcat ttccttcaat 120 tatgaatgta ggcaacaaac cacagtagta ttagcagtac ctgtgacttt gtcaccaata 180 gaaatcacag atattttcat atcacattac agttgttgca gatatctcaa aatatcattt 240 atgctcatca ctacttcgaa attacggtag ttattagacc cgccgctaga ttgctcacta 300 tttctccttg cacagtatta caaaggttat agcacagcta tctgcactgg aagagatcaa 360 catggtttgt gaacagtgaa aaaaacttag aagtagtttt ttactcaaat gctgtgatat 420 gtttttgaag gagttcatca aggaatgggc atcctcaaca ttcactttca ctatgtaact 480 agataaaaca atagacacct ctcaatgtaa ccaacagctt gtttttgttc acaatgggca 540 tactgacacc tttaaaaaga gaaattgcat tttttgagtg gtcccttttg gatattgcaa 600 gggctgatga tgtttagaaa cggtaaaaag ttattttgcc gaataaatat ttgactaaga 660 aaaaaaatcg tcatactctt tgcacagatg gagcttctac aatgactggc aatacatctg 720 cttttgctac ttcagtgaaa aaaaatcatc ttatgtcatt gtcacatgct gctttttaca 780 gagacatgca ctggcaacaa aagcttttgc aacaaacctg aaaggagttt tgtcaagagc 840 cataaatgtt atcaataaaa tcagatgtag atctctgagt caccttattt aaatttttaa 900 aaagtaataa tatattcatc tctaccatat ggaaattcaa tggctttcaa gacaagcctt 960 gctgttctgg ctcaaattac atgcagaaat tttacctttt tggaaaaaaa attactcttg 1020 gatcactttg gaagaatgca ttttatctat tggttgattt acctgacagg tatttttaac 1080 caaatgaatg agataaatca ttaaaaattc tgaagtcacc atatggacgc ttctgaaaat 1140 tttcaagctt tcttgactaa gctgccaaaa acgaaatgta gagtcagaag tacttgtgaa 1200 cttcacattc tgagggaaat attttaacat aattgaaagg ttttatataa tgttccatca 1260 atttatttga aaagagaagt ttacaaagac tagaaacaca tcagaacgtt ttcaaaaggt 1320 atttctgcat tgatagcact atagatgaat catagattcg caatcctttc ttctgatata 1380 aactgtgtga aagatgttga actagccaaa gaggaaccca ttgatgttag aaagaacttt 1440 ttacaattag aattttactc aagaagccct ggacaatcct aatgttcatt gtgacaaacc 1500 agtccttgca ttctaaaggg atatatgaaa gctttaattt catgttcaat aatatatctt 1560 tgcagataga tattttctgc tcttgtaacc atcaaaataa aaattaaaat taaaatcaat 1620 tagatgttca tcataaagta tgtgactcca catgttaatg gtcttattca agctaagcag 1680 catctactat cacaggaaaa tgttaaaaaa taatcttaac tcacttgtat ttaatatata 1740 ttatcttgtt atttaatgca ttaataaaga agcacatata ttactatatc acaaatttgg 1800 ttttttaata ttttgataac tgtatttcaa tataattggt ttcctttgta atcctatgta 1860 ttttatttta tgcatttaaa aacattattc tgagaagggg tccataggct tcaccagact 1920 gccaaagggg cccatggcac aaaaaaggtt aagaacccct g 1961 // ID MER89I repbase; DNA; HUM; 6801 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Internal sequence of retrovirus-like element MER89I - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 class; KW Internal sequence of retrovirus-like element; MER89I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6801 RA Smit A.F.; RT "MER89I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of retrovirus-like element with MER89 LTRs CC Only very distant, short similarities to internal sequences of CC other CC ERVs, e.g. to MER57I (ERV1) and HERVL68 (ERVL). Some similarity CC to CC gag/pol/env gene products of ERV1 ERVs, but it is yet unclear if CC the CC element was non-autonomous. 4 bp duplications also point at ERV1 CC class. CC MER89I copies are ~20% diverged from the consensus. XX SQ Sequence 6801 BP; 1955 A; 1588 C; 1240 G; 1819 T; 199 other; gttntcgtgg aggntccacc gagcccntat aacctgnact gtncaccgcc acggacccca 60 gncttcacac aggtgcaaaa ctacccacgg agtgcccctc ttgaaccttg ctgntcacag 120 cgngtggatc ntatgagtgc cacacccggg tctgaactct actctgtttg tgttgagctc 180 ctacagctat ttattcttag tttggcactg ggttttgtta ttggttcccg tttgtttggc 240 gtccttgntn gaatcaggcc actccttcct tcntcctgtt ttgctttcct tctgtgntnc 300 tgtnttgtgc tgtctaaaan tgctgtttgc catagggaga atcgctgagg tagaacacaa 360 gaaggccatg ccttatagnc ctgtctgcnc tgggtcngcc acacaagcag gtgagtgttg 420 ttcttactgg accggtgtnc attcaggcaa gtccgtttgg acaaacattt ttgctntggg 480 tcaccaataa nactacgatg aggttctcct ttcccatcct tctttgtcct gagancttgg 540 ctttgatcca gagagagcgt tactttcggt tttctacctg ccggggagca cagactgttg 600 ggtctgnatt cggaggcggc caactgtcag gttnggtgcc cgagacacga agtgcacaag 660 cataaattcc gaccaactat cgccagctct catggggcct ctaagcctaa atcctctctc 720 ctgcacagtc taaattcctc ttaatacncg ttcccggnnn anaattctcg gtgttatgtc 780 tactttcata ncttnnctnc agtcctaatc tgcagtgcca tttgtctaaa tagaataaat 840 tcatcggaga ggcgccttag aaaataaaga gaccaagtga gtagcanttt ttgattggta 900 tgcagagacc tccanacgaa attctgaatt aaaaaattgc ttcactaaaa gantntttan 960 ccaaaactaa tgggcaactt gacaaactta agcagnaaca aagtaatttc cctagtaaat 1020 cctccccgct ccttgtcctc cattgcttnc ttatatacgg nactcctcct cccnttntcc 1080 ttctgatctc tctccttctg cacccccgtc gactcctccc tcttcttccc cttgtccaga 1140 ccaactacct tttcctaacg actccaaata atccagttgc ctctaaagat ccattcctcc 1200 catgagccaa gtntgcaggc aactgtagaa tttaaacctt ggacccaggc tgaatnaaga 1260 gctataatta aaaattttcc taaacccaga gaagaccagc gantattcat agaagaatna 1320 naattatttt gggtgcatat gacccagggt tacctgacct atatcaantt gtacacatat 1380 tgatcagaaa ctcagatgct aaatcctgga tggcaaaagn taattggact gacccggaaa 1440 gggatctata ngatccttct ttccacaata aacctgaggg tcaaaaaang gcccaaaant 1500 aggncaaagt cttctaaaag ccatncctga aacatttaca ataaaaatta attgaccata 1560 attcnatcac gcaaatgnac aaaggaagaa aatatgaaac tgctaggtat tttcaggata 1620 gacgaaaatg ctgtctacga tatttagnag tcaaagaagt tcancctgnc gataaagacn 1680 taattngaaa acagaaatta gaatggaaaa atcacccttt acctcaacta caatacctgg 1740 cagaacattt tgaaagggct ccagaacaaa agcaagacaa gatccaaaat aaatttatgg 1800 ncctacagat caaacagctg ggtggcccac tccccaacag accacctact gacaaggata 1860 cttgtagana ttgtaaacag aagggacact ggaaaaagat ngtcccatct tanataaaag 1920 ataaancaaa gacaaagaaa natccctcaa ttcagatcag tgagggtgtt ccgaggaaga 1980 gaaatgcatc caatatcttg ccntaacttt aaacactcaa ggtnaattaa ctataaatat 2040 agntggtcaa cctcaatcna ttcctggtng atatgnaagc gctactcttt ctacattaaa 2100 tcttgtcacc tttgcttaac ttcttcctcg gagtaaacat accacacagg tggtaggtat 2160 ttnaaataac ccncagattt tccccatctc ccagtcctta accgtaaccc atggtccttg 2220 actgaaaaca ctccttcctg ctctgtgata ccacccctgc aaatttaata gggaaaatat 2280 ttactttgca aatggaactg caatattaag tgcataccag agggactatt tcttgaggtt 2340 ccagagaact cctctgttca taatcangat gtgtctgctc tngatatacc tttgcttcct 2400 ccattacatc tgatgtgtac cacagatana cacaccatan ntgacactnt gtgggctaaa 2460 anttccaccg acgtaggaaa antaattaga gcagaactta ttaaaattca gatatcctac 2520 caaatggtta cactccnaat ttctgctttt tnccttnacc tggggaggac aacgntanac 2580 ctggaaagtc atgccccaga ggtttactga agccctctcc tactttcccc aggtcctcaa 2640 tcaagactna aaaganctaa attttctgtt gngactcagc tctgnnacaa tacgtanatg 2700 atctncttaa agaaaaaata ctttgttcag agaacaagga agcttgtaaa aagagattcc 2760 anttacttgn tctcggcctt agcactgaag atggacataa agtttcaaaa gataaatcac 2820 caatttttgc caaagcacag tccattattt agggcatgac ctatccgaag agggaaaaca 2880 ttccctcccg atggactaaa gancatncaa ncttatccta gacccctcac aaaatgacaa 2940 tcgagaggat ttctaggttt aactggatat tgcaggaaat gagtgtcaag tatttttctg 3000 agattgcgac acctcgttta tnaattgagt aagtcgtcaa caggataagc tcccttctcc 3060 ggganctgaa gaagnctctt caacagcctt cttccctagg catcctacaa atgaaagccn 3120 tnttgtctat ttatacataa gcgatctgga caagcccttg gggttttaac tcaacttcat 3180 gggaaccatc taaaaaagcc atcgtttaga ntagcttcac ccttgacccg gttgcaaagg 3240 ctcatccccc ttgccttagg gcagtagctg ccactncaaa acctgctggt gcttctgctg 3300 aactagttct aggctccccg cttgacctca tggttcctca cgcagtacag acattactnc 3360 tgactgagaa cacacacttt tcagccagcc gattaacctc tcatgagatt ctgttactct 3420 ctccctctca cattactatt caccgctgca acaccctgaa tcctgccact ctcgtgcccc 3480 taccagaaga agggatcctc ntgattgtct tacctcagnn aggaaacttt ctgcacctca 3540 gtcagattta ttagaaactg ccattgagaa cccngaccta atattatttg ttgatggatc 3600 gtacctcaaa actgaaactg gaggttatca ancaggatat gctatcacta atntaagctc 3660 tcctttggaa tacagtcctc tacntgaggt aaaatcagcc cagatggcag aantnattgc 3720 acttactaaa ctcagggact catcaaacta tgtccagttt gtcaatggac nangacctaa 3780 caaacanata acaggtacgn tttnggagca gtacatggct ttgnnatgct ttggaaacaa 3840 aggagnntcc ttacatctgc tggaacnccc accaaaatgg gcaagttagg gaacttttag 3900 atgcactcct attcctagag gagttattac aaagattgaa gctgacgaaa tataaaatac 3960 ggacggtaaa agagacgtct ctaaggagtt gattttgcta aanaagcagc cttaatcaag 4020 gctgtagacc tatataatct tagaggataa anctctggaa gggctcanag gacgccatta 4080 taagcagtat cantgtttag ctcctnattt tgaaaaaaaa aaatgaaaaa aatctagttc 4140 tagcnttcac tcagataatc tctggcactt tggtggcacc agatgatttc aaatnaatat 4200 tagntatntt tccatgaaac tattcatcat gtatagacaa atggttatta tcttaaatca 4260 atattggttg gaanactttg aggaaacagg anaggttgnt tcccgatgaa gtgtaacang 4320 ncagnnacan aatgctggga gaaccctgan gntgagacat ggacacgaan cgaagcctaa 4380 agggcccttt ggncacctca ggtagatttt ccccagtttt cactctcatg ggatctgaaa 4440 atattttcgt tatcaaatgt gtgttttcag gatgtgttga aacatttcct tgctcaaaag 4500 gtacagccct tacagtcggt aaaangctcc ttgattttgc gtttccaacc tgggcctacc 4560 aacttttaca tnaagtgact gaggcatcat tttatgggaa ccattataaa agaactctgt 4620 gaggcgtngc cccttactca agaacgacac tgccctnacc acccacaatc ttctgaaaag 4680 atgnaaggaa cnaatgacat ccgtcaagcc acttagcaag tctttcggaa acccttgagc 4740 ttccttggcc aaatgtactc ccactagcnc ttatggccat atggtccgct cgctcgagga 4800 cgtatcggtt atctncccat gaactggtga ctggaaggcc cntncattta gtgaattcac 4860 ctccgatact agactctgct gcacacagan atgacaaaat antcaaagga ctcaggcact 4920 atacncaatc ttattancaa taggttaagg ctgcctcccc acgacatctt tacgaatttc 4980 ctncttaatg atcttcaacc aggagatttt tgtctattgg aaaggacatc agagaaaaac 5040 tgctcttgaa cattcattgg aaannacctt atnagggact ntatcaagta ctattaataa 5100 caaatacagc agtgaaactc cagggggtca gtccttgggt ncatgtttca caactaaaga 5160 agcaattcag aattccacac aactagaagg ctactccaac agaggaactc aanctgggat 5220 tctcagagat nctntagaan cagtcgntct tcagaagcag acggctgacc caagaccttc 5280 ngaacaagat aatgacctcg ganagcggac agcttctgcc caagatatcn gaccaagacc 5340 cctgtctaat tcctgttttg tttttcatct gcttanttat aatcattctc ctcattttcc 5400 atagacccct ggttgtcatc cacccataat ggtccttttt ctcttttctt tcctccttat 5460 tataattgtt aggtcagaac atactcattc taatgccatt cttaggttat cccaaacagt 5520 agccactgcc ctcaatntca ctgactgctg gacatgccat ccatcaccag anccccatga 5580 taaaaacctc tgggcaattc cagtctcatc aaatgagacc ntagggaatt atagccgacg 5640 gcatttccac ttgnacctac atggacaaat gaccttaaac aaatcaacct gtgactttgc 5700 tagcgtccct ctctcccaga aaaagaacca attattataa tctattgatc ggaccctagg 5760 taattctaaa tttgaattca acaaccttca tagggcgatg agcnaattac ttgccaccng 5820 gaaganacta atagagatcc aaatatgtaa cccagctaac gtaaggcctt ggttccaacc 5880 tcatgtcatg agcaactcct tttntatgga tctccatgtg cccctactag acactacttc 5940 cttgngnccg gacanctggt cctgcttgcc tcagacnaac acctcatgca tnttagaaat 6000 ngtattctga gatcttnctg gtacacagag accctaattc tataaatcac caaggctgga 6060 aattctgact cagacgcgag ctccaaaacg aggccaccct ttaactattt aggcactcta 6120 cctgggagaa ttactgactc attgtttatg caaacaatca gagcagtgtt cccaacggtg 6180 ggaatcatac aaacagaaaa gactgtaaga aatntatcac taactctggc agaagttatt 6240 gacgatacca cctctgccct agatggaata cagatcantc tcaactcgtt ggcacgagta 6300 gtgatggaca atcncattgc tctagatttc ttgttggcta gccatggtgg cgtctgtgcc 6360 attgctgata cttcttgctg tacntggatc aatgaaacag gcaaggtaga acagnctata 6420 catcacctta aggaaaagct acctggctct ctaaggttga tcctcatggc ctatgggatt 6480 tgttctcttg gcctgggttg ggcaattggg gttcctggtt ccaaagcatc ttacagggac 6540 tattaattgt tcttgttttt gtcatagtgg tcatgatgct ggtccgttgc attccatcca 6600 gagtcttaaa tgcttctgcg cagccgctct ctcatcagat gatcgccatg atgatacaac 6660 aacaaaaagg tcaagaagat ctcgcgatac agttgactat ggagacaact gaacaatctt 6720 caagcggtga agatctggat ctctagcctt ccctgaattg gccaacctct tgcaagtgag 6780 agaatgacca aaagggggga c 6801 // ID MER34A1 repbase; DNA; HUM; 587 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from placental mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER34A1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-587 RA Smit A.F.; RT "MER34A1 - ERV1 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC mer4 group Intermediate between MER34A and B. 15%/18% in CC dog-human. XX SQ Sequence 587 BP; 160 A; 151 C; 97 G; 173 T; 6 other; tgaagggtag cagaatatgc caccccaaaa tatgccactt tggcataagg attattttga 60 gctgaaggca attgagaaga agcagataca agaaaagctc tctgccctcc ccctatttgc 120 ctaaaagcag gacataaatt tgtaaaggtg tccccctccc ctctctacca ggaaggacag 180 aagttaatca ccggagacaa ctctagaccc ttatcagccc ggaganggca ccggaggaat 240 ctacataaca aaccttacta antagccctt atcttccatt agttccccca tatatttacc 300 ttcccacaat ttgccacccc tagaagctca aagccctttt cctttgtctt gtcacttctc 360 tanaaattta ttgttctttg tttaagatgc tatataagcc caagttctaa ccaccccttt 420 gagttactca ttccctgagt gtctcccatg tgcatgcacg atgcacatgt taataaactt 480 ctgtttgttt ttctcttgtt aatctgtctt ttgtcagtct aatttncagg gccccagcca 540 nngaacctaa gatgggtaga ggaaaaagtt ttttttcctc ccctaca 587 // ID L1M7_5end repbase; DNA; HUM; 2237 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1M7_5end. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-2237 RA Smit A.F.; RT "L1M7_5end - L1 Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC ORF1 from < 699-1658. ORF2 starts at pos 2088. L1M7 is a CC temporary name. Quite close (80%) to L1MC4_5end from 846 to 2237 CC (end). XX SQ Sequence 2237 BP; 922 A; 401 C; 487 G; 397 T; 30 other; gatgggactt ccggtttgaa natggcggna taaagtcggc atttccccct tctcctcctg 60 gaaatcaccc aaaagcaaca aggagaatga gaaacaaaaa cgcaaactcc atcttcggtg 120 aaactaggag acagctataa accccgaacc acaaaatang tggaagggct gccaaaagca 180 gcggagatca agcagagctg gatgcgggaa gaagcagaga gaggacgccg tggctgcaga 240 tctcagaaag agccagcaaa gtacanttct ccaaggtgag gggcacaccc tgaggtgcaa 300 aacctaaatc ccttgtttgc aacagcggga acagggtgca cgggctggcg gcaggagctt 360 ccctggaccc ggtttggttc cgagaagcag aggaggcggg gctaaacgag gaatcacaca 420 gacaagccat atttgcagga agcagtctgt ctctgtggca gnggggagga gagagacttt 480 gcattgtgaa cagccccgca gctgcctatc tctattggct ggggagaagt aaaggctaaa 540 aaactcacac acaaaaccct gngtcataag gaaaattcct gctagcctgg aaacggccct 600 ggcccctccc ccacatgaac ctcctgcaaa tagctggtcc aggaaaaact cacctcattc 660 aaagatgagt aatcaaaaag gaaccagcac aggatctata caaagatact acaagaaaaa 720 aggaggaaag aaacaggaaa aacaaatggc agatgaagaa cactcaccag aaaaatgttg 780 ccatggagca gatgaaaatt gtgaccaaat atttcgccat gaatttaaaa aaacttaatg 840 aagcaattac ctctatgaag naagagcaca aagcagagat acaagagctc agggaagaga 900 tggcgagaca acagaaggag atgaaatatg agctggcaga gctcaggaaa gaaatggaag 960 agaaaaataa aaccatcaca gaaatgaagg cgaaattgga agnagcacaa gggagaatag 1020 acactgctga aaacacagta agggacatag aggacagaaa tgagaaaagc aagcaaaatg 1080 aaatggaaat gaacaaagag tttaaaagga ttagagagaa aatgatagat atagaagaca 1140 ggcaaaggag atccaacata tgcataattg gagtcccgaa ggaaaaccaa aacaatggaa 1200 cagaacaaat atttaaagat ataattcaag aaaactttcc ngaaataaaa gaagacttga 1260 atctacanat tgaaagggca caccgtgtcc caggaaaaat tgacncagaa cgatcaacac 1320 cgagacatat cctagtaaag ttactggact tcaaagataa agaaagaatc ctttgggcat 1380 ccaggcaaaa agatcaagtc acctataaag ggaaaaaaat caggctggcc tcagatttct 1440 ccacagcaac attcaatgct agaagacagt ggagcaacgc ctacaaaatn ctcaaggaaa 1500 gaaagtgtga cccaagaatt ttatatccag ccaaactgtc nttcaagtat aaaggcacag 1560 aaaacatttt gaacatgcaa gaactcaggg aatatngttc ccatgagccc ttcttgaaga 1620 aactactaga ggataaactt cagccaacca agagatgaat ggagaaacta cggcaaaagg 1680 actggcggtg agcactgaat ntatttaact gtaggactaa gactaaaaca aatgtgggga 1740 ttatggtnan agaacagaat gtaaatgtta taagccctga caatgtagaa atgatacaac 1800 taaaaaatgg gaggagagag ggggaaagga gaaagtagaa taagtncact gatttcctca 1860 tctttaatag ctgggagtca aaagatatca tttaaagctg ataaatcaag taatagaagc 1920 ataaataagn aaatanagga ntaaaggcat tatgaaaaag tataatacaa agataancat 1980 tanaacaaaa atggaaacct tcttaaanat canaagaaan aaaaataaag aaaacaaatt 2040 acatgaaana tagaaaatac aagataaaaa canaacataa aataanatga cagaactaag 2100 accaaacata tctgtcatat caataaatgt aaatgaacta aactcaccta ttaaaagaaa 2160 aagattttca gattggatca caaagcaaaa cccaactnta tgctgtatac aagagacaca 2220 cctaaaacaa agtgatt 2237 // ID MER104C repbase; DNA; HUM; 729 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Non-autonomous Tc2-like DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; MER104C. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-729 RA Smit A.F.; RT "MER104C."; RL Direct Submission to Repbase Update (05-MAY-2000). XX DR [1] (Consensus) XX CC Tc2-related non-autonomous DNA transposon. TA target duplication CC site. CC 30 bp terminal inverted repeats. Average divergence from CC consensus CC 25-26%. CC Shares bp 1-154 and 626-729 with MER104, MER104A, and MER104B. XX SQ Sequence 729 BP; 217 A; 133 C; 163 G; 212 T; 4 other; ccgtatttca tcgattctaa gatgcacatt ttttcacatt ttaacatctc tgaaatcggg 60 atgcatctta caatcgatgg catcttacaa tcgctgtcag ccaggcggca gtcgtgacgt 120 agttgtcatt gcctgcacgt gtgcgaactt ggtcatagct gttcatattg tcatcacttc 180 aattgagtta tgtgcattgt tggtactaca cgtgttgagt ttaattgcca tttaaaatgt 240 cttcaaaaag attacactat gattcagcat tgaaatgaaa agttattgtg tacacagaaa 300 ggcacggaaa cagagcagcg gggcgtaaat ttgatattag tgaagcaaat attcgtcgtt 360 ggaggaatga ccgcaattcc atattttctt gcaaagcaac aaccaagtgc tttatgggac 420 ctaagaaagg aagataccca caagtagatg aagctgtgtt acgttttgtt nctgagatac 480 gtgcaaaagg attgcctatc acacgccaag caatgcaact gaaggcagga gaaattgccn 540 aatcccncgg aatagatgaa agaaatttca aagcaanaag aggctggtgt gaccgattca 600 tgcgtcgtgc aggactatcg ttaaggcatc gtgtcatagt ttaattggca gcgttttttc 660 tttcttagtg gtacataaaa taatggtgcg tcttacaatc gatggcatct tagattcgat 720 gaaatacgg 729 // ID LTR83 repbase; DNA; HUM; 780 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR83_LTR; LTR83. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-780 RA Smit A.F.; RT "LTR83 - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC Classification only on 5 bp TSDs. Orientation based on AATAAA at CC pos 61-623 which is conserved in the related but otherwise <60% CC similar LTR84 consensus. 27% subst in dog-human; CC rnd-3_family-1900. XX SQ Sequence 780 BP; 217 A; 156 C; 190 G; 208 T; 9 other; tgtccagggg acccttggac aatcctgcct cagcaggcca agggggcttc ttggccattt 60 gccatgtgac aatgcttcct tcatctgtga acanatggac ttggtaaact gtcactagga 120 gagcatggta cagcaaggct taggccattc cattcccang agataattta tataagttat 180 aacaagggaa gggaacgaaa gcatgagatg ttcttcagtc tttatatctt gcnctatgtc 240 atgagaattt ttgcatgctt gctactttgt aatatctctg ttagagaata gaggaagccc 300 gcctctcagt gccccaaatg agaaaggaaa agttgtaatt ggatgtcatc actgtcaatc 360 atcttgggta taaaagaggg aggcaggtca cctcangagg gagaaagcag tgaccaggtt 420 atgtccacgg agcttgaccg tggacaaacc tctttttgtc cgcccctcct aagatntggg 480 gggggggggg nggggggtct tcaanttctg ctcagacttt tgaaacagtt caaataagga 540 gagaaacctc accagcagag ggctgagaaa ccagtgcggg taatatctga ttattactta 600 atgttatctt gagtagaaaa taaagggact ttgttgaaaa acccttctga ctgatgtctg 660 tctcttggag ttctgaacct ttcactcact gncttataaa aagaanctat taattaattt 720 ggggcctggc aaggagaagg gagtctcccc tgatctttgg ccaaaaattc ccctaaaaca 780 // ID LOR1 repbase; DNA; HUM; 495 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human low copy repetitive sequence - a consensus. XX KW LTR Retrotransposon; Transposable Element; LOR1; KW Repetitive sequence; putative LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Straubinger B., Pech M., Muehlebach K., Jaenichen R.H., Bauer G.H. RA and Zachau G.H.; RT "Molecular footprints of human immunoglobulin gene evolution: a RT new sequence family."; RL Nucleic Acids Res 12(13), 5265-5275 (1984). XX RN [2] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RA Kapitonov V.V.; RT "LOR1."; RL Direct Submission to Repbase Update (1997).. XX DR [3] (Consensus) XX CC The LOR repeat is a putative LTR of an unknown endogenous CC retrovirus. It has 4 bp flanking site repeats. CC The estimated number of LOR copies per haploid genome is about CC 1000 [3]. CC A copy of the LOR1 sequence family is found in each 3' CC flanking region of a set of kappa I V-region genes. XX SQ Sequence 495 BP; 124 A; 131 C; 72 G; 139 T; 29 other; tgaaaccgrc ccaattgtcc catagaactg atgtttatrg tttttttgaa taaacataga 60 aattgaccct cctggtctta aarcttgaaa cttacatttg tyttatctga gttccttcct 120 caggaaacca acyntcaggc ctcycaaawa gtatcaarga actgaaactc accagatcac 180 yrcatccaga caatgagayr ccagacccct catycatcat gattgcctaa ctgaccacct 240 gctkcctgtt gaccaactcc tcttccttac ccctccctaa ttcctgtttt cyyacacata 300 gttacatttc ttccctgcta tataaacccc yaattttagt yngtcaggga gatggatttg 360 agactgatct cccatctcct cggctgcagc accyrawtaa agccttcttc cttggcaata 420 mtyrttgtct cagtgattgg ctttctgtgc agtgagcagc aggacctaga cyraacccct 480 ggtrtttcag taaca 495 // ID THE1A repbase; DNA; HUM; 355 BP. XX AC . XX DT 24-JUL-2000 (Rel. 5.06, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 1) XX DE Long terminal repeat (THE1A subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LRS; LTR; KW MaLR family; O-repeat; THE1A; retrovirus-like MaLR element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Sun L., Paulson E.K., Schmid W.C., Kadyk L. and Leinwand L.; RT "Non-Alu family interspersed repeats in human DNA and their RT transcriptional activity."; RL Nucleic Acids Res 12(6), 2669-2690 (1984). XX RN [2] RA Paulson E.K., Deka N., Schmid W.C., Misra R., Schindler W.C., RA Rush G.M., Kadyk L. and Leinwand L.; RT "A transposon-like element in human DNA."; RL Nature 316(6026), 359-361. XX RN [3] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX DR [3] (Consensus) XX CC LTR of THE1A retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 7.5% CC 90% full-length similarity to THE1B. XX SQ Sequence 355 BP; 71 A; 92 C; 83 G; 109 T; 0 other; tgatatggtt tggctgtgtc cccacccaaa tctcaacttg aattgtatct cccagaattc 60 ccacgtgttg tgggagggac ccagggggag gtaattgaat catgggggcc ggtctttccc 120 gtgctattct cgtgatagtg aataagtctc acgagatctg atgggtttat caggggtttc 180 cgcttttgct tcttcctcat tttcctcttg ccgccgccat gtaagaagtg cctttcgcct 240 cccgccatga ttctgaggcc tccccagcca tgtggaactg taagtccaat taaacctctt 300 tttcttccca gtctcgggta tgtctttatc agcagcgtga aaacggacta ataca 355 // ID MLT1H2 repbase; DNA; HUM; 484 BP. XX AC . XX DT 07-MAY-2001 (Rel. 6.04, Created) DT 07-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Mammalian long terminal repeat (MLT1H2 subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MLT1; MLT1H; KW MLT1H1; MLT1H2; MLTF; MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-484 RA Jurka J.; RT "MLT1H2."; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC The closest relative MLT1H, is ~77% similar to MLT1H2. CC Next closest MLT1 is from the MLT1F subfamily. XX SQ Sequence 484 BP; 132 A; 117 C; 119 G; 116 T; 0 other; tgtggtagat ggttacattg gtggccccca atgaaccata cctcctagta ttcatgccct 60 tgtgtagtcc cctcccacat tgactctggg cttggccatg tgacttgctt tggccaatgg 120 gacattagca aatgtgatgc aagcagaggc ttgataagtg cttgcacatt ggggcttgtc 180 ctcttggaat actccctctt ggaacccagc tgccatgcta aaagaagctc aggctagact 240 attggatgat gagaggccac atgggagaga gaccctggaa gatgagaggc catcttggac 300 attccagccc cagtcaagct cccagctgaa tgcagccaca tgagtgaccc cagctacacc 360 atgtggagca gaagaaccac ccagctgagc ccagccaaca cagaatcatg agaaataata 420 aattgttgtt ttaagccact aagttttggg gtggtttgtt atacagcaat agataactga 480 aaca 484 // ID MLT2D repbase; DNA; HUM; 388 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Interspersed repeat MLT2D - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Interspersed repeat; MLT2D; MLT2D LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX DR [1] (Consensus) XX CC This sequence is a human endogenous retroviral LTR. XX SQ Sequence 388 BP; 102 A; 81 C; 82 G; 122 T; 1 other; tgtgatagtt aattttatgt gtcaacttgg ctaggctatg gtgtccagac gtttggtcaa 60 acattagtct gggtgtttct gtgaaggtta ttttttggat gagattaaca tttaaatcgg 120 tagactgagt aaagcagatt accctcccta atgtgggtgg acctcatcta atcagttgaa 180 ggcctgaatg gaaaaaaagg gctgaccctc ccccaagtaa gaggaaattc tgcctgcctg 240 atngtcttcg aactggaata tcagctctgc ggattttgga cttgccagcc tccataattg 300 catgagccaa ttccttataa taaatctatc tactctctct acacacaccc tattggttct 360 gtttctctgg agaaccctga ctaataca 388 // ID CHARLIE2B repbase; DNA; HUM; 2782 BP. XX AC . XX DT 28-JUN-2000 (Rel. 5.05, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE DNA transposon. XX KW hAT; DNA transposon; Transposable Element; Charlie2; CHARLIE2B; KW DNA transposon fossil; hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-2782 RA Smit A.F.; RT "CHARLIE2B."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-2782 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC An alternative internal deletion product of a member of the CC hobo/Activator/Tam group of DNA transposons. It shares bp 1-625 & CC 1684-2782 with CHARLIE2A. Full length CHARLIE2 fossils are rare. CC 15-16 bp terminal inverted repeats. 8 bp target site CC duplications. CC Individual copies on average 23% diverged from consensus. XX SQ Sequence 2782 BP; 879 A; 483 C; 503 G; 896 T; 21 other; cagtggtctt caaactgggg tatacatacc cctgggggta cgtaaagact ttccaagggg 60 tacgcgggca cggatagttt taagggaatc aatttccaga tcctcaactt ccatatgtac 120 tctttcctaa aactgatctg cctgagaacg tacctgtggc gaagtctgcc ctttcccact 180 tcccctttca caattgccct tctcccactt tacaaaagaa aggcatatct ctcacccatc 240 ccgaatctta ctatggtgca ttgccccggg gtgtaaaaac ctccagggcg ccaaacaaag 300 ggacaattcg aaatattggt gttggggaag cctcctttaa tgattaatca aggcaccata 360 aacccatggt agggcttcct gtctttccct gtcttataca tatttctgtt aagggtgaag 420 catggcgtta gaaatggggt attttggccc gtgttgggat gttctgaatt cagatatatt 480 gtagagtggg gcagtggaag tgatgacaat tttcgtttaa tgaccttgcc tcttccattc 540 cccgactatt gtcaaagaat gcattgctcc tgagggagag tcccgtgaga gcaaagcaaa 600 gagagcatcg gtaagaaata ctgaagatgg cagtgcctta tttcatccag gtgacaaact 660 catggcgagg tctttttgtc tcaganttng aatattcaag atttgtaaaa agtatnctgg 720 gaaataccaa tnwgctacga agcatanctt ctctgcattt tcaccattct cagtawtgag 780 aaagagcctg gtgagtactc tcattcacct gcgtcttaat ctgtgtctca gttgcatatt 840 ttgcatgatt tcaaggaggt ggaggcgaaa agctccgcat ttacttccaa cagatcaacg 900 tcacatcttc aagnaaanga aacacatatt ggaggtaagt tagtgtttta tattttctta 960 aacatttatt cagacttgta ggagaaacat tttcattaac ttttgccaaa gattnctgga 1020 tactgtaaan ctatattcat tttttacttg ggcacaagtc tcctgctcgc tgtcactcnt 1080 caaccacttn tctgctcatt tattcattcc tgccatgtac ttattagatt tagattaact 1140 taacgggaat atgttgtgga ttctactgta aataatgcac ttaaaacaat cattaatnca 1200 ccttttgtaa gccctatact tactagtggc ccaatacctt ctctctcctt ttgctgttaa 1260 tttccacaaa gtagattaaa ntgcactctt aaaagtagaa catttactta tgtacgggtg 1320 taggacaaaa tgttcccaaa atgcaatcta ggacgtaatg ccctgaactt tagaaaacca 1380 gcttcattta attaggatta atttctccct ctcagatgtt gatatgctgt tctaattctg 1440 tcaaatgcat aattataaac aatcattttc aacnatgaaa tgaaattact aatccatata 1500 tacataaaaa ctctcaagna tgtntctctg tctatctgtc acgtcttttt aaggtgcttt 1560 gagacgacct ggaaaaatga aatttggcat gaatatatag gtctttgttc acagtcaatg 1620 ggaaaagtcc taaaatgcac aatttaattt ttttaggctg atataatcta cttgtagctt 1680 canaaacaag gtgcctctaa gtgaaagagt aacaggtata attaatagtc atttgataag 1740 tcttggtaaa gcctttttgg tatacttccc agaaattgag aaagtgaatg actctaatga 1800 ctgggtaaca aatccttttg caagtcaggt ggtttccaat tctttgcttt caacaaaatt 1860 gaaggaggac ctaatcgagt tgtcagctga tagatcatta aaaataattt ttgatgatag 1920 atcactatgt gatttttggc atataactcg gaaggagttc aaagaattga gtgacattgc 1980 tataacaaaa ctccttccat tcccatctac ttatttatgt gaacaaggtt tctcagcgct 2040 tacatctata aaaatgaaaa ataggaatag aattgatgct gaaccctgtc tcattctagc 2100 aataagtaat attcatccac ggatacatga actaattggg aaaanaaagc cccatccatc 2160 tcattaagag atgcatttcc aataaaattt tactttttat gtttaatatt tatcaaaatt 2220 tgtaatatat ttatgttgtt ttgatcaatt gtatactaat aataattgta atgataactc 2280 aatccagaag aaaattttta acacttagag ccttatggtc acaggaaata taaaaaatta 2340 aatttcaatt tatatacata tttttgttgc agagaagtat gatagggtga tcaataaaag 2400 actttcaagc ataaaaatat attacattag gataaaattc tgtgggggaa gtggaatgga 2460 aatatgagtt caaggagaaa aagagaacga tgtaaaattt ctgactgtta aagaagagct 2520 tgttcatgta ttttttaaat ggatgatggt gggtatcaaa tcgctatggt atttagattc 2580 cattggatac atttaaaaga gtgatgtaac agttttattt taaaatgtca atatttacaa 2640 tatgccagaa attacatcct ttgcaactat ttaaacttat gatgaaaaat tttagatgtc 2700 aacttaaaaa tgtgcgaggg ggtacatagt ttttcaaaat tcttttaggg ggtatgcgag 2760 caaaaawgtt tgaagaccac tg 2782 // ID MER44B repbase; DNA; HUM; 550 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER44; MER44B; KW mariner/Tc1 superfamily; Repetitive sequence; TIGGER7. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-550 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 1-550 RA Smit A.F.; RT "MER44B."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Internal deletion product of the TIGGER7 DNA transposon. CC 23 bp terminal inverted repeats, TA target site. CC Consensus sequence reversed from [1] in agreement with Tigger7. XX SQ Sequence 550 BP; 134 A; 128 C; 119 G; 169 T; 0 other; cagtagtccc cccttatccg cggtttcgct ttccgcggtt tcagttaccc gcggtcaacc 60 gcggtccgaa aatataaatg gaaaattcca gaaataaaca attcataagt tttaaattgc 120 gcgccgttct gagtagcgtg atgaaatctc acgccgtcct gctccgtccc acccgggacg 180 tgaatcatcc ctttgtccag cgtatccacg ctgtatacgc tacccgcccg ttagtcactt 240 agtagccgtc tcggttatca gatcgactgt cgcggtatcg cagtgcttgt gttcaagtaa 300 cccttatttt acttaataat ggccccaaag cgcaagagta gtgatgctgg catattgtta 360 taattgttct attttattat tagttattgt tgttaatctc ttactgtgcc taatttataa 420 attaaacttt atcataggta tgtatgtata ggaaaaaaca tagtatatat agggttcggt 480 actatccgcg gtttcaggca tccactgggg gtcttggaac gtatcccccg cggataaggg 540 gggactactg 550 // ID HERVK22I repbase; DNA; HUM; 6823 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 04-JUN-2009 (Rel. 8.11, Last updated, Version 4) XX DE HERVK-related endogenous retrovirus flanked by LTR22s - a DE consensus sequence (internal portion, without LTRs). XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK22I; KW LTR22; HERVK superfamily; LTR22C0. XX NM HERVK22I. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Kapitonov V.V. and Jurka J.; RT "Internal portion corresponding to LTR22C0."; RL Direct Submission to Repbase Update (31-MAR-1998). XX RN [2] RP 1-6823 RA Lavie L., Medstrand P., Schempp W., Meese E. and Mayer J.; RT "Characterization of the human endogenous retrovirus family RT HERV-K(HML-5)."; RL Direct Submission to Repbase Update (07-DEC-2003)(in RL preparation). XX DR [2] (Consensus) XX CC This internal portion is most closely associated with LTR22C0. CC Average similarity of HERVK22I individual copies to the consensus CC sequence is about 91%. CC 6 bp target site duplications. HERVK22I is flanked by LTR22s. CC Similarity of HERVK22I consensus sequence to known retroviruses CC is shown below: CC ---------------------------------------------------------------- CC sequence begin end sequence begin end similarity CC ---------------------------------------------------------------- CC HERVK22I 287 445 HERVK 281 439 0.64 CC HERVK22I 1176 1429 HERVK9I 1062 1322 0.63 CC HERVK22I 1441 1869 HERVK 1863 2336 0.65 CC HERVK22I 2346 3009 HERVK9I 2380 3048 0.64 CC HERVK22I 3046 3353 HERVK 3659 3966 0.65 CC HERVK22I 3706 3805 HERVKC4 2027 2126 0.82 CC HERVK22I 3873 4359 HERVKC4 2127 2606 0.86 CC HERVK22I 4385 4821 HERVK 4975 5427 0.66 CC HERVK22I 4910 4979 HERVKC4 3080 3148 0.74 CC HERVK22I 5028 5065 HERVKC4 3149 3186 0.64 CC HERVK22I 5114 5334 HERVKC4 3187 3408 0.79 CC HERVK22I 6654 6785 HERVKC4 3401 3531 0.80 CC ---------------------------------------------------------------- CC PBS for methionine tRNA: nt 3-20 CC Putative gag gene: nt 138-1692 CC Putative protease gene: nt 1533-2327 CC Putative polymerase gene: nt 2270-5002 CC Putative envelope gene: nt 4779-end (+37 nt for LTR22 and LTR22A, CC +73 nt CC for LTR22B) CC PPT: nt 6810-6823 CC frequently deleted region in gag-prt: nt 768-2303 CC frequently deleted region in env: nt 5314-6641. XX SQ Sequence 6823 BP; 2051 A; 1655 C; 1397 G; 1720 T; 0 other; ggtggtgccc cgtgtgagga acgctgcaac ggatcgcgac ggaaccctca aaaatgaagg 60 tgaagagact gcgcagtcag taagtcattg gtgcccgctc gggatttcca agttcgaggg 120 aattgttcag gctagggttt catcatggga caacagttat cagctcaaca gaaacagtat 180 ataaaagtat tgaaacagct gcttaaagct agtggagcct cggtttcaca ggctcaatta 240 agggacctaa tgcaaactgt tgtttcccat aacccatggt tcccagaaga aggcacgcta 300 gacgtagagc tctgggaaca agtggggaga aatcttaaac aacatcatgc acaagggcaa 360 cgggtcccag taacatcttt aacgttatgg gccttagtta gggctgcttt ggtcccactc 420 tacacagaag agcctaaaaa gggaagggag gaggaaccat cacctacctt accgcctcct 480 cctccttcag ccccgccatt accgggcaaa aataccaaag aggaaacaga ggttttgcct 540 gagccccctc ctccaataaa ttggaaaaaa gacaagggat acactacagc tatgggaccc 600 tgtcttaggc aagcggcatt agaaggggag ctcttagcct gcccggtaat gcaagatcaa 660 caaggcaatc aggtacatga acccatttct tttaacgctt ataaagagat aagaaaaagc 720 attagagaaa atggagccgc tagcccattt acgaaaggat taattgaggc catagcagac 780 aacttccata tgaccccatg ggactggtca gtgctagcta aaacaacttt agagcccagt 840 caatacctcc tctggagggc agaatatgat gagttgtgtg aacaacaagc caaccagaat 900 caagtggccg ggcaagacat aacagctgct atgctccagg ggaggggtcc ccatgccaat 960 gtacaacaac aactaaattt tgatccccag gcctatgcac aagtgtcttt gtgtgctctc 1020 agggcttggg accgaattcc cgaaagcgga gttcaacagg gatcttttat aaatgttcga 1080 caagggcctc aggagccatt tgttgaattt atcaatcggt taacccaggc aattaagaga 1140 caaattagtc atgcccaggc cgctgatatc ttattgttgc aattggctta tgaaaatgct 1200 aatgtggact gccagcaagc aatgcaggca atcagaggaa aggcagccac agtcggggaa 1260 cttatacgag catgtcaact ggtggggact gaaacacaca aagccaaaat attggctatg 1320 gcattaaggc ctcctaaagt gaaaagggag agaaacccaa attgttttct atgtggagag 1380 ccaggtcata tgaagaggga atgccccaat agtagagacc aaggtaactc aggaaaagaa 1440 cccccttcta tatgccccca atgtaaaaag gggaaacatt gggcaaatca atgcaggtcc 1500 aaatttgata aaaacggcaa ccccataagt aatcaggtgg gaaacttcat gaggggccgg 1560 ccccaggccc cgctccaaac tggggcaatg ccagcggctt tcctcggtca gatggaaagc 1620 ccacagtcct ctctctcaga gcagccacca ctgggagcgc aggactggac ttactctgcc 1680 ccaacgaatt agtgctaaaa gaaggagaag accctaaaag ggttgcaact gggatctggg 1740 gcccactgcc tctgggaaca gtgggattag tcctagggcg atcaagccta tccagtaaag 1800 gaattaatgt gctcactggg gtaattgata gtgattatca aggtgagata ttagttatga 1860 tggaatgtaa aggtctgcat attcttcccc ctggatcaaa gatagctcag ttactacttt 1920 taccatactg ggtccccaat gcccagggaa aggaaagggg aaagggaagt tttggaagca 1980 caggagccac aggagtatat tggaatcaat taatcactga tcagagaccc atgattacct 2040 taaaaattgg aaataaaaat tttactggct tattggacac aggggtggac atttcaatca 2100 ttagtgatca aaactggcca gaaacttggc cttgggtcac tcagaaacaa aaaattgtca 2160 gcatcgggga agcacacaca gccaagcaga gcacacaccc cctaacatgt tgtgattcag 2220 agggaagaaa ggcagttata caacctctaa tcatgcccat ccctgttaat ctttggggac 2280 gggacctatt agcccaatgg ggggtcactc tgcagacccc tttctaataa tggccactgt 2340 tattattcct cccctacccc tgacgtggct ctctcaagat ccaatttggg tagaacagtg 2400 gcctttaaag ggagagaaat tacaaagagc ccatgaatta gttgaggagc aattaaaagc 2460 cggccatata gaaccatcaa acagcccttg gaattcgccc attttcgtca ttcccaaaaa 2520 gtctggtaaa tggagacttt tgcatgactt acgtgctatc aatgctaatt tgcaacctat 2580 ggggcccctt caacaggggc tcccttcccc cgcggcgatt cctcaagatt ggcctatagt 2640 cattattgac ttaaaagact gcttttatac tattcccctt gcagaacagg acagagaaaa 2700 atttgcattt acaataccag ctatcaataa tgaaaggcca gcttgccgat ttcattggaa 2760 agtgcttcct caaggaatgc taaacagtcc taccatgtgt cagtatcatg taaatcaggc 2820 tttgctcccc agtagaaaag aatttcctaa ttgcaagatt attcatttta tggatgatat 2880 tttactagca gccccaacgg agccagtact tttaagttta tatgcctctg tcataaagaa 2940 tacacagtta agaggtttaa tcatagcacc tgaaaaagta caaatgtcct ctccttggaa 3000 atatcttgga tacatactaa cttcccggtc agtaagacct caaaaggtta aattaaatac 3060 tagcaactta cacaccttaa atgattatca aaaattacta ggtgatatta actggcttcg 3120 ccccaccttg ggcataacta ctgataagtt acaaaacctg ttttctatcc taaagggcaa 3180 tacagcccta gactctccca ggtatttaac tcctgcagca aaaagggaaa ttgaggaaat 3240 agagcaagct atttctcaga ggcaactaga tcgcatagac ccacgatatt cagttcaatt 3300 gtttgttttt cctactaaac attccccaac aggattaata ggacagatgg ccccagggct 3360 acgcttccta gaatgggttt tttgctcaca taccgggact aaaacactat ctccctatat 3420 ccagctagtt agtaaagtca tctattcagg ccgcagacga tgcaatcagt tgctaggtta 3480 tgaccctgat gtcatcagaa ttcctttaag taaaaagcaa ttcgaagcag tattgccctt 3540 atctctagac ctgcaaatag cactctctga ttacacaggc catatagagc atgcccttcc 3600 tgctgacaaa ctacttcagt tcttatctca tactcctgta gttttgccta caaaagtagt 3660 tcactccccc atacctaacg ctttaacact ttttactgat ggctctggta aaaatggaaa 3720 agcggctatc tggtggagac cacataattc cctcactcgt tctggattta ctagcactca 3780 gagagctgag gttggagcct taatattggc cctggaaact ttttccactc agcccatcaa 3840 tattgttagt gactctgctt actctgttta tttattgcag aaccttgaaa cagccctcat 3900 taagtccact ctggagccca ccctgtgtgc actttttctt cgacttcagc aattgctaga 3960 tcaatgtaca catcctattt ttatcacaca tattcgagcc cacagctcac tgcctggccc 4020 actggcttat ggcaatgatc aagcagacct gcaggttatg acatcactgc ttgaccaagc 4080 cacccaatca catcaatttt tccaccaaaa ttggagaaac ttatctaaac aatttcaact 4140 tacccaaaga ctagctaaac aaattatcct gcaatgccca gattgccagc tcacaggcac 4200 gtcccctcct tcaacaggtg ttaaccctag aggactagaa cctaatcagt tatggcaaac 4260 agatgttaca cacatccctg aatttggaaa actaagatat gtacatgtat ccattgatac 4320 caattctcac ttaattagcg ctcatgctct tcctggagag tccacccgat atgtcattaa 4380 acatcttctt ttaacttttg catttatggg gcggcccaca aaaattaaaa ctgataatgg 4440 tctggcttat gccagctcac aatttcaaca attttgtcac acgtggaaca tccaacattc 4500 cacaggcatc ccgtataacc cccaaggaca ggccatagta gaacgtgccc actccaccct 4560 taaaaatatg ctcagaaaac aaaaaagggg gaatatgagt aaggaccctg caacactact 4620 ggcacaagcc ttatttaccc ttaatttttt aaatttagat gataaatttc aatcagctat 4680 agaaaagcac tttgctaaaa cctctcaaga cataaaacct gcagttttat ggaaagatgt 4740 aaatagtaat gtatggtgtg gtccaaatga attgctaaca tggggaagag gatatgcttg 4800 tgttcacacc ccctcaggtc ctctttggat tccagcacga tgcatcaaac cataccatgg 4860 cgtggctagg acccaacccg gtaccagaaa tgaaggaaat gaccctgcag gacccacagc 4920 cccggacgat gcggcttcct cggatgacac aagccccgga cattacctgg gggatgctga 4980 agaagacaac tcaggaggct gagcgaatcc tgctccggac acagacacca ttcactccag 5040 ataatttgtt ccttgctatg ctttctgttg tacattgcaa ctctcatagg gtattgatcc 5100 tttttattct ctcactttgc ctgcaacctg tacctgctac actctattgg gctcatctct 5160 tagatccgcc tttcttccgc cctgttacct gggcagacac ccccttccca gcctctaata 5220 acgtaactgc ttggctagga gggattgact tacccccagt ggggtccctc attaatggca 5280 cacattggac taaggtgcca ggtaacacta catatcactc cactatcctc ccactgtgtg 5340 taagttataa aagttctaac ccttactgtg tacctgccca aacacaatta tggctacatc 5400 atggcaaagg aaatgcctta acagtcttag ttgcaggtag cctcaaaccg ggcaatgcaa 5460 tcaatgccac tttcccaaac attccttcct gtgctaaaga acaaagccag gaaagtaatg 5520 gattccactt tagctgggag gtctgtcatg ggggacaagc ccgtagcctc cagttaggca 5580 attataacat cttagactgg agcccccaca gccatttgca gggcaaccat actgatgtcc 5640 gcatctatca tggcatcaat cacagtttca tagccacgtc ccattcccct ataatttggg 5700 ccgatggggg gatgggatat cccagacccc aagtagagtc catgccaccc caagacactt 5760 tatggtgcct gggacatctt agcacctccc ttaacacctg gcatgggaca tatcataatt 5820 ccagtcacaa ttatactatg acctttattc ataatcacac tgatcagtgc ctgatttgca 5880 ctacccatcc atatgttttc cttatgggaa ccaatatttc cattacaccc caaaactcca 5940 cgtttgtgac ccgagtgcag ggacaggctt ggtttgcctc atgtatcact aattacaata 6000 tatctaattt aaatattact agtgtcatgg tattaaggag acaatctgag gcattcctac 6060 cagtcaattt gacacgcgat tggcaaggtt cctctgccct tgccacctta gaacgtgccc 6120 tgtcccaggt cagacacaaa agattcatag ttacacttat agcctttata gtctcagcca 6180 tagtcatcct agcaactgct agtgttgctg tagcatctat tactgaatca gtacaaacag 6240 ctacttttgt agataatttg gccagaaatg tgtctaatga acttctctta cagcagggta 6300 tagatcaaaa gattcttgca tgtctgcaag ccctcgaggc tgccttggaa tatgtagggg 6360 agcgacaaga tgcactggca ttccgacagc aattaaactg tgactgggag cataagcata 6420 tctgtgtcac ttctctacca tggaatcaat caatacatag ttgggatgag gtgaaacaac 6480 acctctgggg aacctttcat gacaatttaa cagcagacat aaagcaactt aaaactaaaa 6540 ttctagaatc cctaaacgcc atagatctac acgcccaaca aacagccata tggaagggtg 6600 tgcgagatca tctctcctgg atagaccccc actcctgggg gtcactcctt gattggaaaa 6660 gaatgttact aattatactc atgtttgtct tatgttattt actaattcta ggatgcaaag 6720 ccggaatacg agcagtaacc gctacgcctg acaaacctgt tgctgcacac atctgtactc 6780 ttcaatcaac aaaacctgat gcaaaaaaca gaaaaggggg aga 6823 // ID LTR35B repbase; DNA; HUM; 605 BP. XX AC . XX DT 31-MAY-2008 (Rel. 13.05, Created) DT 31-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Long terminal repeat of LTR-retrotransposon related to the DE MER4I-group; a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; retroelement; LTR35; LTR35B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-605 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(5), 606-606 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 605 BP; 169 A; 174 C; 121 G; 140 T; 1 other; tgagacagag tagggatggg acttggtccc ccccatgccc caccaaggac ctctactgca 60 agctggtggg ggggaggccc catggccagc agggacccca accagaccat ccagaccttg 120 caccataaat cttgctcaag gcgccatacc cactgattgc aggaccttga ggaaactaaa 180 ataagcagca tcccaccata aatcttactc aagggagtta accctatctc ccgcatgtgc 240 acaagaccag aagaatgacy aatccttaac cttagcttca ttataatact aaaaatcaca 300 cccaggggtg gagatttaac atgctaatga gacatgcgat acatgaagaa gcatgttatc 360 aaactgcgca ggtgctaaaa gttccctgcc tctacatgcc taaacatcac tcctttccca 420 ccttagcccc tttaaaacta cctttccaac tccctttggg gagccagcca gagaattctc 480 tctctcttgt gctgcctccc ttgtgctcga gcataagctc caataaagcc ttgtctggga 540 aaactctctt ggcctcatgt caatttctat tgcattgaga gcccaagaac ctgtggttgg 600 taaca 605 // ID MamRep38 repbase; DNA; HUM; 295 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; MamRep38. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-295 RA Smit A.F.; RT "MamRep38 - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC rnd-2_family-38 8 bp TSD, not obviously similar to Charlie TSD CC bias; 15 bp TIR. XX SQ Sequence 295 BP; 62 A; 71 C; 103 G; 58 T; 1 other; caggggtgat attcaaaata tttaacaacc ggtatggcac gggcaccgac caatcagaac 60 ggacgccggc catagngctg gagcagggtc ctggaggccc ctgctgtgcc aggcattaac 120 cctttagttg ctggatcgtg gggaggtccg gggggtcccg gggaggggcc ggggtggcgg 180 gagggcactc ggggggctcg gggcagcggc tatttaccaa ccggtatgga agtatttcaa 240 tattttaaca actggtacgg ctgtaccagt gcataccggc tgaatatcag ccctg 295 // ID MER69A repbase; DNA; HUM; 177 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE MER69A repetitive element - a consensus. XX KW DNA transposon; Transposable Element; MER69A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-177 RA Smit A.F.; RT "MER69A."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-177 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (2000). XX DR [2] (Consensus) XX CC Putative DNA transposon; 12 bp terminal inverted repeats. XX SQ Sequence 177 BP; 41 A; 50 C; 36 G; 50 T; 0 other; cagaggcgga tttaccgtga agctaatgaa gcttaagctt cagggcccct cacttgcacg 60 ggccccttcc aaggccctgt acctaatttt gtattcgtaa ttttgtattc tttttcttaa 120 agagggcccc ccaaattgta taagcttcag gccccacaaa acctggatct gcccctg 177 // ID Charlie13b repbase; DNA; HUM; 512 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.1, Created) DT 06-OCT-2006 (Rel. 13.1, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; hAT-Charlie; KW Charlie13b. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-512 RA Smit A.F.; RT "Charlie13b - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC The hardest thing to find termini for, but this may be it. Vague CC 8 bp TSDs flank the current ends. Pos 1-126 and 413-512 CC identical to pos 1-126 and 1415-1514 of Charlie13a. XX SQ Sequence 512 BP; 147 A; 128 C; 108 G; 125 T; 4 other; caggggcatc caacatgcag cccgcgggcc aaatgcggcc cgcctgaccc cagggtgcgg 60 cccgcctgag atttttagca aaaatgtttt tacctaatta gctagcacac atgaactagt 120 agggccagna gggcctaacc acctgcccgc cgcaccactg tgtnactgac tgctgccagg 180 tgtcatgcca gcaggcttgg atcaattagt aattgtaatt gaagctgaat gtaattaatt 240 atataatttt gagctgttca agtttaattc cactaaaatt acatcatgaa actggggcat 300 tatgaaggat tgctgacaaa aggaaaatag gtatgaataa agcctccata tgcacttgac 360 tcacgtttga gtcacgtcca atactcatnc gccaagcgtg gaccctctcg actcaccatt 420 gttatcaata aaaaaattca tgcagcccgc acacatatgg atttctgatc atgtggccca 480 ctattgaaaa aacntggacg cccctgccct ag 512 // ID Charlie18a repbase; DNA; HUM; 342 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; hAT-Charlie; KW Charlie18a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-342 RA Smit A.F.; RT "Charlie18a - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC rnd-3_family-1688; Pos 1-44 & 279-342 ~80% similar to same CC regions in Charlie3a_Xt, pos 1-85 ~80% similar to same region in CC MER5C and both 5' and 3' terminus of Charlie10a. XX SQ Sequence 342 BP; 92 A; 60 C; 72 G; 118 T; 0 other; cagtggttcc caaatgccgg tccgcggacc agtgccggtc cgtgacgaag ttttcaccgg 60 tccgcggcga aatgagaaaa ataaggacaa tgtagtgagt ttttcataaa gctaaattta 120 ttcaatttaa aggactgtcc tttattctga gattatgtcc ttcctacttt tttggtgtta 180 aaatgtcttt cttttatgaa atgatggtga tagtagatgg tagttgttgt ttttttaatg 240 tccttacttg gcaaaataaa aagttggcaa ccctatgtcg gtccccaaat ttttttttga 300 aattttactg gtccatgaaa tccaaaagtc tgggaaccac tg 342 // ID LTR38A1 repbase; DNA; HUM; 544 BP. XX AC . XX DT 03-AUG-2008 (Rel. 13.08, Created) DT 03-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR38; KW LTR38A1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-544 RA Jurka J.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 837-837 (2008). XX DR [1] (Consensus) XX CC 74% identical to LTR38. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 544 BP; 137 A; 170 C; 90 G; 144 T; 3 other; tgtaactagg gacctcagtt ttaaaaatat attttaatca cccactttct ttttcttcct 60 tycctcccct ctcacccctt cattccttcc ctctctagac actcccctct agcaatgcac 120 gcttatctaa ttatgttctt gcttaagaaa ttccagaggc taatcttgaa acaaaccagg 180 cacggagccc cagctgcgga atcctcccgc ttagggrgag tcatgaacaa ttagtccacc 240 accatcgggc cgaagtcaag ataacgccaa ccagacctcc ggacgggcaa ttacccaaga 300 tagccatcgg aacaaagaca cacagaccct gcaccctgca ccactcccgc atgtctccca 360 taccaagttt ccctttaaaa accctatggt aaattttaaa atttaagatg gtactttaga 420 acgctagttc accatcttct yggtttgctg gctctccgat taaacctgct tttccttcca 480 ccaaccctcg cctctcgtgt ttggctttcg agcggcgagc agccgaacct gggtccggtt 540 acaa 544 // ID MER75B repbase; DNA; HUM; 242 BP. XX AC . XX DT 18-APR-2001 (Rel. 6.03, Created) DT 18-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE Nonautonomous DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; DNA transposon fossil; KW MER75; MER75B; T2_type family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-242 RA Jurka J.; RT "MER75B."; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC Most differences between MER75 and MER75B are in the internal CC region. Relative to MER75, MER75B has a single base CC substitution in the terminal inverted repeats TIRs. XX SQ Sequence 242 BP; 73 A; 46 C; 39 G; 84 T; 0 other; cccatttccc gtttgcccca agaatactct tgtctctaat cctaatgtaa catcatatac 60 atttctgtta cattaggatt agagacaagt tctgtttaga aataactcca agaacagttt 120 ttatatttta ttttcacatt gaaaatcagt cagatttgct tcagcctcaa agagcatgtt 180 tatgtaaaat taaatgagcg ctggcagcga gctgcacttt ttttttctaa acgggaaatg 240 gg 242 // ID MARNA repbase; DNA; HUM; 586 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Human non-autonomous mariner-like element. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MARNA. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 66-521 RA Jurka J.; RT "MARNA."; RL Direct Submission to Repbase Update (MAY-1999). XX RN [2] RP 1-586 RA Smit A.F.; RT "MARNA."; RL Direct Submission to Repbase Update (MAY-2000). XX DR [2] (Consensus) XX CC Retains a partial protein similarity to mariner transposase. CC Present in at least 500 heterogeneous copies. CC Currently 190 bp terminal inverted repeats, but the ends are CC still uncertain as copies have variably truncated termini. CC Closest thing to a mammalian fold-back element yet. XX SQ Sequence 586 BP; 174 A; 128 C; 111 G; 165 T; 8 other; tgggcacgta tacgaggtgt gactataaag taatgaggct gatttttaaa caaacacacc 60 agaacttata cgtccaaatg agtgttgtcc ttcaaagtag tcaccctggg aggctgtaca 120 ctcgttccaa cgatgctgcc antgctcaaa acatttctgg aactnctctt ttggaattgc 180 cttcagagcc agtttatgag ccacataaga aaatcagtct cattacttta tagtcacacc 240 tcatttttga ccnaaaatag tattacccag cttgatcacc caccttattc accagacttg 300 gctctgaatg acttttggct gtttccaaaa atcaaatcca ccctcaaagg atgaagattt 360 gccaccattg aggatattca aaagaatgtg ccgcaggctc tgaaggcaat tccaaagaga 420 agttccagaa atgttttgag caatggcaac atcgttggaa taagtgtatn gcctcccaag 480 gtgactactt tgaaggggac aacactcatt tggatgtata agttctggta tgtttgttwa 540 aaaatcagtc ncattacttt atagtcacac ctcgtntacg ngccca 586 // ID HERV19I repbase; DNA; HUM; 5586 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE HERV19 is an internal sequence of retrovirus-like element HERV19 DE - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 type; KW HERV19I; Internal sequence of retrovirus-like element HERV19; KW LTR19; MER4I group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5586 RA Smit A.F.; RT "HERV19I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of retroviral-like element with LTR19A LTRs. CC Member of the MER4 group of non-autonomous elements, with only CC short stretches of similarity left to gag and env in the CC consensus. CC Currently shows highest similarity to MER41, MER50 and MER4 CC internal CC sequences over bp 1407-4496. Average divergence of copies from CC consensus less than 7%. XX SQ Sequence 5586 BP; 1657 A; 1218 C; 1023 G; 1685 T; 3 other; tttggtgccg aaacccggga tgggtgctgg gggcagaggc tctcttgcaa cccaggaagc 60 agtgggcagc ggcagctcat cctgagttaa ttcctggatc ctgagagtct ctggccaccc 120 accccgtctt ttctctcact tcacttttcg agcgatttgc gtgaggagga caactaacct 180 gaaggggact gcgaggctca ggctggggct actccccagt gggttctcaa aaccctcagg 240 tctcaggaat ccacctccga ccgcccgcaa tgggtatttc gctctctcct ctcctcctcc 300 tcctcttctt ttctctctct ctctctgtct tcctcgtgcg gctccagtcc aagaggccct 360 ttgccgattc caaccggaac atccaacatc ggacactaat ccagctgact ggtaagatct 420 gccctcccct ggctttctcg cggtacctgg gaaaagtcag gtctgccgtc ccggtcctcg 480 gaggaccagc gggactaagc tagaggaaat cttggggacg cccagtttct tctcagcttg 540 accgtcctct ttagaaagag gactccgggt ctctgtcttt tgtctgggga tgcctagaac 600 aaaaacagac accctcggcc tcttctcacc agtccacatg ggtgccaaac aatcccacat 660 tcccacatcc tctccactgg gctgtctcct tcacaacctc gccaaacttg gcttatggga 720 agcataaagc caaagcgttt agtcttttat tgcaacacgg cctggcccca atacaaatta 780 gataatgaca gccgatggcc cgaaaatggc acctttgact ttcaaattct cagggacctt 840 gacaacttta taaccaggaa tggcaaatgg caagaggttc tctatattca ggctttcttc 900 taccttagat cccaaccctc cctgtgtcaa gcttgcaccc ctcatgaaat ccttcttctt 960 aatgaaaacc ctccccgggt ctctccctcc tctgaaactc cttcctctga aacccctttt 1020 gaccctgcag atgaactccc tccgtattct catccccctg catccgctcc tcgcccgtcc 1080 gaaccctccg ccccggtggc ccctcctgcc cccaagcctt cagccccaaa ccccactcct 1140 cctccttctc cacctgttac ccgttcaaaa actgctccaa ccagtcaaac cacctctgcc 1200 attctccctc tccgggaagt ggctggggtt gaaggcattg ctcgcgttca tgtccctttc 1260 tccatgtctg atttgtcgca gatctgggat ctttctctga aaatccctct cattatcgca 1320 gggaattcct gcacataacc caatccttta atttaacttg gcatgatatt tatataattc 1380 taacctccac cctcacccct gataaaaaag agcgctcagc ttaattaaaa tggatatcca 1440 agctatgagt atattcaaaa ggcctttatg tttttctctt cataaatctt gttttcctgg 1500 aaaaggtttt ttcccagtca actgaattac ttttctccac tctgtcttgc cactcttggt 1560 gcatgtatga aaaaccctaa aatgacttct ggtggcctgg gactccttgg gaaaacagaa 1620 aaggcgccac aaatcccgtt ttgggaaaaa tatctgtttt ccttatggaa cccctggaat 1680 tagaggtgaa taagtacctc tcaaaatctg tctttgtctt ccagctatac ttgtttatta 1740 ggccctggaa actgttttcc tagccctgtt cttaaagggc ctcacccgaa ggccaataat 1800 ccaattggga aattagaaaa aaaaaaatct tataactact ggatcttctt ctggttgtct 1860 gtgtggctat atatgtgtta tgtgtgcaat gtctattaaa agaggctcta attaattggc 1920 ctaagaaaaa taagcgctta aatcaaatat ttttaaggga aaagtaaaag ctgtgggatc 1980 tttcagttca cgtgacttta atctttaaaa cttactggta cagtaagatt agaaatgtct 2040 taagagttgc cagcatacat ttttgtttgc atttattgat caagcaattt catacttatc 2100 tctgccaaat actataaggt gtcaaaattt ggcatagagg ctacaaaact ataactcagc 2160 ccaaacagaa taatctttgc ttgtgtaatt ttttaataaa tgaaacatta atattggttt 2220 aataaagata gctacatctt gaactattta gtgaaatacc ctaacttcta atcttgtggc 2280 cttaggcagt ctagtccaca gacatgaagg aagtttgttt tgggaaagga ctgttatcat 2340 ctttgatatt aaagaaaaga taatttatat aaaaagaatc ttatatggta aattcttgtc 2400 ctaaagtaaa ttaactggtt gtttaaagag agggatgttt acaacaagtc agaaagttga 2460 ggcatgtcag agattgtctg tgaaagtcat gaaaaatttt ataaaaggga atttatgcaa 2520 gaaatgttgt acaatttaaa agtgattagg cctcctgaat gctttataaa atgccactat 2580 aactcttagc tgtacaactt gcctgctttg cagctaggta agacctagga cacatggagt 2640 taaatgctgg aataagtcag accttatctg cacttctgtc taggtcctag gctctacacc 2700 tagtacataa ttaaaatccc aaacttacca aggtttccac aaaagtaaag gttgctaaaa 2760 gttaacagtg taacatgtat ttaagactat tgaaaaaaca gtttacatat acttttggta 2820 aaaagattat aaggaggcat aagaatgtgg atttttacct agattaaaag gttaaagaat 2880 tgttttaagt tgaataaaat aaaaatgaag gtttaagcaa gttttggaag gttaattgta 2940 aaggaaattc tgtgtgtaaa catattggct aaagttgaag gggtatcatc cagtttttct 3000 gtaaattgan cattaaaata aaagcacaac gggtttctct taaagcacta acctgctctt 3060 taacaaaaat tataaagggt taaaaagggt ctataaaaat cttaccttat ggtcaaacat 3120 taaaattggg taaatgtgtc tacaaggttt tattaaaaat tgagtttaac attaatagca 3180 cactaatata aaggtaaaat ttggcttatt tggtataaaa tcatacagga agcattgtca 3240 aatataaaat ggtgtttggc tttctttggg ctatatttgt ataaatatgt tattggtatg 3300 tgttccaaag ttatgggaga ctcctataat tctgatatat cttagtgtac gttatcagta 3360 ataattataa ttgttatgtt aaaattattg tgtgccacaa aggtaacaga tatccttgtc 3420 aattgtgtct ttaactatgg ctaccctaaa actttttgtc atccataaac aattgttgtc 3480 ttgttttggt cctctttaaa aggtggtttt ataatcagct ataaagctct aacaggtgct 3540 cttgaatgca ggtttctgat aactttggag attgtgacat cagaatagag gaaaaacgtt 3600 caggactctt gaagagctaa aatgttcatt aatatcaagc gggacaggaa ttaactgcat 3660 gaactgaact aacaggagac tggagtgatc tttttgacgt tttgcttaaa atattgctaa 3720 tcctttgttt tgcttttcaa agtcaaagaa acttttcttt tgagctattg acagctttta 3780 acaatttagt atactcccat gaacaaaatt tggagcatac ttgtttctct ctacctgatt 3840 ttctccagaa tttggaaact atctgtgagt attcttaagt tatggcaata tagttatttg 3900 cataagtgca ataagaatct gttttctttt gtaacaggac acaattggaa aaactggtta 3960 tttttaccaa ggctttgact ggaatggtgt gctttccttt aaggaatcaa acttgactta 4020 tgaagccaat aaagcccttg gaaagctggc ctcatatttt gtgtacacag tccctgtaca 4080 gggtttctga tctgtggtaa gtaaagaatg tcactttctg acaggccagg aaccccaagt 4140 tatcttggaa cctcaagagg agaggaattc acccaactca taggtatttg atggtacaaa 4200 tccatggctg ggcttggctt taaaaaggtc ttatctcaga ttccttctgc ggaacaaagt 4260 tccatcaaag ccaatttaaa aggcctatgt aacaaataat tattcttgct gcactgtatg 4320 caaataatta agccaagtat aataaagcaa accagtccta ccatgatttg tcttttaata 4380 aaaatgggaa actggagaga gaaaattatg tttcaaaaac tatagcacac ctgttgttaa 4440 attctagtgt tgcctaatgt ttttcaattt ttattatttt ctacagttta aattaaattc 4500 taatttttct ggctacaagt ttccaaaata agctgtgctt tcttaaagcc ctatgaactg 4560 aaaactagat gtttcagcag gcgctgcctc taagcccccc gaccatcaca ggaggaaatc 4620 tcttcactgc tggtgctgac aactaataac tgagggtgcc cggaatcctt tgcccccacg 4680 tctagtgagt ccacggaacc cagggtaatt ganacggtat ctgttacagg aatcaactcc 4740 tggatacatc acactcaagt caaagcctgg aaagctgagg aagcaacccc tgacagccca 4800 aaggaacgtc ctaaatatca atgtaaagaa ataggaaatc ttaagctgaa aatcataaaa 4860 aataagtaac taagtgagaa ctactcatct tactcagtct cacccctacc tcaccaaata 4920 ctttttgtca ttcctacctc tccttttaag ccaaatatta aaacttttta atggaaatta 4980 tttactacgc cacccttgcg ggaattgctt tactcactct actatttgca gtaggactat 5040 atactgtagc accctcaggg tggaatatcg gacagagaat ctcaattacc gtagcatttt 5100 gcttaattat tatcctcata gcaggaataa tggttactaa cagaaaataa cacatgggcc 5160 tttccaaaca tgcgcctctg cctctcattg ggtaaggaat gttgtttcta tntcaaccaa 5220 tcgggcctag taagagacgc tgctgaaaaa cttaaagaaa gggctaaaaa gctaagggaa 5280 taccaaaaca accaaataga ttcttggttt gggaacaaaa tcatagcatg ggtcatccca 5340 ttcctgggcc ctctcctaat aatatgccta ggactaatgt tcttaccctg cctaattaac 5400 ctttttcaaa gatttttaac tgacaggatc atggccattt cacagacaac tacccaaaaa 5460 catctacaga cggcattgct cctacagtca acccgagacc agaaaactct ccgtcccctc 5520 gtcagcagga agtagccaga aagaacacgc cgcccctcgt cctttttata actatagggt 5580 ctggat 5586 // ID LTR86B2 repbase; DNA; HUM; 487 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR86B2_LTR; LTR86B2. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-487 RA Smit A.F.; RT "LTR86B2 - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSDs, with a bias for NNNNC. >30% subst in dog human. CC Orientation based on ATTAAA site conserved in other LTR86 CC consensuses. 85-90% similar to LTR86B1, <75% similar to LTR86A CC and CC C. rnd-4_family-1394. XX SQ Sequence 487 BP; 102 A; 127 C; 139 G; 114 T; 5 other; tgcaggaata gacctcaggc aggcctgaag cctgggcctg ctagggggat ggtacgcctg 60 ggaaactgac cttcgattca cccagtctcg cagtaaacac tcaggaatgt gctggggttg 120 ttaccagtta cttgcacctg gtgagcaggc aggcacgtag ccagagtctc cagaacagtt 180 gggaggggcc aggagggtat aaanccccca tgagaatggc aaagggagct tctcgaagga 240 cctgacggga tcctcacccc aatcaggtgg tatcatcggc agctgggcgc cttcgtgggg 300 acttgaaggc cagggaagct tgcccctctg actgggagtg ctgctgtgtc ccctgctctg 360 tgnagccgtc tncgtgtagn taagttcttg tatcctttac ctacattaaa ggaacttgta 420 tcctttgcct gtgtctgttg gtatctttcc gtcaatcaca tcaccatccc nttgtgacaa 480 ccgcgca 487 // ID MLT1I repbase; DNA; HUM; 409 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Mammalian long terminal repeat (MLT1I subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MLT1I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 98-409 RA Jurka J.; RT "MLT1I."; RL Direct Submission to Repbase Update (1998). XX RN [2] RP 1-409 RA Smit A.F.; RT "MLT1I."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1I retrovirus-like MaLR element. 5 bp target site dups. CC 75-80% similarity over pos 1-210, 280-409 to MLT1H and CC MLT1J(1,2). CC Average divergence from consensus 26%. XX SQ Sequence 409 BP; 87 A; 97 C; 109 G; 111 T; 5 other; tgtggtagtc attagtgctg ttcaccaaat atttctagct ctctnccttc cgggcacatg 60 gtaggattgt acttcctggc ccccttgaag ttaggtgtgg ccatgtgact tgctttggcc 120 aatgaaatgt gagcagaagt gacgtgtgtc acttccgggc agaagcttta agagccagtg 180 tgtgattcnc cangttctct ttccctctgc cacggngacc agcaatgttc cagatggngg 240 ctgctccgtc agcctgggtc ccggagtgag gatgacatgg agcagagccc cagccgaccc 300 gcgatggaca tgtagcatga gcaagaaata aacctttgtt gttttaagcc actgagattt 360 gggggttgtt tgttactgca gcataaccta gcctatcctg actgataca 409 // ID LTR1D1 repbase; DNA; HUM; 899 BP. XX AC . XX DT 01-MAR-2009 (Rel. 14.06, Created) DT 18-JUN-2009 (Rel. 14.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR1D1. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-899 RA Smit A.F.; RT "LTR1D1 - ERV1 Endogenous Retrovirus from primates."; RL Repbase Reports 9(6), 1175-1175 (2009). XX DR [1] (Consensus) XX CC 10.5% subst; 50 copies. Consensus oscillates between two CC apparent subs, but coseg can not separate these. XX SQ Sequence 899 BP; 171 A; 313 C; 267 G; 143 T; 5 other; tgatagggac aggaggcagg gaaattctgg gcagaagagg gcgggtcccc ggcgagggcc 60 ccaccctcaa gccaaagcct ggaaccgcgg cccaaagtga gaacntacat ccctgttttc 120 ccgctcgaat gttgcctttt ccaaaaccac ccatggcccg ccccgccccc catcctgtgc 180 ccataaaaac cccaggctcc gccggcagag aggagaagca gctggacgtc ggagactacg 240 gttggacgtc ggagagaagc agcttgactt cagagggacg gcttgacggc gtngcttcgg 300 agaggagtcc ggccggggac ggccggactc cgggggaaga tcaccttccc gctccatccc 360 ctttccagct ccccttcccg ctgagagcca ctttcatcgg caataaaatc ccccgcattc 420 accacccttc aattcgttcg tgcgacctga tttctcctgg acgccggaca agagctcggg 480 tgccacgggt gcggatgcna aaggctgtca cactgaccct ctgccctcgc tggcggagag 540 caaccgcctc acgcgaaaag gcagagggcc cactgagctg tttaacactt aagccgtccg 600 cggacggcaa agctaaaaga gcactgtaac acnccctctg gggcttcggg ggtcgcgggc 660 acccccccct agacgctgcc gcggggcccg cacggagttt tgctcctgcc ggcgcccaaa 720 agcgctcgcc ccggctcctg cacccgctca cctgcgcgct ccctcccgcg aggggtngag 780 cgcagcgggt ccgagtgagt ggagttcgcc cctgccggcg ccgaagcggc cggctagctc 840 cagcgcccgt gcactccagt tcccgcccgc gaaggggtca gggaaaattt cctgcttca 899 // ID LTR7Y repbase; DNA; HUM; 472 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 01-OCT-2008 (Rel. 13.11, Last updated, Version 2) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from primates. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR7B; ERV1; LTR7Y_LTR; LTR7Y. XX NM LTR7Y. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-472 RA Smit A.F.; RT "LTR7Y - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX RN [2] RP 1-472 RA Jurka J.; RT "Classification changed to ERV3 based on 5bp TSD."; RL Direct Submission to RR (01-OCT-2008). XX DR [1] (Consensus) XX CC 2% div; 5 bp TSD, but HERV-H internal. Notice TG...AA like LTR7A. XX SQ Sequence 472 BP; 119 A; 153 C; 79 G; 121 T; 0 other; tgtcaggcct ctgagcccag gccaggccat cgcatcccct gtgacttgca cgtatacatc 60 cagatggcct gaagtaactg aagatccaca aaagaagtaa aaacagcctt aactgatgac 120 attccaccat tgtgatttgt tcctgcccca ccctaactga tcaatgtact ttgtaatctc 180 ccccaccctt aagaaggtac tttgtagtct cccccaccct taagaaggtt ctttgtaatt 240 ctccccaccc ttgagaatgt actttgtgag atccacccct gcccaccaga gaacaacccc 300 ctttgactgt aattttccat taccttccca aatcctataa aacggcccca cccctatctc 360 ccttcgctga ctctcttttc ggactcagcc cgcctgcacc caggtgaaat aaacagccat 420 gttgctcaca caaagcctgt ttggtggtct cttcacacgg acgcgcatga aa 472 // ID LTR54 repbase; DNA; HUM; 510 BP. XX AC . XX DT 10-AUG-1998 (Rel. 3.07, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE Long terminal repeat - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR54; KW Long terminal repeat; MER51I; MER57I. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-510 RA Jurka J.; RT "LTR54."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC 5' end is similar to portions of MER51I and MER57I CC putative remnant of an earlier LTR54 insertion in CC a common ancestor of these viruses. XX SQ Sequence 510 BP; 154 A; 112 C; 80 G; 159 T; 5 other; tgttaaataa aatttatagg aggccattgt tttggactaa gctcctgcac taggccccaa 60 cagaacagac caaaccaaaa tggagtcact catgctaaag ttccatgtca ccaagctgaa 120 actaagttgt ttatctgacc ttccaagaaa tcaggagaga gagagagata acagccaaat 180 ccccaaacag gccagtttta gccagcatga taaggaagtc ccctctgctt taacctttaa 240 cctaatgtta agcaatcagt tacttntcta ttgttctgtn tccctgtntt aaccttacaa 300 ggaaagtaac tttgaaatga ccaatctgct ttttgttctc tgtttctgct ttcttcagcc 360 cttttctgtc tataaagcca acctcctctg ctcagctcat yggaacactc attctatttt 420 atagaatgag gtrttgccca attctagaat cacaaataaa agccaattga gatctttaaa 480 ctaaatttgt tgtaattttg tcttttgaca 510 // ID LTR19C repbase; DNA; HUM; 779 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 17-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE Primate LTR19C repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; ERV1 family; LTR19C. XX NM LTR19C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-779 RA Smit A.F.; RT "LTR19C."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Pos 99-437 are 87% similar to LTR19B pos 53-404. Pos 1-13 and CC 487-779 CC most closely resemble LTR9 pos 1-106 and 331-612 (~80% CC similarity). XX SQ Sequence 779 BP; 217 A; 206 C; 177 G; 169 T; 10 other; tgttatagga gatagaaaga aattatttag gtagacagtt agggtgaagc gagtccccgg 60 cagaaaactt tccttctaac aaaaagcagc tcaaaaatag ctccctttct aacctcatgc 120 agttcaaaga aatcacttct cttctaacaa agagcagcct gaaagatcag gcngtaaaac 180 acagataagc aactcnggca cagrrrrrrt ggggagtctc ctgggtaatc accaaacttc 240 acacttatac gatgggcccc agtaaaaaca gtgggcctta ataagcacat tcctttccct 300 ttaggcgcac taagataggg aagctagaag cggactgggg ggggatgcct gcagctgcaa 360 gaagatgtct gggaacaggc acggaaactc tccctcccag ataagcaaga caaagcagcg 420 cggagcagca gactaagagt ccgcctgcgt ggtcaaggaa tggggtggga gctgatagaa 480 aactctgctc tatacagatg gcacacctgg tcccaactga atctttgggc cctaggagga 540 taagacaccc cctcctcact agccccctcc tcactagccc atttataaaa accctgacat 600 ttttactgca gcncggcaac ccgctcggga cccctctctg tgacagagag ctgttctttc 660 cttttgccta ttaaactcct gctccaanct cactctgtgt gtgtgtgtcc gcgacctcga 720 tctccttggc cgtgagacca agaaccttgg tatttacccc agacaacgag gctgcttca 779 // ID MER65C repbase; DNA; HUM; 461 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 2) XX DE Long terminal repeat of endogenous retroelement; internal DE sequence MER65I belongs to the MER4I-group; subfamily MER65C. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR of retrovirus-like element; MER4I-group family; MER65C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-461 RA Smit A.F.; RT "MER65C."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX SQ Sequence 461 BP; 130 A; 118 C; 75 G; 138 T; 0 other; tgtgaaagtt gatcatacga attgggtcat tcttgtcata cccaactaaa accagggccg 60 aggggcccag ggggaaaagg cactcggggc gcatagcatt gctccaaaat ataattctct 120 gcaaccctgg ctgctgaaac tgcctgttgt aacctgaaac cagttttatc taacagctac 180 tgaaacaacc tactgtgact ctaagactag ttttacccac caccgtcact caccaatcag 240 agcttgccag ctccccaaaa ctttactagt gccaatgaac tttctttcaa aacaatatgt 300 aacatttctc ttttttataa aacctccaac cttctctttg ttctttggac ataccgaaga 360 ccacctggtc tgtgtgtatg ccccaaattg caattctttc ttcccaaata aaacgtttta 420 aatttaggga ttcgtctcta cattttattt tgacttcgac a 461 // ID LTR12B repbase; DNA; HUM; 667 BP. XX AC . XX DT 15-SEP-2000 (Rel. 5.08, Created) DT 15-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE LTR from human ERV9 endogenous retroviral sequence (HRES-1/1). XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR12; LTR12B; KW PTR5; PTR7; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA La Mantia G., Pengue G., Maglione D., Pannuti A., Pascucci A. RA and Lania L.; RT "Identification of new human repetitive sequences: RT characterization of the corresponding cDNAs and their expression RT in embryonal carcinoma cells."; RL Nucleic Acids Res 17(15), 5913-5922 (1989). XX RN [2] RA Levy S.L., Lobelle-Rich A.P., Elder H.J., Payne S. RA and Montelaro C.R.; RT "An unusual retrovirus-like sequence identified in human DNA."; RL J. Gen. Virol 71, 1613-1618 (1990). XX RN [3] RA Lania L., Di Cristofano A., Strazzullo M., Majello B. RA and La Mantia G.; RT "Structural and functional organization of the human endogenous RT retroviral ERV9 sequences."; RL Virology 191, 464-468 (1992). XX RN [4] RP 1-667 RA Jurka J.; RT "LTR12B."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [4] (Consensus) XX CC LTR from human class I ERV9 endogenous retrovirus (HRES-1/1). CC Copies on average 11% diverged from consensus sequence. R66-like CC fragment at positions 78-143 may expand into multiple copies. XX SQ Sequence 667 BP; 193 A; 185 C; 155 G; 130 T; 4 other; tgagaggtga agccagctgg acttcctggg tcgagtgggg acttggagaa cttttctgtc 60 tagctagagg attgtaaaaa aatgcaccaa tcagcactct gtatctagct aaaggattgt 120 aaatgcacca atcagcactc tgtaaaaatg gaccaatcag cactctgtaa aatggaccaa 180 tcagcaggac gtgggcgggg acaaataagg gaataaaagc tggccacccc agccagcagc 240 ggcaacccgc tcgggtcccc ttccacgctg tggaagcttt gttctttcgc tcttcacaat 300 aaatcttgct gctgctcact ctttgggtcc gyrccacctt taagagctgt aacactcacc 360 gcgaaggtct gcggcttcat tcttgaagtc agcgagacca cgaacccacc ggaaggaaca 420 aacaactccg gacacrccac ctttaagagc tgtaacactc actgcgaagg tctgcggctt 480 cactcctgaa gtcagcgaga ccacgaaccc accagaagga agaaactccg gacacatctg 540 aacatctgaa ggaacaaact ccggacacac catctttaag aactgtaaca ctcaccgcga 600 gggtcygcgg cttcattctt gaagtcagcg agaccaagaa cccaccggaa ggaaccaatt 660 ccggaca 667 // ID L1HS repbase; DNA; HUM; 6064 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 27-JUL-2006 (Rel. 10.01, Last updated, Version 3) XX DE Human L1 repeat (subfamily L1HS) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW Repetitive sequence; reverse transcriptase; L1 (LINE) family; KW L1P1; L1HS subfamily; L1HS; endonuclease domain. XX NM L1HS. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-902 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-6064 RA Jurka J. and Gentles A.; RT "Human L1HS complete L1 consensus."; RL Direct Submission to Repbase Update (JAN-2005). XX DR [2] (Consensus) XX CC Currently active source gene in human genome. XX FH Key Location/Qualifiers FT CDS 908..1921 FT /product="L1HS_1p" FT /note="ORF1." FT /translation="MGKKQNRKTGNSKTQSASPPPKERSSSPATEQSWMEN FT DFDELREEGFRRSNYSELREDIQTKGKEVENFEKNLEECITRITNTEKCLK FT ELMELKTKARELREECRSLRSRCDQLEERVSAMEDEMNEMKREGKFREKRI FT KRNEQSLQEIWDYVKRPNLRLIGVPESDVENGTKLENTLQDIIQENFPNLA FT RQANVQIQEIQRTPQRYSSRRATPRHIIVRFTKVEMKEKMLRAAREKGRVT FT LKGKPIRLTADLSAETLQARREWGPIFNILKEKNFQPRISYPAKLSFISEG FT EIKYFIDKQMLRDFVTTRPALKELLKEALNMERNNRYQPLQNHAKM" FT CDS 1988..5812 FT /product="L1HS_2p" FT /note="ORF2." FT /translation="MTGSNSHITILTLNINGLNSAIKRHRLASWIKSQDPS FT VCCIQETHLTCRDTHRLKIKGWRKIYQANGKQKKAGVAILVSDKTDFKPTK FT IKRDKEGHYIMVKGSIQQEELTILNIYAPNTGAPRFIKQVLSDLQRDLDSH FT TLIMGDFNTPLSTLDRSTRQKVNKDTQELNSALHQADLIDIYRTLHPKSTE FT YTFFSAPHHTYSKIDHIVGSKALLSKCKRTEIITNYLSDHSAIKLELRIKN FT LTQSRSTTWKLNNLLLNDYWVHNEMKAEIKMFFETNENKDTTYQNLWDAFK FT AVCRGKFIALNAYKRKQERSKIDTLTSQLKELEKQEQTHSKASRRQEITKI FT RAELKEIETQKTLQKINESRSWFFERINKIDRPLARLIKKKREKNQIDTIK FT NDKGDITTDPTEIQTTIREYYKHLYANKLENLEEMDTFLDTYTLPRLNQEE FT VESLNRPITGSEIVAIINSLPTKKSPGPDGFTAEFYQRYKEELVPFLLKLF FT QSIEKEGILPNSFYEASIILIPKPGRDTTKKENFRPISLMNIDAKILNKIL FT ANRIQQHIKKLIHHDQVGFIPGMQGWFNIRKSINVIQHINRAKDKNHMIIS FT IDAEKAFDKIQQPFMLKTLNKLGIDGTYFKIIRAIYDKPTANIILNGQKLE FT AFPLKTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGIQLGKEEVKLSLF FT ADDMIVYLENPIVSAQNLLKLISNFSKVSGYKINVQKSQAFLYTNNRQTES FT QIMGELPFTIASKRIKYLGIQLTRDVKDLFKENYKPLLKEIKEDTNKWKNI FT PCSWVGRINIVKMAILPKVIYRFNAIPIKLPMTFFTELEKTTLKFIWNQKR FT ARIAKSILSQKNKAGGITLPDFKLYYKATVTKTAWYWYQNRDIDQWNRTEP FT SEIMPHIYNYLIFDKPEKNKQWGKDSLFNKWCWENWLAICRKLKLDPFLTP FT YTKINSRWIKDLNVRPKTIKTLEENLGITIQDIGVGKDFMSKTPKAMATKA FT KIDKWDLIKLKSFCTAKETTIRVNRQPTTWEKIFATYSSDKGLISRIYNEL FT KQIYKKKTNNPIKKWAKDMNRHFSKEDIYAAKKHMKKCSSSLAIREMQIKT FT TMRYHLTPVRMAIIKKSGNNRCWRGCGEIGTLLHCWWDCKLVQPLWKSVWR FT FLRDLELEIPFDPAIPLLGIYPKDYKSCCYKDTCTRMFIAALFTIAKTWNQ FT PKCPTMIDWIKKMWHIYTMEYYAAIKNDEFISFVGTWMKLETIILSKLSQE FT QKTKHRIFSLIGGN" XX SQ Sequence 6064 BP; 2341 A; 1339 C; 1230 G; 1154 T; 0 other; gggaggagga gccaagatgg ccgaatagga acagctccgg tctacagctc ccagcgtgag 60 cgacgcagaa gacgggtgat ttctgcattt ccatctgagg taccgggttc atctcactag 120 ggagtgccag acagtgggcg caggccagtg tgtgtgcgca ccgtgcgcga gccgaagcag 180 ggcgaggcat tgcctcacct gggaagcgca aggggtcagg gagttccctt tccgagtcaa 240 agaaaggggt gacggacgca cctggaaaat cgggtcactc ccacccgaat attgcgcttt 300 tcagaccggc ttaagaaacg gcgcaccacg agactatatc ccacacctgg ctcagagggt 360 cctacgccca cggaatctcg ctgattgcta gcacagcagt ctgagatcaa actgcaaggc 420 ggcaacgagg ctgggggagg ggcgcccgcc attgcccagg cttgcttagg taaacaaagc 480 agccgggaag ctcgaactgg gtggagccca ccacagctca aggaggcctg cctgcctctg 540 taggctccac ctctgggggc agggcacaga caaacaaaaa gacagcagta acctctgcag 600 acttaagtgt ccctgtctga cagctttgaa gagagcagtg gttctcccag cacgcagctg 660 gagatctgag aacgggcaga ctgcctcctc aagtgggtcc ctgacccctg acccccgagc 720 agcctaactg ggaggcaccc cccagcaggg gcacactgac acctcacacg gcagggtatt 780 ccaacagacc tgcagctgag ggtcctgtct gttagaagga aaactaacaa ccagaaagga 840 catctacacc gaaaacccat ctgtacatca ccatcatcaa agaccaaaag tagataaaac 900 cacaaagatg gggaaaaaac agaacagaaa aactggaaac tctaaaacgc agagcgcctc 960 tcctcctcca aaggaacgca gttcctcacc agcaacagaa caaagctgga tggagaatga 1020 ttttgacgag ctgagagaag aaggcttcag acgatcaaat tactctgagc tacgggagga 1080 cattcaaacc aaaggcaaag aagttgaaaa ctttgaaaaa aatttagaag aatgtataac 1140 tagaataacc aatacagaga agtgcttaaa ggagctgatg gagctgaaaa ccaaggctcg 1200 agaactacgt gaagaatgca gaagcctcag gagccgatgc gatcaactgg aagaaagggt 1260 atcagcaatg gaagatgaaa tgaatgaaat gaagcgagaa gggaagttta gagaaaaaag 1320 aataaaaaga aatgagcaaa gcctccaaga aatatgggac tatgtgaaaa gaccaaatct 1380 acgtctgatt ggtgtacctg aaagtgatgt ggagaatgga accaagttgg aaaacactct 1440 gcaggatatt atccaggaga acttccccaa tctagcaagg caggccaacg ttcagattca 1500 ggaaatacag agaacgccac aaagatactc ctcgagaaga gcaactccaa gacacataat 1560 tgtcagattc accaaagttg aaatgaagga aaaaatgtta agggcagcca gagagaaagg 1620 tcgggttacc ctcaaaggaa agcccatcag actaacagcg gatctctcgg cagaaaccct 1680 acaagccaga agagagtggg ggccaatatt caacattctt aaagaaaaga attttcaacc 1740 cagaatttca tatccagcca aactaagctt cataagtgaa ggagaaataa aatactttat 1800 agacaagcaa atgctgagag attttgtcac caccaggcct gccctaaaag agctcctgaa 1860 ggaagcgcta aacatggaaa ggaacaaccg gtaccagccg ctgcaaaatc atgccaaaat 1920 gtaaagacca tcgagactag gaagaaactg catcaactaa tgagcaaaat caccagctaa 1980 catcataatg acaggatcaa attcacacat aacaatatta actttaaata taaatggact 2040 aaattctgca attaaaagac acagactggc aagttggata aagagtcaag acccatcagt 2100 gtgctgtatt caggaaaccc atctcacgtg cagagacaca cataggctca aaataaaagg 2160 atggaggaag atctaccaag ccaatggaaa acaaaaaaag gcaggggttg caatcctagt 2220 ctctgataaa acagacttta aaccaacaaa gatcaaaaga gacaaagaag gccattacat 2280 aatggtaaag ggatcaattc aacaagagga gctaactatc ctaaatattt atgcacccaa 2340 tacaggagca cccagattca taaagcaagt cctcagtgac ctacaaagag acttagactc 2400 ccacacatta ataatgggag actttaacac cccactgtca acattagaca gatcaacgag 2460 acagaaagtc aacaaggata cccaggaatt gaactcagct ctgcaccaag cagacctaat 2520 agacatctac agaactctcc accccaaatc aacagaatat acattttttt cagcaccaca 2580 ccacacctat tccaaaattg accacatagt tggaagtaaa gctctcctca gcaaatgtaa 2640 aagaacagaa attataacaa actatctctc agaccacagt gcaatcaaac tagaactcag 2700 gattaagaat ctcactcaaa gccgctcaac tacatggaaa ctgaacaacc tgctcctgaa 2760 tgactactgg gtacataacg aaatgaaggc agaaataaag atgttctttg aaaccaacga 2820 gaacaaagac accacatacc agaatctctg ggacgcattc aaagcagtgt gtagagggaa 2880 atttatagca ctaaatgcct acaagagaaa gcaggaaaga tccaaaattg acaccctaac 2940 atcacaatta aaagaactag aaaagcaaga gcaaacacat tcaaaagcta gcagaaggca 3000 agaaataact aaaatcagag cagaactgaa ggaaatagag acacaaaaaa cccttcaaaa 3060 aatcaatgaa tccaggagct ggttttttga aaggatcaac aaaattgata gaccgctagc 3120 aagactaata aagaaaaaaa gagagaagaa tcaaatagac acaataaaaa atgataaagg 3180 ggatatcacc accgatccca cagaaataca aactaccatc agagaatact acaaacacct 3240 ctacgcaaat aaactagaaa atctagaaga aatggataca ttcctcgaca catacactct 3300 cccaagacta aaccaggaag aagttgaatc tctgaataga ccaataacag gctctgaaat 3360 tgtggcaata atcaatagtt taccaaccaa aaagagtcca ggaccagatg gattcacagc 3420 cgaattctac cagaggtaca aggaggaact ggtaccattc cttctgaaac tattccaatc 3480 aatagaaaaa gagggaatcc tccctaactc attttatgag gccagcatca ttctgatacc 3540 aaagccgggc agagacacaa ccaaaaaaga gaattttaga ccaatatcct tgatgaacat 3600 tgatgcaaaa atcctcaata aaatactggc aaaccgaatc cagcagcaca tcaaaaagct 3660 tatccaccat gatcaagtgg gcttcatccc tgggatgcaa ggctggttca atatacgcaa 3720 atcaataaat gtaatccagc atataaacag agccaaagac aaaaaccaca tgattatctc 3780 aatagatgca gaaaaagcct ttgacaaaat tcaacaaccc ttcatgctaa aaactctcaa 3840 taaattaggt attgatggga cgtatttcaa aataataaga gctatctatg acaaacccac 3900 agccaatatc atactgaatg ggcaaaaact ggaagcattc cctttgaaaa ctggcacaag 3960 acagggatgc cctctctcac cgctcctatt caacatagtg ttggaagttc tggccagggc 4020 aatcaggcag gagaaggaaa taaagggtat tcaattagga aaagaggaag tcaaattgtc 4080 cctgtttgca gacgacatga ttgtttatct agaaaacccc atcgtctcag cccaaaatct 4140 ccttaagctg ataagcaact tcagcaaagt ctcaggatac aaaatcaatg tacaaaaatc 4200 acaagcattc ttatacacca acaacagaca aacagagagc caaatcatgg gtgaactccc 4260 attcacaatt gcttcaaaga gaataaaata cctaggaatc caacttacaa gggatgtgaa 4320 ggacctcttc aaggagaact acaaaccact gctcaaggaa ataaaagagg acacaaacaa 4380 atggaagaac attccatgct catgggtagg aagaatcaat atcgtgaaaa tggccatact 4440 gcccaaggta atttacagat tcaatgccat ccccatcaag ctaccaatga ctttcttcac 4500 agaattggaa aaaactactt taaagttcat atggaaccaa aaaagagccc gcatcgccaa 4560 gtcaatccta agccaaaaga acaaagctgg aggcatcaca ctacctgact tcaaactata 4620 ctacaaggct acagtaacca aaacagcatg gtactggtac caaaacagag atatagatca 4680 atggaacaga acagagccct cagaaataat gccgcatatc tacaactatc tgatctttga 4740 caaacctgag aaaaacaagc aatggggaaa ggattcccta tttaataaat ggtgctggga 4800 aaactggcta gccatatgta gaaagctgaa actggatccc ttccttacac cttatacaaa 4860 aatcaattca agatggatta aagatttaaa cgttagacct aaaaccataa aaaccctaga 4920 agaaaaccta ggcattacca ttcaggacat aggcgtgggc aaggacttca tgtccaaaac 4980 accaaaagca atggcaacaa aagccaaaat tgacaaatgg gatctaatta aactaaagag 5040 cttctgcaca gcaaaagaaa ctaccatcag agtgaacagg caacctacaa catgggagaa 5100 aattttcgca acctactcat ctgacaaagg gctaatatcc agaatctaca atgaactcaa 5160 acaaatttac aagaaaaaaa caaacaaccc catcaaaaag tgggcgaagg acatgaacag 5220 acacttctca aaagaagaca tttatgcagc caaaaaacac atgaagaaat gctcatcatc 5280 actggccatc agagaaatgc aaatcaaaac cactatgaga tatcatctca caccagttag 5340 aatggcaatc attaaaaagt caggaaacaa caggtgctgg agaggatgtg gagaaatagg 5400 aacactttta cactgttggt gggactgtaa actagttcaa ccattgtgga agtcagtgtg 5460 gcgattcctc agggatctag aactagaaat accatttgac ccagccatcc cattactggg 5520 tatataccca aaggactata aatcatgctg ctataaagac acatgcacac gtatgtttat 5580 tgcggcacta ttcacaatag caaagacttg gaaccaaccc aaatgtccaa caatgataga 5640 ctggattaag aaaatgtggc acatatacac catggaatac tatgcagcca taaaaaatga 5700 tgagttcata tcctttgtag ggacatggat gaaattggaa accatcattc tcagtaaact 5760 atcgcaagaa caaaaaacca aacaccgcat attctcactc ataggtggga attgaacaat 5820 gagatcacat ggacacagga aggggaatat cacactctgg ggactgtggt ggggtcgggg 5880 gaggggggag ggatagcatt gggagatata cctaatgcta gatgacacgt tagtgggtgc 5940 agcgcaccag catggcacat gtatacatat gtaactaacc tgcacaatgt gcacatgtac 6000 cctaaaactt agagtataat aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaataaata 6060 aaaa 6064 // ID MER2 repbase; DNA; HUM; 344 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW Interspersed repetitive sequence; MER2. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Sheflin L., Celeste A. and Woodworth-Gutai M.; RT "Recombination in simian virus 40-infected cells. Structure of RT naturally arising variants ev-2114, ev-2102, and ev-1110."; RL J. Biol. Chem 258(23), 14315-14321 (1983). XX RN [2] RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [3] RP 1-344 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [4] RP 1-344 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [4] (Consensus) XX CC 24 bp terminal inverted repeats, TA target site. CC Orientation inverted from [3] after similarities to Tigger2. XX SQ Sequence 344 BP; 98 A; 77 C; 71 G; 98 T; 0 other; cagtcgtccc tcggtatccg tgggggattg gttccaggac cccccgcgga taccaaaatc 60 cacggatgct caagtccctg atataaaatg gcgtagtatt tgcatataac ctacgcacat 120 cctcccgtat actttaaatc atctctagat tacttataat acctaataca atgtaaatgc 180 tatgtaaata gttgttatac tgtattgttt agggaataat gacaaggaaa aaagtctgta 240 catgttcagt acagacgcaa ccatccattt tttttctgaa tattttcgat ccgcggttgg 300 ttgaatccac ggatgcggaa cccacggata cggagggccg actg 344 // ID MLT2C2 repbase; DNA; HUM; 450 BP. XX AC . XX DT 08-FEB-1999 (Rel. 4.01, Created) DT 08-FEB-1999 (Rel. 4.01, Last updated, Version 3) XX DE Interspersed repeat MLT2C2 - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Interspersed repeat; LTR; MLT2C2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX DR [1] (Consensus) XX CC This sequence is an endogenous retroviral LTR. CC Identified in humans and rodents. XX SQ Sequence 450 BP; 114 A; 108 C; 94 G; 127 T; 7 other; tgtgatagtt aattttatgt gtcaacttgg ctaggctatg gtgtccagac gtttggtcaa 60 acaycagtct agatgttgct gtgaaggtat tttrtagatg tgattaacat ttayagtcag 120 ttgactttaa gtaaaggaga ttaccctcca taatgtgggt gggcctcatc caatcagttg 180 aaggccttaa gagcaaagac tgaggtttcc cgaggaagaa gaaattctgc ctcaagactg 240 caacgtggaa atcctgctgn tttwccagcc tccaagcctt cggactcgaa ctgcaacatc 300 arctcttscc tgggtctcca gcctgccggc ctaccctgca gatttcggac ttgccagcct 360 ccacaatcgc gtgagccaat tccttaaaat aaatctctct ctacacacac cctattggtt 420 ctgtttctct ggagaaccct gactaataca 450 // ID LTR90B repbase; DNA; HUM; 796 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of LTR Retrotransposon from mammals. XX KW LTR Retrotransposon; Transposable Element; LTR90B_LTR; LTR90B. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-796 RA Smit A.F.; RT "LTR90B - LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 35% subst level in borEut13. Unclear TSDs, but perhaps 5 bp. XX SQ Sequence 796 BP; 261 A; 159 C; 164 G; 195 T; 17 other; tgttagaaat tttatgtgga gtctggggct gagagctggg ggtcaggatc tggaatttgn 60 gatctaaaga tcctagatcc cgcttcctac agtacaccca gatcaagatt gatggaacca 120 ggtagctcgc ttancnaagc gagggccatc cagccttcca gtttctggat gaaattgaga 180 agggtaatan atttggaaaa cagaatggag tccatcccng aataaccaaa ttaanccttc 240 tttaatgatt gagaacanta tgtatncaag atccaaacca atctcaagaa ttaatcaaca 300 aaaggnacag gaatttcagc tatacaaaat aaactaacag gatttgaaat gcaggcaatc 360 ctattttaca gtaaaaacca aggaaaacac agattttaat ccaggttcta gttcatacct 420 ggctcggaga nagagaattc tncgagnata tgcanaagaa tgntcggaca taaaaagggg 480 caaagaaaca ggaaatcttg cacaagaact ctaagaggaa ggcggngttt ctctcttgcc 540 caatcagcgt tggctccnag gaaccagaga aaacacggag aaagcggaaa agatcgattt 600 gncctcgttg acacctcgtt gacacttcat taagaagagt cagttcttgg tacttgaggt 660 tttcccagaa gatggaatat ttctttcccc ttaaattcac atatgctgcc cagaagcccc 720 cgggcttcct ggaattttta ttaagaattc cagatattcc agcaataatt ttcagacacc 780 acagcttctg ctaaca 796 // ID MLT1H repbase; DNA; HUM; 549 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Mammalian long terminal repeat (MLT1H subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MLT1H; KW MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F.; RT "MLT1H."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC LTR of MLT1H retrovirus-like MaLR element. 5 bp target site dups. CC Closely similar to MLT1G over bases 70-219 and 415-547. CC Average divergence from consensus 24-25%. XX SQ Sequence 549 BP; 130 A; 161 C; 139 G; 117 T; 2 other; tgtggtagat tgattgcaaa aatggccaca attmtccacc cctccctgta tccatgccct 60 ttgcaatgtg actttgcagc tcctcccatc aagaggtgga gtctatttcc ccaccccttg 120 aatctgggct ggccttgtga cttgctttgg ccaatagaat gtggcagaag tgacggtgtg 180 ccagttctga gcctaggcct caagaggcct tgcacgcttc tgctctctct cttggaaccc 240 tgccaccgcc atgtgaacaa gcccgggcta gcctgctgga ggatgagaga ccacgtggag 300 cagagccgag ccgtcccagc tgaggccatc ctagacnggc cagcccccag ccaagatcag 360 cagagccgcc tactcaacca gcagctgacc acagatgcat gagggagccc agccgagacc 420 agaagaacca cccagctgag cccagcccaa attgccgacc cgcagaatcg tgagctaaaa 480 taaatggttg ttgttttaag ccactaagtt ttggggtggt ttgttacgca gcaatagcta 540 actgataca 549 // ID LTR31 repbase; DNA; HUM; 619 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Putative LTR from MER4I-MER41I-MER57I-MER65I group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW endogenous retroelement; LTR31; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-619 RA Kapitonov V.V. and Jurka J.; RT "LTR31."; RL Direct Submission to Repbase Update (27-NOV-1997). XX DR [1] (Consensus) XX CC LTR31 sequences are ~84% similar to their consensus sequence. CC LTR31 (position 437-582) is 68% similar to MER87 (position CC 354-499). CC LTR31 (position 267-357) is 81% similar to MER72 (position CC 350-440). CC LTR31 (position 476-606) is 68% similar to LOR1 (position CC 344-471). CC LTR31 (position 397-619) is 65% similar to LTR26 (position CC 376-603). CC LTR31 is a putative LTR from MER4I-MER65I group. XX SQ Sequence 619 BP; 133 A; 178 C; 126 G; 174 T; 8 other; tgcttgcttt tggtcacttg ctttgtgtta tcgttnttat tkttttcctt tttccatgaa 60 gctgaaggcc gcagtagctg aaggccttgc cgctgaatgc tgaaacttaa ccttcactgg 120 ctactttata gataacattc ataggtcacc acggtaacgg ttgcttacag ttgtttttca 180 rggaactkgg gccagctcct gtccagttca aaccggttga gaccackaac ccttcaactg 240 ggcctgcgca agtgcccaag aggtggcctt ttgacgtcgg agggccaaaa actccaccct 300 cagatcacgc taacgccacc attttctgta catgtgtcct atgaartgcc atgaagcccg 360 actacgcttg cgcagaatga acctrttact tcatttttcc ccactgccaa tcacctttcc 420 ccacacctta gaccaccccg cttctctaac ccataaatat ccctaagcct tatcttcggg 480 gaggcggatt tgagagctgt tctcccgcct cctcgcttgg cggccttgtg aataaatctt 540 ttctcttttg caaaacccat cgtcacagtg attgrcttac tgcgcgcggg cagaacggac 600 ctggacctgg ccagtaaca 619 // ID L1PREC2 repbase; DNA; HUM; 8145 BP. XX AC . XX DT 31-OCT-2000 (Rel. 5.09, Created) DT 28-JUL-2005 (Rel. 10.08, Last updated, Version 2) XX DE L1PREC2 is an ancient subfamily of L1 - a consensus sequence. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 subfamily; KW L1P12_5; L1PA17_5; L1PREC1; L1PREC2; LINE1; ORF1; ORF2; KW endonuclease; reverse transcriptase. XX NM L1PREC2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1062-4234 RA Jurka J.; RT "L1PREC2."; RL Direct Submission to Repbase Update (OCT-2000). XX RN [2] RP 1-8145 RA Kapitonov V.V.; RT "L1PREC2."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [2] (Consensus) XX CC It is a complete consensus sequence of the L1PREC2 subfamily of CC L1. Average divergence of L1PREC2 copies from the consensus CC sequence CC is 11%. CC A ~900-bp 3' tail of L1PREC2 is 96% identical to L1PA12, L1PA13 CC and CC L1PA14. A portion of L1PREC2, which starts at position 3420 is CC 87% and 90% identical with L1 and L1PREC1, respectively. CC The 5'-terminal 3419 bp long portion is ~90% identical to CC L1PA12_5 and L1PA17_5 (including several long gaps). XX FH Key Location/Qualifiers FT CDS 3011..4024 FT /product="L1PREC2_1p" FT /note="RNA-binding protein" FT /translation="MRKNQGKNSSNSNGQSVLCPPNDRTSSPTRVLNQAEL FT AEMTEIEFRIWIGMKIIEIQENGKTQSKETKNHNKTIQELTDEIASIKKNL FT TDLTELKNTLQEFHNAITSINSRIDQAEERISELEDWLSEIRQSDKNKEKR FT MKRNEQNLREIWDYVKRPNLRITGIPERDGEKANNLENIFQDIVHENFPNL FT AREANSQIQEIQRTPARFYTRRSSPRHIIIRFSKVEMKERMLKAAREKGQV FT TYKGNPIRLTADLSAETLQARRDWGPIFNILKEKNLQPRISYPAKLSFLSE FT GEIRSFSDKQMLREFVTTRPALQEILKGALNMERKDRYQPIQKHT*" FT CDS 4094..7918 FT /product="L1PREC2_2p" FT /note="endonuclease and reverse transcriptase FT domains" FT /translation="MTGSNPHISILTLNVNGLNAPFKRHRVASWIKKQDPM FT VCCLQETHLTRNDTHRLKIKGWRKIYQANGNQKKAGVAILISDKTDFKPTK FT IKKDKEGHYIMVKGSIQQEDLTILNIYAPNTGAPRFIKQVLRDLQRDLDSH FT TIIVGDFNTPLTVLDRSSRQKINKDIQDLNSTLDQMDLIDLYRTLHPKTTE FT YTFFSLPHGTYSKIDHTIGHKTILSKCKRTEIIPNTLSDHSAIKIEVKTKK FT IAQNHAITWKLNNLLLNDFWVNNEIKAEIKKFFETNENKDTTYQNLWDTAK FT AVLRGKFIALNAHIKKLERSQINNLTSQLKELEKQEQTNPKASRRQEITKI FT RAELKEIETRKTIQKINESRSWFFEKINKIDRPLARLIKKKREKIQINTIR FT NDKGDVTTDPTEIQITIRNYYEHLYAHKLENLEEMDKFLDTYTLPRLNQEE FT IDSLNRPITSSEIESVINSLPTKKSPGPDGFTAEFYQMYKEELVPFLLKLF FT QKIEEEGLLPNSFYEASIILIPKPGRDTTKKENFRPISLMNIDAKILNKIL FT ANRIQQHIKKLIHHDQVGFIPGMQGWFNIRKSINVIHHINRTKDKNHMIIS FT IDAEKAFDKIQHPFMLKTLNKLGIEGTYLKIIRAIYDKPTANIILNGQKLE FT AFPLKTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGIQIGREEVKLSLF FT ADDMILYLENPIVSAQKLLQLINNFSKVSGYKINVQKSLAFLYTNNSQAES FT QIRNAIPFTIATKRIKYLGIQLTREVKDLYNENYKTLLKEIRDDTNKWKNI FT PCSWIGRINIIKMAILPKAIYRFNAIPIKLPMTFFTELEKTILKFIWNQKR FT ARIAKAILSKKNKAGGITLPNFKLYYRATVTKTAWYWYKNRHIDQWNRIES FT PEIRPHTYNHLIFDKADKNKQWGKDSLFNKWCWDNWLAICRRLKLDPFLTP FT YTKINSRWIKDLNVKPKTIKTLEDNLGNTILDIGTGKDFMTKTPKAIATKA FT KIDKWDLIKLKSFCTAKETINRVNRQPTEWEKIFANYASDKGLISSIYKEL FT KQIYKKKTNNPIKKWAKDMNRHFSKEDIHVANKHMKKSSISLIIREMQIKT FT TMRYHLTPVRMAIIKKSKNNRCWRGCGEKGTLIHCWWECKLVQPLWKAVWR FT FLKELKTELPFDPAIPLLGIYPKEYKSFYHKDTCMRMFIAALFTIAKTWNQ FT PKCPSMADWIKKMWYIYTMEYYAAIKKNEIMSFAGTWMELEAIILSKLTQE FT QKTKYRMFSLISGS" XX SQ Sequence 8145 BP; 2837 A; 2134 C; 1714 G; 1460 T; 0 other; ggctggccaa gatggccgac tagaagcagc tagtgtgtgc cgctctcacg gagagaaatg 60 gaaggggcga gtaaatacag caccttcaac tgaaacatcc aggtacacgc attgggattc 120 atcaaggaaa caactcgacc cacggagaat ggagaaaagc aaggcaggac gaccgcccac 180 ccgggagcga cacggagcca ggggaacctc ccccgcccag ggaagcggtg agtgagtgag 240 cgaccctggg gacccacgct tctcccacgg atctttgcaa ccctcgggtc aggagatccc 300 ctcgtgaacc cactccacca gggccttcag tctgacacgc agagctacgt ggagtctcgg 360 cagagcagcc gctcaggcac acgcggagcc ccgggagcct tagatacccg ggcttcccgg 420 caaaagcagc tgcaactccg gcaaagcggg aggttagacc cccgtacata cccctaggaa 480 aggggctgaa tccagggggc tgagcagcga cggtctgcag gccccgcttc catggcacct 540 cgcaggataa gacccactgg cttggaactc cagccagcca ccggtagcag cgttacacct 600 ccctgagatg gagctcccag agggaggggc gggccgccat ctttgctgtt tcgcagcctt 660 agccattgtt gccttcgggc tctagggagt ccgaggcaac tagggactgg agcagtcccc 720 cagcacagca cagcagctct acggagaagc ggccagactg ctttttcacg cggatcccga 780 atcccgtttc tcttcactgg gcggaatctc ccgaccgggg tctccagtca cccccaccgg 840 tgttttccag ctgacagcag tttcaaacct ccctgggatg gagctcccag agggaggggc 900 gggccgccat ctttgctgtt tcgcagcctt agccgttctt gccttcgggc tttggagagt 960 ccgaggcgac taggggctgg agcggacccc cagcacagca cagctgctct acgaaaaagt 1020 ggccagactg cttttttacg cgggtccctg atcccgttcc tcctcactgg gcgggatctc 1080 ccgaccgggg tctccagcca cctcctgcag gtgcgttcgg gccggcaaca ggtccgtacc 1140 tccctgggac ggagctccca gagggagggg caggccgcca tctttgctgt ttcgcagcct 1200 tcactgttga taccttcagg tactggaaaa tccgaggtga ctagggactg gagcggaccc 1260 ccagcatact gcagcagccc tacggaaaag tggccagact gtttgttaca tgtggtgccc 1320 aatcccatat ctcctcactg ggcgggtcct ccaggcctgg gtctccagcc accccccgcc 1380 ggggctatcg agccagtagc agctctgcaa ctccctggga cagagctccc agtgggaggg 1440 gtgggttgcc atctttgctg tcttgcagcc cttgcccttg ctgtctccag gctctggaga 1500 gtctgtgggg accaggggct ggtccggacc cccagcacag agcaaccacc tcacggaaaa 1560 gtggccagac tgttctccac gcagatcctg gtcctcactt ctcctcactg ggcagggcca 1620 cccgacctgg gactccagca caaccaccct gcccctgcct gatcaccaca atcagaggca 1680 gcccagcatt tctccaagga ggaaatccca gagtcaaccc acaacccctc caccactaca 1740 gttgcagtgg tacagcccta acagccctcg ggctggggaa ggaacaaagg gcctagtcat 1800 tacgctggca cctccagcac accacagcca ccatacggag aggagtccag cccctcttcc 1860 ctgggaaccc ccacccccac tcttcaccag gcagggcccc cggctcatga ccgcagaaca 1920 gtcaccccac ccatggctga gcatacccac tggtagtggc ccggagtttc cccggggaga 1980 ggctcccaga ggcatacgac agcccctctg ccactgccac agcaacagtt ctatccctgc 2040 tgccctcggt ctggggaaga aacaaagagc ctgagggcta cacctgagct tacagcacgc 2100 cacagtcacc atatggagag gagaccaatc tctcctccca gtgagccttc gaccccctgc 2160 tccccaacaa gtggaacccc aagctcacgc cagcagtgca gccgccccac cccactggct 2220 gaacactccc agtaacagtg gctctgcgtt tctcggaggt ggagccccca ggggcaaccg 2280 aaagcctctc tgccactgcc tctgcagtgg tactacccct gctaccctca gactaacgaa 2340 ggagcaaaga ccctaagtgc cttatccaca cctccaacaa gctgcagtcg acccaaggag 2400 aggaggccag tccgtctccc atgggtccca cccaccacca ggcagggaac ccccggcttg 2460 ggcccacagc acagaccccc catcctgggc tgattgcact gagcgattgc tgacctgcat 2520 ctctctgggg tggagccccc aggagacaag caaaagaccc tcggccacaa ccactactaa 2580 ggtcccttcc tctgctgcct ccaagttggg gaggaaacat aaaccctgag atcaccccag 2640 agctgtggtg ggcagcccgg gagtgccaag ccgcgatcta cagccagcac tcaagtggga 2700 gaggagccca cactttcaga gcattgagag ggagcacggc tgcaactgtg aggaaatata 2760 ggggagccac acgactgagc aagagcctac caactgacca ctacgcctaa gcgccaccta 2820 ctggatcaca ccccaaagct tcaacaccaa aaatacctca ctaacatacc cccctgtgaa 2880 accaaagaca agaagtcagc tacaaataaa gaccctgcac aaagcctcgg ccctgtgaaa 2940 acatccagaa aagaagtcta ttgactgtac tcaatctaca ctgcagttaa aggaacaccc 3000 acacgcagag atgagaaaga accaaggcaa gaactccagc aactcaaatg gccagagtgt 3060 cttatgtcct ccaaacgacc gcactagttc tccaacaagg gttcttaacc aggctgagtt 3120 ggctgaaatg acagaaatag aattcagaat atggatagga atgaagatca tcgagattca 3180 ggagaacggc aaaacccaat ccaaggaaac taagaatcac aataaaacga tacaggagct 3240 gacagacgaa atagccagta taaaaaagaa cctaactgat ctgacagagc tgaaaaacac 3300 actacaagaa tttcacaatg caatcacaag tattaacagc agaatagacc aagctgagga 3360 aagaatctca gaacttgaag actggctctc tgaaataaga cagtcagaca aaaataaaga 3420 aaaaagaatg aaaaggaatg aacaaaacct ccgagaaata tgggattatg taaagaggcc 3480 aaatctacga atcactggca tccctgaaag ggacggggag aaagcaaaca acttggaaaa 3540 catatttcag gatatcgtcc atgaaaactt ccccaacctt gctagagagg ccaacagtca 3600 aattcaggaa atacagagaa cccctgcaag attctacaca agaagatcat ccccaagaca 3660 cataatcatc agattttcca aggtcgaaat gaaagaaaga atgttaaagg cagctagaga 3720 gaaagggcag gtcacctaca aagggaaccc catcaggcta acagcggacc tctcagcaga 3780 aaccctacaa gccagaagag attgggggcc tatattcaac attcttaaag aaaaaaatct 3840 tcaaccaaga atttcatatc cagccaaact aagcttccta agcgaaggag aaataagatc 3900 cttttcagat aagcaaatgt tgagggagtt cgttaccacc agacccgcct tacaagagat 3960 cttgaaagga gcactaaata tggaaaggaa agaccgttac cagccaatac aaaaacacac 4020 ttaaatacac agaccagtga cactataaag caaccacaca aacaagccgg cataataacc 4080 agctaacaac acaatgacag gatcaaatcc acacatatca atactaacct tgaatgtaaa 4140 tgggctaaat gccccattta aaaggcacag agtggcaagc tggataaaaa agcaagaccc 4200 aatggtatgc tgtcttcaag agacccatct cacacgcaat gacacccata ggctcaaaat 4260 aaagggatgg aggaaaatct accaagcaaa tggaaatcag aaaaaagcag gggttgcaat 4320 cctaatttca gacaaaacag actttaaacc aacaaagatc aaaaaagaca aagaagggca 4380 ttacataatg gtaaagggtt caattcaaca agaagaccta actatcctaa atatatatgc 4440 acccaacaca ggagcaccca gattcataaa gcaagttctt agagacctac aaagagactt 4500 agactcccac acaataatag tgggagactt caacactcca ctgacagtat tagacagatc 4560 atcgaggcag aaaattaaca aagatattca ggacctgaac tcaacattgg accaaatgga 4620 tctgatagac ctctacagaa ctctccaccc aaaaacaaca gaatatacat tcttctcatt 4680 gccacatggc acatactcta aaatcgacca cacaattgga cataaaacaa tcctcagcaa 4740 atgcaaaaga accgaaatca taccaaacac actctcggac cacagcgcaa taaaaataga 4800 agtcaagact aaaaaaatcg ctcaaaacca tgcaattaca tggaaattaa acaacctgct 4860 cctgaatgac ttttgggtaa ataatgaaat taaggcagaa atcaagaagt tctttgaaac 4920 taatgagaac aaagatacaa cataccagaa tctctgggac acagctaagg cagtgttaag 4980 agggaaattt atagcactaa atgcccacat caaaaagtta gaaagatctc aaattaacaa 5040 cctaacatca caactgaaag aactagagaa gcaagagcaa accaacccca aagctagcag 5100 aagacaagaa ataaccaaaa tcagagctga actgaaggag atcgagacac gaaaaaccat 5160 tcaaaagatc aacgaatcca ggagttggtt ttttgaaaaa attaataaga tagataggcc 5220 gctagctaga ctaataaaga agaaaagaga gaagatccaa ataaacacaa ttagaaatga 5280 caaaggggat gttaccactg accccacaga aatacaaata accatcagaa actactacga 5340 acacctctat gcacacaaac tagaaaacct agaagagatg gataaattcc tggacacata 5400 caccctccca agactgaacc aggaagaaat tgattccctg aacagaccaa taacgagctc 5460 cgaaattgaa tcagtaataa atagcctacc aaccaaaaaa agcccaggac cagacggatt 5520 cacagccgaa ttctaccaga tgtacaaaga agagctggta ccattcctac tgaaactatt 5580 ccaaaaaatt gaggaggagg gactcctccc caactcattc tatgaggcca gcatcatcct 5640 gataccaaaa cctggcagag acacaacaaa aaaagaaaac ttcaggccaa tatccttgat 5700 gaacatcgat gcaaaaatcc tcaacaaaat acttgcaaac cgaatccagc agcacatcaa 5760 aaagctaatc caccacgatc aagtaggctt tatccccggg atgcaaggtt ggttcaacat 5820 acgcaaatca ataaatgtga ttcatcacat aaacagaact aaagacaaaa accacatgat 5880 tatctcaata gatgcagaaa aggcttttga taaaattcaa catcccttca tgttaaaaac 5940 tctcaataaa ctaggtattg aaggaacata cctcaaaata ataagagcca tctatgacaa 6000 acccacagcc aacatcatac tgaatgggca aaagctggaa gcattcccct tgaaaaccgg 6060 cacaagacaa ggatgccctc tctcaccact cctattcaac atagtattgg aagtcctggc 6120 cagagcaatc aggcaagaga aagaaataaa gggcatccaa ataggaagag aggaagtcaa 6180 actatccctg tttgcagacg acatgattct atatctagaa aaccccatag tctcggccca 6240 aaagctcctt cagctgataa acaacttcag caaagtttca ggatacaaaa tcaacgtaca 6300 aaaatcacta gcattcctat acaccaacaa cagccaagcc gagagccaaa tcaggaacgc 6360 aatcccattc acaattgcca caaaaagaat aaaataccta ggaatacagc taaccaggga 6420 ggtgaaagat ctctacaatg agaattacaa aacactgctc aaagaaatca gagatgacac 6480 aaacaaatgg aaaaacattc catgctcatg gataggaaga atcaatatca ttaaaatggc 6540 catactgccc aaagcaattt acagattcaa tgctattcct atcaaactac caatgacatt 6600 cttcacagaa ctagaaaaaa ctattttaaa attcatatgg aaccaaaaaa gagcccgaat 6660 agccaaggca atcctaagca aaaagaacaa agctggaggc atcacgttac ccaacttcaa 6720 actatactac agggctacag taaccaaaac agcatggtac tggtacaaaa acagacacat 6780 agaccaatgg aacagaatag agagcccaga aataaggccg cacacctaca accatctgat 6840 cttcgacaaa gctgacaaaa acaagcaatg gggaaaggac tccctattca ataaatggtg 6900 ctgggataac tggctagcca tatgcagaag attgaaactg gaccccttcc ttacaccata 6960 tacaaaaatc aactcaagat ggattaaaga cttaaatgta aaacccaaaa ctataaaaac 7020 cctggaagac aacctaggca ataccattct ggacatagga acgggcaaag atttcatgac 7080 gaagacgcca aaagcaattg caacaaaagc aaaaattgac aaatgggatc taattaaact 7140 taagagcttc tgcacagcaa aagaaactat caacagagta aacagacaac ctacagaatg 7200 ggagaaaata tttgcaaact atgcatctga caaaggtcta atatccagca tctataagga 7260 acttaaacaa atttacaaga aaaaaacaaa caaccccatt aaaaagtggg caaaggacat 7320 gaacagacac ttttcaaaag aagacataca tgtggccaac aagcatatga aaaaaagctc 7380 aatatcactg atcattagag aaatgcaaat caaaaccaca atgagatacc atctcacacc 7440 agtcagaatg gctattatta aaaagtcaaa aaataacaga tgctggcgag gttgcggaga 7500 aaagggaaca cttatacact gttggtggga gtgtaaatta gttcaaccat tgtggaaagc 7560 agtgtggcga ttcctcaaag agctaaaaac agaactacca ttcgacccag caatcccatt 7620 actgggtata tacccaaagg aatataaatc attctaccat aaagacacat gcatgcgaat 7680 gttcattgca gcactattca caatagcaaa gacatggaat caacctaaat gcccatcaat 7740 ggcagactgg ataaagaaaa tgtggtacat atacaccatg gaatactatg cagccataaa 7800 aaagaacgag atcatgtcct ttgcgggaac atggatggag ctggaggcca ttatccttag 7860 caaactaacg caggaacaga aaaccaaata ccgcatgttc tcacttataa gtgggagcta 7920 aatgatgaga actcatggac acaaagaaag gaacaacaga cactggggcc tacctgaggg 7980 tggagggtgg gaggagggag aggatcagga aaaataacta ttgggtacta ggcttagtac 8040 ctgggtgaca aaataatctg tacaacaaac ccccatgaca tgagtttacc tatataacaa 8100 acctgcacat gtacccctga acctaaaata aaagttttaa aaaaa 8145 // ID MER52B repbase; DNA; HUM; 1746 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Long terminal repeat from MER4I-group retroelement. XX KW LTR Retrotransposon; Transposable Element; LTR; MER4I-group; KW MER52; MER52B; subfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX RN [2] RA Smit A.F.; RT "MER52B."; RL Direct Submission to Repbase Update (1996). XX RN [3] RP 1-1746 RA Kapitonov V.V. and Jurka J.; RT "MER52B."; RL Direct Submission to Repbase Update (APR-1998). XX DR [3] (Consensus) XX CC MER52B is LTR from retroelements related to the MER4I-group [3]. CC 4 bp target site duplication [3]. Previous orientation [1,2] has CC been changed based on internal sequences and similarity with CC known LTRs. MER52B shares fragment of significant similarity CC with LTR20, LTR25, LTR27, LTR28 and MER61. XX SQ Sequence 1746 BP; 285 A; 622 C; 572 G; 249 T; 18 other; tgatggcagc ggcggcccgt ctggagtggc cgctgccatc atgccggctg cagcagggag 60 gcgcggccgg ggctgcacgc tccatggagc cagcgggagc cggggacaag cgggagcccc 120 gccccttccg agttggggcg ggagctcccc gggtgcagct gcagccgccc aaaccgcagc 180 tgcagacccg ggcctccctg tgctcttggg ggccgggagc aggcaggagc cccaccctcc 240 tgggtgcagc tgcagccgcc caagccgcgg ctgcggaccc aggcatcyct gcgctctkgg 300 gggsccagga aggcccccct gcccccacag gcttggagcc gcccgctccc actgcagctg 360 gcctctcccc gctcccgggg cccgctccgc aggctcagaa gtgcctgctc ccactgcctg 420 gcttctccct gctgccggca cccgctccga tctcggagca aagttggggc cgagcccggg 480 cgctgtcgca gcccggccgg gtgtgcacac gctcggggca gcgctgacac gccagccccc 540 tgccgcctcg gccccctcca gactttgggc gccgacgagc atgggaggga agccragggg 600 gggctgaggg cagctcggcg ctggcctgca ggcgcccctt ggcacsaaca gcctgggcgc 660 catgaatggc agcaggaggc agacaggytc ctgggcagaa aggggcgggt ccccggtgag 720 gccccacctt caggccaggg agggcctgaa ggctgggggc cgggctgcca gtcccgcgga 780 ccrgagtggg aacttgtggt gccttttctg ggcccaccca tggccgccca tggaccaatc 840 ggcacgcact tcctcccctc tgaggcccat aaaagccctg ggctcagcca gagcwgagca 900 gacgacggga cgaccagctg cagagaggag ctacccactc cggggtctcc tctctgctga 960 gagctgcasa gwcgwcggga tgacctgcct gcagagagga gctacccact ccagggtctc 1020 ctctctgctg agagctgaac actcgtcggg acgmcctgsc tgcggaragg agctacccac 1080 tgcgggtctc ctctgagctg ttctatcgct caataaagct cctcttcatc ttgctcaccc 1140 tccacttgtc tgtgtacctc attcttcctg gacgcaggac aagaactcgg gacccaccga 1200 atggcggggc taaaagagct gtaacacaaa cagggctgaa acatgcccct tgctcgccac 1260 gttgtgggca aagagaagga gagaagagct gtggcccttc ggggagccca gacctgggag 1320 ctccccgagc cagggctgtg actccctctt tggggccctg cggttcctgg catctccaag 1380 cttccgggcg ccaccgcgtt ccccrgtgcc agctgtggaa gctgcttgcg gtgcgcctgg 1440 tccagccgca gccttgcaga gagccggcac ctgtgccggc gcctggagct gcccgccccg 1500 cwgcagccrg cgcacctgac tgtgcacagt ggccggaccc cacgctcgct cacacacccc 1560 tcaccgctcc gcgcctgact cgcccttggc aggcatggga tccaggccgg tagcgtgagc 1620 ygagcgcagc ctgccaggcc gagtgggcgg aacgagccca gcgggcccaa gcaaaactcg 1680 ggcaaaggcg ccaccggcca cagaggtttc cggccagaaa agcgacaccc caaggatccc 1740 atgaca 1746 // ID LTR75_1 repbase; DNA; HUM; 546 BP. XX AC . XX DT 06-SEP-2005 (Rel. 10.08, Created) DT 06-SEP-2005 (Rel. 10.08, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR75_1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-546 RA Smit A.F.; RT "LTR75_1 - ERV1 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (06-SEP-2005). XX DR [1] (Consensus) XX CC 19%. XX SQ Sequence 546 BP; 134 A; 150 C; 111 G; 140 T; 11 other; tgttaccagg gcagccctga tgaaataact gggaaagctc atttttctta ctgtttttct 60 ttagtctctt tatctatagg cacagctgct taaagaaacc agatggcccg gtggcgccag 120 agcttcnnga cccctngcca gataccagag ggagataaga cccgcccgaa accggcgcaa 180 accggaacag gtgaccccta gttgccttta gatcattaac atatcattat aatgctaaaa 240 ttcccncccc taaaagaaaa tctctgccat tttgtgtaca tgcgntgtat gaagangcat 300 gtttatgaac tgcgcctgcg catctggagt cccnccctgc acatgctnac atncctctcc 360 cgccccgcac ctagctcctt aaaancccca tgcctcccat ngctcgggga gaaggtgtct 420 ttagagcaag agctctctcc ttctccattc ctggccagtg aataaaacct gcttgccttt 480 tccaattggg tgttctttct ttgcgaccga tacaaagtag ggaaagaact cagtttaccg 540 gtgaca 546 // ID GSATX repbase; DNA; HUM; 218 BP. XX AC X87951; XX DT 18-APR-1997 (Rel. 2.03, Created) DT 04-AUG-2008 (Rel. 13.07, Last updated, Version 3) XX DE H.sapiens gamma X satellite DNA, an X chromosome specific DE centromeric sequence. XX KW SAT; Satellite; Simple Repeat; Centromeric satellite DNA; GSATX; KW Centromeric; tandem repeat. XX NM GSATX. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RA Lee C., Li X., Jabs W.E., Court D. and Lin C.C.; RT "Human gamma X satellite DNA: an X chromosome specific RT centromeric DNA sequence."; RL Chromosoma 104(2), 103-112 (1995). XX RN [2] RA Lee C.; RT "GSATX."; RL Direct Submission to Genbank (13-JUN-1995)C. Lee, University of RL Alberta, Dept of Laboratory Medicine & Pathology, 6-59 Heritage RL Medical Research Building, Edmonton, Alberta T6G 2S2, CANADA. XX RN [3] RP 1-218 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR GenBank; X87951; Positions 1 1205. XX CC CC [3]. XX SQ Sequence 218 BP; 35 A; 69 C; 90 G; 24 T; 0 other; gccggggtcc tccgccggag gtcagtgcct tcccggcagc ccctgcgccg ggcccggggg 60 ggtcgtggag tccctggctt gcacccaggg tgcgtgtctc tcccacgggg ggcaccccaa 120 agcggcaaga agtcccccgg gggacgggga caggacgcca ggctttcagg gggacgttga 180 ggcagcccgg ggaaaaaagc ggcgaggccg aagaggag 218 // ID BSRb repbase; DNA; HUM; 152 BP. XX AC . XX DT 06-SEP-2005 (Rel. 10.08, Created) DT 06-SEP-2005 (Rel. 10.08, Last updated, Version 1) XX DE Satellite from primates. XX KW Satellite; Simple Repeat; BSRb. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-152 RA Smit A.F.; RT "BSRb - Satellite from primates."; RL Direct Submission to Repbase Update (06-SEP-2005). XX DR [1] (Consensus) XX SQ Sequence 152 BP; 40 A; 28 C; 44 G; 40 T; 0 other; gctgggttca gcaatatgtc acaatttctt ctgtggggca ggttcaggca gaagagaaga 60 gtcacattac ctaggtgctg ggttcagcaa tatgtcacaa tttcttctgt ggggcaggtt 120 caggcagaag agaagagtca cattacctag gt 152 // ID MER96B repbase; DNA; HUM; 434 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 24-JAN-2010 (Rel. 15.02, Last updated, Version 2) XX DE Primate MER96B repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW hAT superfamily; MER96B; Nonautonomous DNA transposon fossil. XX NM MER96B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-434 RA Jurka J.; RT "MER96B."; RL Direct Submission to Repbase Update (03-JUN-1998). XX DR [1] (Consensus) XX SQ Sequence 434 BP; 152 A; 66 C; 63 G; 129 T; 24 other; agaxccagaa ctagggtgag gcgagxgagg cactyxcctc rggcgcaaaa tttaagragg 60 taccaaaaca ytcagxaatc aagataaata atatctgaat ryatwawawa gxtacatagt 120 atttaatgta ataxtttxaa aaatcaaaat xaatgcaaaa aaatccatga tgaacaaaat 180 atcaaaattt taaatacagg atcagyaact gtgcagtgtc xactcatact ggagcctgag 240 gcaaaatgaa axatcagtca tactgatmat atctttattt aamattttga cattttgtca 300 tggatttttt cattaatttt gattttaaaa aaaatattgc attaaaatat tatttatctt 360 gattactgag ttttttggca cccccttaaa ttttgtaccc aaggcgagtg cctcacttgy 420 ctcaccctgx tcct 434 // ID Tigger12A repbase; DNA; HUM; 791 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE Mariner/Tc1 DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; KW TcMar-Tigger; Tigger12A. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-791 RA Smit A.F.; RT "Tigger12A - Mariner/Tc1 DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC Most common internal deletion product of Tigger12. Pos 1-536 & CC 591-791 currently matches pos 1-536 & 1759-1959 of the CC (incomplete) Tigger12 consensus. XX SQ Sequence 791 BP; 223 A; 148 C; 200 G; 219 T; 1 other; cagtagaccc ttggcattcg cggatttaac attcgcggtt tcgactattc gcgagcgacc 60 ccgaaggtcc atgacatgta gtaatttgta attttgctga ggcacgaatt tgaatcgcat 120 gcgctgcgag gctggtgtgc aggagcgagt cacttagcta gtgagtgagc ctagccgacc 180 gcccagcatc cgcatctcaa cgcggctttg ttgttctcta ctcatcgtcg cgtacgcagt 240 aactctcgtg aagtgataaa aactttgttt ctttgtgaaa aatggccccg aaaagaaagc 300 caactgctag tgctggtgat ggaagtgaag agaaagtgaa gaggtctaag aaagtgatgg 360 ttcttagcca gaaaatagaa gttttggata aattaaagag tggaatgtcg aattcggcgg 420 tggctcggat ctatgacgtg aacgagtcca ccatatgctc tatacggaaa caagaaaaag 480 cgattcgtga aactgtttca gcgagtgctc cagccagtgc aaaaattgct catcaataat 540 aggaaacaag aaaaagcgat tcgtgaaant gtttcagcga gtgctccagc cagaatttat 600 tttaatagct ttataaatga ctttagtcct gtatttatag aatcattaag ggtctgaagg 660 ggtcacttaa atttttcagt tatactttac tgcattttat gggggaaatt atatgctata 720 gtggtatttg cgaatttggg gattcgcgaa ggtctcggga cgtatccctc gcgaatgtca 780 agggtctact g 791 // ID MSTA2 repbase; DNA; HUM; 457 BP. XX AC . XX DT 07-FEB-2000 (Rel. 5.01, Created) DT 07-FEB-2000 (Rel. 5.01, Last updated, Version 1) XX DE Long terminal repeat - MSTA2 subfamily - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER10; MSTA1; MSTA2; MSTA; MaLR family; KW MstII. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-457 RA Jurka J.; RT "MSTA2."; RL Direct Submission to Repbase Update (JAN-2000). XX DR [1] (Consensus) XX CC 82% similar to MSTA1 over the entire length but the similarity CC is highest at both ends. It is also similar to other MSTs CC but to a lesser degree. XX SQ Sequence 457 BP; 104 A; 102 C; 113 G; 136 T; 2 other; tgctatggtt tggatatggt ttgtttgtcc ccaccaaaac tcatgttgaa atttgatccc 60 caatgtggca gtgttgggag gtggggccta gtgggaggtg tttgggtcat gggggcagat 120 ccctcatgaa tggcttggtg ctgttctcat ggtagtgagt gagtgagttc tcactctcan 180 ragactggat tagttctcgt aggaatggat tagttcccat gagagtgggt tgttataaag 240 ccaggatgcc cctcaggttt tgcctctttg cacgtgtcca cttccccttt gaccttctct 300 gccatgttat gatgcagcat gaaagccctc accagaagcc agggccatgc ccttgaactt 360 cccagcctgc agaaccatga gctaaataaa cctcttttct ttataaatta cccagtctca 420 ggtattctgt tatagcaaca caaaatggac taagaca 457 // ID LTR75 repbase; DNA; HUM; 562 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate LTR75 repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR75; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-562 RA Smit A.F.; RT "LTR75."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC Putative LTR of ancient class III retrovirus-like element. CC 5 bp duplication sites; average divergence from consensus > 25%. XX SQ Sequence 562 BP; 102 A; 161 C; 152 G; 144 T; 3 other; tgtaggggaa cggctccgcc atggcgccct ggcgaccttg cacgtatcca cataggccac 60 gcaggcaaag gcttgaaccg cagctaatct gagtcttggc agaacgcctt gtgatcctcc 120 cggaacacga gaggatggga ggcttgtgag gagctgctnc aaggccatct cccactcgcc 180 tccctatctc ccctgggagg ctgtcatgag acagtttctc atcgcctccc gggttctgat 240 gaggtatggg gctttctgcc tcgcccccct caggatagag ctgcaganta taaaaccgct 300 tagctgcagt ctagaattgg ctcctcagca acggggtatc ccacaactcg cgttgcagtc 360 atccggcccc ttttgtttcg gtgtcgtcct ttttggtgtg tgggacaagg accgcgggga 420 gctggcacct ttggctactc ttcctttcnc tgtctatgta agtaataaac tgtctgaatc 480 taaaagtggc tcgttgtatc tttaccagcc gaatcagtcg ggccttggcc ttggccttgc 540 cttgcctcgt gtgtgcttga ca 562 // ID MER103B repbase; DNA; HUM; 95 BP. XX AC . XX DT 15-JUN-2008 (Rel. 13.06, Created) DT 15-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Interspersed repetitive element MER103B - a consensus sequence. XX KW hAT; DNA transposon; Transposable Element; MER103B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-95 RA Jurka J.; RT "hAT-type families of nonautonomous DNA transposons."; RL Repbase Reports 8(6), 640-640 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 95 BP; 24 A; 23 C; 20 G; 28 T; 0 other; cagcgtttcc caaacttatt tgaccacgga accctttttt caatggagca tctcatggga 60 ctagtgttct atggaacaca ctttgggaaa cgctg 95 // ID LTR25 repbase; DNA; HUM; 794 BP. XX AC . XX DT 09-OCT-1997 (Rel. 2.09, Created) DT 09-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR25; KW MER4I-MER41I-MER57I-MER65I group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-794 RA Kapitonov V.V. and Jurka J.; RT "LTR25."; RL Direct Submission to Repbase Update (05-OCT-1997). XX DR [1] (Consensus) XX CC Putative LTR of endogenous retroviruses related to MER4I-MER41I- CC MER57I and MER65I. CC LTR25 elements share common fragments with LTR20; LTR9 and LTR12. XX SQ Sequence 794 BP; 206 A; 225 C; 168 G; 184 T; 11 other; tgagaggagt taactaactt gccttaggta gacagcaagg gaagggtccc tggagagccc 60 ctgacccacg ggtcagtgcc tcatccccac ataacataaa aaagcagcct gggaaaaaaa 120 atcaagctgc aggcaccaat aagggaacta gcacaggggg ttgtgcctgg agacatgccc 180 acggctgcac agataggaga acctccagcc cattcagata aaaacttaca caaacctccg 240 gctcactcag ataaagaaac aaggcctgac ataraaatgc ctttgtcctt tgtataatca 300 gcgggctccc aggaaaaagt ttcttctcct tttgtgggca tgaacacagt gggctctggt 360 gggttccggt ggacactttc ctttcctttt tttggactgt aagcctggcc tctatgaatc 420 atcacttcag ctcctgattg rtcccgggcc aaggtcctgg gccaaactga gtagccnctg 480 tgaatcatca cttcaactyc tgattggtcc caggccaagg tcccgggcca agctgagtca 540 cacgttctcc aagacagccc acagactaaa cacattcctt ccccttccca gtccataaaa 600 accccagacc ccagcctcat agkggrcaac ccattcgggt ccccctctcc gctgrcagag 660 agctttcttc tttcacttat taaactttca ctccaacctc acctttgtgt ccacgctcct 720 taattttctt ggaggtrrga caaagaactc tgggtaytat ctcagacaat gagagactgc 780 tacatnttgg tgca 794 // ID MER91C repbase; DNA; HUM; 140 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 1) XX DE Primate MER91C repetitive element - a consensus. XX KW DNA transposon; Transposable Element; Nonautonomous; MER91C; KW Nonautonomous DNA transposon fossil. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-140 RA Smit A.F.; RT "MER91C."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative nonautonomous DNA transposon fossil. Palindrome. 5' 10 CC bp CC similar to MER1 group TIRs. Average divergence from consensus CC 25%. XX SQ Sequence 140 BP; 32 A; 38 C; 38 G; 32 T; 0 other; cagggctgcc atgtacagtt gtgcaggttg tgcactgcac aactctaggg ggcgccattc 60 acatcataga tctatgatgt gaatggcgcc ccctagagtt gtgcagtgca caacctgcac 120 aactgtacat ggcagccctg 140 // ID LTR24 repbase; DNA; HUM; 490 BP. XX AC . XX DT 01-OCT-1997 (Rel. 2.09, Created) DT 01-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR24; KW MER41I; MER4I; MER57I; MER65I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-490 RA Kapitonov V.V. and Jurka J.; RT "LTR24."; RL Direct Submission to Repbase Update (01-OCT-1997). XX DR [1] (Consensus) XX CC Putative LTR of endogenous retroviruses related to MER4I-MER41I- CC MER57I-MER65I group. CC 5'-ends (~100 bp) of LTR24 and LTR23 are similar. CC It is possible to split LTR24 into subfamilies. XX SQ Sequence 490 BP; 135 A; 104 C; 84 G; 159 T; 8 other; tgtraaatta aataattcaa acttaaagct gttggaactt kaaattattc tgagccttga 60 gaggaatgtg gctatgcggc ctgagtcatg tagcatgcag ctgcaacttc tgcttytctg 120 atttagatta ncttttttcc ttattcctgt actgtaaatr attaggaaga ccaaatggcg 180 ccagagataa gaccccctca gatcactacc ccttctcaca gaatgataaa gyaatcttcc 240 ttggaatgta gcaakctgta accaatcaaa tcgctgtaac atatgcactg gycttgtatg 300 gaaaatgttg taatcctgct aaaatttctc tgtctctgcc tatataagtg aaaccttaac 360 ttctccactt tggaacgctg accccattcc tttggagtct gtgtttcctg ggtggccatc 420 ctcaagcttt gcgctcgaat aaactctata cttaatcata ttttctgaat ctcattattt 480 aaggttgaca 490 // ID ALINE repbase; DNA; HUM; 617 BP. XX AC . XX DT 29-JUN-2006 (Rel. 11.06, Created) DT 06-JUL-2006 (Rel. 11.06, Last updated, Version 1) XX DE An ancient non-LTR retrotransposon from mammals - consensus. XX KW Non-LTR Retrotransposon; Transposable Element; ALINE. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-617 RA Jurka J.; RT "ALINE: A fossil LINE element from mammals."; RL Repbase Reports 6(6), 269-269 (2006). XX DR [1] (Consensus) XX CC This is a reconstructed fragment of a non-LTR retrotransposon CC from the human genome. It is present in marsupials. There are CC <300 truncated copies of this element in the human genome. Its CC incomplete ORF shows distant similarity to diverse LINE elements. XX FH Key Location/Qualifiers FT CDS join(16..447,451..615) FT /product="ALINE_1p" FT /translation="QDLIGLNIYIPPTNMHTDPSDVWNQFDSLLNFIFSKY FT PLADIIILGDLNARIGNGSAKASSIGNLDWKDCFPMGHFSRDNCLNQRGKY FT LVKLIYHHNLIMLNGSPWDKSRGNFTYISNQGASIIDYLIISPSLLISILE FT MNILDIESDHFPFKLNLXFNITVPESDYIYNWNGEIMGIRRLRWKGSFQFH FT DYFLRSKEF" XX SQ Sequence 617 BP; 188 A; 112 C; 109 G; 205 T; 3 other; gatccagctt cctgacaaga cctgataggt cttaacatat atattcctcc tactaatatg 60 catacwgatc cctcagatgt ctggaatcaa tttgacagcc ttctgaactt tatattctct 120 aagtatccat tagctgacat aataatttta ggagatttga atgccaggat tggcaatggt 180 tctgccaaag cttcatccat aggaaatctg gattggaaag attgcttccc tatgggccat 240 ttctccagag ataactgtct gaatcaaaga ggaaaatacc tggtcaaact catttatcat 300 cacaatctaa taatgttaaa tggcagcccg tgggataagt ctagagggaa tttcacttat 360 atctctaacc aaggggccag cattattgat tatttaataa tcagtccttc attgcttatc 420 tctatccttg agatgaatat tttagactag attgaaagtg atcattttcc ctttaaactt 480 aatctgayct tcaatattac tgtccctgag tctgactata tatataactg gaatggtgag 540 attatgggga taagraggtt aagatggaaa ggttccttcc aatttcatga ttattttctg 600 aggtctaaag aatttat 617 // ID MLT1E2 repbase; DNA; HUM; 626 BP. XX AC . XX DT 09-SEP-1998 (Rel. 3.08, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 2) XX DE LTR from retrotransposable MaLR element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1; KW MLT1E; MLT1E2; MaLR family. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 35-626 RA Jurka J.; RT "MLT1E2."; RL Direct Submission to Repbase Update (SEP-1998). XX RN [2] RP 1-626 RA Smit A.F.; RT "MLT1E2."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1E2 retrovirus-like MaLR element. 5 bp target site CC dups. CC Average divergence from consensus 22%. CC 89% similar to MLT1E over pos 286-626 and to MLT1E1 over pos CC 52-626. CC Pos 1-337 are 83% similar to the 5' end of MLT1D. Among the MLT1E CC subfamilies MLT1E2 is closest related to MLT1D. XX SQ Sequence 626 BP; 181 A; 143 C; 166 G; 131 T; 5 other; tgtggtaggc agaatggccc cccaaagatg tccatgccct aatccctgga acctgtgaat 60 atgttacgtt acatggcaaa agggattttg cagatgtaat taaggttacg gaccttaaaa 120 tagggagatt atcctggatt atctgggtgg gcccaatcta atcacatgag cccttaaaag 180 cagagagttt tctccggctg gwakcagaga aatgagcaga aggggaagtc agagagattc 240 gaagcatgag aaggattcga cgcgccattg ctggctttga agatggaggg ggccacgtga 300 caaggaatgc aggcagcctc taggagctga gagcggctcc cggctgacag ccagcaagga 360 aacggggacc tcagtcctac aaccacaagg aactgaattc tgccaacaac ctgaatgagc 420 ttggaagcgg attcttcccc agagcctcca gataagagcc cagnccngcc gacaccttga 480 tttcggcctt gtgagaccct gagcagagaa cccagccgag cccacccgga cttctgacct 540 acagaactgt gagataataa atntgtgttg ttttaagccg ctaagtttgt ggtaatttgt 600 tacagcagca atagaaaact aataca 626 // ID LTR43B repbase; DNA; HUM; 572 BP. XX AC . XX DT 04-OCT-2000 (Rel. 5.09, Created) DT 04-OCT-2000 (Rel. 5.09, Last updated, Version 1) XX DE Putative long terminal repeat from endogenous retrovirus - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR43; LTR43B; KW Long terminal repeat of retrovirus-like element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-572 RA Jurka J.; RT "LTR43B."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC 3' end, starting at position 195 is 82% similar to LTR43 CC and more distantly similar to MER41, MER51 and MER66. CC Individual repeats are ~84.5% similar to consensus. XX SQ Sequence 572 BP; 166 A; 140 C; 126 G; 134 T; 6 other; tgaggtaggt tagatagggt ggtcatagcc tcccttgaag gggaacaaac ttgccaaata 60 gatggagaga acaaaccacc cgacagtgca caaactgcat cctgggcttg tggttagaac 120 atcctgcagc aaggaggtag aagagcagaa gggaaaatcc ccaaattcgt acaagtgcag 180 aaacccatga ttagtgtcct tgggctgacc tatgctcatt ataatagtaa aaaacacacc 240 cctgggtgga gatttaagat gctaatgaga catgtgatgt atgtactagc atgtacagcm 300 acagcacatg cacatccagg agaccaccca caacatgctt aacagcaacg ccccttccca 360 ccccttcatg aataatcatg taagactccc ataaagggag tttccccagt gtcagtcggt 420 gctgtctcac yyttgagcag ccnygctctg actcagctgt cagagtgtac tttcgctttg 480 caataaactc ctttgcttac ttttactttg gactcgctct caaattcttt tgtgtggyga 540 agtcaagaac ctgaaccagc ccactggcaa ca 572 // ID LTR16E2 repbase; DNA; HUM; 568 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW LTR16E2. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-568 RA Smit A.F.; RT "LTR16E2 - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC 80% similar to LTR16D. but with some large inserts. 83% similar CC to LTR16E1. 24% subst in dog-human ancestor. XX SQ Sequence 568 BP; 96 A; 208 C; 145 G; 117 T; 2 other; tgtatcggac acctcttgtg caccacttca natcctctcg gccccacctc ttactccagc 60 cactgctgcg gcgaccagtt ccgtgcaggc ttcgaccagc ttcgcgcagg tgcaacctga 120 cagcgcctcg cctcaggccc gcgccgcgta cctctcgctt cctgccccgg ggcttctctg 180 acgccgcggc gtgggacacc tgcgggaacc cgctcggcac tcacgcatgc gcaacccgga 240 agtgcggggg agttaacgcc ccgtggggcn acccttgacc aatgggggac gggagccgat 300 ggataaatgc ttcccccttt cgtcccctgg gcggacagtt ctgagacgca tttcataagg 360 ctcctcagaa ggtcccggcg ggatcgagca ccagtcgccc acagcggtgg ccaactcgat 420 aacgcatcct tgtattggct ttccctcctt ccctgtttca ctccccctgt ccctcactcc 480 tgctccctgg gatcacttcc caaaataaac tacctgcacg caagcctttg tctcaggctc 540 tgctttcggg ggaacccagg ctaagaca 568 // ID LTR53B repbase; DNA; HUM; 533 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR53B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-533 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 946-946 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 533 BP; 113 A; 177 C; 116 G; 127 T; 0 other; tgtattgtaa ggcctaaaat ttcaagtgct gccttgacat ctttgagcct cacagggccc 60 caaaggccta accatgagtt cccctgctct tgccagatat gctccccacc cagcgggaaa 120 ggctccccac ccggctagtt cccctatcag ctagaccagc tgcacccccc ccacctggtc 180 ctcaacctaa cgggtttcac ttccctgcca gcccacgaaa ttattcaaac aagccaatca 240 catcctcccg cgggaaccag ggggcacctc accctcttgt tactacaaag cctgcctccc 300 acagcccctg ctggttcact ctgctcccga gtgcaacctc cgtgtggccc tgtaatgtgg 360 ctacacatcc atggcgtgcg gtgtcctcct ccaggctgtg agtatatgtg actaataaac 420 tgctgtcaat cctcatctgt ccagtgtcgg gtgtcgtgtg ttcggccatc tcgtactatt 480 taggatgggg atccctcctt caccaatagg gtgaatagga ggtgatcaga aca 533 // ID HERVK repbase; DNA; HUM; 7536 BP. XX AC . XX DT 11-NOV-1996 (Rel. 1.1, Created) DT 04-AUG-2008 (Rel. 13.07, Last updated, Version 3) XX DE Internal part of human endogenous retrovirus HERV-K; clone K-10. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR; protease; KW gag protein; LTR5; HERVK; env protein; pol polyprotein; revertase; KW ERVK. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-7536 RA Ono M., Yasunaga T., Miyata T. and Ushikubo H.; RT "Nucleotide sequence of human endogenous retrovirus genome RT related to the mouse mammary tumor virus genome."; RL J. Virol 60(2), 589-598 (1986). XX RN [2] RP 1-7536 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [2] (Consensus) XX CC LTRs of HERV-K are represented in REPBASE as LTR5. CC The human K10 and K18 endogenous retrovirus clones have a CC deletion CC of 290 bp (between positions 5532 and 5533) with respect to CC clones K8 and K22 (see separate entries). This deletion fuses the CC pol and env reading frames, eliminating the 3' end of pol and the CC 5' end of env. CC misc_binding 3..20 CC /bound_moiety="Lys-tRNA primer" CC CDS 144..995 CC /product="gag 1 protein" CC CDS 839..2143 CC /product="gag 2 protein" CC CDS 2671..2949 CC /note="putative" CC /product="neutral protease large subunit" CC CDS 3204..7243 CC /note="pol/env putative" CC /codon_start=1 CC [2] LTR5. XX SQ Sequence 7536 BP; 2543 A; 1474 C; 1574 G; 1940 T; 5 other; tctggtgccc aacgtggagg cttttctcta gggtgaaggt acgctcgagc gtggtcattg 60 aggacaagtc gacgagagat cccgagtacg tctacagtca gccttacggt aagcttgtgc 120 gctcggaaga agctagggtg ataatggggc aaactaaaag taaaattaaa agtaaatatg 180 cctcttatct cagctttatt aaaattcttt taaaaagagg gggagttaaa gtatctacaa 240 aaaatctaat caagctattt caaataatag aacaattttg cccatggttt ccagaacaag 300 gaactttaga tctaaaagat tggaaaagaa ttggtaagga actaaaacaa gcaggtagga 360 agggtaatat cattccactt acagtatgga atgattgggc cattattaaa gcagctttag 420 aaccatttca aacagaagaa gatagcattt cagtttctga tgcccctgga agctgtataa 480 tagattgtaa tgaaaagaca aggaaaaaat cccagaaaga aacggaaggt ttacattgcg 540 aatatgtagc agagccggta atggctcagt caacgcaaaa tgttgactat aatcaattac 600 aggaggtgat atatcctgaa acgttaaaat tagaaggaaa aggtccagaa ttagtggggc 660 catcagagtc taaaccacga ggcacaagtc ctcttccagc aggtcaggtg cccgtaacat 720 tacaacctca aangcaggtt aaagaaaata agacccaacc gccagtagcc tatcaatact 780 ggccnccggc tgaacttcag tatcggccac ccccagaaag tcagtatgga tatccaggaa 840 tgcccccagc accacagggc agggcgccat accctcagcc gcccactagg agacttaatc 900 ctacggcacc acctagtaga cagggtagtg aattacatga aattattgat aaatcaagaa 960 aggaaggaga tactgaggca tggcaattcc cagtaacgtt agaaccgatg ccacctggag 1020 aaggagccca agagggagag cctcccacag ttgaggccag atacaagtct ttttcgataa 1080 aaatgctaaa agatatgaaa gagggagtaa aacagtatgg acccaactcc ccttatatga 1140 ggacattatt agattccatt gctcatggac atagactcat tccttatgat tgggagattc 1200 tggcaaaatc gtctctctca ccctctcaat ttttacaatt taagacttgg tggattgatg 1260 gggtacaaga acaggtccga agaaataggg ctgccaatcc tccagttaac atagatgcag 1320 atcaactatt aggaataggt caaaattgga gtactattag tcaacaagca ttaatgcaaa 1380 atgaggccat tgagcaagtt agagctatct gccttagagc ctgggaaaaa atccaagacc 1440 caggaagtac ctgcccctca tttaatacag taagacaagg ttcaaaagag ccctatcctg 1500 attttgtggc aaggctccaa gatgttgctc aaaagtcaat tgccgatgaa aaagcccgta 1560 aggtcatagt ggagttgatg gcatatgaaa acgccaatcc tgagtgtcaa tcagccatta 1620 agccattaaa aggaaaggtt cctgcaggat cagatgtaat ctcagaatat gtaaaagcct 1680 gtgatggaat cggaggagct atgcataaag ctatgcttat ggctcaagca ataacaggag 1740 ttgttttagg aggacaagtt agaacatttg gaggaaaatg ttataattgt ggtcaaattg 1800 gtcacttaaa aaagaattgc ccagtcttaa acaaacagaa tataactatt caagcaacta 1860 caacaggtag agagccacct gacttatgtc caagatgtaa aaaaggaaaa cattgggcta 1920 gtcaatgtcg ttctaaattt gataaaaatg ggcaaccatt gtcgggaaac gagcaaaggg 1980 gccagcctca ggccccacaa caaactgggg cattcccaat tcagccattt gttcctcagg 2040 gttttcaggg acaacaaccc ccactgtccc aagtgtttca gggaataagc cagttaccac 2100 aatacaacaa ttgtcccccg ccacaagcgg cagtgcagca gtagatttat gtactataca 2160 agcagtctct ctgcttccag gggagccccc acaaaaaatc cccacagggg tatatggccc 2220 cctgcctgag gggactgtag gactaatctt gggaagatca agtctaaatc taaaaggagt 2280 tcaaattcat actagtgtgg ttgattcaga ctataaaggc gaaattcaat tggttattag 2340 ctcttcaatt ccttggagtg ccagtccagg agacaggatt gctcaattat tactcctgcc 2400 atatattaag ggtggaaata gtgaaataaa aagaatagga gggcttggaa gcactgatcc 2460 aacaggaaag gctgcatatt gggcaagtca ggtctcagag aacagacctg tgtgtaaggc 2520 cattattcaa ggaaaacagt ttgaagggtt ggtagacact ggagcagatg tctctatcat 2580 tgctttaaat cagtggccaa aaaattggcc taaacaaaag gctgttacag gacttgtcgg 2640 cataggcaca gcctcagaag tgtatcaaag tacggagatt ttacattgct tagggccaga 2700 taatcaagaa agtactgttc agccaatgat tacttcaatt cctcttaatc tgtggggtcg 2760 agatttatta caacaatggg gtgcggaaat caccatgccc gctccattat atagccccac 2820 gagtcaaaaa atcatgacca agatgggata tataccagga aagggactag ggaaaaatga 2880 agatggcatt aaaattccag ttgaggctaa aataaatcaa aaaagagaag gaatagggta 2940 tcctttttag gggcggccac tgtagagcct cctaaaccca taccattaac ttggaaaaca 3000 gaaaaaccgg tgtgggtaaa tcagtggccg ctaccaaaac aaaaactgga ggctttacat 3060 ttattagcaa atgaacagtt agaaaagggt catattgagc cttcgttctc accttggaat 3120 tctcctgtgt ttgtaattca gaagaaatca ggcaaatggc gtatgttaac tgacttaagg 3180 gctgtaaacg ccgtaattca acccatgggg cctctccaac ccgggttgcc ctctccggcc 3240 atgatcccaa aagattggcc tttaattata attgatctaa aggattgctt ttttaccatc 3300 cctctggcag agcaggattg tgaaaaattt gcctttacta taccagccat aaataataaa 3360 gaaccagcca ccaggtttca gtggaaagtg ttacctcagg gaatgcttaa tagtccaact 3420 atttgtcaga cttttgtagg tcgagctctt caaccagtta gagaaaagtt ttcagactgt 3480 tatattattc attatattga tgatatttta tgtgctgcag aaacgaaaga taaattaatt 3540 gactgttata catttctgca agcagaggtt gccaatgctg gactggcaat agcatctgat 3600 aagatccaaa cctctactcc ttttcattat ttagggatgc agatagaaaa tagaaaaatt 3660 aagccacaaa aaatagaaat aagaaaagac acattaaaaa cactaaatga ttttcaaaaa 3720 ttactaggag atattaattg gattcggcca actctaggca ttcctactta tgccatgtca 3780 aatttgttct ctatcttaag aggagactca gacttaaata gtaaaagaat gttaacccca 3840 gaggcaacaa aagaaattaa attagtggaa gaaaaaattc agtcagcgca aataaataga 3900 atagatccct tagccccact ccaacttttg atttttgcca ctgcacattc tccaacaggc 3960 atcattattc aaaatactga tcttgtggag tggtcattcc ttcctcacag tacagttaag 4020 acttttacac tgtacttgga tcaaatagct acattaatcg gtcagacaag attacgaata 4080 ataaaattat gtggaaatga cccagacaaa atagttgtcc ctttaaccaa ggaacaagtt 4140 agacaagcct ttatcaattc tggtgcatgg nagattggtc ttgctaattt tgtgggaatt 4200 attgataatc attacccaaa aacaaagatc ttccagttct taaaattgac tacttggatt 4260 ctacctaaaa ttaccagacg tgaaccttta gaaaatgctc taacagtatt tactgatggt 4320 tccagcaatg gaaaagcagc ttacacaggg ccgaaagaac gagtaatcaa aactccatat 4380 caatcggctc aaagagcaga gttggttgca gtcattacag tgttacaaga ttttgaccaa 4440 cctatcaata ttatatcaga ttctgcatat gtagtacagg ctacaaggga tgttgagaca 4500 gctctaatta aatatagcat ggatgatcag ttaaaccagc tattcaattt attacaacaa 4560 actgtaagaa aaagaaattt cccattttat attactcata ttcgagcaca cactaattta 4620 ccagggcctt tgactaaagc aaatgaacaa gctgacttac tggtatcatc tgcactcata 4680 aaagcacaag aacttcatgc tttgactcat gtaaatgcag caggattaaa aaacaaattt 4740 gatgtcacat ggaaacaggc aaaagatatt gtacaacatt gcacccagtg tcaagtctta 4800 cacctgccca ctcaagaggc aggagttaat cccagaggtc tgtgtcctaa tgcattatgg 4860 caaatggatg tcacgcatgt accttcattt ggaagattat catatgttca cgtaacagtt 4920 gatacttatt cacatttcat atgggcaact tgccaaacag gagaaagtac ttcccatgtt 4980 aaaaaacatt tattgtcttg ttttgctgta atgggagttc cagaaaaaat caaaactgac 5040 aatggaccag gatattgtag taaagctttc caaaaattct taagtcagtg gaaaatttca 5100 catacaacag gaattcctta taattcccaa ggacaggcca tagttgaaag aactaataga 5160 acactcaaaa ctcaattagt taaacaaaaa gaagggggag acagtaagga gtgtaccact 5220 cctcagatgc aacttaatct agcactctat actttaaatt ttttaaacat ttatagaaat 5280 cagactacta cttctgcaga acaacatctt actggtaaaa agaacagccc acatgaagga 5340 aaactaattt ggtggaaaga taataaaaat aagacatggg aaatagggaa ggtgataacg 5400 tgggggagag gttttgcttg tgtttcacca ggagaaaatc agcttcctgt ttggataccc 5460 actagacatt tgaagttcta caatgaaccc atcagagatg caaagaaaag cacctccgcg 5520 gagacggaga caccgcaatc gagcaccgtt gactcacaag atgaacaaaa tggtgacgtc 5580 agaagaacag atgaagttgc catccaccaa gaaggcagag ccgccgactt gggcacaact 5640 aaagaagctg acgcagttag ctacaaaata tctagagaac acaaaggtga cacaaacccc 5700 agagagtatg ctgcttgcag ccttgatgat tgtatcaatg gtggtaagtc tccctatgcc 5760 tgcaggagca gctgcagcta actataccna ctgggcctat gtgcctttcc cgcccttaat 5820 tcgggcagtc acatggatgg ataatcctat agaagtatat gttaatgata gtgtatgggt 5880 acctggcccc atagatgatc gctgccctgc caaacctgag gaagaaggga tgatgataaa 5940 tatttccatt gggtatcgtt atcctcctat ttgcctaggg agagcaccag gatgtttaat 6000 gcctgcagtc caaaattggt tggtagaagt acctactgtc agtcccatcn gtagattcac 6060 ttatcacatg gtaagcggga tgtcactcag gccacgggta aattatttac aagacttttc 6120 ttatcaaaga tcattaaaat ttagacctaa agggaaacct tgccccaagg aaattcccaa 6180 agaatcaaaa aatacagaag ttttagtttg ggaagaatgt gtggccaata gtgcggtgat 6240 attacaaaac aatgaatttg gaactattat agattgggca cctcgaggtc aattctacca 6300 caattgctca ggacaaactc agtcgtgtcc aagtgcacaa gtgagtccag ctgttgatag 6360 cgacttaaca gaaagtttag acaaacataa gcataaaaaa ttgcagtctt tctacccttg 6420 ggaatgggga gaaaaaggaa tctctacccc aagaccaaaa atagtaagtc ctgtttctgg 6480 tcctgaacat ccagaattat ggaggcttac tgtggcctca caccacatta gaatttggtc 6540 tggaaatcaa actttagaaa caagagatcg taagccattt tatactgtcg acctaaattc 6600 cagtctaaca gttcctttac aaagttgcgt aaagccccct tatatgctag ttgtaggaaa 6660 tatagttatt aaaccagact cccagactat aacctgtgaa aattgtagat tgcttacttg 6720 cattgattca acttttaatt ggcaacaccg tattctgctg gtgagagcaa gagagggcgt 6780 gtggatccct gtgtccatgg accgaccgtg ggaggcctcg ccatccatcc atattttgac 6840 tgaagtatta aaaggtgttt taaatagatc caaaagattc atttttactt taattgcagt 6900 gattatggga ttaattgcag tcacagctac ggctgctgta gcaggagttg cattgcactc 6960 ttctgttcag tcagtaaact ttgttaatga ttggcaaaaa aattctacaa gattgtggaa 7020 ttcacaatct agtattgatc aaaaattggc aaatcaaatt aatgatctta gacaaactgt 7080 catttggatg ggagacagac tcatgagctt agaacatcgt ttccagttac aatgtgactg 7140 gaatacgtca gatttttgta ttacacccca aatttataat gagtctgagc atcactggga 7200 catggttaga cgccatctac agggaagaga agataatctc actttagaca tttccaaatt 7260 aaaagaacaa attttcgaag catcaaaagc ccatttaaat ttggtgccag gaactgaggc 7320 aattgcagga gttgctgatg gcctcgcaaa tcttaaccct gtcacttggg ttaagaccat 7380 tggaagtact acgattataa atctcatatt aatccttgtg tgcctgtttt gtctgttgtt 7440 agtctgcagg tgtacccaac agctccgaag agacagcgac catcgagaac gggccatgat 7500 gacgatggcg gttttgtcga aaagaaaagg gggaaa 7536 // ID MER75A repbase; DNA; HUM; 77 BP. XX AC . XX DT 14-MAR-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE piggyBac DNA transposon from primates. XX KW piggyBac; DNA transposon; Transposable Element; DNA; MER75A. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-77 RA Smit A.F.; RT "MER75A - piggyBac DNA transposon from primates."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC 14 bp TIRs. 5' AA and 3' TT are part of the TTAA TSD. XX SQ Sequence 77 BP; 16 A; 20 C; 18 G; 23 T; 0 other; aacccatttc ccgtttgccc cgagaatact gcgctggcag cgagctgcac tttttttttc 60 taaacgggaa atgggtt 77 // ID LTR3A repbase; DNA; HUM; 484 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Long terminal repeat of ERV2 Endogenous Retrovirus from primates. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR3; LTR3A_LTR; LTR3A. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-484 RA Smit A.F.; RT "LTR3A - a subfamily of endogenous retroviruses from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC HERVK3 LTR. XX SQ Sequence 484 BP; 101 A; 145 C; 117 G; 120 T; 1 other; tgtagggagc cgaaggccng tgggacgtga ccaactcagc attccactgg aggctatatg 60 atcaaacagc aaactgttta tcatgaatgc aggatgtggg caaactcacg actgcgcctg 120 ccgccagaag gtttgctgag ggcaatcact ccctggcgcc gggctccttg aggttatcta 180 ctgggacatc tagagcctgt tgttcgagga atgcagtctt gcaagcctac tctggaccga 240 gcagctgacc ccttcttcca cccccccttc tcactatctc ttttgcctaa taaatacgga 300 gggctgtgta aagctcaggg cccttgtcca ctagaggcaa ggtgccccct gaccccttct 360 tccaaatata ctcttttgtc tcttgtcttt tattcccacg ttcgcccccc tttgttcagt 420 cccccaaggt ccgtgcgggt tacatagtgg cgccccgaac agcgacagaa tcgggtgctc 480 aaca 484 // ID L1PA13 repbase; DNA; HUM; 910 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA13) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P4; L1PA13; L1PA13 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-910 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-910 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 8%. XX SQ Sequence 910 BP; 368 A; 176 C; 179 G; 187 T; 0 other; ctaatatcca gcatctataa ggaacttaaa caaatttaca agaaaaaaac aaacaacccc 60 attaaaaagt gggcaaagga catgaacaga cacttctcaa aagaagacat acatgcggcc 120 aacaatcata tgaaaaaaag ctcaacatca ctgatcatta gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagtcaga atggctatta ttaaaaagtc aaaaaataac 240 agatgctggc gaggttgcgg agaaaaagga acgcttatac actgttggtg ggagtgtaaa 300 ttagttcaac cattgtggaa gacagtgtgg cgattcctca aagacctaaa gacagaaata 360 ccattcgacc cagcaatccc attactgggt atatacccaa aggaatataa atcattctat 420 tataaagaca catgcacgca tatgttcatt gcagcactat tcacaatagc aaagacatgg 480 aatcaaccta aatgcccatc aatgatagac tggataaaga aaatgtggta catatacacc 540 atggaatact atgcagccat aaaaaagaat gagatcatgt cctttgcagg gacatggatg 600 gagctggagg ccattatcct tagcaaacta acgcaggaac agaaaaccaa ataccgcatg 660 ttctcactta taagtgggag ctaaatgatg agaacacatg gacacataga ggggaacaac 720 acacactggg gcctattgga gggtggaggg tgggaggagg gagaggatca ggaaaaataa 780 ctaatgggta ctaggcttaa tacctgggtg atgaaataat ctgtacaaca aacccccatg 840 acacaagttt acctatgtaa caaacctgca catgtacccc tgaacttaaa ataaaagtta 900 aaaaaaaaaa 910 // ID L1ME4 repbase; DNA; HUM; 596 BP. XX AC . XX DT 06-MAY-1999 (Rel. 4.04, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE 3'-end of L1 repeat (subfamily L1ME4) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1MC5?; L1ME4; Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-596 RA Jurka J.; RT "L1ME4."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC An ancient L1 subfamily. XX SQ Sequence 596 BP; 216 A; 80 C; 113 G; 179 T; 8 other; tttggcaata tctatcaaaa tcacacatac atttaccctt tgacycagca atcccacttc 60 taggaattta tcctacagac atacttgcaa catgtacaaa atgacatata tacaaagtta 120 ntttattgca gcattatttg taatagcaaa aaaytggaaa caacctaaat gtccatcaat 180 aggaaaatgg ttaaataaat tatggtatat ccatacaatg gaatactatg cagctataaa 240 aaagaatgaa gaagatctct atgtactgat atggaatgat ctccaggata tattgtttaa 300 gtgaaaaaag caaggtgcaa gaatagtgta tatagtatgc taccttttgt gtaaaaaaga 360 aggaaaaata aaaatatata tatatatttg cttatatatg tataaaataa ctctggaaaa 420 ataaacaaga aactnataac agtggttgcc tcttntgggg ggaggggaac tgggnngntg 480 ggtggctggg ggacatgtgg gatggacagg gatgggaggg actgactttt cactgtatac 540 ctttttgtac tttgtacttt ttgaaatttt gaaccatgtg aatgtattac ctattc 596 // ID TIGGER5A repbase; DNA; HUM; 366 BP. XX AC . XX DT 28-JUN-2000 (Rel. 5.05, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE Medium reiteration frequency repeat; non-autonomous DNA DE transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW MER47; MER47A; Repetitive sequence; Tc1/mariner superfamily; KW TIGGER3; TIGGER5A; TIR; nonautonomous DNA transposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-366 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX RN [2] RP 1-366 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Internal deletion product of the TIGGER5 Tc1-like DNA transposon. CC 22 bp terminal inverted repeats; TA target site duplication CC Consensus inverted from [1] to agree with TIGGER5 coding region. XX SQ Sequence 366 BP; 100 A; 69 C; 78 G; 119 T; 0 other; cagacggtcc ccgacttacg atggttcgac ttacgatttt tcgactttac gatggtgcga 60 aagcgatacg cattcagtag aaaccgtact tcgagtaccc atacaaccat tctgtttttc 120 actttcagta cagtattcaa taaattacat gagatattca acactttatt ataaaatagg 180 ctttgtgtta gatgattttg cccaactgta ggctaatgta agtgttctga gcacgtttaa 240 ggtaggctag gctaagctat gatgttcggt aggttaggtg tattaaatgc attttcgact 300 tacgatattt tcaacttacg atgggtttat cgggacgtaa ccccatcgta agtcgaggag 360 catctg 366 // ID MLT2B4 repbase; DNA; HUM; 557 BP. XX AC . XX DT 27-APR-2001 (Rel. 6.03, Created) DT 27-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE LTR of a variant of HERVL endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; HERVL; KW LTR; MLT2; MLT2B2; MLT2B3; MLT2B4; RICKSHA. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-557 RA Jurka J.; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC For practical reasons the (TA)n has been reduced in size. CC In the original sequences it averages around 15. CC Similarity to individual sequences ~79%. XX SQ Sequence 557 BP; 128 A; 139 C; 117 G; 168 T; 5 other; tgtgatggtt aattttatgt gtcaacttga ctgggccatr gggtgcccag atatttggtc 60 aaacattatt ctgggtgtgt ctgtgagggt gtttctggga tgagattaac atttgaattg 120 gtagactgag taaagcagat tgccctcccc aatgtgggtg ggcctcatcc aatcmgttga 180 aggcctgaat agaacaaaaa ggctgactct cccctgagta agagagaatt cctcctgcct 240 gactgccttt gaactgggac atcggtcttt ttcctgcctt tagactcaaa ctgaaacatc 300 agctcttcct gggtcttaag cctgctggcc ttcagactgg aactacacca tcggctctcc 360 tggttctcag gccttcagac ttggactgga actacaccat cagctctcct gggtctccag 420 cttgccaact caccctgcag atcttgggac ttctcagcct ccataatcat rtgagccaat 480 tccttataat aaatctctct cttntatata tantaccaca tcctattggt tctgtttctc 540 tggagaaccc taataca 557 // ID MER41E repbase; DNA; HUM; 595 BP. XX AC . XX DT 30-JUL-1998 (Rel. 3.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER41E. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW Long terminal repeat of retrovirus-like element; MER41E; KW MER4I-group family. XX NM MER41E. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 84-595 RA Kapitonov V.V. and Jurka J.; RT "MER41E."; RL Direct Submission to Repbase Update (JUL-1998). XX RN [2] RP 1-595 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [1] (Consensus) XX CC Individual copies ~88% identical to the consensus sequence. CC [2] mer4 group 13%. XX SQ Sequence 595 BP; 159 A; 163 C; 133 G; 140 T; 0 other; tgagacagga ataatacagg gtggtcgcag gagaatagaa aattccaggc agcagtttca 60 catgactagc aaaaggaaac tgttgaaata gctgcataag ctaggggctg ataagaccct 120 gaaaaaccag ggtgtgggcc aagctggcta agaccgactg gacccaacat ggcgctggat 180 ttgacctagg tttcacctag gacctcatta tatgctcatt aacatactaa atcacacacc 240 caccagcgcc atgacagttc cgggaacacc catatttggt gtaaaaatgg gtggcaccac 300 agttccgaga aatctccacc tttttccagg aatcttcatg aatattccac cccttggtta 360 aagaaaccca taaaggtaga agccccaaac cccattgggc gcgactcctc tcttgagtac 420 gcccgcactc ccctttcttg agtgtgtact tttcgctttg caataaatct ccgtactttc 480 actattttct gactcatcct tgaattcctt ctcgcgacgg tgtcaagagc ctggacaccg 540 gctggggtcg aggtcccacc ggcgtttggg gacctccccc agcccaccgg tatca 595 // ID BLACKJACK repbase; DNA; HUM; 2969 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-JUL-2008 (Rel. 13.07, Last updated, Version 2) XX DE BLACKJACK is an ancient DNA transposon - a partial consensus. XX KW hAT; DNA transposon; Transposable Element; transposase; MER94; KW MER114; BLACKJACK. XX NM BLACKJACK. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 2508-1871 RA Jurka J.; RT "MER114."; RL Direct Submission to Repbase Update (28-FEB-1999). XX RN [2] RP 1022-2969 RA Kapitonov V.V.; RT "BLACKJACK."; RL Direct Submission to Repbase Update (31-OCT-2000). XX RN [3] RP 1-2969 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [2] (Consensus) XX CC BLACKJACK is an ancient DNA transposon that belongs to the HAT CC superfamily [2]. Copies of BLACKJACK are ~75% identical with the CC consensus. The transposon was active more than 100 million years CC ago. CC MER94 is a non-autonomous derivate of BLACKJACK [2]. Analogously, CC MER81, which is related to MER91, is a non-autonomous form of a CC BLACKJACK-like transposon [2]. An improved consensus sequence of CC BLACKJACK [3] contains both termini and a hAT transposase-coding CC ORF CC free of stop-codons and frame shifts. XX FH Key Location/Qualifiers FT CDS 784..2718 FT /product="BLACKJACKp" FT /note="hAT transposase." FT /translation="MFNEKLSTEFPFLKKVDDERVTCTKCLSTFTIHHGGH FT SDITDHMKTRRHKSAEEASASTSKVSSYFKKTVPEDDDLTRAAAEGAFTYH FT SVKHDFSFRSNDCSSKLISLIFNSKFSCARTKSEAIAVNVLAPLAEELRKQ FT LNDASFISVSSDASNRKSVKLIPIMVRFFHPIHGIKVKLLEVHSVEGETSD FT IIVNAIVNSVKKFNIEDKIICFCGDNTNTNFGGAQRRGKNNVLTKLRNLWS FT RNVLGIGCGAHIIHNCVQTSCDILPIEIEAVVVKIYKYFYIYTVRVTELQN FT FCDEADVEYKKILQHGSTCFLSLLPVINRILEMFEPLKNYFVNQPKCPTMV FT LNFFVNESSKFWLHFVQNQLEIFNQSIQRMEHQKTSAFEAFSELQLLKTKL FT ANRKTLKFIPTKAREELNKLNDESSNGVQDLILKFYNCALEYLDLWEESFD FT GAPIFNWINLYSVPEWNEIEKAYDFAASKFGETFKRIINRDNLFDEFCLVK FT IFVEERYSEWRQKDSTCENIWAEIFTHFNIKKIRIENILHLAEFALSLPGT FT SAPVERVFSQLKILWSTEKSQLKVSTISNLLTIKCNFEEDCRQFYEKIKNN FT KTILKKYILQKNTSDMVLETDTAKKLIKVREYVPRIIILLMLFLMFR" XX SQ Sequence 2969 BP; 956 A; 510 C; 580 G; 923 T; 0 other; tagggtgacc atacgtcccg gtttgcccgg gacagtcccg gtttacgcct gttgtcccgg 60 catcccgtcc ggtttagcat ttgtcccgga tttttcattt tttaacgaag tattattatt 120 aatagttgca ttaaaataag ccgggatggg tttggtagac ctccactttg tacttccagc 180 ttctgccatg gtctcgtcta gtagtgtgtg agacgcatgt gcagtgaaca gagttctcac 240 tttaacacgt ggttaaatct gaaagacgac cagcgataac ccgtctctct tttcccgacc 300 ctttccagat gcaacgtaac taacacctcc ctttcaagga cagcatgcag ggcgctcgct 360 gataaaacga agtgcgctcg gacacgagcg gctagggaca gctaactcct tccggtctcg 420 ggtggtggtg ggagaagtat tcgacgctgc tgcccctgcc ggccacttgg tgtaccagcc 480 agttgtgccg tggcccgtgc cgcggcctgc gagatgcacg aagccgccag gccgccagtc 540 ggcggggtca gtgggaaacg tgggaaatta taggttaggt gtacgtgaaa tatgtgcggg 600 aaatagaggc tgagcagtcc tgccgtagag catatagaga gtagtctgaa cgctcttgct 660 acagtggttt tgtcatttat tgtatggtgt aaatctacaa ctatttattt tattgtttgg 720 taatgctttt ttattttgca ataaaccctt tcggcagcaa tgagctcaaa aaaataaaag 780 tgcatgttta atgaaaaatt aagtactgaa tttccgtttc tcaagaaagt tgatgatgaa 840 cgtgtaactt gcacaaaatg tttgtcgaca tttaccatcc accatggggg ccatagtgat 900 atcactgacc acatgaaaac cagaagacac aaatctgctg aagaagcatc agcatctact 960 tcaaaagtta gtagttattt taagaagact gtgcccgaag acgacgattt aacacgtgca 1020 gctgcagaag gtgcgtttac atatcactct gtgaagcatg acttttcatt tagatcaaat 1080 gactgttctt ctaaattaat ttcgctcatt tttaattcca agttttcttg tgcacgtacg 1140 aaaagtgaag cgatagctgt taatgtgttg gctccattag cagaagaact tcgcaaacag 1200 ttaaatgatg ccagttttat atcagtgtca tcagatgctt caaatagaaa atcagttaag 1260 ttaattccaa taatggttcg attttttcat ccaattcatg gaatcaaagt aaagcttttg 1320 gaagttcatt ctgtcgaagg tgaaacatct gacattattg tgaatgctat tgtaaattca 1380 gttaaaaagt tcaacattga agataaaatt atttgttttt gcggtgataa tacgaataca 1440 aattttggtg gagcacagcg tcgtggtaaa aacaatgttc ttactaaatt aagaaaccta 1500 tggagcagaa atgtacttgg aattggttgt ggtgcacaca taattcataa ttgcgtccaa 1560 acaagctgcg atattctacc aatcgaaata gaagctgtag ttgtcaaaat ttacaaatat 1620 ttttatatat acacagttag agtaactgaa ctacaaaatt tttgtgacga agctgatgtt 1680 gaatacaaaa aaatacttca gcatggcagt acgtgctttc tctctttgct gcccgtcatc 1740 aatcggattt tagaaatgtt tgagcctttg aagaactact ttgtaaatca acctaagtgt 1800 cctacaatgg tattgaactt ttttgtaaac gagtcctcta aattttggtt gcattttgtt 1860 caaaatcagt tggaaatctt taatcaaagt attcaacgaa tggagcacca aaaaacttca 1920 gcttttgaag cttttagcga attgcaatta ttgaaaacaa agcttgcaaa caggaagaca 1980 ttgaaattta tccctacaaa agcaagggag gaactgaaca aattaaacga tgagagctca 2040 aacggtgtac aagatttaat tttgaaattc tataattgcg ctttggaata tctcgacttg 2100 tgggaagaat cttttgatgg agctcctatt tttaattgga taaatttata ttctgtaccg 2160 gaatggaatg aaattgagaa ggcctacgat tttgcagcat ctaaatttgg cgaaacattc 2220 aaaagaatca taaatagaga caacttattt gacgagtttt gtcttgtaaa aatatttgtc 2280 gaagaaaggt actctgaatg gaggcaaaaa gacagtacct gtgaaaatat ttgggctgaa 2340 atatttacac atttcaatat aaaaaaaatt agaattgaga atatcctcca tttagcagaa 2400 tttgctctga gcttaccagg tacctcagca cctgtagaga gagtattttc tcaattaaaa 2460 atattatggt ctacagagaa gagtcaattg aaggtgtcaa caatttcaaa tttattaacc 2520 ataaaatgca actttgaaga agattgcagg caattttatg aaaaaattaa aaataataag 2580 accatattga aaaaatacat tcttcagaaa aataccagtg acatggtatt agagacagat 2640 acggctaaga aactgattaa agtacgtgaa tatgtaccaa gaataattat tctgcttatg 2700 ttatttttaa tgttcagata atcaatataa aattttttaa aattttgctt taatgtacac 2760 ggatatatat ttttattttt taaaaagaat tttatttttg aaaatagttt ttgaatagaa 2820 ctattttata ggtccaccaa tataataaaa ccaatttgtc ggtcaataaa tacatatttc 2880 aaaaaattat ataattttaa ttatttttag cgcccccttt cactctcaaa agtgtcccgg 2940 tttggacgat aaattatatg gtcacccta 2969 // ID MER61D repbase; DNA; HUM; 501 BP. XX AC . XX DT 20-MAY-1997 (Rel. 2.04, Created) DT 21-MAY-2008 (Rel. 5.05, Last updated, Version 3) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW LTR Retrotransposon; Transposable Element; LTR; MER4I-group; KW MER61D; LTR20. XX NM LTR20. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-501 RA Kapitonov V.V. and Jurka J.; RT "LTR20."; RL Direct Submission to Repbase Update (30-NOV-1996). XX DR [1] (Consensus) XX CC Putative LTR of endogenous retroviruses related to MER4I-MER41I- CC MER57I and MER65I. LTR20 elements share common fragments with CC MER61; LTR9 and MER41. XX SQ Sequence 501 BP; 121 A; 132 C; 135 G; 108 T; 5 other; tgaaaggagt tagccagctt gctttaggca gacagtaagg gaagggtccc cggagaacct 60 ccgacccgcc ccacaggtgc ttacaccaga tgttttgtgc agataaggga acttgcacag 120 ggggcttgcc taaacatgcc cacagtggaa aattccgtcc cttaacacat gcgcagtaag 180 ggaaataaat caatgtggag tggctcagac taagggcccg catgcgcact ggaagaatgg 240 ggtggagcca ccaggaattc gcgccttatg caggngggga gcccggcccc wtcagctcgt 300 gtgtggnggc cctggtattc aactgtgaag ngggcaaccg gnaacctgct ttcaggaccc 360 ctctctttgc tgagagcttt cctttcgctt aataaattct actccacctc actcttcgat 420 gtgtccgcgt gcctaatttt tcctggtcgt gagacaagaa cccggaccta gctgagctaa 480 ggagcaaaaa atcctgcatc a 501 // ID MER54A repbase; DNA; HUM; 901 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 06-JUL-2005 (Rel. 10.08, Last updated, Version 2) XX DE Primate MER54 repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL-74 group; KW Interspersed repeat; MER54; MER54A. XX NM MER54A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 4-901 RA Kapitonov V.V. and Jurka J.; RT "MER54A."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-901 RA Smit A.F.; RT "MER54A."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Putative LTR [1]. 5 bp target site duplications [2]. Orientation CC inverted CC to match HERVL74 orientation. Average divergence from consensus CC 19%. CC Belongs to a group also including MER73, MER74, MER88 and LTR53. XX SQ Sequence 901 BP; 202 A; 287 C; 196 G; 213 T; 3 other; tgtagtgaat tcttataatt ttatgttgcc tcggcatcca ttttgaatat aggttngact 60 ttctcatacc agaagcaggg cttagtcacc cttgacacag tttccagttc tccgcctcct 120 cccagttcct caatgtggtc gatccagata tctgccttat acaaccgcct cctggtgacc 180 acctccctat gggacagcta gatacaacct acttgactcg ccccactgac ccccacaccc 240 cacatggact gcgcagatat gccgcagtga ccacctctca gtcacagcgt gaccccacgg 300 aactcgtgcc tgcttgctct aaacccacca attagaactc cccgcgggaa acctgcttgg 360 gtaatgccct ggaccccaat aaaggcttcg gcccgcaggt ccctctctct ctctctctcg 420 ctccccaccc gctggttgag cacgcgtgtc ccggacggct ccccccttcc cgttggccct 480 gcgaggcgtg ctgccctctt ctctctggga tctgtaagta atamactgct tctgttattt 540 catgtgtttt gttgtgttgc ctcctctgtg tctcacctga ccgacacacc cgaacctaac 600 tctcctcccg gtcagggctc tcctagagag tggctatctt ggtaggaata aactggacac 660 aggtcagaca agagccacaa gggcgtctgc cagtataaac aagtttcctg tgagagggac 720 acctggtcac gggtcggaca cttaggcatt aggccgtccg ccaggataaa gaagtatccc 780 gtgaaaggca cactgtaaac atccacgacc acmtcccctg gagccccatc agggcagggc 840 tagagtttat agccactctc cagagagaga cctcaagacc aaattagagg aaaatacaac 900 a 901 // ID LTR16C repbase; DNA; HUM; 491 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Primate LTR16C repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR16; LTR16C; KW Long terminal repeat of endogenous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 101-491 RA Jurka J. and Kapitonov V.V.; RT "LTR16C."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-491 RA Smit A.F.; RT "LTR16C."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [2] (Consensus) XX CC LTR of ERVL-class endogenous retrovirus. Average divergence of CC copies CC from consensus 23-25%. XX SQ Sequence 491 BP; 92 A; 166 C; 113 G; 115 T; 5 other; tgtagcagac gctgtcggtg tcctggctca tcaccccctc agccctcaac atttcnatgt 60 acactggccc gacttccaac tgccagcacc tgcanctctc tgcctgaggg ctttctctgg 120 ccgcgggagc ccgctctgcc cgcgcgcagg gcaggccgga agtgccgggg aattaatgcc 180 cctnggaagc agccctcaac caatgacnga tgggagttgg tgtataaata ccccagctcc 240 ctcgcccctc gggtgggata actctgaggc atgtgttcta cactgtctcc cagagttccc 300 cagcgggatt gagctccagt tgcccacagt ggtaactngc ttgataacgc accctttatt 360 ggcttccttc ccttccctgt ctcacttccc cactccccta ccagtgtttc ctgggatcac 420 ctcccaaata aactacttgc actcgaatcc ttgtctcagg gtctgcttct gggggaaccc 480 aaactaagac a 491 // ID LTR60B repbase; DNA; HUM; 765 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR60B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-765 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 947-947 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 765 BP; 241 A; 171 C; 189 G; 162 T; 2 other; tgttagagta ggcagatagc tagacatgag caggagggga agcccctgag aaaaggaggt 60 ctggaaaatc tcacactccc agggaccacc caaaacatgc atgctaatag catgatgaag 120 tgggcgggca attagtcaaa tatgagcaga gaggagggga aatacctatg cagaaaggaa 180 tgccccttaa gatgcccagt aatcgctcac tctgcagtta acctgtcaga atgtagctag 240 ctacatgctg ataaggagga aaaagggcaa aggagaaatt cctaagagat acgcaggcgc 300 aataagtaca gatttgaccg ctatacgacc ttcctggggt ggcggtaatg agcaatgcag 360 ccattaggta gaattcgtat ccaacaccgg gcccgcgcat gcgcatcaac taatagtaag 420 ggagggtccc acaagcctgg ggtgggaact aggcggggac aaggcagaga cttaggaaaa 480 aactagacaa agaaaaaagg yggagcttaa gacagaggcg ggaacttcaa gaaaaaatcc 540 gacataataa aaaccccaat gcagaactct cwgggctgct gctggctcac tctctttcag 600 cagcccgctc tgcctcatct ttcagagtgt actgtctctt taaataaact ctctgctctc 660 tattttcctt caataaattc tcttttatgg ctaaattgtc tcttggcaga attctttctc 720 ccaagtaaga ctaagaaccg aggattcctg cacttcccgg taaca 765 // ID L1M3B_5 repbase; DNA; HUM; 1175 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 1) XX DE Primate L1M3B_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M3B_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1175 RA Smit A.F.; RT "L1M3B_5."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC 5' end of LINE elements connected with L1MA9 and related CC subfamily CC 3' ends, comprising the 5' UTR and part of ORF1 (from pos. 829). XX SQ Sequence 1175 BP; 378 A; 305 C; 251 G; 204 T; 37 other; ggagtgagaa cagcaagatg gcagaatagg aggtccccca ctcatattcc ctcacagcaa 60 caataatttg gcagtcatcc acgaacaaaa gtgcctttgt gggagctttg ggatccaggt 120 aggaggttgc gaaacccwgg tggagcccaa gaccaaggag gacnatttga gaaggcaggc 180 ctgtgaccag atggcaggct tgctgatcat ggtcttggct acagacccag aaacaktgct 240 gtmcccctgt ggactcagct acagcccyaa ttggccttgg tcctgccacc mrmamcatmc 300 tccaaganac ccaggaggag ccatacccac ccatgcctcg ggtaacaggc ccgccaanct 360 cggtcctggc tgtggaycct gaagcggccc atgacccagc tccatcccct ctcagmtgtg 420 gtcaggagcc agtcctgcnc gcccagggac ccgcccagtg acctggnaag agcattccca 480 gggantcagc aggagccaca cccacacata tacctggtaw caggtctacc acgtgcagaa 540 ccaactgcag atcctgaagc agccctgtaa ctcagttcca gctctaccca accaaggttc 600 tgaatgtagt cctgcctatc caaagattcg gcaagaggca tacccatccg tgctactgga 660 ggcaggcttg ccaacctcag tctsactgtg gatcntgaag yagcagccat gtgacccggc 720 tccaacccca ytyaactgcg atcccagtgg maatctcatc agcccaggga tctracagga 780 gaaggtcttc ctcccaaaac cagtctgtaa wgactgaaag aggtgtttgy tccttcaaat 840 gcacggacat caacataagg ctacacagat wataaagaat caggcaaaca trmcaccacc 900 aaaggaaact aawaaagttc cagtaaccaa ccccaaagaa acggagatct awaaattacc 960 tgacaaagaa ttcaaaataa tcatcttaaa gaakctcaat gagatgcaag agaacacaga 1020 takacaacta aanaaaatca ggaaaacaat kcatgaacaa aatgagaagt ttaacaaaga 1080 aatagaaacc ataaaaaaga accaaataga aatcctggar ctgaagaata caatgaaaga 1140 aataaaaaat tctatagaaa gctttaacag gagac 1175 // ID LTR73 repbase; DNA; HUM; 572 BP. XX AC . XX DT 24-APR-2001 (Rel. 6.03, Created) DT 24-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE Long terminal repeat of a MER4-type retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR73; KW MER41; MER4I; MER66. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-572 RA Jurka J.; RT "LTR73."; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC Distantly related to MER41(A,B,E,F,G), MER66(A-C) and LTR58. CC Over 81% similar to individual copies (on average). XX SQ Sequence 572 BP; 170 A; 148 C; 98 G; 151 T; 5 other; ttgttaccca gtgtaatgcc tactacatga catagctgaa tttctaccct gccctaactc 60 tgcttatctt taagaaacag gatgcctgcg ataaaaagtt ccctttgtaa ccagaccagc 120 tgagactggt tagaaccaag atagcagacc aaatgacttc aaaaagacct caggcttcat 180 tataatctca tttccatgct aaatgacact cccaccagtg ccatgacagt tgacaatcac 240 catgacaatg actrgaagaa gccataaaag gacaaaaagg aaggcagcac tcyagttctg 300 rgaagttcac tgcccattyc cagaaaagac atgaatattc ctccccttgc ttttaatgcc 360 caaccccttc attaaagaaa ccctatattt taacttcctc acccctcact agttgagaag 420 ttgatttgtg agccatgctc cyacttctca attccatggc catcgaataa agcctgcact 480 gcttgacact cactttcggt tttgtgtatt ggcttcgtga caccaaacag ggaaagaccc 540 catcttttgg gggactggct ttgtcagtaa ca 572 // ID SATR1 repbase; DNA; HUM; 470 BP. XX AC . XX DT 04-MAR-1999 (Rel. 4.02, Created) DT 04-MAR-1999 (Rel. 4.02, Last updated, Version 1) XX DE Primate satellite-like sequence - consensus. XX KW SAT; Satellite; Simple Repeat; SATR1; Tandem repeats; KW minisatellites; satellites. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-470 RA Jurka J.; RT "SATR1."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC Present on many chromosomes (3,5,16,19,22). The consensus CC can be separated into homologous subunits but they are quite CC different from each other indicating complex patterns CC of duplications. Sequence similar to this consensus has CC been found in Callithrix argentata satellite sequence CC Genbank Accession No. L07927. XX SQ Sequence 470 BP; 115 A; 125 C; 120 G; 105 T; 5 other; agggagagga tgatattact cccaatatca cagggggtgt acaccccccc tgtgatattg 60 ttcctaatat ccaggggggg agaggatgat attactccca atatcacagg gggtgtacac 120 cccccccccc cccccsyaca ccccccctgt gatattgttc gtaatatcca gggggggaga 180 ggagaggatg atattactcc caatatcaca gggggtgtac accccccctg tgatattgtt 240 cgtaatatcc agggggggag aggatgatat tactcccaat atcacagggg gtgtacaccc 300 cccctgtgat attgttcgta atatccaggg ggggagagga tgatattact cccaatatca 360 cagggggtgt acaccccccc cstacvccca cmccccctgt gatattgttc gtaatatcca 420 gggggggaga ggatgatatt actcccaata tcacaggggg tgtacacccc 470 // ID MER61C repbase; DNA; HUM; 434 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 02-DEC-1997 (Rel. 2.11, Last updated, Version 1) XX DE Primate MER61C repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR of retrovirus-like element; MER4-group family; MER61C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-434 RA Smit A.F.; RT "MER61C."; RL Direct Submission to Repbase Update (NOV-1997). XX DR [1] (Consensus) XX CC Putative LTR of MER4-group retroviral like sequence. 4 bp CC duplication CC sites. Most of consensus ~83% similar to LTR20, bp 140-434 95% CC and 83% CC similar to MER61C and MER61, respectively. 3' end related to 3' CC end CC LTR9 and MER52 fragment. XX SQ Sequence 434 BP; 82 A; 112 C; 127 G; 110 T; 3 other; tgatagatgc aggaggcaga taagggaggg tccccggaga atctccgacc cgccccacaa 60 gtgtttacat cagatgcttt tgtgcagatg agggaacctg cccagggcct tgtctgggca 120 tgcccacaac gaactggggg gcccacctgc gcactgggag aatggggtgg agccaccggg 180 aagttcgcgc cttgtgcagc ggggaggagc ctggcctctt cagttcctgt gtggtggcct 240 ggtgttcaat ctgtgaggtg ggagcctgtt ggcaggactc cctctcgctt tgctgagagt 300 tgtttttcct ttttcctttt cacccaataa attctgctct cctcaccctt caatgtgtct 360 gcgtgcctaa tttttcctgg tcgtgkgaca agaacccggg ttttagctga actaaggagc 420 aaaatyctgc awca 434 // ID MER39B repbase; DNA; HUM; 653 BP. XX AC . XX DT 27-JAN-1997 (Rel. 2, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 5) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER39B; KW MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 588-2 RA Kapitonov V.V. and Jurka J.; RT "MER39B."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 2-588 RA Kapitonov V.V. and Jurka J.; RT "MER39B."; RL Direct Submission to Repbase Update (JUN-1998). XX RN [3] RP 1-653 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [3] (Consensus) XX CC Putative LTR of retroelement related to the MER4I-group; CC it has 4 bp target site duplications. CC Pos. 32-593 is 90% identical to pos 75-642 of MER39 (see there) CC MER39B is a member of a closely interrelated group of LTRs CC further CC including MER21, MER34, LTR29, LTR48 and LTR49. CC Original orientation [1] was changed after LTR29 and MER34. XX SQ Sequence 653 BP; 176 A; 178 C; 115 G; 181 T; 3 other; tgttggggct cagaaaacaa taccccaaaa tgaaggcctc agaagcagcc tcagaagcaa 60 aagtttttct ctgaccttct cctgccctcc tgtctctcag tcccattctc ccccgaggct 120 agccatagaa actagaatcc ctcttcccca aggcgggtca tagaaaccag aacccctttt 180 ccccaaagcc agccataaaa cctaaaaata ttactctaac tttccctccg cctttctgtg 240 taaaaactgg ccataaagaa attatctgac ctaccttgtt tgactgtagg tcataagacc 300 cccattccag agagggtcct gccccacacc cagaaagaag gaatgcgtgc tcagagaggc 360 caagaagaat ctagacagac aggccttgct gggtttcccc actcagtcta ttagcattag 420 atcataccct ttttgtccaa tcatatttct acacggctgt ccatactttg ttgaacctaa 480 gcataaaaat ggacaatttc ccctgtatct ttgggtcttc attctgaagg ctcccgtgta 540 tatacatgtt aaataaattt gtatgccttt tctccwatta atctgccttt tgtsagttga 600 tttttcagtg aamcttcaga gggccaaggg gaagttttcc cttggcccct aca 653 // ID L1MEE_5 repbase; DNA; HUM; 916 BP. XX AC . XX DT 27-JUN-2006 (Rel. 11.06, Created) DT 07-JUL-2006 (Rel. 11.06, Last updated, Version 1) XX DE L1MEE_5 SINE1 repetitive element - consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1MEE_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-916 RA Jurka J.; RT "L1MEE_5: An ancient L1ME subfamily."; RL Repbase Reports 6(6), 289-289 (2006). XX DR [1] (Consensus) XX CC Present in ~7000 copies in the human genome. Absent from CC marsupials. XX SQ Sequence 916 BP; 363 A; 162 C; 190 G; 193 T; 8 other; agaccgacct ttcctgctga gaacaactag aaaagctgga caagattttt gkraaaaaat 60 atatttgaag gcattagaga gctaccaagg cagtgaggac ttgaggggcc aagatcccag 120 agaagaaggg aaacagagag gtgagccyga catttggcac tacttttctc ctaaaggcat 180 ttgccaattc acaagcagtg gctgagaggc tgagaagctg agcagagctt tcarcagtct 240 tatgaggctg gagggacaaa aattggagtt yagggcccac caaggagaag agayctggta 300 aacaccccag gctttcagtt gggatccctt aaagggctac acctaggaat aagggtgaac 360 tagaaataga ccagccctca caaagactga agcccagctt taaatcagct caatctctga 420 ttggattaag gtgatctgcc cctaccctaa ctgcctgcca gaagcaaaag taaattctct 480 gcaggaagat catcatccag agcctcaaat tatctcttta tattttcata tacaatgtct 540 agcattcaat taaaaattac caggcatacc aggagacaag accacatgac yaaaaaccaa 600 gagaaaaaaa tagacaatag aaacagatcc acagaagatc cagatattgg agttatcaga 660 catagacttt aaaataacta tgattaatat gttcaagaaa ttaaatgaca aaatggagaa 720 tttcagcaga gaactggaaa ttataaaaaa aaatcaaatg gaaattctag aactgaaaaa 780 taaaataact aaaattaaga attcaataga tgagtttaac agcagattag acacagctga 840 agaaagatta rtaaactgga agataggtca gaagaaaata tccagactga agcatggaca 900 agaaaaggat gaaaaa 916 // ID LTR8 repbase; DNA; HUM; 691 BP. XX AC X06279; Y00491; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like sequence (HUERS-P3). XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR8; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Harada F., Tsukada N. and Kato N.; RT "Isolation of three kinds of human endogenous retrovirus-like RT sequence using tRNA pro as a probe."; RL Nucleic Acids Res 15, 9153-9162 (1987). XX RN [2] RA Smit A.F.; RT "LTR8."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX SQ Sequence 691 BP; 176 A; 182 C; 141 G; 185 T; 7 other; tgaaaccgcc tttgcaaaat tatgactgag acagtgaaag agatctaact twactgactc 60 catcttgctt ctaacctcca agctgtcctt gttcattcct gggcgtaggc tgaactaact 120 ttgggagaaa cttagtttat agtttatagt ttaaacaaag acggtaacag ccctttccca 180 aagcagacct ccttcttgcc tggggactag attgcctttg taggactaac attagccgca 240 agattagaaa ttatggttta ggagtcatgc agctggaggc tacaagattc tgaccctccc 300 taaactgctc ctaagatcag tgcttgagat attttgcaga ccctgcgctt gatggatcag 360 ctggcaccac ccagatcaat aaactggctc atctgatctt gtggccccca cccaggaact 420 gactcagcgc aagaagacag ctycaactyc ctatgatttc atcyctgacc aatcagcact 480 cctggctcac tggcttcccc cnacccacca agttatcctt aaaaactctg mtccctgaat 540 gctcagggag actgatttga gtaataataa aactccggtc tcccgcacag ccggctctgc 600 gtgaattact ctttctctat tgcaattccc ctgtcttgat gaatcggctc tgtctaggca 660 gcgggcaagg tgaacccmtt gggtggttac a 691 // ID LTR2 repbase; DNA; HUM; 449 BP. XX AC K02167; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE LTR from human endogenous retrovirus (4-14), 3' long terminal DE repeat. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR2; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-449 RA Steele E.P., Rabson B.A., Bryan T. and Martin A.M.; RT "Distinctive termini characterize teo families of human RT endogenous retroviral sequences."; RL Science 225, 943-947 (1984). XX DR GenBank; K02167; Positions 13 461. XX SQ Sequence 449 BP; 121 A; 108 C; 97 G; 123 T; 0 other; taaggaagga gaccacctct cccattgtct cctgtttcat gagaaagcaa aaagttaaaa 60 aaagaagcag aagtgagatc aatggccaga tggtttagtg ccaagaacca ggcctggtag 120 ttaaacatca actcctgacc taaccgcttg tgctatccat agattccaga tattgtatga 180 ggaagacttg tgaaactttc tgttctgttc tgctagcccc catcactgat gcatgtagct 240 ctcagtcatg tagcccccac ttgcacaatg tatcatgacc ctttcacgtg gacccctcag 300 agttgtaagc tcttaaaagg gacaggaatc tttactttgg ggagctcgga tcttgagacg 360 cgagtctacc aatgctccca gctgattaaa gcctcttcct tcatagaacc ggtgtctaag 420 aggttttgtc tgtgactgtt cctgctaca 449 // ID LTR81AB repbase; DNA; HUM; 278 BP. XX AC . XX DT 17-JUN-2008 (Rel. 13.06, Created) DT 17-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like element. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; LTR81AB. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-278 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 667-667 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 278 BP; 82 A; 61 C; 49 G; 85 T; 1 other; tgtaataggg ataatatttt gcaaatatta aaccaatgca ttttcatttc cctcttaaat 60 catgttccct tgcagccttc tacctccaag gctgagccat gaggcttatt gccccaggga 120 astactgcct agaacaaaga ggccattgat cagctttgag tctcaaagct gactttcttg 180 acctctttag caagacaata gtcttgaaag ccaggctttg tggagaaaga aaaggatttt 240 ctaaattcct ttagctccct ttaatatatc aagagcca 278 // ID L1M3C_5 repbase; DNA; HUM; 1625 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate L1M3C_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M3C_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1625 RA Smit A.F.; RT "L1M3C_5."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC 5' end of LINE elements connected with L1MA10 and related CC subfamily CC 3' ends, comprising the 5' UTR and part of ORF1 (from pos. 1021) CC [1]. XX SQ Sequence 1625 BP; 543 A; 367 C; 400 G; 294 T; 21 other; gagtgatgtc agcaagatgg cagaatagga ggtctcagcc ctatcccccc acagaaacac 60 cgattttgac gaatacmcac ggatgagagt acctttgwgg gagtccggga gtccagtgga 120 caagttccag cacaccgttg gagwaaaaaa tctaagaata gatgcattga agagggtaag 180 aagaacagtt tcactttacc cacgtcaccc ctcccccaag gtggcatagc tcagtgccaa 240 gagagwctcc tttggtccgc gatttctccc gcaggggaaa gtgagagcat agtgagtgag 300 cgtccggctc ccccagccat gcgggacgct gcccaggagg cccacttttt tctcacccca 360 cccagaacac tgaggkgatc ggcatggctg agtggttggg agaggctgaa agcagggaag 420 agangmtggg gactcacagc agccagggca tggaactcaa cmaaaggcca cagatcctac 480 taactgcttc gcggactcca tcaggaagcc cgcccacaag cttcwtggga tacgttgcct 540 gcagaccccc ccagctggcc cacgggcgcc cccaacgctc tgtatgcctc acccctggct 600 tcggcatggc tcccaagtgc actcctgtgg acagcgagtg caagcctctg cagatggctt 660 acgagcacgc gcagacagcc ggcttgactc tgcwgwattg gaagaagsta cacaaacttg 720 agcatttcag ggcaccgccc taggaaaaag aaacggaagc ctctttgcac tcggcctggc 780 tttgcaggat tgagagaaga natacaatct tatctgcacc tagcmtggct ttgtgggatt 840 gagagaaggc atacaatcct aagacttacc tcctcctcar gagggaacaa gaggwgtgga 900 gtgggyacat cmatagaaaa ggtctgagag agycccagaa tccctagcca ggctggttgg 960 tgaaggtctt tctcttctga agccagtcag taaagactgg aggaggtgac tgtttcttca 1020 aatgtgaaga cagcaatgca agactttaag aaacatgaaa aatcaaggaa acatgacant 1080 accaaaggaa cataataatt ttccagtaac cgaccctaaa gaaatggaga tctacaaatt 1140 gcctggcaaa taattcaaaa taatcgtttt aaggaagctc agtgagctac aagaaaacac 1200 agatagacaa ctcaacaaaa tcaggaaaac aatacatgaa caaaatgaga agttcgacaa 1260 agatatagaa atcgtaaaaa agaaccaaac agaaattctg gagctgaaga atacaatgac 1320 tgaacaaaaa aatgcaatag agagcwtcaa cagcagactc gatcaagcag aagaaagaat 1380 cagcgagctc aaagacaggt catttgaaat tatccagtca gaggatcaaa aaaaaaaaaa 1440 atgaaaaaga gtgaagaaag cctgtgggat ttatgggaca ccatcaagag aaccaatata 1500 cgcatcatgg aaatcccaga aggagaagag agagagaaag gggcagaaag cttatttaaa 1560 gaaataataa ctgaaaactt cccaaatctg gggagagata tggacatcca ggtacaagaa 1620 gcaca 1625 // ID MER21 repbase; DNA; HUM; 933 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 01-JUN-2008 (Rel. 6.01, Last updated, Version 4) XX DE Human medium reiteration frequency MER21 repetitive sequence - a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Repetitive sequence; MER21. XX NM MER21. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 158-404 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 1-933 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX DR [2] (Consensus) XX SQ Sequence 933 BP; 224 A; 199 C; 235 G; 236 T; 39 other; gcgttgggag gtgggatatg attgtatatg tgtttttgtc catggttctt gtccataact 60 cacatgacca tggttacagt ctttcgctat aatgtagagg tgctttaggc ctcaggaaac 120 agaatatytc tctgrccttc tcytgycctc ytttcakccg cccaaggcag gactctataa 180 tctgattgtg ggtcgtaaga ccctcattcc agaggrggtc ctgccccata ccctggagga 240 aggaatgctg cacaaagaga ccaagaagaa tctggacagr ccttgctggg attagatcag 300 accctttttg yccaatcaca ttwtnncart cgtccatgct tcagtcatgg acanccaatg 360 agrtctccat aaaaggccca aaggacaggg ttcagrgagc ttctggagag ctgaacacgt 420 ggaggctrac agaaggtgaa gaatctggag ggtgtaaccc caayyctatc argacggaag 480 ctcctgcgct gggmycttcc agaccgcccc gtatgtatct cttcatctgt atcctttgaa 540 atatcatcta ttaataaacc agtaaacwta ataagtgttt cyytgagttt tgtgarccac 600 tctagcaaat tartcgaacc taaagaggtg tcgtgggaac cccaayttga agccagttgg 660 tcagaagttc cagagrcccg grcttgcaac tgtrtctgaa ggtggggnca gtcttgggga 720 ctgagacctc aacctgtggg atctgacgct atctccaggt agacagtgtc ggaactgart 780 tggaggacgc ccagctggtg tctgctgctt ggtgtgtggg gaaaatcctc cacacatttg 840 gtcacagaag tcttctgtgt tgacgactgt tgtcgtggta tgasagcaga ggraaaacat 900 ggtttgagag aggttttyct gmaayagrag ggc 933 // ID LTR12C repbase; DNA; HUM; 1577 BP. XX AC . XX DT 04-OCT-2000 (Rel. 5.09, Created) DT 25-APR-2001 (Rel. 6.03, Last updated, Version 2) XX DE LTR from human ERV9 endogenous retroviral sequence (HRES-1/1) - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR12; LTR12C; KW PTR5; PTR7; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1577 RA Jurka J. and Kapitonov V.V.; RT "LTR12C."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC This sequence is a hybrid between PTR5 and LTR12. XX SQ Sequence 1577 BP; 324 A; 501 C; 447 G; 295 T; 10 other; tgagaggtga cagcgtgctg gcagccctca cagccctcgc tcgctctcgg cgcctcctct 60 gcctgggckc ccactctggc cgcrcttgag gagcccttca gcccgccgct gcactgtggg 120 agcccctttc tgggctggcc aaggccggag ccggctccct cagcttgcag ggaggtgtgg 180 agggagaggc gcgggcggga accggggctg cgcgcggcgc ttgcgggcca gckcgagttc 240 cgggtgggcg tgggctyggc gggccccgca ctcggagcgg ccggccggcc cgccggcccc 300 gggcagtgag gggcttagca cctgggccag cagctgcgga gggtgtrctg ggtcccccag 360 cagtgccrgc ccaccggngc tgtgctcgat ttctcgccgg gccttagctg cctccccgcg 420 gggcagggct cgggacctgc agcccgccat gcctgagcct cccccccccc tccgtgggct 480 cctgtgcggc ccgagcctcc ccgacgagcg ccgccccctg ctccacggcg cccagtccca 540 tcgaccaccc aagggctgag gagtgcgggc gcacggcgcg ggactggcag gcagctccac 600 ctgcggcccc ggtgcgggat ccactgggtg aagccagctg ggctcctgag tctggtgggg 660 acttggagaa cctttatgtc tagctaaggg attgtaaata caccaatcag cactctgtat 720 ctagctcaag gtttgtaaac acaccaatca gcaccctgtg tctagctcag ggtttgtgaa 780 tgcaccaatc gacactctgt tatctagcta ctctggtggg gacttggaga acctttatgt 840 ctagctaagg gattgtaaat acaccaatca gcactctgta tctagctcaa ggtttgtaaa 900 cacaccaatc agcacyctgt gtctagctca gggtttgtaa atgcaccaat cgacactctg 960 tatctagcta atctagtggg gacgtggaga acttttgtgt ctagctcagg gattgtaaac 1020 gcaccaatca gcaccctgtc aaaacggacc aatcagctct ctgtaaaaca gaccaatcgg 1080 ctctctgtaa aatggaccaa tcagcaggat gtgggtgggg ccagataaga gaataaaagc 1140 aggctgcccg agccagcagt ggcaacccgc tcgggtcccc ttccacactg tggaagcttt 1200 gttctttygc tctttgcaat aaatcttgct gctgctcact ctttgggtcc acactgcctt 1260 tatgagctgt aacactcacc gcgaaggtct gcagcttcac tcctgaagcc agcgagacca 1320 cgaacccacc gggaggaacg aacaactcca gacgcgccgc cttaagagct gtaacactca 1380 ccgcgaaggt ctgcagcttc actcctgagc cagcgagacc acgaacccac cagaaggaag 1440 aaactccgaa cacatccgaa catcagaagg aacaaactcc ggacacgccr cctttaagaa 1500 ctgtaacact caccgcgagg gtccgcggct tcattcttga agtcagtgag accaagaacc 1560 caccaattcc ggacaca 1577 // ID TIGGER6A repbase; DNA; HUM; 1106 BP. XX AC . XX DT 14-JUN-2000 (Rel. 5.05, Created) DT 14-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE TIGGER6A repetitive element - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW MER97; Nonautonomous DNA transposon fossil; TIGGER6A; KW mariner/Tc1 superfamily. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1106 RA Jurka J. and Kapitonov V.V.; RT "TIGGER6A."; RL Direct Submission to Repbase Update (JUN-1998). XX RN [2] RP 1-1106 RA Jurka J. and Kapitonov V.V.; RT "Direct submission."; RL Direct Submission to Repbase Update (JUN-2000). XX DR [1] (Consensus) XX CC Putative non-autonomous DNA transposon fossil related to the CC mariner/Tc1 superfamily. TA target site duplication. CC Perfect 24 bp terminal inverted repeats. CC Average identity of individual copies to the consensus is 80%. CC TIGGER6A portion (positions 500-800) is about 60% identical to CC TIGGER2 (positions 1959-2155) and TIGGER5 (positions 1544-1820). XX SQ Sequence 1106 BP; 368 A; 196 C; 220 G; 322 T; 0 other; caggcagtcc tcgctttgca cggttccgat atgcatgaat ttcagttacc acggtttagt 60 taaataacac cagtccccca acaacacggt tcaaatttca gttaccacgg tatattaact 120 gtgagtaatt gcataaagta caaacttcgc tgctagctct tcagtccaca aatcactaca 180 taaataacag atgcgcatca tgatcagtga ccaatcacat cacttctttc aaagtctgtc 240 ggtgattggt cactgtgcat ctgttattca gttcatgcac agacagcaaa gcgtgtagtt 300 gtgttgcctc cttgtctccc agtgataaac ccacgtgaca ttttacaaaa atggataatc 360 gaaagaggga attggccaac aaagatgaaa gtgcagcaaa gaaacgaaaa gtgataatgc 420 tggaagtgaa attcgaatca aacgtaaatg gagttataga agaaatagct gaccgtggga 480 atgttgacac tgccgccatt tgagagactc tagatatgca gccagaggaa cttagtgaag 540 gcgaacttat cgacataaat gaggaaagtg gttgtgacga aaaggatgaa gatgtcccag 600 aggaagtgac gccagcaaaa aacttcacat taaaggaact cttggagata tttcacgaca 660 ttgaaagcgc aaaggataaa atgttggaag ctgatccaaa cttagaaagg agtatgacaa 720 tttgccaagg catagaaaag atgcttactc cgtatcgtaa gttatataaa gaagaagaag 780 gcaagcactg ttcaaactac tcttgataag ttttttttgg tttgttttga taagtttttt 840 tacaaagaaa taaaacactt taattctcaa tgtttctaat gttttaaatt atagtgtact 900 aaataaatat tagttttatt atttttttca ttccctatac atttataacc gacggtaaga 960 gagtttttaa tgtttttgac aaaaattttt aaaggtcacg gaacaattat aattttccca 1020 ttgattatta agatcgcttt gcatggtttc agcttgcatg gtcattttta cggtcccgta 1080 ctaccgtgca aagcgaggac tgcctg 1106 // ID MER57B1 repbase; DNA; HUM; 401 BP. XX AC . XX DT 22-MAY-2008 (Rel. 13.05, Created) DT 22-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER57B1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-401 RA Smit A.F.; RT "MER57B1 - a subfamily of endogenous retroviruses from placental RT mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 92% similar to MER57B2. XX SQ Sequence 401 BP; 94 A; 100 C; 75 G; 131 T; 1 other; tgttaaatca agtttagcct aaagctgcct ccttacatat tttaagttcg gcctaaaggt 60 ttctctgtac atcgtgaact ataacctaaa tggaggtgta aacagactgt agcctactct 120 tgtgccaatc accgagtttt ggccaatcaa aggtggccaa ctgttcaaac cgtgttcaaa 180 taaggcaaac gccgagctgt aaccaatccg gctgtttctg tacctcactt ccgttttctg 240 tacgtcactt tcctttttct gtccataaat cttcttccac cacgtggctg cgctggagtc 300 tctgagccta ctctggctcg ggaggctgcc cgattcgcga atcgttcttt gctcaattaa 360 actctnttaa atttaattcg gctaaggttt ttcttttaac a 401 // ID L1MCC_5 repbase; DNA; HUM; 1536 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Primate L1MCC_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1MCA_5; KW L1MCB_5; L1MCC_5; LINE1 repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-880 RA Jurka J.; RT "L1MCC_5."; RL Direct Submission to Repbase Update (SEP-1998). XX RN [2] RP 1-1536 RA Jurka J.; RT "L1MCC_5."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [2] (Consensus) XX CC 83% 3'-similar to L1MCB_5 and L1MCA_5 (starting around pos. 610). XX SQ Sequence 1536 BP; 516 A; 347 C; 337 G; 263 T; 73 other; aggaacttcc actttcagtt ctacttccac ttaggatgta gaaagccaca aragaatatt 60 gctcccatcc taacaatrag aaaaaaagcc agataatcta caaaatyata cttttcttga 120 gcccatcaga gagctgaggt cacaaggcaa ccaagtaaac tgaattccaa agagtgacaa 180 gcccctccaa ggagaracag gacacaygaa ctgtttcacc tttggcagag cataggagga 240 agaggtggcc accataaaag caggtaagaa gaaatcagct aaaattttaa taaattctta 300 aaggccaagt gtgggctagt gtgwcagttt agaaagctgg gagccccaga cacaagggaa 360 gtttgcactc acttgcaagc tcttttccat gggcctccac caggtgctca tgagaaagac 420 tgggggcagg gcaggagact gaagaaagcc ctcctcagkg gcacaggcat gcaggaggtg 480 atcggctgcn gctgggggac aggaacgaag ccnncctcat nttcncagaa ctttcttycc 540 yaaagcaaaa gccttnngct rctgggntga saggnagcaa acccnnttnc tcccagggcc 600 kwrgcaaara cactmtwsyt tytysrgaag mggtargagc yaaaccwtct gattctgggg 660 gaagaacaga agcaaaagcc ttctscycny gngraagggc agrraacwnt ntyaggynca 720 ggatnntgca ntgatacaaa ncagaggtcw gctactactg ggagaggnac aggtcccatc 780 ccaaccacag atacaaggag agtttgactg ccatggagag aggggcagga acactgagaa 840 agccccactc ctgaggccca ggcgcacagg gcctgcctaa gactgaggct ggaccaggac 900 aacagagaac atccctnctc ccaccacaag cctaacaagc accaagtaac amagcaacag 960 cagtctacca ctgggggagg gnnannanna tggagagaga ctccctctgt ggcacaggta 1020 tgcagggact actgaaagct gagggtggag caggaacact gagaaaaacc ctctagcaaa 1080 ccagccccca cactaagcac aaggtaacag cagcccacca ctagaggaat ttgaagcctg 1140 tggtgcactg arggtaacca tagcaacaac aaaacccaaa cccagctcaa ctcctgacta 1200 gattgactca acccccacac taaaagccta gcagaagaaa aggcatgccc atttccaggc 1260 ataaatacta tttacctcag tctctactgt tcttctacac ataatgtctr gcattcaata 1320 aaaaattaca agacananaa aaaaagnaaa aaaaaacaac ccattgtcaa gagacaaagc 1380 aatcaacaga accagactca gatatgacac agatgttgga attatcagac aaagaattta 1440 aaataactat gattaatatg ttaaaggatc taatggaaaa anggtagaca acatgcaaga 1500 acagatgggt aatttcagca gagagatgga aactat 1536 // ID MamGypLTR2c repbase; DNA; HUM; 1068 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 02-JUL-2009 (Rel. 14.08, Last updated, Version 2) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; MamGypLTR2c_LTR; KW MamGypLTR2c. XX NM MamGypLTR2c_LTR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1068 RA Smit A.F.; RT "MamGypLTR2c_LTR - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; 35% subst in dog-human; rnd-4_family-2757; 5' end CC undefined; closest to MamGypLTR2b. XX SQ Sequence 1068 BP; 280 A; 242 C; 350 G; 171 T; 25 other; attttgagag aaaangnntn ttttngaatt cnaaaagctt ggctttgaat atcaagagcc 60 aaancctgga ggactcagag catagagttt atgccataaa ccatagagtg ggaagaatgc 120 atgatgatgt aagagcagtt ttcccaccca aaaggagata aaagttcgac cagctggngg 180 gaggaggaga nttggagagg gcgngactag agcttagatg ctggtgggtc cctgagaagg 240 ggcccggcgc cctgcccact ccctgggccg agtccnnggc gggnnggcgg ganaatagaa 300 accccagatg agtttggggg gatcccagag cagaagggac ctntgcctng cttcccaggg 360 tgtagcccgg gagactgcaa gcctcntaga gaagccctgc atccaacatg gcgcctgagc 420 ggtagagtag caatggctga gggaggtgtc taggcggatg ggcctgaggg cagcctcaca 480 gagtcctgcg caccccagng tggtgcgggg agagcagccg agagttcctg agccccccaa 540 gaggggcgtg agaagtgggc tgagagagcc gaggcagaca gtagcagagg ccttgcagcc 600 agggaccagg tgggacagag gagtgcctac atgcctggga ggacctggng accggaggcc 660 angnagggga ccgcggacac agcagggacc ggagncgatg cccaggacca ggcgggacga 720 gntacacctc agcggaggcc agcaaggaca gaggatggca cgtggaccag acgcccctcc 780 ccgatgccag gacgacaagg ccactgagcc cccccggaac ccagatcacc cccggggaga 840 agggaaggag ggggaaggag agaatcctga attgactgag tatttaccca aaagagactg 900 agttttaaac cggaagtgac tgagttacct tgaattggca agattaagtt ttccgccatc 960 agcggaaatg ggggctcgng agctaagttg agttcagtta tagagaaata aagaaagtta 1020 catttttgca cacctgagtt tgtgactgta aaattcatac ccgctaca 1068 // ID AmnSINE1_HS repbase; DNA; HUM; 576 BP. XX AC . XX DT 07-JUL-2006 (Rel. 11.06, Created) DT 02-AUG-2006 (Rel. 11.06, Last updated, Version 2) XX DE Human DeuSINE element - consensus. XX KW SINE3/5S; SINE; Non-LTR Retrotransposon; Transposable Element; KW Interspersed repeat; SINE3; DeuSINE; conserved; AmnSINE1_HS; CNE. XX NM AmnSINE1_HS. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-576 RA Nishihara H., Smit A.F. and Okada N.; RT "Functional noncoding sequences derived from SINEs in the RT mammalian genome."; RL Genome Res 16(7), 864-874 (2006). XX DR [1] (Consensus) XX SQ Sequence 576 BP; 125 A; 129 C; 150 G; 156 T; 16 other; gyctrcagcc ayascacctc gggctrtgat ctcgtcagat ctcacaagct aagcagggtc 60 gggcctggtc aatdcttgga tggaagmcct ccaaggaaaa cccaggtgct rcaggaagtg 120 gtgytggtga ttcagtaggt ggcactcttc cctctgagtc agtactgaac caatgyccca 180 gcatggtgtt agggggcact gtgytgcygg aggtgccgtc tttcggatga gacgtaaaac 240 cgaggtcctg accacttgcg gtcattaaag atcccatggc acttttcgta agagtagggg 300 tgttaacccc ggtgtcctgg ccaaattcca attcgggtaa ttacattctg cctacctaaa 360 ttcccyctgc agtttcaatt ggatacggta ttcttcactt cctgtcctaa actgttgtgt 420 agtgttgctg tgcgctgtta aacagctgcc gcgttycacc ccagaggtgg ctgcatttca 480 gtggtgggtg aartgatcyc tatatgtagc ttgtaaagcg ctttgggatc cttcgggatg 540 aaaggcgcta tataaacgta aggtattatt attatt 576 // ID MLT2A1 repbase; DNA; HUM; 444 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Interspersed repeat MLT2A1 - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; HERV-L LTR; KW Interspersed repeat; MER19; MLT2A1; MLT2A1.. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-161 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RA Cordonnier A., Casella F.J. and Heidmann T.; RT "Isolation of novel human endogenous retrovirus-like elements RT with foamy virus-related pol sequence."; RL J-Virol 69(9), 5890-5897 (1995). XX DR [2] (Consensus) XX CC Replaces MER19. CC This sequence is a human endogenous retroviral LTR [3]. XX SQ Sequence 444 BP; 107 A; 99 C; 109 G; 125 T; 4 other; tgtgatggtt aatactgagt gtcaacttga ttggattgaa ggatacaaag tattgatcct 60 gggtgtgtct gtgagggtgt tgccaaagga ggttaacatt ggactcagtg ggctggggag 120 aggcagaccc acccttaatc tgrgtgggcg cmatcyaatc agctgccagc gtggctagaa 180 tataaagcag gcagaaaaat gtgaaaagag agactggcct agcctcccag cctacatctt 240 tctcccgtgc tggatgcttc ctgcccttga acatcagact ccaagttctt cagttttggg 300 actcggactg gctctccttg ctcctcagct tgcagacggc ctattgtggg accttgtgat 360 cgtgtgagtt aatacttaat aaactcccct ttatatatat ctattcyatt agttctgtcc 420 ctctagagaa ccctgactaa taca 444 // ID HERVR repbase; DNA; HUM; 7392 BP. XX AC D00088; D10032; N00088; XX DT 19-FEB-1997 (Rel. 2.01, Created) DT 19-FEB-1997 (Rel. 2.01, Last updated, Version 1) XX DE Baboon endogenous retrovirus (BaEV), internal part. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVR; KW LTR4 related; capsid protein; endonuclease; glycoprotein; KW protease; reverse transcriptase. XX OS Papio hamadryas OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Cercopithecidae; Cercopithecinae; Papio. XX RN [1] RP 1-7392 RA Kato S., Matsuo K., Nishimura N., Takahashi N. and Takano T.; RT "The entire nucleotide sequence of baboon endogenous virus DNA: A RT chimeric genome structure of murine type C and type D RT retrovirus."; RL Jpn. J. Genet 62, 127-137 (1987). XX DR GenBank; D10032; Positions 556 7947. XX CC CDS 430..2043 CC /gene="gag" CC CDS 2020..5613 CC /gene="pol" CC mat_peptide 2404..4434 CC /product="reverse transcriptase" CC mat_peptide 4435..5610 CC /product="endonuclease" CC CDS 5680..7371 CC /gene="env" CC /codon_start=1. XX SQ Sequence 7392 BP; 1991 A; 2113 C; 1675 G; 1613 T; 0 other; tgggggctcg tccgggattt gagaggcggc cagaggacac cggccccttt tccttttcgg 60 cagaaaccgc gcggccccgg ccaccggtgg cggacggacg acgggacgac tcttgtgtgt 120 agtcaggtac tttatttttg ttctgtcttt aatctctgag gtcggccaac cttcgtagga 180 gtgtagaggg aggacagacg tgtcctggac cctcacactc cgaccccggg ggacgccccg 240 gcggtcgtct ggaggaaggc tgatgacacc gtcagcctcc tcaaatctga aggcaggttc 300 cccctgccat ctgaatcact tgtagtactt tggcgccatt ctctggccgc gcggctcatc 360 tgtttttgtc tggtttgtgt tgttactgtt gtcttattta tatgtgtgta tgagcctaag 420 gacgggacaa tgggacagac gctaacaact cctctatctt tgactttgac gcacttttca 480 gacgtccggg ccagagccca caatctttcc gtaggagtcc gaaaaggacg atggcaaact 540 ttctgctcgt ccgagtggcc cacccttcat gtcgggtggc cccgggacgg aacttttgac 600 ctctccgtta ttttgcaggt taagacaaag gtaatggatc ctgggccgca tggtcacccg 660 gaccaagtgg cctacatcat cacctgggag gatctcgtcc gaaatcctcc gccttgggtg 720 aaaccctttc tccatacccc ttctacatcc aagtccaccc tccttgccct agaagtccca 780 aagaaccgga ccctggatcc gcctaaaccc gtactcccgg atgagtcgca gcaagacctc 840 ctcttccaag accctctacc tcatccacca cataatcccc tcctggaacc cccaccctac 900 aactcaccct cgccccctgt cttgtccccc gtttctccta ccaccccttc tgcccccact 960 ccttcctctc ttgtctcctc gtcgaccccg ccttcctctc cagccccacc tgaactcacc 1020 cccaggaccc cgccacaaac cccccgtctc cgcctccggc gggccgaagg tcaggatggc 1080 ccttccacct ggcaatcttc cctttttccc cttcgcacgg tcaaccgcac gatccagtac 1140 tggccctttt ctgcctcgga cctctataat tggaaaaccc ataacccctc cttttcccaa 1200 gacccccagg ccttgacctc gttgatagaa tcaattctcc tcacccacca gcctacctgg 1260 gatgattgtc aacagctttt gcaggtcctt ctaaccaccg aagaaaggca gcgagtcctc 1320 ctggaagccc ggaaaaatgt gccggggcct ggaggccttc caacccagct ccccaatgaa 1380 atagacgagg gatttcccct cacccgcccg gactgggatt atgagacagc accgggtagg 1440 gagagtctcc gaatctatcg ccaggctctg ttggcgggtc tcaagggggc aggaaaacgc 1500 cccaccaatt tggccaaggt aaggactata actcagggaa aagatgaaag cccggcagcc 1560 tttatggaaa gacttctgga agggtttcga atgtatactc catttgatcc agaagcacca 1620 gaacacaagg ctaccgtggc catgtcgttc atagatcagg cagcactaga cataaaagga 1680 aaactccaaa ggctagacgg gatccaaact catgggctgc aggaattagt aagggaggca 1740 gaaaaggtat acaataaaag ggaaacccca gaagaaagag aagctaggct tataaaagaa 1800 caggaagaac gggaagatcg gagagacaga aaaagagata agcatttaac caaaatcctg 1860 gcagccgtag tgactgaaaa aagggcagga aagtcagggg aaacaagaag gcggcctaaa 1920 gtagataagg accagtgcgc ctactgcaaa gagcgagggc attggatcaa ggactgcccc 1980 aagcgtccta gagaccagaa gaaacccgcc cctgtcctca ccttaggtga ggacagcgaa 2040 taggggtgtc agggctctgg agcccccccc gagccccggc taactctatc tgtagggggg 2100 catcccacca ccttcttggt ggacacaggc gcccaacact cggttttgac caaggcaaac 2160 ggacccctgt cctctcgtac atcttgggtc cagggggcaa caggaagaaa gatgcacaaa 2220 tggactaacc gccggacagt taacctaggg caaggaatgg tgacacactc cttcttggtg 2280 gtacctgaat gtccgtaccc ccttctgggg cgagatctcc taaccaaact cggagctcag 2340 atccacttct ccgaggcagg ggcccaggtg ttagaccgag atggccaacc catccaaatt 2400 ttgactgtgt ctctgcaaga tgaacaccgg ctttttgaca tcccggtcac caccagcctc 2460 cctgatgtct ggttacaaga ttttccccaa gcttgggcgg aaacgggagg acttgggcgg 2520 gccaagtgtc aagccccaat cataattgat ctaaagccca cagcggtgcc tgtatctatc 2580 aaacaatacc ccatgagcct agaagctcat atgggcattc ggcaacacat tatcaaattt 2640 ctagaacttg gagttttgcg accttgtcgc tcaccctgga atactcctct tctgccagta 2700 aaaaagcctg gtacccagga ttacaggccc gtccaagatt tgagagaaat taataaaaga 2760 actgtggata tccaccctac ggtccccaat ccttacaact tgctcagtac cttaaaacca 2820 gactacagct ggtataccgt actggactta aaagatgcct tcttttgttt acccctggcc 2880 ccccaaagcc aggaactatt tgcctttgag tggaaggacc ctgagagagg aatctcaggc 2940 caattgacct ggactcgact tccccagggg ttcaaaaact ctcccactct cttcgatgag 3000 gctctccaca gggacctcac cgacttccgg acccagcatc cagaagtgac cctgctccag 3060 tatgtagatg acctcctctt ggcggccccc acaaagaaag cctgcacgca aggtactagg 3120 catctactcc aggaactagg tgagaaagga taccgggcat ctgccaagaa ggcacaaatt 3180 tgtcagacca aggtaactta cctggggtac atactgagtg agggaaaaag gtggctcacc 3240 cctgggcgca tagagactgt ggctcgcatt ccaccgcccc ggaatcccag agaggtgcgt 3300 gaattcctgg gaactgctgg gttctgtcgc ttgtggatac ccggttttgc tgaattggcc 3360 gccccccttt acgcactcac caaggaaagc acccctttca cctggcagac agagcatcaa 3420 ttggcttttg aggcactaaa aaaggcactc ttgtctgccc cagcccttgg gttaccggac 3480 acctcaaagc cctttaccct cttcctggac gaaaggcaag ggattgccaa aggagtcctg 3540 acccaaaaat tggggccttg gaaaagaccg gtagcatacc tgtccaagaa gctggaccct 3600 gtggcggccg gctggccccc atgtcttcgt atcatggcag ccaccgctat gctggtcaaa 3660 gactctgcta agttaaccct tgggcagcca ctgactgtta ttactccaca tactctagag 3720 gccatagtgc ggcagccccc ggaccggtgg ataaccaacg cacgcctaac ccactaccag 3780 gccctcttac tggacacgga ccgcgtccag tttggccctc cggtcaccct aaaccctgct 3840 acgctgctgc cggtaccaga aaaccaacca agcccacacg attgtcggca agtactggct 3900 gagacccatg gaacacgaga agaccttaaa gaccaagagc tcccagacgc ggatcacacc 3960 tggtacacag acggcagcag ttaccttgac tcaggtactc ggagggcggg agcagcggta 4020 gtagacggac acaataccat ttgggcacaa tcactacctc ctggcacgtc tgcacagaag 4080 gctgagttaa tagcactaac caaggcccta gagctgtcca agggaaagaa agctaacatt 4140 tatactgata gccgatatgc ctttgcaacg gctcatactc atggaagtat ctatgaaaga 4200 agaggtctcc taacctcaga aggaaaggaa atcaagaaca aagctgaaat aattgcctta 4260 ttaaaggccc tttttcttcc tcaagaagtg gctataattc actgccccgg gcatcagaaa 4320 ggacaggatc cagtcgcagt aggaaacaga caggctgacc gagtggccag gcaagccgcc 4380 atggcggaag tactgaccct agccacagaa cctgacaaca ccagccacat aactattgaa 4440 catacttata cctccgaaga ccaggaagaa gcaagagcca taggggctac agaaaacaaa 4500 gacactagaa actgggaaaa agaagggaaa atagtccttc cccaaaagga agccctggca 4560 atgatccagc agatgcatgc ctggacacac ttgggtaatc gaaagctaaa attgttaatt 4620 gaaaaaactg actttctaat cccaagggca agtacactca tagagcaagt gacatctgcc 4680 tgtaaggtct gtcagcaggt aaacgctggg gctacccgag tgccagcagg gaaacggact 4740 cgtggtaacc gcccgggagt ctattgggaa atagacttca ctgaagtaaa acctcactat 4800 gctgggtata agtacttact agtgtttgta gatacctttt caggatgggt agaagccttt 4860 cccacccggc aagaaacggc acacatagta gccaagaaga tcctagaaga aatctttcct 4920 agatttggac ttcccaaggt aattgggtca gacaacgggc cggccttcgt ttcccaggta 4980 agtcaggggc tagccaggat actggggatt aattggaaat tgcattgtgc ttatagaccc 5040 cagagctcag gacaggtaga gagaatgaat agaacaataa aagagaccct tactaaattg 5100 accttagaga ctggcttaaa agattggaga cgcctcctat ctctagctct attaagagcc 5160 cggaatacgc ctaaccgctt tgggctcact ccatatgaaa tcctctatgg aggacctccc 5220 cctttgtcaa ccttacttaa ctccttttct ccctccaatt ctaagactga cctacaggcc 5280 cggctaaaag gactacaagc agtacaggcc caaatctggg cccccttggc agaactgtac 5340 cggccaggac attcgcagac cagccacccc ttccaggtgg gggactccgt ctacgttaga 5400 cgacaccgtt ctcagggact ggagcctcgg tggaaaggac cctacattgt tctcctgacc 5460 acacccacag ccataaaggt tgacggaatc gccacgtgga ttcacgcatc ccacgccaag 5520 gctgctccag ggacgcctgg accgacgtcg tccggaactt ggagactccg ccgctccgag 5580 gaccccctta agataagact ctcacgcact tgacttctta cttgcccttg tcctcctacc 5640 ccgcgccgta catagcagta acccctcata tagtccaaga tgggattcac aacaaagata 5700 atcttcttat acaacctagt actggtctac gcggggtttg acgaccctcg caaagccata 5760 gaactagtac aaaagcgata tggccgacca tgcgattgca gcggaggaca agtgtccgag 5820 cccccgtcag acagggtcag tcaagtgact tgctcaggca agacagctta cttaatgccc 5880 gaccaaagat ggaaatgtaa gtcaattcca aaagacacct ccccaagcgg gccactccaa 5940 gagtgcccct gtaattctta ccagtcctca gtacacagtt cttgttatac ctcataccaa 6000 caatgcagat caggcaataa gacatattat acggctactc tgctaaaaac acaaactggg 6060 ggcaccagtg atgtacaagt attaggatcc accaacaaac ttatacaatc tccctgtaat 6120 ggcataaaag ggcagtctat ttgctggagc actacagctc ctatccacgt ctctgatgga 6180 ggaggtccat tagacaccac aagaattaaa agtgttcaga gaaaactgga agaaattcat 6240 aaagccctat atcctgaact tcagtatcac cctttggcca tacctaaggt tagagataac 6300 ctcatggtcg atgcccagac tttaaacatt ctcaatgcca cttacaactt actcctaatg 6360 tccaacacga gcctagtgga cgactgttgg ctttgtttaa aattaggtcc ccctactccc 6420 ctcgcaatac ctaacttcct attatcctac gtgactcgct cctcggataa tatctcttgt 6480 ttaataattc ccccccttct agttcaaccg atgcagtttt ccaattcatc ttgcctcttt 6540 tccccctcct acaacagtac agaagaaata gatctaggcc atgttgcctt cagcaactgt 6600 acctccataa ccaatgtcac cggtcccata tgcgctgtaa atggttcggt ctttctctgt 6660 ggcaataaca tggcatacac ttatctaccc acgaactgga cggggctttg cgtcctagca 6720 actctcctcc ccgacattga catcattccc ggagatgaac cggtccccat ccctgctatt 6780 gatcatttta tatatagacc taaacgggcc atacagttta ttcctttact agcagggcta 6840 gggatcaccg cagccttcac aacaggagct acaggcctag gtgtctctgt gacccaatat 6900 acaaaattat ctaatcagct aatttctgat gtacaaatct tatctagcac catacaagat 6960 ctgcaagatc aagtagactc attagccgaa gtggttctcc agaacagaag ggggctagat 7020 ctacttacag cagaacaagg aggaatctgt ttagccctgc aagaaaaatg ctgcttttat 7080 gttaacaagt cagggattgt gagagacaaa ataaaaacct tacaagaaga actagaaaga 7140 cgtagaaaag atctagcttc caacccactt tggactgggc ttcaagggct cctcccttac 7200 ctcctgccct ttcttggccc tctacttacc ctcctgctct tactcaccat tgggccgtgc 7260 atttttaacc gtctaaccgc ttttattaat gataagttaa acataataca cgctatggtg 7320 ctaacccaac agtatcaggt gctcagaacc gatgaagaag ctcaagattg agcctctaag 7380 acacaagaaa ag 7392 // ID LTR18B repbase; DNA; HUM; 614 BP. XX AC . XX DT 08-MAY-1997 (Rel. 2.04, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE Putative long terminal repeat of endogenous retrovirus - a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; HERV18; LTR; KW LTR18 subfamily; LTR18B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-614 RA Kapitonov V.V. and Jurka J.; RT "LTR18B."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-614 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of class III (HERVL) endogenous retrovirus HERV18; 5 bp CC target CC site duplications [1]. Copies on average 14-15% diverged from CC consensus. XX SQ Sequence 614 BP; 136 A; 160 C; 198 G; 118 T; 2 other; tgtaaggtac atggatgtgc tttggtcaag gaataggccg aggcggacat ccaggcctgc 60 atgactcagc gagtttggng cgcaggcgca cacctccact tgttatataa cctgtttgtg 120 taagttcata cttggctctg agccactatt gtctgtaaaa ggtataactg ccctgctgac 180 gctgtgcagg ggctcttggg gctcagctcg gctcaacatg gcttgacatg gtgggcgcgc 240 tggcgcccag agaaagagag agagagccag agctgtccgt cttgcagacg gacagggggg 300 agccaggaca cagcttggct tgctcgtgcc cagagagaga aagagttaag ctgctgaccc 360 tgaaggcaag ggagagccgg ccgcgcagct gtgcgtgggg gcggcaggag ccgcagagct 420 ggancaggca gccgagacag aggcggacag tgtgagagag ctgctgaagt gtgagaagct 480 gctgatgaga gagctgctga ataaaaccat atttcacctg cctacggccc cccgagtgtt 540 ctttcagcta tctgcccatc cacccactcc cctcggacct cagcatgggc tggaacctga 600 ccccgggcct gaca 614 // ID BSRd repbase; DNA; HUM; 152 BP. XX AC . XX DT 06-SEP-2005 (Rel. 10.08, Created) DT 06-SEP-2005 (Rel. 10.08, Last updated, Version 1) XX DE Satellite from primates. XX KW Satellite; Simple Repeat; BSRd. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-152 RA Smit A.F.; RT "BSRd - Satellite from primates."; RL Direct Submission to Repbase Update (06-SEP-2005). XX DR [1] (Consensus) XX SQ Sequence 152 BP; 30 A; 38 C; 46 G; 36 T; 2 other; gctgggtccg catatgagag tcacaatctc acctgtgggc tgggtccagg tatgagagtc 60 acmatctcac ctgtgggctg ggtccgcata tgagagtcac aatctcacct gtgggctggg 120 tccaggtatg agagtcacma tctcacctgt gg 152 // ID ZOMBI_A repbase; DNA; HUM; 234 BP. XX AC . XX DT 19-SEP-2001 (Rel. 6.08, Created) DT 02-OCT-2007 (Rel. 12.11, Last updated, Version 3) XX DE Medium reiteration frequency repeat; non-autonomous DNA DE transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW nonautonomous DNA transposon; MER46; ZOMBI_A. XX NM ZOMBI_A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 234-1 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 234-1 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247 (0001). XX RN [3] RP 1-234 RA Kapitonov V.V. and Jurka J.; RT "ZOMBI_A."; RL Direct Submission to Repbase Update (30-NOV-1997).. XX DR [3] (Consensus) XX CC 26 bp terminal inverted repeats, TA target site duplication CC [1,2]. XX SQ Sequence 234 BP; 77 A; 53 C; 46 G; 58 T; 0 other; caggttgagc atcccaaatc cgaaaatccg aaatccgaaa tgctccaaaa tccgaaactt 60 tttgagcgcc gacatgacgc tcaaaggaaa tgctcattgg agcgttttgg atttcggatt 120 ttcagatttg ggatgctcaa ccggtaagta taatgcaaat attccaaaat ccaaaaatcc 180 gaaatccgaa acacttctgg tcccaagcat tttggataag ggatactcaa cctg 234 // ID HERVL74 repbase; DNA; HUM; 5685 BP. XX AC . XX DT 16-JUN-2000 (Rel. 5.05, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE Endogenous retrovirus HERVL74 - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; HERVL74; KW Internal part of endogenous retrovirus HERVL74; MER74. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5685 RA Smit A.F.; RT "HERVL74."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC Internal part of an endogenous retrovirus flanked by MER74C LTRs. CC It encoded a pol polyprotein (pos 1231-3367) at least 50% similar CC to that of ERVL. There probably was a gag gene as well, but the CC consensus of that region is still crude and incomplete. HERVL74, CC on average 20% diverged, probably predates the mammalian CC radiation. XX SQ Sequence 5685 BP; 1519 A; 1453 C; 1057 G; 1470 T; 186 other; attggcactg tgagcwagat ggcgtggcca tgaccgctga ctcttggata gcttttcgag 60 gggctgctct tggnttacta antggttcca aaccacctcg agagtggctt ggacagaact 120 ggagctttkg ctttagcctt gttgcctnct gctgtgtctg tnngtgntng ccatgtntcc 180 ccacatcgct cagaatattc taatgaacag tgctaacaga ttaaactctg gaggctcaat 240 aaaagccttg gtgggggccc accccatgga tatgggagng atgggccgct agagctgcac 300 tttccggggt cggagcgttc ngncgtgttt gtngtcactg tgttcggcag aggccgaccc 360 cagatgccct tnnctctttg ttnccttttt tattacatat nntattntan aaaaccatta 420 nttggggcag agcgntggtt tgtccntgtg tttcaggcaa cctttntgna gaaaggtgnt 480 ggctggggtc ccccacggta nanaaatggc atccttgtct cgwggtcagt gttgctcwag 540 tcgggrtagc cgtctacctg ccttctttgc tgctkcatac ntcgctgctg tnnccagnna 600 acttcanatt tcccagaccc tcaggaatat cgtggattgc accgttggag accagcmgcc 660 cagtgtttaa ttcaaagagg nttctgggca aggaaanana tatctcattc ctgcancccc 720 cttctgaaca ccngcnaaag tnacccagtt gcttaagtga tgcaaggcnc ccagccagtg 780 tgnttgggcc ttantaagtn ccgctncang tcaacatgcg aagggannaa acttggacca 840 gggagttatt gcctgtccca aggacaggcg gctggagctc tctgaagtgn aancccagat 900 ngctccanga ggnagttact gggaagcctt aggangaaga gatggccgcc canaaggcag 960 gccaccgggn cgcttcccga actcctctcc tgtaancacc cannnnnnnn nnnnnnnnnn 1020 nnnnnnnnna atagntaaat tatgtatata taatatataa acgnatcaaa acaaagtttt 1080 acaatttgat ttgattggaa attcaaaatt catntattaa tttttatact aaagaattta 1140 tgtaacaaaa gtataaaaag ggcactgatt ggcttttgtg cctntacaac ataggttcta 1200 acttaacttt aacatttgct aaaatgcacc aattgacaaa acttcatgga cttaatcaat 1260 actggggctc aaattatagt tntacctggg gatcccacta aatttaaaca nggtactccc 1320 tatantctta ggggagtnac taaatataaa atagaagana aacaggtatg cctcacttta 1380 actatcggaa ctattacctt gcctaaattc cccatagtca tagcacccat tgccctaaaa 1440 tatcccatgg tgggcataga tgctctgana caatgagtaa tanattaaan ttaaattaag 1500 tctttggcac ttacaaattg gcttgacaaa atgggacccc atggaccccc cagttaaaat 1560 agttaatatg gcccaatgta aattaaaaca gggccttcaa gaattaaaac ttattatata 1620 agacctantt agtgaagggg tgattatccc cactgcttct ccatttaaca gcccaatttt 1680 gcctgttctt aaacctggaa aaaatgaatg gtacctcacg gtggattact gcaaccttaa 1740 tgccgtggtc ccatccatta aggcccccat acccaatatc caatattatt gaaattactg 1800 actccattca atcagtaact ggtaaatatt ttgctnttat agatttggct aatatgttct 1860 gttcagtgcc tatttcaaca gcctctcagc tgcagtttgc cttcacctcc gaagggacac 1920 aatacacctt taccaggcta ctcatggggt acctcaacag ctttgtcatc gcgcacaatc 1980 tttgcaggca agatcttaac tgcatccanc tttctccagg agcacaggta tgacattaca 2040 ttgatgacat cctcctccaa ggagattcat ttgacacact cattaaggac atacaagtcc 2100 aacatctttt agtncttttt gggttctgga ggcaacatat tccccattta caaattttac 2160 ttaanctcac tgatnctgcc atttacaaat agcccacctt aatgaggcct tctcaacaaa 2220 aggctctgga atctgtccaa attaaaatca acaggcactc ctgttagtgc cctcagagac 2280 tccttcactg tagaggcttt ggcaacctct tctcatgcct cctggagtct ctggaccacc 2340 tatgatggcc ataagttgcc catgggcttc tgatgcaaga aactgccctt ctcggcctta 2400 tgctatacgc cattagagcg acaactgctg gccacatact gggctctcct agaaatagag 2460 gctctcgcag accctgagcc tgtgaccctc catacccagc tgcccattat gccctgggtc 2520 atggaagcag caccccacaa gctcagcacg gctactgagg cctccttgnt acaggatgga 2580 gccaaacctg ggccctctgg catattccac ctgcaggagg gggtggcctc ctctgtcctc 2640 agtcccttgc cagatgccat ggtgctggag gaggtcaccc ctcccccaga ccccttggct 2700 acctggngag ccccttggga tcaactgagt gaacagcaat gggagttcat agactatatg 2760 gatggcattg ccaccatcat aagtgatgga gctcagtgga atgttgctgc tttccatccc 2820 ttaaccagga tgtccctgat aaaggacggg acccaaggat cagcacaatt ggccaaactt 2880 caggcagtca tcttagcact ggatgccctg gccaacaaat ggcctcatcn gcacattttt 2940 acaaactntt gggccattgc ccaagagttg tccccttcag ggtaaagaac tctgggaatc 3000 tcttgcctca cagataccca aaatataaat caagatcacg catgtctctg cacatactaa 3060 ggccacaata caaggcctca ccaggacact ccttatcccc ttcggagttc cagacattac 3120 tgatagtgac caaggcacnc atttcgcttc tcagaataca caatgctggg ctcttgaaaa 3180 aggcattcaa tggaactttc atcttcctna taggccccag atagccggtt tnattgagag 3240 acataatggt ctcctcaaac aactcctttt naaattncag nccaacaaat agacccctaa 3300 atgggtctct atcttgcccc aggccttaat ctctcttaat tcaaggccct ttggccanct 3360 cacaccttac aacnttaaaa aaagaaaacc ttttcatcac cctttcctat atttaaagag 3420 ggatatgtnt cacctccata nttatgaaga ctcattatat atgtggcccc ttaataatgt 3480 ctcctcctat ctttataaat tttcaatctt gcccccatcc cataagggct ggaggccaga 3540 tcgaaggcac atactctcct gggacccatt aaccatagat tgtcccatag gccaggcngc 3600 tgcccatctg atatgggacc catctgaacc taaacttcca ccacccaaaa accttcctca 3660 atatttgggt tataaggagt ggataattan tccgggctct ccctctgatt ccctccagaa 3720 aattaaaatt agtgctccag ggccantccc acagacagtg tggactacca agaagggaga 3780 cagaaaaccc cacttagtaa atnaaaatca cnttcggaga taataatgga atcaacacca 3840 tatctcataa tgacaaaagc agacaacacc tccttggtaa taatgcacgt cagggganaa 3900 gaaaatcaac atcaaacaac aaaaccctgt caggtgcagc tgcacaccat tctgttgact 3960 attggtctta ttactattgg tctgggtgct ttcattggtt tgcaatccag aggcccaaac 4020 cctccaagta agccattgtt tcaaccaaac atggcaaatg ctgaggccca catgccatcg 4080 agtttggcta atagaagccc tacagnccaa anacctcacc ggcttgtccn tcaccaacca 4140 aaccgacaac tgangcaaag gncccatagt aattggttaa attggagggc ctgcctacag 4200 gctaatgctg aagctccaac ctcggccaca ggtattttaa ttggcaaaca ncctgacacc 4260 atattaacca catgcgccna aatcaggcca tatgatttaa aacctatttg cagcaaaacc 4320 cccctcatca nccatccggg caaaaccttg gactgttggg ggcttttaga ttcagccacc 4380 cttaattggg gctttaattg tgccagncag gttncaggac tttgctccaa ttacaacagt 4440 atctnagatg ccgaatcacc attctgctgt gtacccanaa ancccttgac ttaaaagata 4500 nntncaagtc aagttcccag gtgcaaggat tnccttnaag tttcncaggn ggctcagnct 4560 cgccatanta tggtgaccac aaaaatgtgg cccacatcaa ctcaagtggg tacccacttg 4620 aaaaggatac cctagtccca catcccagat gacatcgtct cggcccaaga tctcgctncn 4680 ggagatgact tcgacacccc gaccccatnt tggagatgac ttcacctcag acactaaaac 4740 ctccgcctca gcgacgccca tgggcngcct ctcctaaggc gcaaaatgga cacgggacat 4800 ttattgnttt tcttctttga taagattcta tgtttttcct gagctcactg tttgcttagc 4860 ccatgatcct ggtatattcc ttgctctctg tccaaagtac acccctacac tcccatgcct 4920 aaagggaaat ctggtagang ttactactct tcctctaaaa ttaatggaga ttattgcttt 4980 ccccaggagg cacctgcctc atattagtca accccttgac cccctgggga gaggactncc 5040 cactccncgg tgtctcctnc tcctacaacc ccatccagct ttccaccaca gcctcctgcc 5100 ttgctctccg accataaccg ccacaaccac tccttcccct tggctaacac aataccgcta 5160 acatttacat atactttact aaattntcag ttcatancct ccaacaacat aactgccgta 5220 cctgncacct tgacccgagn atactcctaa ctattattgc cacaganacn ttactgaata 5280 ntagcccatg ncctttnnan catancttac tgganntgtc tgagccctta actcnggnnt 5340 acaccaaggn gctntcggca tacaaattaa tagtganact tttagaacac actataactc 5400 cantaagata ctgttagaga ccccaaaatt tcagatttat tttnctaggt aatgccatat 5460 anatgggaaa cttggttacg gggcagcctg cagggactcc ttgtatttct acttgtttcc 5520 ttcctttcta ctgtcataat aaaatgtttt ctatgcatgt ttggggaaac ttatgcccta 5580 ctgtntagaa gtctccatta ctatttaggc cactcaaata ccccnaataa ttgatgtcaa 5640 aactgacgtc aagacanaaa ggggtcaact aaatatattg gtttt 5685 // ID LTR17 repbase; DNA; HUM; 780 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus HERV17 - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR17. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-780 RA Smit A.F.; RT "LTR17."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC LTR17/HERV17 elements are flanked by 4 bp direct repeats. XX SQ Sequence 780 BP; 176 A; 236 C; 195 G; 173 T; 0 other; tgagagacag gactagctgg atttcctagg ccgactaaga atccctaagc ctagctggga 60 aggtgaccgc ttccaccttt aaacacgggg cttgcaactt agctcacacc cgaccaatca 120 ggtagtaaag agagctcact aaaatgctaa ttaggcaaaa acaggaggta aagaaatagc 180 caatcatcta tcgcctgaga gcacagcggg agggacaatg atcgggatat aaacccaggc 240 attcgagccg gcaacggcta ccctctttgg gtcccctccc tttgtatggg agctctgttt 300 tcactctatt aaatcttgca actgcactct tctggtccgt gtttgttacg gctcgagctg 360 agctttcgct caccgtccac cactgctgtt tgccgccgtc gcagacccgc cgctgacttc 420 catccctccg gatccggcag ggtgtccgct gtgctcctga tccagcgagg cgcccattgc 480 cgctcccgat cgggctaaag gcttgccatt gttcctgcac ggctaagtgc ctgggttcgt 540 cctaatcgag ctgaacacta gtcactgggt tccacggttc tcttccgtga cccacggctt 600 ctaatagagc tataacactc accgcatggc ccaagattcc attccttgga atccgtgagg 660 ccaagaaccc caggtcagag aacacgaggc ttgccaccat cttggaagtg gcccgccgcc 720 attttggaag cggcccgcca ccatcttggg agctctggga gcaaggaacc cccggtaaca 780 // ID MER103 repbase; DNA; HUM; 166 BP. XX AC . XX DT 05-AUG-1998 (Rel. 3.07, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE MER103 repetitive element - a consensus. XX KW DNA transposon; Transposable Element; MER103. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-166 RA Naik A. and Jurka J.; RT "MER103."; RL Direct Submission to Repbase Update (JUL-1998). XX DR [1] (Consensus) XX CC Putative DNA transposon; at least 18 bp (possibly 28 bp) inverted CC repeats. XX SQ Sequence 166 BP; 51 A; 26 C; 35 G; 53 T; 1 other; agttccatgg tcaaataagt ttgggaaatg ctgggttaaa caaagttaaa caggtttctt 60 tactgcagga cttctcagag cctttaatat gctaatgtgc attgtgaatc tccaagaggg 120 gaaatatagt atgcagtrtt tcccaaattt atttgaccat ggaact 166 // ID L1PA11 repbase; DNA; HUM; 921 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE 3'-end of L1 repeat (subfamily L1PA11) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P4; L1PA11; L1PA11 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-921 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-921 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 9%. XX SQ Sequence 921 BP; 354 A; 183 C; 196 G; 187 T; 1 other; ctaatatcca gcatctacaa ggaacttaaa caaatttaca agaaaaaaac aaacaacccc 60 attaaaaagt gggcaaagga catgaacaga cacttctcaa aagaagacat acatgtggcc 120 aacaaacata tgaaaaaaag ctcaacatca ctgatcatta gagaaatgca aatcaaaacc 180 acaatgagat accatctcac gccagtcaga atggctatta ttaaaaagtc aaaaaacaac 240 agatgctggc gaggttgtgg agaaaaagga acgcttttac actgttggtg ggagtgtaaa 300 ttagttcaac cattgtggaa gacagtgtgg cgattcctca aagacctaga ggcagaaata 360 ccatttgacc cagcaatccc attactgggt atatacccaa aggaatataa atcattctat 420 tataaagata catgcacgcg tatgttcact gcagcactat tcacaatagc aaagacatgg 480 aatcaaccta aatgcccatc aatgatagac tggataaaga aaatgtggta catatacacc 540 atggaatact atgcagccat aaaaaggaac gagatcatgt cctttgcagg gacatggatg 600 gagctggaag ccattatcct cagcaaacta acgcaggaac agaaaaccaa ataccgcatg 660 ttctcactta taagtgggag ctgaatgatg agaacacatg gacacatggw ggggaacaac 720 acacactggg gcctgtcgga gggtgggggg tgggaggagg gagagcatca ggaagaatag 780 ctaatggatg ctgggcttaa tacctaggtg atgggatgat ctgtgcagca aaccaccatg 840 gcacacgttt acctatgtaa caaacctgca catcctgcac atgtacccct gaacttaaaa 900 taaaagttga aaaaaaaaaa a 921 // ID MER94 repbase; DNA; HUM; 134 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 28-NOV-2000 (Rel. 5.1, Last updated, Version 2) XX DE MER94 is a non-autonomous DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW BLACKJACK; hAT superfamily; MER114; MER81; MER94; KW nonautonomous DNA transposon. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 134-1 RA Jurka J.; RT "MER94."; RL Direct Submission to Repbase Update (APR-1998). XX RN [2] RP 1-134 RA Kapitonov V.V.; RT "Direct submission."; RL Direct Submission to Repbase Update (NOV-2000). XX CC MER94 has perfect 14 bp terminal inverted repeats. CC 44 bp long 3' terminal portion of MER94 is about 82% CC identical to the 45 bp long 3' terminus of MER81. CC MER94 is a non-autonomous derivate of BLACKJACK, a HAT-like CC DNA transposon [2]. Original orientation of MER94 [1] was CC changed based on orientation of a transposase encoded by CC BLACKJACK. XX SQ Sequence 134 BP; 27 A; 33 C; 30 G; 43 T; 1 other; tagggtgacc atatgtcccg gtttgcctgg gacagtcctg gtttatrcct gttgtcctgg 60 cgtaattatt aatagcgccc cctttcactc tcaaaagtgt cccggtttgg acgataaatt 120 atatggtcac ccta 134 // ID LTR21B repbase; DNA; HUM; 438 BP. XX AC . XX DT 28-JUL-1997 (Rel. 2.06, Created) DT 28-JUL-1997 (Rel. 2.06, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus HERVH22 - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR21; KW LTR21B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-438 RA Kapitonov V.V. and Jurka J.; RT "LTR21B."; RL Direct Submission to Repbase Update (JUL-1997). XX DR [1] (Consensus) XX CC LTR of endogenous retrovirus HERVH22. XX SQ Sequence 438 BP; 94 A; 146 C; 70 G; 89 T; 39 other; tgttagggtc rcccyrayca gacyrytccc ttcccctccc acaggmctta caatayrgtc 60 cyttgyrctc tccgcacagc taccccaggg caaaaracaa aycccccttc actgayccyt 120 ccagtaactg tscrgacagt tacaggatgc ggtyaacatr tctgttcacc tcgcataaca 180 aagctggcaa aaaaacatct ccaggatgcr gacaagwcac ytgcacccyy gactcactca 240 gctccccsac ccyracccag ttctcctgca cccccaactc agctcccgca ccccgacctr 300 gttctggccc tataaaarcc tgctatwgtc tgtaagyrgg kctgcctcct yyaactgtgg 360 trgagcagcc aagcagctca ataaagcttg cttgcctgac tttgggtctc ytcatccttt 420 ctctcggctg accttaca 438 // ID MER116 repbase; DNA; HUM; 84 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 19-JUL-2005 (Rel. 10.08, Last updated, Version 2) XX DE Non-autonomous DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; MER116. XX NM MER116. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-84 RA Jurka J.; RT "MER116."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC Over 500 copies in the human genome. XX SQ Sequence 84 BP; 30 A; 14 C; 11 G; 29 T; 0 other; tattaggttg aaccatatga aattgctaat attcgaccat ttttgaccta caaaaatggc 60 aatttcatat ggttcaacct aata 84 // ID L1M6B_5end repbase; DNA; HUM; 173 BP. XX AC . XX DT 19-FEB-2010 (Rel. 15.03, Created) DT 19-FEB-2010 (Rel. 15.03, Last updated, Version 2) XX DE Ancient L1 from human. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1M6B_5end. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-173 RA Kojima K. and Jurka J.; RT "Ancient transposons from human and other mammals."; RL Repbase Reports 10(3), 244-244 (2010). XX DR [1] (Consensus) XX CC ~73% identical to consensus. The consensus is ~68% identical to CC L1M6_5end. XX SQ Sequence 173 BP; 63 A; 40 C; 37 G; 33 T; 0 other; acccccacct cctgctccca aactccactg aaagaccaaa ggaatataaa aatagggaaa 60 atctgcatca tgctggaaac tagggaagga tgccatccac atgccagaaa ctttgaggaa 120 tttctgctag atatagtgca gatgggacca gattgaaaga aggacttgac aac 173 // ID LTR28B repbase; DNA; HUM; 974 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR28B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-974 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 943-943 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 974 BP; 202 A; 318 C; 283 G; 166 T; 5 other; tgatagaggc aggaggcaga gaaattctag gcagacaggg gcgggtcccc ggcgaaaccc 60 caccttcaag ccgaaatagc ctgaaacccg cggcccaaag tgagaacttc tattcctgtt 120 tgcccgctct ctcccgattg gttctttctg aataatgtct ttttaccaat cgaatgttgc 180 cttttccaaa actacctacg gcccgccccg cccgccccaa tcctgtgcct ataaagaccc 240 cagactcagt cggtagagag agagaggcag ctagacagag agagagagag atgragagag 300 agagacggcc ggacttcggg gaagagagat ggcttgactt cggggaagag acggcttgac 360 ttcggggara agaagaggag acggccggac ttcggggaag actacctgcc cttcccgtcc 420 cctctccagc tcccctctcc gctgagagcc atttccatcg ctcaataaaa ttctccgcct 480 tcaccatcct tcaagtgtcc gcgcgacctc attcttcttg gacgccggac aagagctcgg 540 gacccaccga gtgcgggtac ccaaaaaagg ctgtcacacc ggccctttgc cctcgccggc 600 ggagggcagc cgccccacgc gacgaggcaa ggggccaact gagctgttaa cacacagccg 660 tccgcggacg gcggagctaa gagagcactg taacacgccc tctggggctt cggggtcgca 720 ggcaccccca cctgggcgcc gccgtgggcc ccgcatggrc cttgctggcc ggatcctgca 780 cttgctcact cgtgcytgct ctgsccatgg gccccgcatg gagcttgctc ctgccggcgc 840 ccggagcggc cggccagatc ccgcactcgc tcgctcacgt gctccctccc gcaaggggtt 900 gagcgcggcg ggccgagtaa acggggcacc cctgtcgcga gtccgacgaa ggggccgaga 960 aaaatcctgc atca 974 // ID CHESHIRE repbase; DNA; HUM; 2285 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Autonomous DNA transposon; hAT superfamily - a consensus. XX KW hAT; DNA transposon; Transposable Element; CHESHIRE; MER58; KW hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-279 RA Kapitonov V.V., Jurka J. and Smit A.F.; RT "CHESHIRE."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 2227-2285 RA Kapitonov V.V. and Jurka J.; RT "CHESHIRE."; RL Direct Submission to Repbase Update (1996). XX RN [3] RP 1-2285 RA Kapitonov V.V. and Jurka J.; RT "CHESHIRE."; RL Direct Submission to Repbase Update (20-FEB-1998). XX DR [3] (Consensus) XX CC CHESHIRE is a member of the hAT superfamily of DNA transposons. CC 16 bp terminal inverted repeats. 8 bp target site duplications. XX SQ Sequence 2285 BP; 772 A; 360 C; 386 G; 728 T; 39 other; caggggtcgg caaactatgg cccatgggcc aaatctggcc caccgcctgt ttttgtactg 60 cccgtaaact aagaatggtt tttacatttt taaatggttg gaagaaaaat caaaagaaga 120 rtattttgtg acatgtgaaa attatatgaa attcaaattt cagtgtccat aaataaagtt 180 ttattggaac acagccacgc ccattcgttt atatattgtc tatggctgct tttgcgctac 240 aacggcagag ttgagtagtt gcgacagaga ccgtatggca ytctcattgc ctttgcacts 300 ctgtttctra actataacca gtgttttgag tgccatgcat attactgtac tgtaacattt 360 twttytatta ttaatgnata cycatcatgt caaaacaaga aaagaagaga aaagtrgact 420 ttgaatgttr cacttttaag gcacaatgga gtatggatta ttttgttatg gcaaagcatt 480 ttattatgca atgacactat agctgtgcta aatacaatat acattgacat taccagacta 540 agcactcatc acartattcc caaatcacag gaaagcaatn gtcagaaaaa ttagaaaatt 600 taaaacagaa tatctcatca cagcagaatt tcttcacaaa awtaaaaaat naaaatgagg 660 ctgnaaccaa agtaagtttc tgagtggctc atttgttagc caaggaagga agtcatttac 720 caatngtnaa ttaattaaat catgttgatt gcagcaggca tagaaatgtg tctagagaaa 780 ataaacttaa aactattagc cttttgataa gaagagttgc ttaaagagtt gaggacatca 840 ataatcaatt aaaaaggcaa atgrttttga gtggttttcc ttggctcttg atgagttgac 900 aggtgttact gatactgctc agttgtttat ttgaggagtc aatgctgagt ttgaagtgct 960 gaatagcctt aatgaatagt ctgtgtggaa taattgcaga caagaatatt tcaaaaagtt 1020 gagaaaacac taattyagta caacctgaag gaagtggaat ctgctaagat gtgttaaaac 1080 tgatggtggt aaaantatgt gtggagcaga aaaaagctta gttggacaaa taaagctgtg 1140 aaaatgtaag ntgtttaaag yctatggtta tttattttat tcatcagcaa gtactttgta 1200 gaaaatattt gaatctatca tgtgatattg aaccagtagt gtcaacattt gctcttgtgg 1260 acttaaccat tgtcagttct ntaaattttt gtcagaaata gaagctgaat atcctgactt 1320 gccctgctat acagyagttt gatggcttag nagtgctaaa gctttattgn tattttttga 1380 gctynggact gagattgaaa tttttctgaa tgagaagaac trctctcaaa ctrtttatca 1440 aacactgagt ggctttggaa attagctttt gctgcagatt tgataatatt tcttaataaa 1500 ttcaacctaa aattacaagg caaaacagca cttatattga aacttatact gttgtaaagt 1560 catttcaatg rcaacaacta ttgtttgaat cacaagtaat gtcaagctgc tttatatact 1620 tcccatgcta tcaaaagtta aaacaaagaa gtaagatctc cattcccaca caatttgtag 1680 cagatatatt ttccaaactc aaactacagt tccagcagca ttttttggac cttgatgcaa 1740 gtgcaaagga aatwtccatt taactgtgca attgagaagc ttcctaccta accttcaatt 1800 ggaatgatta atctgcaagt aatgacatgc aaatatcaag agaaaattct ataaatgcct 1860 tccaagcaat gaatatgctc aattnaaatc atatgctcgt gattgatatc antatttggc 1920 aatacctatc ctgcgttgaa aataaaacat tttcaaacat gaaatrtgtt gcattacaga 1980 ttagcatttn aacagatgaa catttgcaat crattttgat gatagggaac actaactttg 2040 aaccccaatt aagcaaaatg ttatcccwaa aaagaattcc attcttctca ttagtagacc 2100 tgtattacaa aaaattgtac tcaattatta ttwttattat attttgaatt tcatcaataa 2160 aaattgtgga attttttctc ttgttatata agtacctaca taatatcctt gattttgcct 2220 cttggcccgc aaagcctaaa atatttacta tctggccctt tacagaaaaa gtttgccgac 2280 ccctg 2285 // ID L1M2B_5 repbase; DNA; HUM; 3252 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate L1M2B_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M2B_5; L1M2_5; L1M2_5B; MER62. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-3252 RA Jurka J.; RT "L1M2B_5."; RL Direct Submission to Repbase Update (DEC-1999). XX DR [1] (Consensus) XX CC 84% similar to L1M2_5 but contains an extra internal sequence. XX SQ Sequence 3252 BP; 1071 A; 908 C; 662 G; 528 T; 83 other; tagaggcatc tggcactcac ctcctccaca aagaaggacc aaaatagcaa gtagataatc 60 acattttaaa tagagcatct aagagagaac actggaattc agcagagaag tgacaggaaa 120 catctgaggc atggaaggag agggaagyaa agcagccagc ccagccagga ttggctcaga 180 gccaggagag gctccccagt gtggggaaag ggtaagtgag agatccccag yrgtccacat 240 tcccaccacr gactcctgca atcctagcca crggagagcc cctcanccct tncaggccct 300 gagactagta tagggagctg cctggagtcc atgtaatagc attgttccag agagggagtt 360 cacactgggt cccacacacc ccctgagacc caagcagctg cagcatggna ccattttgag 420 agccyagccc ccaccagact acatcctgcc ctggggccca atagcccctg catctccaca 480 tccctggagc cccactgaca ttcccccaca tccacccagg agggctgcag tgttacaata 540 ccagctggac ccagcagtgc agcagggtcc ccagcactct agcccacaca gtgtcctaca 600 ccccagggaa taggcagtgc agtacaccag ggaggctgcc cctcnacccc ccgccccccg 660 ccygacctag gacaaaggga gccaaaggga gccaaagcat gcactcccca gagcctgaga 720 gctgcctgcc tggggctgct gccactgaca gcaaccctgc cccctccagc agcagggctg 780 ctgtacacct gcatgtaccc tgaggacagg ctctccctac ctactgctgc tgccagtgca 840 aagtgtatgc tccccagagc ctgaggacca cctgcctggg gctgctgcca ctgacagcaa 900 ccctgcccca actctggccc cagcagcagc tgctgtacac ntgcacgggc cctgaggaca 960 ggctttccct acccactgcc actacnyctg actctggggc caaagcacat gctccccaga 1020 gcctgagagc tgcctgcctg ggctgctgcc actgacagca accctgcccc cacccccagc 1080 agcagggctg ctgtgcacct gcatgcaccc tgaggacagn ctgcccttcc caccactgct 1140 gctgccaccc ngacccaagc actgccatcc aggggcctga ggatcggcct gccccaccca 1200 ccacagccag tgcccatgtg caccaccagg ggggcctgag gacaggccta cccggcctgc 1260 caccaccacc agtgcctgag catgccatcc aggggcctga ggattgccct gccccaccca 1320 ccaccactgg yrcccatgca caccacccag gggcctgagg acaggcccac ccagcctgct 1380 gccaccacta ccactggcac ccacctgcac atgccacctg ggggcctggg gactggcccg 1440 cccagcccac cacagccact gctagcacca atatgtgcca cttaggggcc tgaggattgg 1500 cccaccactg ctactgccac tgcccatgct atgcatacta cccaggggcc cgaggacctg 1560 cccacccagc tggcctacta ctgccactgc tagcacccaa gcaagccacc tggaggccta 1620 agaactggcc cgcctagacc cgccaccacc agtgcccatg catgccacct aggggcctaa 1680 ggacaggcat gcctagccca ccactgccac cactggggcc caaggactgg cccacctggt 1740 gtccctatcc ccagcaaagc cttnccacag cctccactaa caactacagc ctaagccact 1800 gaggaamtca cagacaccac tgatactgat tnacagctga agaaatcata tggagactac 1860 actactgcat ccacccagaa tcaaagccaa agtaccctac ccaaccaaca ctatagatac 1920 atctacagga aaaaagtctt tccctatgaa agccaathca taaaattgga agaagtaact 1980 gttacaccag atghacagat atcaatgtaa gganacaana ngacacaaga aacatgaaaa 2040 agcaaggaaa yatgacayct ccaaaggaac acaataattc tccagtaaca gattccaatg 2100 aaaaaratat gaaatgcctg aaaaagaatt caaaataatg atattaaaga aactyagtga 2160 gatacaagag aacacagata atacaaagaa atcagwaaaa aaacaattca kgatatgaat 2220 gagaaattca mcaaagagat agatatcata aaaaagaacc aaacagaaat cctggaactg 2280 aagaattcaa tgaatgaaat aaaaanacat atacaattga gagcttcaaa acaatagact 2340 agatcaagca gaagaaagaa ttttagaact tgaagayagg tctttwgaaa taacccagtc 2400 agacaaaaaa gaaaaagaat ttaaaaaata aacaaagcct aygtgacata tgggacacca 2460 taaagtganc aaatatttaa attttgggtr ttccagaaaa agaagagatg gtcaaaggga 2520 tagaaaacct atttaatgaa atwatagctg aaaamttccc aagtctwrca agagatttag 2580 acatcnagat ataggaagct cagaratccc caaatagatw caanncaaaa aggtcttctt 2640 caaggcacat tatagtcaaa ctgycraaag tcaaagacaa agagagaatt ctaaaancag 2700 caagagaaaa gtatcaagtc acwtataagg raatccycat cagamyaaca gtrgatttct 2760 cagcagaaac cttacaggcc aggagagaat gggatgayat attcaaagtg ctgaaagaaa 2820 naaaagytgc caaccaagra tactataccc agcaaagtta tccttcataa aaggagaaat 2880 aaagtatttc ycagayaagc aaaagctgag ggaattcatc accactagrc cngccctaca 2940 agaaatrctt aagggagtyy tacayctgga agcaaaagga caagtatcta ccatcatgaa 3000 aacacatgaa agtataaaac tcactggtag adcagacaca caaatgagaa agagaaagga 3060 ttcaaatgtt ahcactahag aaaaccacca aatcanaatg angaanaata aragagaaag 3120 tatanacaaa acaatnatan acaaaacaac cagaaaacaa ttaacaaaat gacaggaata 3180 agtcctcaca tatcaataat aatcttnaat gtaaatggat taanntttcc acttaaaaga 3240 tatagactgn ct 3252 // ID MLT1C1 repbase; DNA; HUM; 504 BP. XX AC . XX DT 07-FEB-2000 (Rel. 5.01, Created) DT 07-FEB-2000 (Rel. 5.01, Last updated, Version 1) XX DE Mammalian transposon-like element long terminal repeat (MLT1c DE subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MLT1C1; KW MLT1c subfamily; MaLR family; STIR. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-504 RA Jurka J.; RT "MLT1C1."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC ~84% similar to MLT1C. ~77% similar to individual repeats. XX SQ Sequence 504 BP; 156 A; 98 C; 132 G; 114 T; 4 other; tgtagtgggt tgaatggtgg cccccamaaa gatatgtcca tgtcctaatc cctggaacct 60 gtgaatgtta ccttatttgg aaaaagggtc tttgcagatg taattaagtt aagagatctt 120 gagatgggga gatcatcctg gattatccag gtgggcccta aatccaatca caagtgtcct 180 tataagagag aggcagaagg agatttgaga cagagacnna gaagagaagg ccatgtgaag 240 acagaggcag agattggagt gatgcagcca taagccaagg aatgccagca gccaagccac 300 cagaagctgg aagaggcaag gaagaaaacg gattctcccc tagagcctcc agagggagca 360 tggccctgct gacaccttkg atttcagccc agtgaaactg atttcagact tctggcctcc 420 agaactgtga gagaataaat ttctgttgtt ttaagccacc aagtttgtgg taatttgtta 480 cagcagccat aggaaactaa taca 504 // ID LTR2752 repbase; DNA; HUM; 1263 BP. XX AC . XX DT 11-AUG-2008 (Rel. 13.09, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR27; LTR28; KW LTR27B; LTR2752. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1263 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 948-948 (2008). XX DR [1] (Consensus) XX CC This sequence is 5' similar to LTR27 and 3' to MER52. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 1263 BP; 213 A; 443 C; 413 G; 190 T; 4 other; tgatggcggc aggaggcaga cagattccta ggcgggaagg ggcgggtccc cggtgaaacc 60 ccaccttcaa gccagggacg gcctgaagcc tgggggccgg gctgccagtt ccgggtggag 120 tccgcgaccc ggagtgagaa cttcattgat gcctttcggc caatcggatg gtgctttttc 180 caggcccgcc catggccgcc catggaccaa tcagcacgca cttcctccat tctgagccca 240 taaaaacccc agactcagcc agactcagac actcatcggg actacccgcc tgcggatagg 300 agctacccac ttcgggtctc ctctctgctg agagctgttc tgtcgctcaa taaagctctt 360 ctccgccttg ctcaccctcc agttgtccgc gtaacctcat tcttcctgga cgcgggacaa 420 gaactcggga cccgccgaac ggtgggagcg aaaggagctg taacacgttc ctggccggct 480 cgccgagctg cgggcggtga cacgctcccg gactgcggga gtgaagagtg gcgacccttc 540 tgggggccca gacctcggga ttccccgagc cagagctgct gtaacactat agccctcccg 600 ccctctgccg gcgccgggcg gccgccccac gcgacgggaa gcggcggcgg ggctgggcca 660 gcccaggagc cgcgggccgg agcggggcgg cgggactgaa agagctgtaa cacaaacggg 720 ctgaaacatg ccccactcac tcgccgcgct gcgggcgacg agaaggagag aagagctgcg 780 gcccttctgg gagcccagac ctcagggctc cccgagccag ggctgtgaca tgctgtaaca 840 ccctctttgg ggctccgcrg ttcctggcrt ctccgagttt tcgggcgcca ccgcgttccc 900 ctcgtccaga cgctggtgcc cgcagcggaa gccgcttgcg gtacgcctgg tccagccgca 960 gcctcgcacg gagccggcgc ctgtgccagc gcctggagct gcccgccccg ccgcagcagc 1020 cggcgtgcct ggctgtgcgc agtggccgga ccccgcgctc gctcgctcac acacccctcg 1080 ccgctccacg cctggctygc ccttggcagg crtgggatcc gggccggtag cgcgagccga 1140 gcgcagcctg ccgggccgag tgggcggaac gagcccagcg ggcacgagcg aaactcaagc 1200 agaggcgccg ccggccacag aggtttccgg ctggcgaagc gacaccctaa ggatcctgtg 1260 aca 1263 // ID L1MA10 repbase; DNA; HUM; 1069 BP. XX AC . XX DT 20-FEB-1997 (Rel. 2.01, Created) DT 07-MAY-1999 (Rel. 4.04, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MA10) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1MA10; L1MA10 subfamily; Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX DR [1] (Consensus) XX CC Contains identical ORF2 region consensus (subfam L1M3) as L1MB3 CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 17%. XX SQ Sequence 1069 BP; 409 A; 155 C; 205 G; 272 T; 28 other; ttaatatcca aaatatataa ggaactcaaa caactcaaca agaaraaaac aaataaccca 60 attaaaaaat gggcaaarga cctgaataga catttytcaa aagaagacat acaaatggcc 120 aacagatata tgaaaaaatg ctcaacatca ctaatcatca aggaaatgca aattaaaacc 180 acaatgagat atcacctcac acctgttaga atggctatta tcaaaaagac agaaaataat 240 aaatgttggy gaggatgtgg agaaaaggga actattgtac actgttggtg ggaatgtaaa 300 ttagtayagc caytatggaa aacagtatgg aggttcctca aaaaaytaaa aataraacta 360 ccatatgaty cagcaatccc actwctgggt atatatccaa argaattgaa atcagtatgt 420 ygaagagata yctgcactcc catgtttayt gcagcaytat tcacaatagc caagatatgg 480 aawcaaccta agtgtccatc aayggawgaa tggataaaga aaatgtggta tatatacaca 540 atggaatact attcagccat aaaaaagaat gaaatcctgt catttgyarc aacatggatg 600 aacctggagg acattatgct aagtgaaata agccaggcac agaaagacaa atactgcatg 660 attccactta tatgaggtat ctaaaatagt caaactcata gaagcagaga gtagaatggt 720 ggttgccagg ggctgggggr agggggaaat ggggagttgc tgttcaatgg gtataaagtt 780 tcagttatgc aagatgaata agttctagag atctgctgta caacattgtg cctatagtta 840 ataatactgg attgtacact taaaawttgt taaaagrgta gatctcatgt taagtgttct 900 tatcgcacaa caaaaaaatg gggaactttt ggrrgtgatg gatatgttca ttatcttgat 960 tgtggtgatg gtwtcacggg tgtntacata tgtcaaaact catcaaattg tacacwttaa 1020 atatatgcag tttttagtgt ataattatac ctcaacaaag ctgttttaa 1069 // ID HERVK11DI repbase; DNA; HUM; 7752 BP. XX AC . XX DT 24-AUG-2000 (Rel. 5.07, Created) DT 24-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Internal portion of HERVK11, a HERVK-related endogenous DE retrovirus. It is flanked by MER11D LTRs. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERV; KW HERVK superfamily; HERVK11DI; MER11D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7752 RA Kapitonov V.V.; RT "HERVK11DI."; RL Direct Submission to Repbase Update (24-AUG-2000). XX DR [1] (Consensus) XX CC HERVK11DI is an internal portion of HERVK11D endogenous CC retrovirus. CC Average similarity to the consensus sequence is about 96%. CC 6 bp target site duplications. CC Its LTR was deposited in Repbase as MER11D. CC HERVK11DI encodes 4 proteins: gag (position ~162-2027), protease CC (~1985-3032), pol (~3113-5590) and env (~5804-7750). CC There is only a low nucleotide identity between HEVK11DI and CC internal portions of known HERVK-like retroviruses: CC identity CC HERVK11DI 1 555 HERVK11I 1 584 0.63 CC HERVK11DI 1038 1683 HERVK11I 1200 1836 0.63 CC HERVK11DI 1727 1948 HERVK11I 1850 2065 0.69 CC HERVK11DI 1977 2485 HERVK11I 2055 2539 0.61 CC HERVK11DI 2532 2945 HERVK11I 2540 2992 0.65 CC HERVK11DI 3014 4298 HERVK 2928 4212 0.68 CC HERVK11DI 4401 5100 HERVK11I 4447 5146 0.72 CC HERVK11DI 5117 5571 HERVK9I 4458 4915 0.66 CC HERVK11DI 5850 6004 HERVK 5532 5688 0.73 CC HERVK11DI 6006 6324 HERVK11I 6020 6495 0.59 CC HERVK11DI 6407 6562 HERVK11I 6578 6739 0.67 CC HERVK11DI 6868 7564 HERVK14CI 6516 7212 0.69. XX SQ Sequence 7752 BP; 2202 A; 1779 C; 1368 G; 2403 T; 0 other; tctggcgccc aacgtggcct tctttgttcc tcggctcagt gcactccgag tgcaggttcg 60 tgacgactag tcttcagtct cgacggtaag gtctccgggt acgctttttc cgactctccc 120 ctcttttcgg gtttgtcgac cggtattatt ccagggttat tatgggacaa tcacagtcta 180 aacaccaggc ttatctgtct tttattaaac ttcttcttaa acagggtgga atcaaggctg 240 attccaataa ccttattctc ttatttcaga ctattgaaaa atattgtcct tggttccctg 300 acaaaggttc tatggacctg ttagactggg atagagttgg cgccacgctc cgccaactca 360 tgagagatgg tgttttactt cctatttctg tttggactga ctgggctctt attcgtgttg 420 ctttacttcc ttttcagtct ggtgatcctc ttcaactgcc acaagttaac gcggatggtg 480 agccgctccc tttacctcgg gtagctgacc cccctactag tcctccttct gatgatgagg 540 aggaattcga tctctccttg ttttctcccc aagaggagga acctggtgat gatcccctcc 600 ctccgcctcc tatcttggaa cctgtatatg ttaactcttc ttctactaag ctgttgcccc 660 ctctgccaga ggaggacgtg tggcattcat ctgaatggcc tgtttctcgt tcctctcgtc 720 cttttggacc tctcccctct tctaagccta ctgtttcttt cgacgctccg ggaccccttc 780 tttcagaggc ttggaatcct gcttcccccc agtccacatc ccggtgccct cactctcctt 840 ctctcttttc ctctgcccct gctagacctg tccgcacttc tattcaggag gcgatgtgta 900 gagctatggc ttcttgtggt ttggatgtct ggcagctccc catagccata gcctctaagt 960 gtgaaggtgc aggagggtgg ggaaaaggca cagctaaagg ccggcgatat tatgaatctt 1020 tctctgtaca actccttaag gattttaaag ctgcttgtga tcaatatgga ccaaattctc 1080 cttatgtcaa aactgttcta cattccctta ccactgaaaa acaacttgtt cctattgact 1140 ggaatttgtt agctcatgct tctcttaccc cttctcgatt cctacaattt aagatattgt 1200 ggtcagaaga ggccatgatt caaacttcga taaattttga aaatgggact gaagtgtctt 1260 atgctatgct tatgggtact agtgatttgt ggaatatact tgctcgacaa ttggaatatt 1320 gtcaacgtat tttaactcag gttactcaag tgtgtttacg agcatgggaa cgtattcaag 1380 acgcaggcaa ggccccttta tcttttagtg ctattaaaca aggtccttct gaaccctatc 1440 ctgatttcac ggctcaactc acagatgctg ctgaaaaggc tatttctgat actagagcaa 1500 gagatgtggt tatccgactt atggcgcttg aaaatgctaa cactaagtgt caggctgcca 1560 tatcaccatt acgtcgtaaa acccaaaaca cacctgatta tgccatcatt ccttcctaca 1620 ttagagcctg tgatggtatt ggttctgaaa ctcataaagc tatgctcagg gctcaagcca 1680 tgacctcgtc tttaaaagct gctgctgtta ttctcaatgt tcctacaaca ggtgtgccca 1740 atacttttct tggtacttgc tacaaatgtg ggggagtagg acactttaaa aaatcgtgtc 1800 ctttacttaa tgctaatccc caacaacctg ctccacaaac tccaaattta caaaaaacac 1860 ctggtactat ttgcccacgg tgtaaaaaag gtaaacattc gatgagttct tgtcaatcta 1920 aattcgatat tagtggtaat ctgttgcctc cttttaatgt ggtcaacact gtttttaatc 1980 cctttccatt tcagggaaac agggggaggg gccagcctca agccccaatc ccaatcaggg 2040 ctccggggtt tcgttcaccc ctccctgtgg ctacccctat aactgcacca gaaatgccgc 2100 agactcaagt acaaacagtg ccacagacat tacctcaaat tctataccca caacccaatg 2160 ccaattaccc cctcctcttg tcccagtaca atgcccgtcc acctgcacca caggagagga 2220 ctcaatagac ttatgtagta ctctcccttt gtctttactc cctggagaac aacctgtcct 2280 tgctcctact ggagttaaag ggcctttacc taaaaatcat attggtttaa ttctgggcgg 2340 agcttcatta gcctcaaaag gtgtaattgt tcatactggc cttatccatg ccaacacttc 2400 agatgaaata tgtttggtta tttctacaaa atctcccatt ttcattgaac caggagaatg 2460 cattgctcta ttactacttc tccctgcact gtgcccctcc acagaatctg ctactcacac 2520 aagaggtgta gaaaatacct ttaaacaaaa caaagctgct tattgggtta atactatttc 2580 ttctcaccat cccacctgta ctattaaaat ttccggaaaa aagtttgcag gtttagtcga 2640 cactggggct gatatttcta taatcactgc taatcagtgg ccttcctctt ggccaaaaca 2700 gccctcttca accaatttag tgggagttgg aaagtcatct gacgtatacc aaagctctct 2760 tatatttcct tgtacaggac ctgatgacca aatgggcact gttcaacatt atattactcc 2820 aattcccata aatttacagg gacgtgattt actgcaacaa tggggggctg agatgtctat 2880 ccctttatca aattatagtg aagctaacaa aaacaaaatg tataaaatga attttttttc 2940 ctggaagatg attaggagtt aatggagagg gaattaaaga gcccttggaa ccctcctgaa 3000 aacttaacaa atcaggactt ggataccctt ttaggtgctg tcactgctga gcctcccccg 3060 ccaatccctt taacaatgga tgtgtgagtc acctgtttgg gtagagcagt ggccactttc 3120 caaacacaag ttggaggctt taattgaaat tgttaatgat ttactacaag caaacactat 3180 tgagccctcc ttgtctccat ggaactcgcc tgtgtttgtt gtacaaaaaa agtcaggaaa 3240 atggaggatg gtaacagact taagagctgt taatgcagtt attaaaccta tgggggcgtt 3300 acaacccggt atgccctccc cctccatgat tcctaaggaa tggcctttaa ttatcattga 3360 ccttaaagac tgcttttttc atattccttt agacaagtca gactgtgaaa aatttgcttt 3420 cactatacct tccattaaca attcagctcc cgcagctaga tatcaatgga aagttttacc 3480 tcaaggaatg attaacagtc ctactatttg tcagttgttt gtcggtactg tgttacaacc 3540 tatccgacag acttttaaaa ataattacat tcttcattat atggatgata tactgattgc 3600 tgctcccact aaagatgaat taattcaatg ttttacctct ttaaaattag ctgttgccaa 3660 tgcaggactc cacatcgctc ctgataaaat tcaacaagcc actccttttc tgtacttagg 3720 aatgcagcta gaagctcact ccattaagcc ccaaaaagtc caacttcata ctgacaattt 3780 aaacacctta aatgattttc aaaaattact aggtgacatc aattatctca gaccaaccct 3840 aggcatccct acttatgcat tatctcatct atttgccact ttatcaggag atacagattt 3900 aaacagtcct cgctctctat ctgaaccagc aaaacaagag ttgtcttttg tagaacaaag 3960 agtgagagag gcacaagtct ctcgtattga cccaaatttg cctttacaat ttttagtttt 4020 tccttccatc cactctccta cgggacttat agtacaaaat gattctctag ttgaatgggt 4080 atttcttcct aattcagcct ctaaaactct ttcaatatat cttgatcaaa tggccacttt 4140 aattgggtta ggacgtcaac atatcactaa aatttccggc tttgatccaa acattattgt 4200 ggtccctttg tcaaaaaatg aagttaaaaa tgccttttct acatctttgt gctggcagac 4260 taatctggct gacttcattg gcactattga taatcatttg cctaagtcaa aattctttca 4320 atttctatga aatacttcct ggattctacc aaaacttact cgttcatcac cactagaggc 4380 agccattacc atttttactg atggatccag taatggaaag gcagggtatg taggaccaaa 4440 agataaagtc atttctactc catacacttc tgctcaaaaa gccgagttgt ttgctgttat 4500 ctctgcatta caggattttg atcagcctct taatattgtc tctgactcag cttatgtagt 4560 ccatgccact aaggcaatag aaacagctac catcaaaaat attgctgaca ctaatctgtt 4620 ttccttgttc tctttgttac aaaaaactgt cagaaaccga aaccaccctt ttttcatcac 4680 tcacattcgt tctcatacta atttgcctgg acctttatcc agtggtaatc ataaagttga 4740 tactctagtt tctctagcca ttacagatgc agaacaattt catcaactca ctcatactaa 4800 tgcctcaggt cttaaacata aatattctct cagttggaaa caagctaaac aaattgtaca 4860 acactgttct caatgtcagg ttcttgtctt acccacacaa tctcccggag ttaatccccg 4920 aggcctttct cctaatgcta tttggcaaat ggatgttact catgttcctt cttttggaaa 4980 attagcttat gtgcatgtca cagttgacac cttttccaat ttcatctggg ctacctgtca 5040 aaccggagaa gccacttctc acgttaaaaa acatatgttt tcatgttttg cggttatggg 5100 aattcctagt gagctcaaaa cagacaatgg tccagcctat tgcagtaaag cttttaaaaa 5160 ttttcttgat cagtggcata ttaaacatat tactggtatt ccttataacc cacaaggcca 5220 agctattgta gaaagaagta acagaacttt aaaattacaa ttacttaaac aaaaagaggg 5280 ggataaggag ttgtctaccc ctcacataca actaaacttg gcattgctca cattaaattt 5340 tcttaatatt cctaaatcta gttctgttac tgctgccgaa aaacatttct ctggtaaccg 5400 tcccacggta aaccaaggaa gggaagtatg gtggaaagat gttcaatcta atatatggtc 5460 aaaagtttct attttaacgt ggggaagagg ctatgcttgt gtttccccag gtgaacatca 5520 atctcctgtt tggattcctg ctagacacct gaaattgtgt cctgaagatg catgcaacaa 5580 cgagacagag aaatttgctg aaaaaacgcc acagcaggaa acaactaaca catccaatca 5640 tcaaaaaaaa agaaagaaaa taaccacgct aactccttta caacagacaa tccagtcagc 5700 catcctgaac aacttgtctc cagcgatcca ggtccggctc aacctctgcc tcctcctgat 5760 gacactgatc cttctaccct ctgtcactcc acagactgtt aaaaactata catattgggc 5820 ctatattcct tttcctcctc ttattcgagc catgacatgg atggacgctc ctatcgaggt 5880 ctatgttaat gatagtattt ggatgcctgg ttctgtagat gatcgttgtc ctgcccaacc 5940 ttcagaagaa ggaacccctt tcaatatcac tttaggtttt aggtatccac ctttgtgcct 6000 gggacccact aatggatgtc tctcattaga tattcaaact tgggcagtca cactaccatc 6060 tggtcactct gtccctcctt tgggacactt ggtatcaggg ctctcattaa aacctctaag 6120 gcagatcaaa acaggaatcg ctgattatat tcacacatcc caatataagc ctttaggacc 6180 tgcgtgtcct ctcaacttgt cttcaaatgc tgacaaatta atatggaagg attgtgttag 6240 ttcagaagga actgtgttat ttaattcttc tcactacacc attgttgatt gggctcctaa 6300 aggtcatatt actaatgatt gctctcaagg tcacagagat tgtcaacatt ttctctatga 6360 tattacttat caaaaaagta gtgacaaccc tcccctatta tatcatagat ttaactcctt 6420 ttttcctttt aagtggaaag gggcaggggt tgcccctcca aagccaaggc tcattgttcc 6480 ccacttagga cctgaacatt cagaattatg gagattaacc atagctatga ctggtatgag 6540 agtttgggct ggagaaagtg ttataagtaa atccaccttg tcacctcaaa aactaagaca 6600 acagattgat ttacactact atttccacac agccaaaaat atcactatgg caatcatcaa 6660 aaggtcaatt caaagatggg acagtaaaga ttatgaggac ttataccccc ccgttgctaa 6720 tgtcccccca ccacctctca tacaacctat tccccccacc ccacattcac aaaaaagagt 6780 accatcccaa aatatatata ctatctatat ggagtccaac aaaactatac cacttaaaag 6840 ttgtgttaaa ccaccatata tgttattagt aggaaagatg catattagtt caaaaaccaa 6900 cataattacc tgtgttaatt gttacttgta tacttgtatt gactcatcct ttaatcaata 6960 tcatagtatt ttaatagtca gagccagaga aggtatttgg ctccctgtag ccttacatag 7020 gccttgggaa tcttcccctt ctatccatgt tattaacaat attctacaga aaattcttaa 7080 aaggagtaaa tgatttattt ttacattaat tgcagtaata atgggcttga ttgctgttac 7140 tgcgactgct gctactgctg gagttgcatt acatcaatct attcaaactg ttcattttgt 7200 ggataaatgg caaaaaaatt ctactcggat gtggaattct cagtcaggta ttgatcaaaa 7260 attggccaat caaattaatg atctaagaca aactgttata tggatgggag atagaattat 7320 gagtttagaa catagattac aaatgcaatg tgattggaat acttctgatt tttgtataac 7380 tccgtttcaa tataatgagt ctgttcacaa ttgggaatca gtaaaacgcc atttacaagg 7440 aagtgaagat aatttaagtt tagacataag caagctaaaa gaacagattt ttgaggcctc 7500 tcaagcacac ttaactgctt tacccggtgc tgaagtttta gacggtatct ctgaggggtt 7560 atctaatctc aaccccattc aatgggtaaa atctttggga ggatccacta tcgttaattt 7620 tgttctgtgt ataatttgtg ctattggttt attgttcatg tgtaaaattg gaaaaaatat 7680 tcttcaatcc aatcgtgatc agtgccaagc tatgattgct atggttcatt taaatcagag 7740 aaaaggggga ga 7752 // ID LTR40C repbase; DNA; HUM; 465 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 18-JUN-2008 (Rel. 13.07, Last updated, Version 2) XX DE Primate LTR40C repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of endogenous retrovirus; LTR40A; LTR40B; KW LTR40C. XX NM LTR40C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-465 RA Jurka J.; RT "LTR40C."; RL Direct Submission to Repbase Update (31-DEC-1999). XX DR [1] (Consensus) XX SQ Sequence 465 BP; 110 A; 115 C; 108 G; 128 T; 4 other; tgttgggaga caatcctcca tgggtccctt gcactcctac atgtcttgct gggtatacca 60 agaatgcaag accctgactg ctctttacct cgggccattt ctcagggttg tgtttgcagc 120 aagcaacctt gagggatgag gtaatgtctc cctctgggac aaagagcagg cttgcttact 180 gcttcctata aaagcagcag attctccaag ctcagtgttc ctcngctgtg acacaaaccc 240 actgtgtgag cagcatccat ctgggccctt tgtgtcaccc ctrtgggact tgaggggcca 300 tggggaactg gtgcaaacat gctgatgctc atgctgcttg ctgtgycatg agtaataaag 360 tcctttgtct ctgacccagg agtcttatgt cttctactag cattcatgaa acaataacag 420 gctaacttat taacttttaa gtagggtaaa atcncagacc tgaca 465 // ID MER80 repbase; DNA; HUM; 508 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 5) XX DE MER80 repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; hAT superfamily; MER80; KW DNA transposon fossil; CHARLIE4A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-508 RA Smit A.F.; RT "MER80."; RL Direct Submission to Repbase Update (30-NOV-1995). XX RN [2] RP 1-508 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [1] (Consensus) XX CC MER80 has 16 bp terminal inverted repeats similar to those of the CC MER1 family. 8 bp are duplicated with a bias for NTCTAGAN. CC Average divergence from consensus 23.5%. CC Consensus inverted from [1] after observation of copies with CC partial CC coding region ("CHARLIE4", e.g. GenBank acc# HS246O8 bp CC 136889-138374), CC of which there are still too few copies to make good consensus. XX SQ Sequence 508 BP; 162 A; 90 C; 84 G; 171 T; 1 other; caggggttct taacctggag tctatggata gaattcaggg ggtccgtgaa cttggatggg 60 gaaaaaantt acatctttat tttcactaac ctctaactga aatttagcat ttccttcaat 120 tatgaatgta ggcaacaaac cacagtagta ttagcagtac ctgtgacttt gtcaccaata 180 gaaatcacag atattttcat atcacattac agttgttgca gatatctcaa aatatcattt 240 atgctcatca ctacttcgaa attacggtag ttattagacc cgccgctaga tcttgttatt 300 taatgcatta ataaagaagc acatatatta ctatatcaca aatttggttt tttaatattt 360 tgataactgt atttcaatat aattggtttc ctttgtaatc ctatgtattt tattttatgc 420 atttaaaaac attattctga gaaggggtcc ataggcttca ccagactgcc aaaggggccc 480 atggcacaaa aaaggttaag aacccctg 508 // ID MLT1G repbase; DNA; HUM; 512 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Mammalian transposon-like element long terminal repeat (MLT1g DE subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MLT1G; KW MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX RN [2] RA Smit A.F.; RT "MLT1G."; RL Direct Submission to Repbase Update (1995). XX DR [2] (Consensus) XX SQ Sequence 512 BP; 124 A; 127 C; 121 G; 119 T; 21 other; tgtggcggat tttaaaaatg gccacaaatt ctttgacact cttcccatcg aggagtgggg 60 tccgtntcct ctccccttga atctgggtgg gctctgtgac tgcttcgacc aatagaatrc 120 ggtggaagtg atgctrtgtg acttctgags ccaggtyata aaarrcattg cagcttcctg 180 cttgctggaa ckctcacact tggagtcctg agccaccacg taagaagttc arctrccccg 240 aggccaccat gctgtgagga agcccaagct astccacana gagaaaccga gccatcttgr 300 aagcggatcc tccagcccca gtyaagyctt cagatgactg cagcyccggc tggcgtcttg 360 actgcgccga taccacgtgg gacagagawg aactrcccag ctaagcccag cccaaattgc 420 tgacctatag tattgrgaac gaataaatgr ttattgtttt aagccactaa gttttggggt 480 ggtttgttac gcagcartag ataactgaaa ca 512 // ID MamGypLTR1c repbase; DNA; HUM; 803 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 02-JUL-2009 (Rel. 14.08, Last updated, Version 2) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; MamGypLTR1c_LTR; KW MamGypLTR1c. XX NM MamGypLTR1c_LTR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-803 RA Smit A.F.; RT "MamGypLTR1c_LTR - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; 32% subst in dog-human; 90% similar to MamGypLTR1c. XX SQ Sequence 803 BP; 196 A; 187 C; 243 G; 163 T; 14 other; tgtggcngga taatattttg agatattaat ctatgtnttt ttttcctcct gtatttcccc 60 ctttcctcct tccccccatt caagcaggta gctggctctg tgctcattgc ctcaggggag 120 gtatgtggca gggcagaaag cagaagtagc ctgcaagtct ttctggcttt tgttttccaa 180 aagcctaagc ccttaggaga acttagagga tttncggagg aggcataaag aaagngtctt 240 gaagaaacat gaagggagaa ggatttcccc cagactagaa gggagagatt cccccgggct 300 gggaagggaa nggagagagg tctgtgggtc ctgggaggag agcagngggg acctgngccc 360 tgcttcctgg cagcgccccg gggaggcggc aagaccccag agaggaatgg ctgcgtggtg 420 cgtctaggca gacgggacca caggcagcct cgcngaagat tcccgtgccc caagcgtggc 480 ncggaagcag cagagagccg ccggacctga aggggccatg cggacaggga caatggacgt 540 ctcagcggna acctgtgtgg acngatgacc gangaccaga gggcnccccc atccccaatg 600 ccttggcact gtgtaagatc cctggaacct tggcacaacc ctggggaagg gagggggaac 660 cccaagaatg actgaggtta agtttcccac cagcccggcg ggatgggggc tcaaaataga 720 aattaagttg atttatagaa aataaagaaa tgtnatattt cttgcacacc tgagtttgtg 780 gactgagatt catacctgct aca 803 // ID MER68B repbase; DNA; HUM; 568 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 01-JUN-2008 (Rel. 3, Last updated, Version 5) XX DE Primate MER68B LTR element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; KW Interspersed repeat; HERVL68; MER68B. XX NM MER68B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 568-1 RA Smit A.F.; RT "MER68B."; RL Direct Submission to Repbase Update (30-NOV-1995). XX RN [2] RP 1-568 RA Kapitonov V.V. and Jurka J.; RT "MER68B."; RL Direct Submission to Repbase Update (31-JUL-1998). XX DR [2] (Consensus) XX CC Sequences related to MER21 and MER77. CC Original orientation [1] has been changed based on classification CC of MER68 as an LTR from HERVL68 retroelement [2]. XX SQ Sequence 568 BP; 119 A; 135 C; 149 G; 156 T; 9 other; tgtgcagaaa agagttaaca tagcaggcct gagactgcta tccttagaaa ggcctgcttg 60 caaggttggc ccttggctgg cgtctgggaa cttggctttt gagagggtcc ccaccgttcc 120 cttaactgat aagagtggct cactgtgcct agactgtttg tgcaaacaat gtggtttatg 180 ctgaacacct gctttccttc tgggagtctg gaattttggt acatgctagg cagagkgtgc 240 ctacgtgacc agcccccaat aaaaaccttg ggcgctgagt ctctaatggg cttccctggc 300 agaaacattg cacacacgtt gctgcatttt attgctgagg gaagtaagtg ygttctgtgt 360 gacycctctg ggagaggacm ywkggaagcc tgcgcatgga ttcctccaga ctccgcctga 420 tgtgtctttt ccctttgctg atcttgccgt gtatccttac nrtgtcgctg taataaatct 480 tagccatgag tataactgta tgctgagtcc cgtgagtcct tctagcgaat caccgaacgt 540 gggggtggtc ttgggaaccc ctaacaca 568 // ID Charlie27 repbase; DNA; HUM; 1237 BP. XX AC . XX DT 28-JUL-2009 (Rel. 14.07, Created) DT 28-JUL-2009 (Rel. 14.07, Last updated, Version 2) XX DE Euterian hAT-type repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; DNA transposon fossil; KW hAT family; Charlie27. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1237 RA Jurka J.; RT "Eutherian fossil repeats."; RL Repbase Reports 9(7), 1378-1378 (2009). XX DR [1] (Consensus) XX FH Key Location/Qualifiers FT CDS 200..910 FT /product="Charlie27_1p" FT /translation="SNGAKRPHRLATQYHLTRKKRFELFKRLQAQNKKQSS FT FMRSVTTVSDRAQEASYKVAQLIAKAKMPHAIAESLILPACVEIVDTVFGT FT NEAKEIEKVPLSNNTISRRIDDMSDDKTTLIQKIIKSKKFSLQIDESTIST FT LLIAQLIALVRIPEEKCLEEHYLFCKEVPKQTTGNEIFKVVNEYFETNRYD FT GSLLCCARCGCNDGRRKGFTSRVRSENPEIQVIVVLFTASRMKVCL*" XX SQ Sequence 1237 BP; 421 A; 230 C; 245 G; 341 T; 0 other; cagatatttt tatttctcct aacggacaat ttttgattaa agctagaaag tcatagtcgc 60 aagacaagca ataatccaaa aagtttaagc gttaattagg caatataatg aggattatct 120 caaatttgga ttcgtgtgct ccgacaatta tcccttttct gcctaaatgt cttatttgca 180 tggaaaagtt atcaagtgaa gcaatggcgc caagcgaccg caccgcctcg ccacgcaata 240 tcatcttacc agaaaaaaaa gatttgaact ttttaagcgt ctgcaagcgc aaaataagaa 300 acaaagttct tttatgagat cggttacaac agtatcagat cgagctcaag aagctagtta 360 caaggtcgcg caattaatag ctaaagccaa aatgcctcac gcaattgcag aatcgctcat 420 tttaccagcc tgcgtggaaa ttgtcgacac cgtgtttggg accaatgaag caaaggaaat 480 agaaaaggtg ccactttcga ataatactat tagtagacgc attgacgaca tgtcagatga 540 caagacgaca ctaatccaga agattattaa atcaaaaaag ttttcattgc agattgatga 600 atctacaatt agtacattac taattgctca gttaatagca ctagttagaa tccctgaaga 660 gaaatgcttg gaagaacatt atttgttctg caaagaagta ccaaaacaaa ctactgggaa 720 tgaaatattc aaagtggtaa atgaatactt cgaaacaaat agatatgacg gaagcctgct 780 gtgttgcgca cgatgtggct gcaatgacgg aaggcgtaaa ggctttacat caagagttcg 840 ttctgaaaac cccgagattc aagtaatcgt cgttttattc acagcctctc gtatgaaagt 900 ttgcctgtag atctgaattc cacattaaat gacgttatca aatgagtgaa tctaataaaa 960 tccaagccgc tacagtcccg tctgtttcag ctttatgtga agaaatggga tcagaacacc 1020 gtctccgctg tttcataccg aagtgcgttg gctgtccaaa gaagagattt gtcaagagtt 1080 tatgagctaa aagaagaaat tggaacatgt gaacgattct cacttgcaga ttcgttactc 1140 ggcttaaaaa atggtgtact taactgacgt ttttgagcac ctgaatgaac ttaatcgaaa 1200 attgttagtt tgcactgtgt gaaactgaca atatctg 1237 // ID LTR16B2 repbase; DNA; HUM; 462 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW LTR16B2. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-462 RA Smit A.F.; RT "LTR16B2 - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC Closely (92%) similar to both LTR16B and LTR16B1. XX SQ Sequence 462 BP; 80 A; 166 C; 109 G; 106 T; 1 other; tgtggcggcc atgagaatgc gcctctcaga tctcctgctg cagggagcat aattgaccga 60 nggccccagc tgctgcgctc tgaatccatc actgcgtttg cgccgaggcc acgcttccca 120 cgggctgctc ccagccaatg actgagcacg gcagggatac taaggcaggc ccgttcctgg 180 gagacgcggg actcctctga cgggcgactt tggctcgagg actccccatc ggccttgccg 240 aaactttctt agaactgcac tgcagtctaa gactcttcct acccaacctt ccttccttcc 300 ctctctcctt cacaggggtc agacctgcat cgcggtctga tggctctccc agcctcctcc 360 ggctccctcc ccattttccc tcacaggcgt ttcccccaat aaatctcttg cacgtctaat 420 cccgtcttgg cgtctgcttc tcggaggacc cggactaaca ca 462 // ID MLT1G2 repbase; DNA; HUM; 590 BP. XX AC . XX DT 06-MAY-1999 (Rel. 4.04, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 3) XX DE Mammalian long terminal repeat, MLT1G2 subfamily - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MLT1G; MLT1G2; KW MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-285 RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX RN [2] RP 32-590 RA Jurka J.; RT "MLT1G2."; RL Direct Submission to Repbase Update (1999)(April; extension June RL 1999). XX RN [3] RP 1-590 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [3] (Consensus) XX CC LTR of MLT1G2 retrovirus-like MaLR element. 5 bp target site CC dups. CC Average divergence from consensus 25%. CC The original MLT1G consensus was a combination of the MLT1G2 5' CC half CC and MLT1F 3' half. XX SQ Sequence 590 BP; 132 A; 162 C; 155 G; 139 T; 2 other; tgtggcgatt tttaaaacat ggccgcaaat tctttgacac tcctctcatt gagangtggg 60 gtctatgtcc cctccccttt gaatctgggc gggcttgtga ctgctttaac caatagagta 120 cggcggaagt gacgctgtgt gacttctgag gctaggtcat aaaaggcgat gcagcttctg 180 ccttgttcgc tggaacactt gctcttggag ccctgagccg ccatgtaaga agtctgacta 240 ccctgaggcc gccatgctgt gaggaagccc aagccacatg gagaggccac gtgtaggcgc 300 tctggtcgac agtcccagct gagcccagnc ttcaagtcat cccagcccag gcgccagaca 360 tgtgagtgaa gaagcctcca gatgattcca gcccccagcc gtcgagtcac ccccagcctt 420 cgagtcttcc cagctgaggc cccagacatc gtggagcaga gacaagccat ccctgctgtg 480 ccctgtccga attcctgacc cacagaatcc gtgagcataa taaaatggtt gttgttttat 540 gccactaagt tttggggtgg tttgttatgc agcaatagat aactggaaca 590 // ID MER44A repbase; DNA; HUM; 339 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER44; MER44A; KW mariner/Tc1 superfamily; Repetitive sequence; TIGGER7. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-339 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 1-339 RA Smit A.F.; RT "MER44A."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Internal deletion product of TIGGER7 DNA transposon. CC 23 bp terminal inverted repeats, TA target site. CC Consensus sequence reversed from [1] in agreement with Tigger7. XX SQ Sequence 339 BP; 92 A; 64 C; 71 G; 112 T; 0 other; cagtagtccc cccttatccg cggtttcact ttccgcggtt tcagttaccc gcggtcaacc 60 gcggtccgaa aataggtgag tacagtacaa taagatattt tgagagagag agaccacatt 120 cacataactt ttattacagt atattgttat aattgttcta ttttattatt agttattgtt 180 gttaatctct tactgtgcct aatttataaa ttaaacttta tcataggtat gtatgtatag 240 gaaaaaacat agtatatata gggttcggta ctatccgcgg tttcaggcat ccactggggg 300 tcttggaacg tatcccccgc ggataagggg ggactactg 339 // ID HERV38I repbase; DNA; HUM; 1786 BP. XX AC . XX DT 30-AUG-2000 (Rel. 5.07, Created) DT 30-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE HERV38I is an internal portion of HERV38 endogenous retrovirus - DE a partial consensus sequence. XX KW Endogenous Retrovirus; Transposable Element; Nonautonomous; KW HERV38I; LTR retrotransposon; LTR38; MER4I-group; KW non-autonomous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1786 RA Kapitonov V.V. and Jurka J.; RT "HERV38I."; RL Direct Submission to Repbase Update (AUG-2000). XX DR [1] (Consensus) XX CC HERV38I is an internal portion of the HERV38 non-autonomous CC endogenous retrovirus related to the MER4I-group. CC 4 bp target site duplications. HERV38I copies are 87% identical CC to the consensus sequence. It's a consensus sequence of a CC 5'-portion CC of the HERV38 internal sequence. XX SQ Sequence 1786 BP; 458 A; 377 C; 388 G; 563 T; 0 other; aatttggtgc cccgtgtgag gaactgtgtg tttcgagcgg ctcagcctgt acgcctggtt 60 tccaacgagt ggagcaattg gctgcggcag cgcgccaggg cttacccact catgctacca 120 ggcggggcag cagccgcttg caaatgccag ctgctcgtgg ctagctgacc ccgcggctgg 180 gacctcaggg aattcccagc agctgccgag accgcctttg tctcggggat tttcccttcc 240 ctccccttca tggcatcagc tgctacaatg ctctgttggt gtaaggaaag cggcatctgg 300 gaagtcgacg gacttcaagg actgggtaag tcaaccggag tgcacccgga aatcctctgt 360 ctctgccatc tgggctctct agccatctgg acctagcata ggtcatctgt ggtgccatct 420 gggcctctgt gccatctgga cctaatgcag gtcactctgt ggtgccgtct gggtttgaga 480 caagatctca ggacttttct ccagtctccc ctctttcggg atcggtttgg agtgctccgt 540 ctgcatcgga tccgtctgtg tttgtgtctc tgtttagtgt tacccctccc tccgagggtg 600 ctttggcaca gtctccatcc cacccgccaa gaccaggtcc atctgattgt cagaaggcag 660 caagataggc tgctcctctc ctcgctaggg gagaaacagt ttccaacatc ctggcctctg 720 attttgtcat cctctttggg actccagagt atttcctgta tctgtgtcaa gctttgttag 780 gggagaaagc atgtgaactc ttttctagac tatctgggac tccagctggt tacatattat 840 ggcccgtttt tgtgcacatt ttaaactgat gggcaaatta cagtaagaaa aattcagagc 900 tcaaatggtt aacctgcaac tataaagtta agcagagtct tctaaagctc tctattttct 960 cttttctttt ctgcctgctt tgaatctgct gttattaagc tactggtgtt gagataaaac 1020 tcactgtttc aacgttactt ggagattttg tttttcttat acaggtcagc cagttctggc 1080 taaaatggaa acattagaaa ctcatttgaa actgaagaaa aaagaaaaaa gaggtaaaag 1140 aggtttttaa aacaaaactg ccatagaaac tgctttaccc aaattttggt tcacagcttt 1200 ccttagatta cctatcaggg caaacaacgt ttagccatgt gaacaggttc caatttcatc 1260 agaaaaataa tttggatcca gctatctttt ataaagtggt gagtttgtat tgctatctta 1320 tggctagagt tctgaggtaa aagctattgg atctttgtgc atgtatgtat acatgtttag 1380 atatgcttat gtgtatgtac atgtattatg ttatatgttg tgtctagcat gctaccaaat 1440 tggcttataa gtaaatgagt actcataaat taaataagtc caaatgcttt tcaaattcac 1500 atgaatcttt ggtaaataaa actgacttta aaattattga taaaaataaa atgtcttcag 1560 aattgtcagc atacattttt gtctgagttt attaaccaaa tggttttata tttgtctatg 1620 tctatatgtt aagatgtcag ggtttgacat caaggttata ggactataaa cccagtcaaa 1680 accaaaataa tctttgtgtg attttttttg acaaataaga ctaatttcag attgttggtt 1740 caatgaaaac agctcaatct tctgagttat cggcaaaata tgttta 1786 // ID LTR54B repbase; DNA; HUM; 498 BP. XX AC . XX DT 07-FEB-2000 (Rel. 5.01, Created) DT 07-FEB-2000 (Rel. 5.01, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR54; KW LTR54B; Long terminal repeat; MER51I; MER57I. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-498 RA Jurka J.; RT "LTR54B."; RL Direct Submission to Repbase Update (JAN-2000). XX DR [1] (Consensus) XX SQ Sequence 498 BP; 166 A; 115 C; 83 G; 134 T; 0 other; tgttaaataa aatttatggg aggccattgt tttggactga gctcctgcac taggccccaa 60 cagaccagac caaaccaaaa tggagtcact catgctaagg gtgccacgta atcaaactga 120 actttgaaac aggccagttt tccaaaatca acagactttt gatagctaaa aacaaaaaac 180 aggagattca cagcaaccaa tcaaaagggg cccagtcaac ctgagccaac atgataagga 240 agtcccctct gctttaaccc tatacaagga aagtaacctg aagtaaccct gatgttaacc 300 aatccacttt ttgtactatg tttctgtttc cttgttcctg ctcaagctac tttacaaaag 360 ccaaactgct ctgccatgcc cagcggagca ctctttctta ttttatagaa tgggatgctg 420 cccaattcat gaatcacaaa taaaagccaa ttagaatctt taaactaaat ttgttgataa 480 attttgtctt ttgacaca 498 // ID MER88 repbase; DNA; HUM; 464 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 24-OCT-2008 (Rel. 13.11, Last updated, Version 3) XX DE Primate MER88 repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat o; ERVL-73 family; MER88. XX NM MER88. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-464 RA Smit A.F.; RT "MER88."; RL Direct Submission to Repbase Update (30-NOV-1996). XX RN [2] RP 1-464 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [1] (Consensus) XX CC LTR of class III (HERVL) retrovirus-like element. Average CC divergence from consensus 21%. 5 bp target site dups. Belongs to CC a group also including MER73, MER74, MER54 and LTR53. Orientation CC reversed from [1] according to HERVL74 orientation. XX SQ Sequence 464 BP; 91 A; 156 C; 92 G; 122 T; 3 other; tgtattgtaa atttttaaaa cttcatattt tcctgatgcc tcaacatccc cacaaacagg 60 ctgtgagcac cccgcccagg tgaccaggtg caccagtgtg ataaggctgg tccctgccac 120 aagttcccct tcttgccttc ccctgactgt gacctagtga cattcaaacg caccagtgaa 180 atcccctcac gccttttgct tgtgtxctcc accctgaccc ccagtaaagg cacttgcccg 240 xgggttctct ctctctcggc cccccacctg cttggttgag cccgctccct gggxgctcct 300 cccatgtggc cccctgcgtg gcgtgccgtg cctccctctc taggacctgt gagtataata 360 aatcctttaa tttcatgtgc ctctccgagt ataatttcca cggccatgtt ggagtgatcc 420 ttaaagaccc cacaaggggg acttactccc ccatttacaa caca 464 // ID L2 repbase; DNA; HUM; 3082 BP. XX AC . XX DT 22-AUG-2000 (Rel. 5.07, Created) DT 28-JUL-2010 (Rel. 15.08, Last updated, Version 2) XX DE L2 (MIR2/LINE2) non-LTR retrotransposon - a consensus. XX KW CR1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L2 family; MIR2; MIR2/LINE2; LINE2; L2A; L2. XX NM L2A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-3082 RA Degen J.S. and Davie W.E.; RT "Nucleotide sequence of the gene for human prothrombin."; RL Biochemistry 26(19), 6165-6177 (1987). XX RN [2] RP 1-3082 RA Smit A.F. and Riggs D.A.; RT "MIRs are classic, tRNA-derived SINEs that amplified before the RT mammalian radiation."; RL Nucl. Acids. Res 23(1), 98-102 (1995). XX RN [3] RP 565-3082 RA Smit A.F.; RT "L2A."; RL Direct Submission to Repbase Update (30-NOV-1995). XX RN [4] RP 1-3082 RA Smit A.F.; RT "L2A."; RL Direct Submission to Repbase Update (30-NOV-1998). XX DR [4] (Consensus) XX CC 24 bp upstream of NcoI site; chromosome 11p11-q12. CC This is a consensus sequence for LINE2 subfamily A. The MIR SINE CC shares the 3' terminal 50 bp and was co-amplified with LINE2. The CC 5' CC end is probably still incomplete. The ORF from bp 189-2691 CC encodes a CC product 59% similar (39% identical) to the CC reverse-transcriptase-like CC protein of a LINE-like element in pufferfish (GenBank acc# CC AAD19348). CC Note that, whereas L1 is A- and purine rich in the coding strand, CC L2 CC is C- and pyrimidine (65%) rich. CC There may be more than 300,000 copies of LINE2 in our genome. CC LINE2 CC spread before the mammalian radiation, and copies are only 65-75% CC similar to this consensus sequence. XX SQ Sequence 3082 BP; 654 A; 1190 C; 393 G; 826 T; 19 other; acctccnagc ctccatcggc aggagtcaag agggagcccc atgcgctcng agtaagaccg 60 ccctccccag gcctccatgt cnccatcagc aggagtcaag agagggcccc agaactctgc 120 gtgctcctgg caagactcca actccccant tccncctcaa cactcacagc ctcnccacca 180 ctatctgcct tgagaccatc aggactaatc tcatcatgcc ctttatccct gtttatgtca 240 gtcaccacaa gaagcccaag actcccaggt catccctcat cccccagact ctnatcccca 300 tanggctctg tacatctcct tttctgaccc catctcccat ccctccccaa ctcctgaaac 360 ccttccactg tgccctctgg aactcacggt ccgtcatcag caaaatcccc cgtatcctca 420 acctcttctc tgaacgttcc cttcaccttc ttgctctaac ngaaacctgg ctctcccctg 480 aggacactgc ttcccctgca gccttctcaa gtggtggccg ttttctctcc cacanccctc 540 gtaccactgg gcctggaggt ggggtaggtg tcctccttgc tcctcattgc tgcttccaga 600 ccattctccc tccctcctcc ctaaaacacc ccagctttga atctcatgtc atcagactac 660 atcacccgct acccctcctt gttgcagtca tctacngacc tccgggtcac tccccctcat 720 tccttgaaga ttttagctcc tggctcactg tcactctctc caacactact cctgtcntaa 780 ttcttggtga tttcaatatc cacatagatg atccttccaa taccctggcc tctcagttcc 840 ttgacctcct ctcctccaat gatcttgtcc tccaccctac ctcagccact cactcccatg 900 gtcataccct agaccttgtc attaccaata actgcaaccc ctccataatc tcaatttcaa 960 gcatcccact ctctgaccac cacctcctat ctttccagct cactccctct agtaccctaa 1020 ctccaacaat tcttcgaccc caccgggacc tccaatccat tgatcctacc accttttcac 1080 tgtccctcac ccccctnatg tcctcacttc cctccttacc cagcttaaat tccatggtca 1140 atcattataa tcactccctt gcatataccc tcaactccct tgcccctctc tcgcttcgtc 1200 ntactcgcct ggcaaaacca caaccctggt taaatccaac tctccgccta ctccgcgcct 1260 gcacccgtgc agctgaacgt ggctggagaa aaacacacaa ccatgctgac tggtctcgct 1320 ttaaattcat gaccacgaac ctcaagtggg cccttaatgc tgcccggcaa tcatactaca 1380 tttccctagt ccattcactc tcccactctc ctagatnact atttcacacc ttctcctctc 1440 tcctcaaacc tccaacacct cctcccctat cctcactctc agctgatgac cttgcttcct 1500 atttcactga gaaaatwgaa gcaatcagaa gagaacttcc acanactccc accaccacat 1560 ctacccacct acctgcatct gtgcccacat actctgcctt ccttcctgtt actacggatg 1620 aactgtccgt gctcctatct aaggccaacc cctccacttg tgcactagat cccatcccct 1680 ctcgcctact caaggacatc gctccagcaa ttctcccctc tctctcctgc atcatcaatt 1740 tttccctctc tactggatca ttcccatcag catacaaaca tgctgttatt tctcccatct 1800 ttaaaaaaca aaaattctcc cttgacccca cttccccctc cagctaccgc cccatttctc 1860 tgctcccctt tacagcaaaa ctcctcaaaa gagttgtcta tactcgctgt ctccaattcc 1920 tctcctccca ttctctctta aacccactcc aatcaggctt tcgtccccac cactccaccg 1980 aaactgctct tgtcaaggtc accaatgacc tccatgttgc taaatccaat ggtcaattct 2040 cagtcctcat cttacttgac ctatcagcag catttgacac agttgatcac tccctccttc 2100 ttgaaacact ttcttcactt ggcttccagg acaccacact ctcttggttt tcctcctacc 2160 tcactggccg ctccttctca gtctcctttg ctggttcctc ctcatctccc cgacctctna 2220 acgttggagt gccccagggc tcagtccttg gacctcttct cttctctatc tacactcact 2280 cccttggtga tctcatccag tctcatggct ttaaatacca tctatatgct gatgactccc 2340 aaatttatat ctccagccca gacctctccc ctgaactcca gactcgtata tccaactgcc 2400 tactcgacat ctccacttgg atgtctaata ggcatctcaa acttaacatg tccaaaactg 2460 aactcctgat cttccccctc aaacctgctc ctcccacagt cttccccatc tcagttaatg 2520 gcaactccat ccttccagtt gctcaggcca aaaaccttgg agtcatcctt gactcctctc 2580 tttctctcac accccacatc caatccatca gcaaatcctg ttggctctac cttcaaaata 2640 tatccagaat ccgaccactt ctcaccacct ccactgccac caccctggtc caagccacca 2700 tcatctctcg cctggattac tgcaatagcc tcctaactgg tctccctgct tccacccttg 2760 cccccctnca gtctattctc aacacagcag ccagagtgat ccttttaaaa cataagtcag 2820 atcatgtcac tcctctgctc aaaaccctcc agtggcttcc catctcactc agagtaaaag 2880 ccaaagtcct tacagtggcc tacaaggccc tacatgatct ggtcccccgt tacctctctg 2940 acctcatctc ctaccactct ccccctcgct cactccgctc cagccacact ggcctccttg 3000 ctgttcctcg aacacgccag gcacgctcct gcctcagggc ctttgcactt gctgttccct 3060 ctgcctggaa cgctcttccc cc 3082 // ID LTR78B repbase; DNA; HUM; 1296 BP. XX AC . XX DT 15-JUN-2008 (Rel. 13.06, Created) DT 03-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like element. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; LTR78; LTR78B. XX NM LTR78B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1082-1296 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 666-666 (2008). XX RN [2] RP 1-1296 RA Smit A.; RT "Expanded consensus."; RL Direct Submission to Repbase Update (03-SEP-2008). XX DR [1] (Consensus) XX CC It is a very ancient family, ~26% divergent from consensus. CC Possibly incomplete. Abundance: over 500 copies per haploid CC genome (phg). CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 1296 BP; 313 A; 340 C; 428 G; 206 T; 9 other; tgtaacagga tgttgagtgg gacttttcct gttgccccgg aattggcggc taaagnccca 60 aagctgagga caangggcgc taagtacccc acattctaaa gagaggtgcc agacacatcc 120 ctgcagggct tactaagagg cggccgaacc ggccctgcca ccaccgcccg cctctcgccc 180 agtctataga aggagagaag gaattggaga gagatggcag ggcagaggag aggggcagcg 240 gnggagagcc tgnntttccc tcccctcccc atgggggaga gagggggtgc tccccctccc 300 ccaagccaag tgaggggggc tccaagagaa tcactcgtag agattggggg tgcctgcaag 360 aaggggagac tggcatctca ttccccggtt ggacgtctgc ttaggcagcg gacttgctga 420 tctgccctcc gtgcctatct gagcggggga gaagggaact ggagagagat ggcagggcag 480 agagaggggg cagcggtgga gcagcctgca ctcccaccgt ttggcgtggc aaggatgcgt 540 gagtttcccg tgggtcaagt ggacaccgcg gaaggtagcc gggcttgagc cgtcttgccg 600 gtaccccgcc caagagggct gcccgccggg cgaggggacc ccagcagcaa gaggctgtgg 660 ggtgnaccgc cggngacagg ggctgaggaa ggagtggaag aggtcgagcc agagctggat 720 ctcccacgtc agggaactgt gcagtgggga ggccccgcgg ggccccccga agaactcaca 780 catgtgcccc acgagagagc cagcatttgg acgcctgcca cacagagggc atcgacggcc 840 agtcggtgtt agccagagaa gcagcgacaa ccaagagagg accacaacag caccagttaa 900 gtaagagaca tctgtccctt ttcctctcct ccctccccgc ccccaacacc ggaggagcta 960 gacccggaaa gagggggagg aggaggagtg aaagagcaga ccacgcccct tccccactcc 1020 aggtccctca ggcccaggcc tggccngngc tgggggaggg gaggagatga gctttaaatc 1080 ggatatgaga ttgaagtttt aaactggact aaactggact ggacttttta ataactgaaa 1140 gtgaccggaa agctatggaa tctgcccgag atgtcattaa gggacgggaa agggagattc 1200 gacagagcac ggttgaaggc agtgattgga gaaaaataaa accgtttcat gtttgtaccc 1260 caccgagttc agactgctca ataaaccggt tacaca 1296 // ID MER66D repbase; DNA; HUM; 484 BP. XX AC . XX DT 05-JUN-2008 (Rel. 13.06, Created) DT 05-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like element. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; MER66D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-484 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 669-669 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 484 BP; 126 A; 137 C; 103 G; 117 T; 1 other; tgaggtagga gatcagcagg actcgttttc cgagcaccgg tcacgaccct gctgatcaaa 60 acaggatgta gcaaagaaac crgccaaaac cagctaggac taggaattat aatacatttg 120 cataagacac tcccaccagc gccacgacag tttacaaatg ccacggcaac gacccggaag 180 ttaccttata tggttccggg aactccccgc cccttttcca gaaagttcgt gaataacccg 240 ccccttattt agcatataat taagagtagg tataaatata gctagccagc aatccacgag 300 tgctactctg ggccactctg cctatgggat agccctgctc tgtctacgga gcagccattt 360 tgctgtacgc tgttgctcta ataaacttgc tttctttcac cgtcggctcg ctcttgaatt 420 ctttcctgag cgaagccaag aaccctcccg agctgagccc caattttggg gttcgcctgc 480 atca 484 // ID LTR10F repbase; DNA; HUM; 511 BP. XX AC . XX DT 28-MAR-2001 (Rel. 6.02, Created) DT 28-MAR-2001 (Rel. 6.02, Last updated, Version 1) XX DE LTR10F is a long terminal repeat of the HERVIP10F endogenous DE retrovirus - a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVIP10F; KW HERVIP10FH; LTR10F. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-511 RA Kapitonov V.V. and Jurka J.; RT "LTR10F."; RL Direct Submission to Repbase Update (MAR-2001). XX DR [1] (Consensus) XX CC LTR10F is a long terminal repeat of the HERVIP10F endogenous CC retrovirus. Its very close subfamily flanks also the HERVIP10FH CC non-autonomous retrovirus. LTR10F copies are ~95% identical to CC the consensus sequence. There is 80% identity between the LTR10F CC and LTR10A consensus sequences. XX SQ Sequence 511 BP; 131 A; 145 C; 73 G; 162 T; 0 other; tgttaaatat gaattctaaa tttctcttca aagaattaat atgtcagtat gttcaattct 60 ttgccttcta cttttaaact taacttcctc gtaaagcaac cttttccgat tacctgctcc 120 accctgactc attccgatta cctgctccac cctgactcat tccgattacc taccacctgc 180 tccaccctga ctcattcatt ctccaccctg cataaccatt tttttttccc gccaaaccac 240 tcaccccgtc actctcttta aattagtcaa tcggaattag tttagcctgt gcggtctaac 300 cctagccaat aggggaatga cacagcagta gggaccacgt gcatcaggaa taagaacccc 360 tttccctccc ttgtccaggt gtgcgctcac cattgctcca tctgtgaggg tgcacccttc 420 tatagaagta ccttgccttg ctgagaatta aaaagaaaat tttatattcg agtgctattt 480 cttttgcggc accgaaactt tatatataac a 511 // ID HSMAR1 repbase; DNA; HUM; 1287 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 20-AUG-2006 (Rel. 11.09, Last updated, Version 3) XX DE Human mariner - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW Cecropia subfamily mariner; HSMAR1; MARINER1. XX NM HSMAR1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Auge-Gouillou C., Bigot Y., Pollet N., Hamelin H.M., RA Meunier-Rotival M. and Periquet G.; RT "Human and other mammalian genomes contain transposons of the RT mariner family."; RL FEBS Lett 368(3), 541-546 (1995). XX RN [2] RA Morgan T.G.; RT "Identification in the human genome of mobile elements spread by RT DNA-mediated transposition."; RL J.Mol.Biol 254(1), 1-5 (1995). XX RN [3] RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [4] RA Robertson M.H. and Zumpano L.K.; RT "HSMAR1."; RL Direct Submission to Repbase Update (1996). XX DR [4] (Consensus) XX CC 30 bp terminal inverted repeats, TA target site. XX SQ Sequence 1287 BP; 381 A; 284 C; 278 G; 344 T; 0 other; ttaggttggt gcaaaagtaa ttgcggtttt tgcattgttg gaatttgccg tttgatattg 60 gaatacattc ttaaataaat gtggttatgt tatacatcat tttaatgcgc atttctcgct 120 ttacgttttt ttgctaatga cttattactt gctgtttatt ttatgtttat tttagactat 180 ggaaatgatg ttagacaaaa agcaaattcg agcgattttc ttattcgagt tcaaaatggg 240 tcgtaaagcg gcggagacaa ctcgcaacat caacaacgca tttggcccag gaactgctaa 300 cgaacgtaca gtgcagtggt ggttcaagaa gttttgcaaa ggagacgaga gccttgaaga 360 tgaggagcgt agtggccggc catcggaagt tgacaacgac caattgagag caatcatcga 420 agctgatcct cttacaacta cgcgagaagt tgccgaagaa ctcaacgtcg accattctac 480 ggtcgttcgg catttgaagc aaattggaaa ggtgaaaaag ctcgataagt gggtgcctca 540 tgagctgagc gaaaatcaaa aaaatcgtcg ttttgaagtg tcgtcttctc ttattctacg 600 caacaacaac gaaccatttc tcgatcggat tgtgacgtgc gacgaaaagt ggattttata 660 cgacaaccgg cgacgaccag ctcagtggtt ggaccgagaa gaagctccaa agcacttccc 720 aaagccaaac ttgcaccaaa aaaaggtcat ggtcactgtt tggtggtctg ctgccggtct 780 gatccactac agctttctga atcccggcga aaccattaca tctgagaagt atgctcagca 840 aatcgatgag atgcaccgaa aactgcaacg cctgcagccg gcattggtca acagaaaggg 900 cccaattctt ctccacgaca acgcccgacc gcacgtcgca caaccaacgc ttcaaaagtt 960 gaacgaattg ggctacgaag ttttgcctca tccgccatat tcacctgacc tctcgccaac 1020 cgactaccac ttcttcaagc atctcgacaa ctttttgcag ggaaaacgct tccacaacca 1080 gcaggatgca gaaaatgctt tccaagagtt cgtcgaatcc cgaagcacgg atttttacgc 1140 tacaggaata aacaaactta tttctcgttg gcaaaaatgt gttgattgta atggttccta 1200 ttttgattaa taaagatgtg tttgagccta gttataatga tttaaaattc acggtccaaa 1260 accgcaatta cttttgcacc aacctaa 1287 // ID PRIMA4_LTR repbase; DNA; HUM; 594 BP. XX AC . XX DT 29-JAN-2001 (Rel. 6, Created) DT 29-JAN-2001 (Rel. 6, Last updated, Version 1) XX DE Long terminal repeat of the PRIMA4 endogenous retrovirus - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; Class I; LTR; KW MER4A; MER4C; MER4I-group; PRIMA4_I; PRIMA4_LTR; KW leukemia retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-594 RA Kapitonov V.V.; RT "PRIMA4_LTR."; RL Direct Submission to Repbase Update (JAN-2001). XX DR [1] (Consensus) XX CC PRIMA4_LTR is a long terminal PRIMA4 endogenous retrovirus. CC Internal part of PRIMA4 is deposited as PRIMA4_I. CC PRIMA4 is related to the Class I retroviruses, including leukemia CC viruses. Copies of PRIMA4_LTR are 8% divergent from the CC consensus. CC PRIMA4_LTR consensus sequence is 75% identical with MER4A and CC MER4C. CC Solo LTRs are flanked by 4-bp target-site duplications. XX SQ Sequence 594 BP; 165 A; 155 C; 100 G; 174 T; 0 other; tgtgaaagga aattaaattt tgggacccca aactcattta gccaaaggga aaagtcaagc 60 tgggaactgg gtcacgcaaa cctgcctccc ccttttggtt cctaaataag atggctacaa 120 gatgaaaagc tacatgcctc ccccatattt tgcccacaag gaaattccta gtgagctgtt 180 aaaacttcac catggcaatg caaattgata gcttatcttt acaggtgcag tcaccccggc 240 ccaccagaca caaatgcata tctgattgtt cccctgcccc attttgtctg tgttatctta 300 tgtaaaatgc agattccccg catttttcct ctgccccttt tgtttatgtc atcttatgta 360 aaaaatgcag attcactgag ccagacaaag gcatgaatga ctatttttcc ctacccacct 420 cttacatgaa aactgtgtgc ttctcaatat cccacccttt cccctttaaa tttggagccc 480 tcaaaatcat cttcggagaa aggcatagac ctgtctcccg ggcgcatcct taactttggc 540 aaataaatct cctaaaatga ttgagacttg tctcgtcatt ttcctcgatt gaca 594 // ID MER6A repbase; DNA; HUM; 605 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Mariner DNA transposon from placental mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER6; MER6A; KW mariner. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-605 RA Smit A.F.; RT "MER6A - a subfamily of Mariner DNA transposon from placental RT mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 17-18% divergence from the consensus. XX SQ Sequence 605 BP; 129 A; 125 C; 148 G; 202 T; 1 other; cagcaggtcc tcgaataacg tcatttcgtt caacgtcgtt tcgttataac gttgatgaga 60 aaaaaaatcg attcccggcc ggggccactg tctgtgtgga gtttgcacgt tctccccatg 120 tctgcgtggg ttttctccgg gtactccggt ttcctcccac atcccaaaga tgtgcacgtt 180 aggtkaattg gcgtgtctac atggtcccag tctgagtgag tgtgggtgtg tgtgtgagtg 240 cgccctgcga tgggatggcg tcctgtccag ggttggttcc cgccttgtgc cctgagctgc 300 cgggataggc tccggccacc cgcgaccctg aactggaata attgggtaaa taattatctt 360 acttgttttt attaatcttt cttaaatgta tgtatagctc acatttattt caatgtttaa 420 tattagaagt gttttggtct ttatttagaa gtttggtgat gtttttgtga ccagaaatat 480 gccgtaggaa cttaactctt gtttatatca attagcctat ggtaaaattg gtttcgttat 540 acgtcgtttc gcttaaagtc gcagtttcca agaacctatc gacgacgtta agtgaggact 600 tactg 605 // ID L1MED_5 repbase; DNA; HUM; 1615 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE L1MED_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1MEC_5; KW L1MED_5; LINE1 repeat; MER86. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 3-205 RA Smit A.F.; RT "L1MED_5."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 701-1615 RA Jurka J.; RT "L1MED_5."; RL Direct Submission to Repbase Update (JUL-1999). XX RN [3] RP 1-1615 RA Smit A.F.; RT "L1MED_5."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC 5' end of LINE elements with L1ME subfamily 3' ends CC ORF1 starts at pos. 682. ORF1 region 71% similar to that of CC L1MEC_5. XX SQ Sequence 1615 BP; 637 A; 297 C; 348 G; 308 T; 25 other; cggacttccg tttccggcaa tatggtagac tagataacct gaaaaccctc ccactacaaa 60 acacctagaa atgctggata aaatataaca aacatccttt taaatgcata gctgagctcg 120 caagaaagta agggaaatcc ccaggggcca aaaacgaaga gagaactgaa aaccagagcg 180 gtaagtacgt gagctgangc tgtgggctgc cctgagggca atttgccggt ctcggtaacc 240 aaggggcttg ggttttaacg nccatgcggg gataggagac aaggccttgg gcctacgcaa 300 ggcggagagt tggaactgag atccctgcat aaagccggga cccttgaagg gctacaccct 360 cagtgaaagg gtagactaga aaaataatct gcccaccggc acagggagat gaaaagaaac 420 tgtctctnng cctgggctct gggtggagaa naaaagtctc ccctgagaat ttataaccac 480 aggcctgccc tcacgtgggt ttggggttca aatttacact acctgcgtgg tccaggaanc 540 cccaagccga gaaattaaca taaagtggtc ccaggttggt agtgnccctg gggcacctgg 600 cagaagcaaa cgcaaatcct ctctggaggg acgcaccctc aacccaggcc tcacaggatt 660 cccacagata aagctcngct aaacatgagc tcacaatcca aaattacaaa acacacgagg 720 aaacagtcta ccatgagcga gagtcagcag acacaacaaa tagcaggatt agactcccaa 780 ggaacttcag atattggaat tatcagatac agaatataaa ataagtatgt ttaaaatgtt 840 agtgaaataa taggaatatg aaataaaaac atgagaaagn aataaggtac tatcaaaana 900 accaaatana acttttggaa atgaaaaata tatagtcatt aaaattaaaa acccagtgga 960 taggtnaaac agcagattag anacagctga agagagaatt agtgaactgg aagatagatc 1020 tgaagaaatt acccagaana tgcacagaga gataaagaga tggaaaatat gaaagagagg 1080 ttaagagaca tggaggatag aatgaaaaga tccaatanac gtctaatagg anttccagaa 1140 ggagagaata tgatggggaa aggcaatatt naaagagata atggctgaga attttccaga 1200 attgatgaag anatgaaccn tcagattcag aaagcacaat gaatcccaag cagaataaat 1260 acaaaaaaat ttacatctag acacataata atcaaactgt caaaagtcaa agataaaaaa 1320 aagatcttaa aagcagccag agagaaaaga tagattacct aaaaaggagc aacaataaga 1380 ctaacagcag acttctcanc agaaaccata caagccagaa gacagtggaa tgaaatcttt 1440 aaagtgctga aagaaaataa aaaantatcc tnctatcaat ctagaattgt atatccagtg 1500 aaactaacct tcaaaaatga aggagaaata aaaacttttt cagacaagca aaaanaanag 1560 ctgagggaat ttattaccac cagacctgca agaaatncta aaggaagtac ttcag 1615 // ID LTR2C repbase; DNA; HUM; 462 BP. XX AC . XX DT 20-SEP-2000 (Rel. 5.08, Created) DT 20-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Long terminal repeat of human endogenous retrovirus (4-14), DE related to HARLEQUIN - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR2B; LTR2C; KW endogenous retrovirus 4-14. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-462 RA Jurka J.; RT "LTR2C."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC >92% similar to individual sequences. XX SQ Sequence 462 BP; 137 A; 116 C; 85 G; 119 T; 5 other; tgctgccctc ctcccaccac cttgcctagt tcacaagaca ggaggaaaga gagaaagcaa 60 aaagttagaa araaacaaaa gtaagataaa tagccagaca accttggcac caccaccygg 120 ccctaggagt taaaaaaaag taataataat aacatcaacc cctgacctaa actacttgtg 180 ttatctgtaa attccagaca ttgtatgaaa aagcattgca aaactttctg ttctgttagc 240 tgatgcatgt agcccccagt cacgttcccc aygcttgctc gatttatcac gaccttttca 300 cgtggacccc ttaaagttgt aagcctttaa aaaggccaag aatttctttt tcagggagct 360 cggctcttaa gacgcaagtc tgctgatgct cccrgccgaa taaacctctt ccttctttaa 420 tccggtgtct gaggagtttt gtctgyggct cgtcctgcta ca 462 // ID L1MEC_5 repbase; DNA; HUM; 2527 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 30-MAR-2001 (Rel. 6.02, Last updated, Version 3) XX DE L1MEC_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1M4_5; KW L1MEC_5; LINE1 repeat. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-2523 RA Smit A.F.; RT "L1MEC_5."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-2527 RA Jurka J.; RT "L1MEC_5."; RL Direct Submission to Repbase Update (2001). XX DR [2] (Consensus) XX CC 5' end of LINE elements with L1ME1-2 subfamily 3' ends, CC comprising the CC 5' UTR, ORF1 (pos. 793-1771 or more) and part of ORF2. Updated CC (2001) CC consensus is ~85% similar to the old one. XX SQ Sequence 2527 BP; 1092 A; 406 C; 472 G; 532 T; 25 other; aatgtnttaa aaaattcact taaaatataa taggagactt ctgcttctgg ccaagatgga 60 gtaacaggga ccggatttac cctcctacct gaaacaacta aaaaacagac aaaatatatg 120 aaacaatagt tttcaagaca ctggacatca ggcaacgaag gacagtgatc cctgagagat 180 gggaaacaaa tgaggtgagc cctatgattg ccccagctta ctgccttgag agagtttcca 240 ggctgcagtg cagrgagggg gaacccaggc agagcccagc agactccctg agttgaggag 300 acagagctga gagtccaggg agaccaaggn tagctagagt tcataggaca gagtaccaga 360 gaggagagag ctgcacagag agagaactct agagattctg cagagggtcc cccttgagta 420 ttcagcagag tactgatcag cacatgcatg tgaggaaact acctgaggcc agggaaagaa 480 ccacccaaaa ggamaaaaag gattagaggg aacagtgcct ggtactcaca cagggctagg 540 aatagtgcct gttcccacca gccagactgg aaaacctcat aattcacagg gcattgggta 600 gagtactcag aagggtcttg cctcagtagt ggggaataat tagccctaga ctaaacactg 660 ctctggtccc acctaacaaa tcttaaaagc aagacctgaa agaatcaaac tgtttccaag 720 taacttaact gtatcccaga acaaagctca agaatattta taggaataca aaaatatcca 780 gcacccaaca aggtaaaatt cacaatgtct ggcatccaat aaaaaattac caggcatgca 840 aagaagcagg aaaatattat aacccataat gaggagaaaa atcaatcaat tgaaactgac 900 ccagaactga cacagaattg ttagaattag aattagcaga caagganaca ttaaaacagt 960 tattataact gtattttata tgttcaaaaa gttaagtaga gacatggaag atataaaaaa 1020 gacccaaatc aaacttctag agagatgaaa actacaatgt ctgagatgaa aaatacactg 1080 gatgggatta atagcagatt aganancatt gcagaagaaa agattagtga acttgaagac 1140 atagcaatag aaactatcca aaatgaaaca cagagagaaa aaaaaattta aaaaattaaa 1200 aagaaaagag catcagtgag ctgtgggaca acttcaagta gcctaatata tatgtaattg 1260 gagtccccaa aggagaggag aaaagagaaa gagagaaaaa atatttgaag aaataatggc 1320 taaaaatttt ccaaattttg atgaaaacta taaacccaca gatccaagaa gctcaacaaa 1380 ccccaagcac aagaaacatg aagaaaacta caccaaggca catcataatc aaattgctca 1440 aaaccagtga taaagagaaa aatcttaaaa gcagccagag aaaaaaagac acattacata 1500 cagaggaaca aagataagga tgacagcaga tttcttatya gaaacaatgc aagcgagaag 1560 acagtggagc aacatcttta aagtactgaa agaaaaaaaa actntttatc ttttgtcatt 1620 acctagaatt ctataacnaa gaaaaaaact gtcaacctag aattctatac ccagcaaaaa 1680 tatctttcaa aaataaaggt gaaataaaga ctttttcaga tatacaaaag ctgaaagaat 1740 ttatcaccag cagatctgca nnactacaaa aaatgttaaa ggaagtcctt caggcagaag 1800 gaaaatgata ccagatggaa atatggatct acacaaagga atgaagagca ccagaaatgg 1860 taactacatg ggtaaatata taaaattttt tttttttatt atttaaaatc tctttaaaag 1920 ataattgact gtttaaanca aaaataataa caatgtattg tggggtttat aacatatgta 1980 aawaaaatgt atgacaacaa tngcacaaag gctaggaggg gagaaatgga agtatactgt 2040 tgtaaggttc ttatactata tgtgaagtgg tataatatca cttgaaggta gactgtgata 2100 anttaaagat gtatactata aaccctaaag caaccactaa aataacaaaa caaagagtta 2160 taactaataa gccaacaaag gagataanat agaatcataa aaaatattca attaatccaa 2220 aanaaggcag aaaaaaaaaa aagraaaaaa gaacagatag gacaaataga aaacaaatag 2280 caagangata gatttaaacc caaccatatc aataatcaca ttaaatataa atggtctaaa 2340 caycccaatt aaaaggcaga gattgtcaga ttggataaaa aancaagact caactatatg 2400 ctgcctacna gaaatacact ttaaatataa agacacaaat aggttaaaag taaaaggatg 2460 gaaaaagata tatcatncga aagaataccg ccaagagnca aaaaaggtca ttttataatg 2520 ataaagg 2527 // ID ACRO1 repbase; DNA; HUM; 147 BP. XX AC . XX DT 01-JUL-2003 (Rel. 8.06, Created) DT 01-JUL-2003 (Rel. 8.06, Last updated, Version 1) XX DE Human acromeric satellite. XX KW SAT; Satellite; Simple Repeat; ACRO1; Acromeric; KW Satellite repetitive element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-147 RA Smit A.F.; RT "ACRO1: Human acromeric satellite."; RL . XX DR [1] (Consensus) XX SQ Sequence 147 BP; 32 A; 59 C; 23 G; 33 T; 0 other; tcacccccag ccctcaggga ctctcctgtc tgtcccagct actctccaac cacgcccaga 60 tttcagcggg agtcagttcc aggcacccag gaatcaccac caaactcacc aatttcactg 120 agttactccc cagtctctct catgtct 147 // ID L1MA2 repbase; DNA; HUM; 1051 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MA2) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M1; L1MA2; L1MA2 subfamily; MER14; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1024-888 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 1-1051 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [3] RP 1-1051 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 9.5%. XX SQ Sequence 1051 BP; 412 A; 170 C; 215 G; 253 T; 1 other; ttaataacca gaatatataa ggagctcaaa caactctata ggaaaaaatc taataatccg 60 attaaaaaat gggcaaaaga tttgaataga catttctcaa aagaagacat acaaatggca 120 aacaggcata tgaaaaggtg ctcaacatca ctgatcatca gagaaatgca aatcaaaact 180 acaatgagat atcatctcac cccagttaaa atggcttata tccaaaagac aggcaataac 240 aaatgctggc gaggatgtgg agaaaaggga accctcgtac actgttggtg ggaatgtaaa 300 ttagtacaac cactatggag aacagtttgg aggttcctca aaaaactaaa aatagagcta 360 ccatatgatc cagcaatccc actgctgggt atatacccaa aagaaaggaa atcagtatat 420 cgaagagata tctgcactcc catgtttgtt gcagcactgt tcacaatagc caagatttgg 480 aagcaaccta agtgtccatc aacagatgaa tggataaaga aaatgtggta catatacaca 540 atggagtact attcagccat aaaaaagaat gagatcctgt catttgcaac aacatggatg 600 gaactggagg tcattatgtt aagtgaaata agccaggcac agaaagacaa acatcgcatg 660 ttctcactta tttgtgggat ctaaaaatca aaacaattga actcatggag atagagagta 720 gaaggatggt taccagaggc tgggaagggt agtggggggt tggtggggag gtggggatgg 780 ttaatgggta caaaaaaata gttagaaaga atgaataaga cctagtattt gatagcacaa 840 cagggtgact atagtcaata ataatttaat tgtacatttw aaaataacta aaagagtata 900 attggattgt ttgtaacaca aaggataaat gcttgagggg atggataccc cattttccat 960 gatgtgatta ttacacattg catgcctgta tcaaaacatc tcatgtaccc cataaatata 1020 tacacctact atgtacccac aaaaattaaa a 1051 // ID MER34B_I repbase; DNA; HUM; 5356 BP. XX AC AC004025; XX DT 30-MAR-2001 (Rel. 6.02, Created) DT 30-MAR-2001 (Rel. 6.02, Last updated, Version 1) XX DE Internal part of the MER34B endogenous retrovirus. XX KW Endogenous Retrovirus; Transposable Element; Nonautonomous; KW Class I; MER34B; MER34B_I; MER4I-group; KW Nonautonomous endogenous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5356 RA Kapitonov V.V. and Jurka J.; RT "MER34B_I."; RL Direct Submission to Repbase Update (MAR-2001). XX DR GenBank; AC004025; Positions 30099 22974. XX CC MER34B_I is an internal part of the MER34B non-autonomous CC endogenous CC retrovirus. CC Long terminal repeats of MER34B are deposited in Repbase Update CC as MER34B. There is ~80% identity between genomic copies of CC MER34B_I. XX SQ Sequence 5356 BP; 1684 A; 943 C; 932 G; 1797 T; 0 other; attcttcctt taccgttcca gcgatgaagg tgagactttt ctgggacatc ccactcgttc 60 cagggcctgt agataggatc ctcagaaaac tggctgaagc tagcaaaagg gtaagaaatt 120 gttaccaaag tcagctctcc tagatctctc tctgtctata gtgctcagtt gagagaagga 180 ggcaaaaatt tctcctggcc ctttcttttc aaattcagat tggcaggaga aaaactttta 240 tgagaattag cttgaattgt gacttttggt cttgaggcat acgtttgtta ttgatctctt 300 ccctcccatg gacagctatt attttccctt ttgtctcatt ttatttcctg agaacttggc 360 ttggcttttt gcctgttgag ggcacatggg ttatcagtcc tgcatatgca ggcagcccac 420 cgaaaggctg gatataaatg tgggttgtac cccatttgca gctagtatac tgactgttgc 480 cagctctcaa agagtctaag tctttctttc ttccgactgt ctttgggagt ggctctggat 540 cttgagaggg ctgcgtcttt tcacctgttt ggagatgcct tttatgcctg tggttaagcc 600 ataaaaagct tattggtttt agtctagagt cacttggtag atatgccttt ggtttagaaa 660 gtttcactta aaagtttggt ttctgatcat cagagcttga aagaagcaat tttctttaag 720 aggccactct gttctctcca tctgatactg cttctcctgt aagaacttct ttgtgaactg 780 aaacccctct tcttcaatcc ctgctgacta tgttatctga cccctctgtc tgcttctttt 840 cttgtgggca caatttttct taagaacaat atggaacttc attggctcct ttagaaaact 900 taagatctcc ccagattggt tcctctaagc ctcagtcact tggactttag gatccagctc 960 tccaaggact ttggggccgc aaaaagcaac tacttgaagc tgaaaaggaa aaagattaat 1020 tagaaataaa ctggtaccta aaatttagtc cacagcctcc atgggattga cctctgatgt 1080 taagcaattt gccccaagac tccttcttgg aggaaagctt gtattctttg tgtgtgcctt 1140 tgaaactgaa ttttctacct catcttaact gagagccatc ccttttaaag tgctaacttc 1200 agtgagatga ctcatcagaa ggaaaaaagc tttctggaaa ttgggcaaat gaaaaacctc 1260 aaaggtgttt tccacaaata ttagaaaaag ctttggctat ctgagcaggt aaccttaatt 1320 tgtcccattt gccaaaaaca taatttggtt ccagcttttc ttttataagc tagtgacttt 1380 tgtattactg tacctggcac atagttaaag ttttagcatg aaaactataa ggtctttgtg 1440 cctatctgga tgtgtaggta tgtttacata tgtgtatatg tttctgtgtt atgtatgcat 1500 attttctacc tgcagatggt attgccaaaa ttaatttgta aaagagccct atttagttgg 1560 cttaaagaaa aataagtgta aattacatat tcttaaaact tctagaaata taggaactaa 1620 cccaaaaact tttcaagttc acatgacatg ggtaaatctt tagtaaataa gactagttca 1680 acattgttgg tttaataaaa acagctgtgt cttacaagtt atccgcttta aaaataatat 1740 gaaaattaac atttttattc ttgttctacc tggattcact actcaaataa gtttatgtta 1800 tctttactag aggtttaaga ttatgaaact atgagatcaa cctaagaaca aatgtgcaag 1860 tggatgtgta gtgctcatta ctccatgtat atcaagcaca gcagaaaaaa aacatgtatt 1920 taactttcag gttcttgctt tggtgatgac tgcctaacat gcacatgctg taaaaaagtt 1980 aagagggaaa taacttgaga tgatggctag ctttgtgtaa tgtctcatga aattttcatg 2040 agcaatccaa gcataattgt tatgaatagg taaattaaat agatgtaagt gggatggaat 2100 ttataaatgt gctaacgtta attatatttt ataatatgtc tatttaaaag cagatttcca 2160 aatctctttg gtaacttaca cccttagagt gtcagtaagt taaatagcag atacctattg 2220 aatatctaga ccatttccaa ataagataaa atgctgataa ttgcttacat aagctttacc 2280 acttttggca tcttattata agaagaacta aagatatttg agcctattag caaacatgtc 2340 ctgtgccaca ttgaaaaatg gtaatatgag ggagcacata cttttagaaa ttaaaatgac 2400 taagagttaa gaattcgaat taatacatgt gattaaaact actagaaatt ataagagaaa 2460 cagctctata tacaaggaag ataagatgta tttttgataa ggaaagttgt aaggtatgag 2520 gatatatttt tgctaaagaa aagagagtaa tgaattctat gctaaaatag gctgacagat 2580 tgttttagga tgaaaaagga gaatgaagga caaaaactga atgcatatag aaagctggaa 2640 gagagagata aagagagaga atatctcatg gctaaaatgg aattaatgta ttataaatgt 2700 tttaaaaatg agccttaata ttaaaagtac attggtataa aactagaagc tggttttctc 2760 tctgttaaaa ggacaaaggt tttttggagc attggtcttc tcttgaaagg ttttctttac 2820 cttttgagtg agctggctag aaaacaaaga ttttatgtct tatcaaaata atttcctttg 2880 cttcatgttg tcttttatca ggtctttggt gacttaagaa aactgagtcc cctctactaa 2940 aatagccaag gtttttttct acaactattt aactttctgt atttgccttt gaagtctttt 3000 aattatcact ctggttacat gaatgactat tgtttcacag tgacctgtga tcttctttaa 3060 tcaactgttt taaacttttt gacatttttg acaacctccc aaaggcaaat tctaaattaa 3120 gtctttttaa cctcaaatta actttgggat tttttagatg ggccccagga atatcacaaa 3180 agaatttgtt ctatctcctt atattaatac aaagagagat gttaaactaa ttaagtttat 3240 tttacatgtt aaattgtatg gaaagtattg tcaaataaca agtgatgcta aagcttctac 3300 atgttgctaa aatgacactt cagtaactgt atgtaactcc tagaaatctg atacatcctg 3360 acataatgtt ttcagtcata attttagtta ttatctcaaa atattgtatt tcacagaaat 3420 aaaatttcct tgccaattac attataatga acttttatct gatctttcac cattgccatt 3480 ttaagtcttg tcatccaccg tcaattgttt tactctggtt ctttcatgaa agcttttgca 3540 agcaactata accctgaagt gtttcatctt caaggagatt catggaaagg actctgacaa 3600 gtacaggttt ctaataactc taagatcata ccattgaact ggggagaatt tctagaactc 3660 caatgaagaa actgattggt tgataaaagt actaacccaa tatcaagcag aatatgagtt 3720 aattacatgg gaccaaatga actgttgaaa aagaattatg ttttcttgta aacttgttgt 3780 ttaaaactgc actgattttc tagatttaag aaaacttttt cttttatttt aagctatcta 3840 tagcttataa caatttggca aattatactt ttgtaaagag aattaaaata ttgacttttt 3900 ctccctacct gatccctcca gaattcagaa gctattagtg ggtattctgt ttttatggca 3960 atgtagttat ttgcataagt tcaataagaa tctgttttct tttttaacag gacataattg 4020 gaaacattga ttatattacc aaggcatttg actagaacat catatttgag aatgtgcata 4080 gaactagata tgatcagttt ttaaggaact aaggttaact tcatggagac aataaccatt 4140 ccctgacccc ccagaaaaac tgccttggta cccaatttaa atgcgtttcc agcgttacag 4200 gtgggtaaag aatgccactt cctagaaggc ccaggaacct caagatacct tggagacaga 4260 aagaagagag gaattcaccc aaatcaataa gcattgcagg caaagtctga tggcaagtcc 4320 taggcttggt ttcttagcct caagaggctt ttaaaagttt aacctgagat ttcatatgaa 4380 atcttccagg aaagcggagt gtagatggtc aatcactatt cttgctgcac ttatataaat 4440 aatcaggcca agtttaatga gactagactt attttgcaaa taaattaatc ctactccgat 4500 tgtctttggc aaaaatgggg gtgaccatac agagaggaaa atatgtttca gaagaagact 4560 gtagtgcagt cattactatt cactgttttc gaggttttag tatctatcta taaactaaac 4620 tggatcctga attcttttag tttcctccaa tatctaattg cgactctcca aactaacatt 4680 tctaactttc ttccatcttt ctaacttaga atcgctaaga acaaaaactg cccttttctc 4740 aaagccctgc aagctgaagc tggatgactt gatatagact tcaaagaaac caccacaaca 4800 gtttaggtat gggcaacctt catgcttatt gctgttatgg gccatgaaga aagtttacca 4860 gaatacctca tgcaaactgc aaaccagaaa aatccatcaa attgccactg cctgccctca 4920 gtccaactaa agacactttg tgctcagacc tagaaatctt ctcaattggc tgccatctgg 4980 aattaaaaac tgagtttata gtttgttcta ttaaccgttg tttttctttt gtttccatag 5040 aaatgcctct tattaaatac ctgtttgctc acacactata gaggcctaac tttgatagga 5100 gctcacctga aataccactt cttcaaatga aacacaacta tttaactgaa ctgatctatt 5160 ctcaggactg agactgattc aataagaaat gagacaatgt actcaagttt gttcttttct 5220 gcttgttcca atctatgctt ttctctccct ttgccaatcc cttatttggc aacttctaac 5280 ccaagtcttt ccatggctaa taatcctact tttaatatgt gcaaactttc taaaaataaa 5340 gtttcaatgg ggggac 5356 // ID MER50B repbase; DNA; HUM; 697 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate MER50B repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER50B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-697 RA Jurka J.; RT "MER50B."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC ~77% similar to each other, ~85% to consensus and 76% to MER50. XX SQ Sequence 697 BP; 180 A; 175 C; 160 G; 171 T; 11 other; tgttacaggt agttaggcat gagcggggca ggagagggct ctccccccac ccactagaaa 60 tgtcrggtga tggttcggca attatcrcat tgcctctcta aaartgataa attggcagcc 120 agygccaggg agaggccatt tcctgatggt ccacacctgt taacatyaaa atgttaattg 180 aatgcagacc ccagggagaa gcaacttcct gggcatgcac attaagagac aaaaatggcg 240 aagtatgatc ttccgggtac actctccacc rgaaaaggga agaaagcctc agatgggcat 300 gcgtataact ccctaaacac actgcgcgtg ctcaattccc aagggtaagg agggcactgc 360 gcatgcagga agcccaccct aagggaagaa tcatgggaaa gaggcgagcc tataaaagtc 420 ctaggatcaa ggttaaacag ggcacttttt cttctctctt tgaccttcag gtgcccactt 480 gggtctcttc caagcgmact ttcctttctt tcctgttcta aagccttttt aaataaactt 540 ccactcctgc tctgaaactt gcctcagtct ctttttctgc tttatgcccc tcagtcraat 600 tctttcttct gaggaggcaa gractgaagt tgctgcagac ccgtayggat atgccgcygg 660 taactcaggg taactcggat ctcttccacc ggtaaca 697 // ID LTR9D repbase; DNA; HUM; 645 BP. XX AC . XX DT 13-AUG-2008 (Rel. 13.08, Created) DT 13-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR9D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-645 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 832-832 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 645 BP; 178 A; 169 C; 137 G; 158 T; 3 other; tgatacagga gctaaaaaga aattatttag gcagwtagtg agggtaagag agtcctcggt 60 aaagttttcc ttttaataaa aagcagcccc caaatcattt cttttctaac aaaaagcagc 120 ctgaaaaatc aagctgcaaa catagataag caagctggaa gcttgcatag gtaaatgccg 180 gcagctgtgc caatagaaaa gggatacctg gaagccaggt atattcaaca tggaggttcc 240 ctcttccctt ttctttgtcg ccacgtgtgc agtaaaaaag caggcaacat ggcgccggcc 300 aggtagagac cccatctgca taataaaaga ttagggtggg atggccagct tcttcrcgcg 360 ctatgtaaat ggcacacctg gtccgaccaa tcycttgtgc cctatgtaaa tcagacaccg 420 cctcctcaag ctcatctata aaaccaaccg catttcgccg cgaaaccgga agacccgctc 480 gggagccccc tctctctgca ggagagagag cttttctctt ttctctttct ttcgcctatt 540 aaacttccgc tcttaaactc actccttgtg tgtccgcgtc ctcgatttcc ttggcgtgag 600 acaacgaacc tcgggtattt accccagaca aacgatgccg cttca 645 // ID MER51I repbase; DNA; HUM; 7816 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Internal part of MER4I-group LTR-retroposon flanked by MER51 LTRs DE - a consensus sequence. XX KW LTR Retrotransposon; Transposable Element; KW Internal sequence of LTR-retroelement; MER4I-group; MER51; MER51I; KW internal portion. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7816 RA Kapitonov V.V. and Jurka J.; RT "MER51I."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC MER51I is an internal part of LTR-retroposon flanked by MER51. CC Similarity of MER51I consensus sequence to known retroelements CC is shown below: CC ---------------------------------------------------------------- CC sequence begin end sequence begin end similarity CC ---------------------------------------------------------------- CC MER51I 1087 1784 MER65I 1541 2355 0.73 CC MER51I 1791 1870 MER66I 3509 3591 0.74 CC MER51I 1931 2056 HERV23 1838 1965 0.66 CC MER51I 2069 2154 MER66I 3661 3743 0.70 CC MER51I 2170 2271 MER4I 2794 2901 0.70 CC MER51I 3010 3126 MER4I 5178 5293 0.74 CC MER51I 3150 3568 MER57I 1625 2258 0.83 CC MER51I 3608 3958 MER41I 1172 1524 0.80 CC MER51I 3959 4163 MER66I 3813 4018 0.77 CC MER51I 4188 4293 MER41I 1415 1528 0.71 CC MER51I 4297 5924 MER57I 3816 5412 0.84 CC MER51I 6042 6101 MER57I 5814 5869 0.88 CC MER51I 6105 6796 MER57I 5920 6599 0.84 CC MER51I 6812 7486 MER57I 6631 7320 0.87 CC MER51I 7541 7600 HERV9 8127 8186 0.72 CC MER51I 7732 7816 MER66I 6589 6676 0.75 CC ----------------------------------------------------------------. XX SQ Sequence 7816 BP; 2302 A; 1241 C; 1481 G; 2489 T; 303 other; tattttggcg agccagccag gaggaagagg taagcccaaa gtttgggatt yatttttctc 60 cytttccttt ctgctccata caggggamtc tctctctctc ttttcctttc caacttggga 120 cccttggtgg gcagcgccta aacatggaag caactgcagg tttctggccg tggccagtga 180 aactaaggrg tttccatgtg gagaagcctd accaccactg cccggttcac ttaagggacc 240 tgagtctttt tchtttttct tttcctctct ttvtttttca gtctttcagt ggctgtttcc 300 tagtagctcc ttggaaattg agggcaattg gctggggtca ctccccagta ctgcctgaag 360 gcctaggaat gaatgggaat aattgccctg ccccgaaggg ggaatgrmwc ttttwttttt 420 ttatcttttc cgvgtgtggt ccctgatccc tacatgcggc acagctcagr gcaaactcac 480 acgtgtttca ggkgacttaa accttctttt cttatgctaa attcttccct tatcgtactc 540 aactggctaa ggaacaaaaa ggcccaccca gcatccagtt cctatcatta cagttcatgg 600 ctatymctaa tggaatggsa agcacgggaa agcgtggcgt tatcaaattm taagkatgct 660 araagktgrg gccttcatcy aggkacwaww ataaagctca tagtaggctc tggagggaaa 720 gcatgcaaag tggcactggt gcccacctaa ggtcagagac atctgacact ctaagattgg 780 acccyaaagg gggaktccct tggggatcct ycagacccca acctctccaa aacggawgcc 840 cttggcagag gtcctgaggt ctagtwctaa gcccccctta gaattttctc tmgsagttgc 900 aatactgtgt ggaccccmta ttgtttggaa tctgaagttt rctgttgaat gggaaagtga 960 gacggcgtts tatgtrtcta ggcttttgtg ctgcgtttct aagcaggggg cctggtgaac 1020 gtgttatacc ttcctttggt accgtttggc cccagtgttc tttggagtct ggggaagttt 1080 ggcctctaaa aatcaaactg ccatggaaac tgctataccc gaaattttgg ttcacagcct 1140 tcattggatt atctattggg acaaagtaaa accarcgagc ttgtattgct atctcatggc 1200 targgttcca aagctattgr atcttcattt rtgtgtgtat atacgtgtct agatgtgttt 1260 atttgtatgt acacytattg ttatacgttg tgtctaccat aattggcyta caagtaaaag 1320 agcactcata aatcaagtaa ataagtcaga gcaattttca agttcacatg actataagta 1380 taactttact aaacaagcag ctttataaat tattgaggaa ataaaaatag aaatgccttc 1440 agaattgcta gcatacgttt tgatctaagt tttagatttg tctctgctag atattcagaa 1500 ggatcatggt ttggcataga aagttataaa actataaacc cagccaaaac aaaatgatct 1560 tggtttgcct gccctttttt ttttttgaca aatgatagta atttaacatt agctaaatct 1620 tctgagctgt tggccaaaat atctatgtac ttaactttga ggctcttact taggtttggg 1680 tgagcacctg atgttcactg gctattaaaa atgtggttaa caaggaaata actcacttta 1740 aataatagtg tctaatatct cagtttacag aagtaatcta gataaactgt ttaaaartra 1800 aaatttaagt acatgtraat gggataaatg ttttaggtra actttttgtg taaattaaaa 1860 tcttaaartt atktttgatg ctcattkaat atctgggtca tttccaatta agaaagggtt 1920 gtratatggg gaaatatgtt tctaaatact gtggaattrt tcttatctat aaatgtccat 1980 atctartagy tcaggatttc ttgcttttta ggrtttcact aaagttttag gttactaagg 2040 ataaaattct agttaacaca taattttgta tacaaaacgt accagaaagg gttrtgttat 2100 tartgrgaaa aagaataatt ttrtctaatt cagaagttat mtaaaagtta gttcmartta 2160 cagayttsaa aaggttattt atgaaayaat gtactamgka ayyaktargt aggggagaaa 2220 ratgtggaaa aagtttarat aataaaatat tctttaaaac ctgataraga attggagaca 2280 tttgrctaat taacattttc atagttaaag ctgttagtct tgaytdataa aataagaagt 2340 attgtaaaga aacgcatcrg cagtttggca attctttttt ttaaatacag ttaagcatga 2400 agctggattt agtgtrgagc caaatttcay atacatamtt gcattgcttc mcmctatgtt 2460 tactgttttg cgtggatagt gctggcactg gagtacttat tggtcatgtg cctaragtga 2520 atttcttgrt tgyacaggat gtatrrtgat attggtrgac ttgaggatay ttaattgtgt 2580 atcaggaata aaatattcat tatgtgagtt tttttggggg rccctaggta acactrtagt 2640 ctccarggta rattgagtag gaamatttag ggttggtktc ctgtttaytt gtytttgctt 2700 cyarttttca ttcgtttgct gtttatttct cctctggctt tscttgtgtg tgatcgtata 2760 tacataaaac yattgatttt tttgwtwygt tttttagtty ctagtggaag gcttttattt 2820 ggttctgtgg atagttattt tgtttcctat gctatatcat tyctagcaag tcatcatttg 2880 ttccrtttat ctggaattcc targctacct ttgttaggcc cgcaggaatt ratggagcac 2940 acmarctttt ctatcctatt ataaactaac tttttggawt ttaggcttcc tgatacttta 3000 agggtgttga gtrtactytc wtaaatagaa tttgagtcra tatttctctt tctctgccta 3060 atttctccaa aatttgtaaa ctatktgtga ctattcttaa ttcawkgcaa tgtgwttgtt 3120 tgcatacaca gtcragcagg gytgctaggg cygctcaggg agagagaacc cagaaacctg 3180 gcatgcwggc aaaagggtaa gaatttctta ccaktcagwc tctggcctct ctctctcttt 3240 ctttctctct gtgcaaactg gttaaatawa wagtaaaagt cactgtttat ctcctctgta 3300 aagttttara ttaatwkrww waagaattct gaggctggtc ttaagctgta gtgaatctgg 3360 tgtgctttat gtgtctttct gtattgttct gtcacaaaaa ggggtacatt aggataaaat 3420 gcgtgcctag gactccatag gcttgctgtt caagatggcc cagcaaactg gacagtcatg 3480 tccttgggag cttgacctcg taaccatgtg gccatgcttt ctttctcttt tcacaatggc 3540 agctgggttt agggttcaat tcctggctta gggaatgagt cctttatctt ctatctatgt 3600 atttatgtgt gttgtgtaat ataaaagaac tttaattaat tggtcaatta ataataatag 3660 gagcttaaat caaatatttt gtcagaaaag trraaagttt aatgcctttt atttagttca 3720 ygtgrcttaa gyaatctttg ggaaataaag acagttttaa agattattgg taaaataaaa 3780 atrtcttcaa aaatgtaaaa atktggtcta aattatacag ktcarataty aggttygcta 3840 aaatgcttta aggtcataaa ctgcttgttt gacttttaaa aattattcaa tttattttgg 3900 agtattagat tctaggtaag acctggagac atgtgaaatt agtcatgtca cctagctatg 3960 caaagaagtt tataaagaaa agaaatctta cataagaaag gatcttatat ggtaaattct 4020 tgtcctaaag taaaataaca ggttgtttaa aaggagagat gtttaggaca agtcagaaag 4080 tccaagcata ttatagatgg tctgtgtaaa tcatgaaata atttatgaaa gagaatttat 4140 gcaagaaatg ttgtacagtt taaaggtgat taggcctcct aaatgcttca taamatgtta 4200 ctgtgactcg aatgaatawc tgtwcaactt gcctgcttya cagctaggta ragcgcgtag 4260 ggacasatgg agtggccacr ccccttccat gctctaccta ctgatgctgg aaarggtcag 4320 accttatctg gacttctggg tgggtcctag gctccacccc tagtacataa ttaaagaacc 4380 ctaaacttat caaggttwtc wtcaaaagta aawgtcgyca agagytmgca ttgtaacats 4440 taatwgarcc tactgaagaa acagttttac atsaaaggka tgtaaagcaa gaaaagtgaa 4500 atagggtttg gtgtttttgg taaaagatta tawkmwwkma wrggaatgtg ggtttttttg 4560 ttgtgcctaa agggctaaaa gattgtttta agttagaata aagctaaagg tttgaacagg 4620 ttgtggaagg tttgcaaaca attaatcttg taaaaaatta tgtgtgtgaa catattgact 4680 aaatttaaag ggttattttc tggtttgtct gtaaattgaa cattgaaata aaaacacaaa 4740 catggttttc ttaaagcact gatctgctct ttactaaaaa tttatagagg gttataaaag 4800 atttatgaga ttctcattgt atggtcaaac tgattaagat cggaaagatt tgtctataag 4860 gttttattaa aaattggggt tgacattaat agtacactaa tgcaagggtg aaatgtggct 4920 ttctctcctg aacaagattt tcatgtaata ttaaaagaca ctgaaagatt tttatttgcc 4980 ttttgaataa actaccaaca aaaaaagaag ggaaagacaa gagacagatt gtttggaaag 5040 ctaagtcttc cctctttcaa tgagtgaagg tttttgtcct ttaaagaggt ttttttggat 5100 caatcatttt ggmtaaawga awgwcttatg gtaacctgga gttctakwtc atamtatcaa 5160 gtgttttaag cctctaacat atttgatcwg rmttcccaaa atcaaattgc akcttcaaaa 5220 ttgtcttytc wgtsctcgra cttctgagga tgatgmgaag ggcccacgta gaatcatccr 5280 aaagagaggt gacaagaatc atttgacwcg tttagttaca tgggaagtat tsacaaaaac 5340 tttratraty tagtcttctt caggttatwg tttagtgaat gactcatata tatattttcc 5400 aaaattgtat gggatttcta aaattctaag atgtctgagt atatgtcatc aatcataatt 5460 awggttatta tgttaratga ttgtaaacca cagaaataac caaatttcct tgtcaattgt 5520 gtttttaact gtaactattt aaagttattt ccacagttaa ttgtttaatg ctgatgcagt 5580 ttctgaaaac gtcacaagca cacaaaatcc tagaatatgg tgtcttttag gaagttgatt 5640 aaaggatgga aaggactcta aaaagcactc ttgaatacag gtttctgaga actttagaat 5700 catatcattt gaactgggta agaattcctg gaactttaat gaaaagactg actgggttat 5760 aatacwgcta acctaggata gaagcaaaag attaattaaa taccaagaaa atactttkcc 5820 agatttytat kctaamtcgg cwattactga aattgtttag atatrcaatt tgactgartt 5880 cbatggtcta adtchvagta actatgataa vccatcvgtt ahcagtgbta ttcaccthct 5940 dtgdtgaaac hactggtadd caagabhata taabdctaat gtthattaag catggattca 6000 tgtdddatga dgdtggtcac cttgavgdbb gchadtvctt haagagttta ttattatgct 6060 acagtgtatt ttcaccargt aaagaaagaa arctttttat gkyytgaatc ttctggaaac 6120 aycagagaaa kactrtcctt gycatccasr cyacwayaaa acttcrggrm yttgrrcttt 6180 rggttcatrr tctcacaayt gagaagggtc cctcyayrct cttsaarctg trsacccatt 6240 ggaaccctta aggtwaaact aaccarggwa atagtthcaa mtggacgaag agttcatctt 6300 tgatgtaaac atctttttcc aagatcacag attaagactt ctactatcat gagactctta 6360 tccttgaata ttktcttttg tttatgcctc tatgaacaat agaaatgaaa aagggatctg 6420 ttttgtgcac ttatggggta tacttttatt tgtgaaggat tttgcagcca gccttataca 6480 tggataatct tatactctga tagataaaag atgaagaccc agtgtaggtg agaaacttta 6540 atgctacata cgttgcctca taatcagtca gaaacagaag attggttcac tcccattaac 6600 ccaaactcat gggttaaaaa gaacadtccc aggaggcctt cactcttcta taagagaagg 6660 gcatcattta ttaggtctat tttccatttk gwaggatttg daataaaaga vgtaatgatd 6720 aaaaatgtat ccctcacaat aggttctata gcagattcta ctgtaaagtc tatagttaca 6780 caacagactt taaattatct tgtgaaagtt atgctaaaga atagaattgg ccaaagagaa 6840 aagtatctat gcagctgctg gcabtcatgg cctatggdgg aaaacathag gtrarkatta 6900 tagagtttca gttgtagtgg attgacaaca aaaadactgt ttagttaagt gagtagactg 6960 cttatctagc tcattctttg atctatttga ttttaggtgg tttggtttat ggggaccctg 7020 gataaggaac atacttcaaa ctcttggtat tatcchchtg atagtcataa taatagtctc 7080 cctggtgcat tgtattctct caaaggtttt acatgcttgc atgcagccat ctctagaatg 7140 tcaaatggtc tctcttcaag tggaatgaca aaagctgaat gaaatatgtg accacaagga 7200 cactgtaacc tatgaatggc atgctgagac cagaaaccca aaatgatggt aactgagagt 7260 ggtactaagg ctctaagttt tgdtcatact cttacctaag tgagaacctg accaaaaggg 7320 gggaattttt aaaaacaaaa ttgtggtagg ccattgtttt ggactgagct catgcattag 7380 acctcatcag atcaaaccaa aaccaaaatg gagttgcttg ggctaagact ttaaggcaat 7440 acatatggat cctagaavag aavaggtttt gttttttctc ctgtaaatct ctataacaaa 7500 cattcctgag agcataagta tchacctcct gaagttccca ttaaatcttt taaccaaatt 7560 catttcctct ctcctagaga ccatcaagct tcagatgatc atgtgacaaa ggttccagtc 7620 agttccaggt gaagacacca cccctggtca ttaaggagct accctgtctc cattagahag 7680 agcagggtaa gagttctgtg atccacaatg ggtagggact acacchbgag ccagcatgaa 7740 gcagttacag aagaaagacc gthagtccct ctgcctccca taaagattta tggggatcac 7800 atctcwtygg ggggaa 7816 // ID L1 repbase; DNA; HUM; 5403 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Primate L1 consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW Interspersed repeat; L1 (subfamily L1PA2); LINE1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5403 RA Smit A.F.; RT "L1."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC This is not the complete sequence of the L1PA2 element. 3' ends CC of a variety of L1 subfamilies starting at position 5254 CC (overlapping 150 bp) are given separately in the database. CC ORF1 is from bp 1030 to 2046, ORF2 from 2110 to > 5403. XX SQ Sequence 5403 BP; 2077 A; 1233 C; 1102 G; 991 T; 0 other; gggggaggag ccaagatggc cgaataggaa cagctccggt ctacagctcc cagcgtgagc 60 gacgcagaag acgggtgatt tctgcatttc caactgaggt accaggttca tctcactggg 120 gagtgccaga cagtgggcgc aggacagtgg gtgcagcgca ccgtgcgtga gccgaagcag 180 ggcgaggcat cgcctcaccc gggaagcgca aggggtcagg gaattccctt tcctagtcaa 240 agaaaggggt gacagacggc acctggaaaa tcgggtcact cccgccctaa tactgcgctt 300 ttccgacggg cttaaaaaac ggcgcaccag gagattatat cccgcacctg gctcggaggg 360 tcctacgccc acggagtctc gctgattgct agcacagcag tccgagatca aactgcaagg 420 cggcagcgag gctgggggag gggcgcccgc cattgcccag gcttgattag gtaaacaaag 480 cggccgggaa gctcgaactg ggtggagccc accacagctc aaggaggcct gcctgcctct 540 gtaggctcca cctctggggg cagggcacag acaaacaaaa agacagcagt aacctctgca 600 gacttaaatg tccctgtctg acagctttga agagagcagt ggttctccca gcacgcagct 660 tcagatctga gaacgggcag actgcctcct caagtgggtc cctgaccccc gagtagccta 720 actgggaggc accccccagt aggggcggac tgacacctca cacggccggg tactcctctg 780 agacaaaact tccagaggaa cgatcaggca gcagcatctg cggttcacca atatccactg 840 ttctgcagcc accgctgctg atacccaggc aaacagggtc tggagtggac ctccagcaaa 900 ctccaacaga cctgcagctg agggtcctgt ctgttagaag gaaaactaac aaacagaaag 960 gacatccaca ccaaaaaccc atctgtacgt caccatcatc aaagaccaaa ggtagataaa 1020 accacaaaga tggggaaaaa acagagcaga aaaactggaa actctaaaaa tcagagcgcc 1080 tctccttctc caaaggaacg cagctcctca ccagcaacgg aacaaagctg gacggagaat 1140 gactttgacg agttgagaga agaaggcttc agacgatcaa actactccga gctacgggag 1200 gaaattcgaa ccaacggcaa agaagttaaa aactttgaaa aaaaattaga tgaatggata 1260 actagaataa ccaatgcaga gaagtcctta aaggacctga tggagctgaa aaccaaggca 1320 cgagaactac gtgacgaatg cagaagcctc agtagccgat gcgatcaact ggaagaaagg 1380 gtatcagtga cggaagatga aatgaatgaa atgaagcgag aagagaagtt tagagaaaaa 1440 agaataaaaa gaaacgaaca aagcctccaa gaaatatggg actatgtgaa aagaccaaat 1500 ctgcgtctga ttggtgtacc tgaaagtgac ggggagaatg gaaccaagtt ggaaaacact 1560 ctgcaggata ttatccagga gaacttcccc aatctagcaa ggcaggccaa cgttcagatt 1620 caggaaatac agagaacgcc acaaagatac tcctcgagaa gagcaactcc aagacacata 1680 attgtcagat tcaccaaagt tgaaatgaag gaaaaaatgt taagggcagc cagagagaaa 1740 ggtcgggtta cccacaaagg gaagcccatc agactaacgg ctgatctctc ggcagaaact 1800 ctacaagcca gaagagagtg ggggccaata ttcaacattc ttaaagaaaa gaattttcga 1860 cccagaattt catatccagc caaactaagc ttcataagcg aaggagaaat aaaatacttt 1920 acagacaagc aaatgctgag agattttgtc accaccaggc ctgccctaaa agagctcctg 1980 aaggaagcgc taaacatgga aaggaacaac cagtaccagc cgctgcaaaa acatgccaaa 2040 ttgtaaagac catcaaggct aggaagaaac tgcatcaact aacgagcaaa ataaccagct 2100 aacgtcataa tgacaggatc aaattcacac ataacaatat taactttaaa tgtaaatggg 2160 ctaaatgctc caattaaaag acacagactg gcaaattgga taaagagtca agacccatca 2220 gtgtgccgta ttcaggaaac ccatctcacg tgcagagaca cacataggct cgaaataaaa 2280 ggatggagga agatctacca agcaaatgga aaacaaaaaa aggcaggggt tgcaatccta 2340 gtctctgata aaacagattt taaaccaaca aagatcaaaa gagacaaaga aggccattac 2400 ataatggtaa agggatcaat tcaacaagaa gagctaacta tcctaaatat atatgcaccc 2460 aatacaggag cacccagatt cataaagcaa gtcctgagtg acctacaaag agacttagac 2520 tcccacacaa taataatggg agactttaac accccactgt caacattaga cagatcaacg 2580 agacagaaag ttaacaagga tacccaggaa ttgaactcag ctctgcacca agcggaccta 2640 atagacatct acagaactct ccaccccaaa tcaacagaat atacattctt ttcagcacca 2700 caccacacct attccaaaat tgaccacata gttggaagta aagctctcct cagcaaatgt 2760 aaaagaacag aaattataac aaactgtctc tcagaccaca gtgcaatcaa actagaactc 2820 aggattaaga aactcactca aaaccgctca actacatgga aactgaacaa cctgctcctg 2880 aatgactact gggtacataa cgaaatgaag gcagaaataa agatgttctt tgaaaccaac 2940 gagaacaaag acacaacata ccagaatctc tgggacacat tcaaagcagt gtgtagaggg 3000 aaatttatag cactaaatgc ccacaagaga aagcaggaaa gatctaaaat tgacacccta 3060 acatcacaat taaaagaact agaaaagcaa gagcaaacac attcaaaagc tagcagaagg 3120 caagaaataa ctaaaatcag agcagaactg aaggaaatag agacacaaaa aacccttcaa 3180 aaaattaatg aatccaggag ctggtttttt gaaaagatca acaaaattga tagaccgcta 3240 gcaagactaa taaagaagaa aagagagaag aatcaaatag acgcaataaa aaatgataca 3300 ggggatatca ccaccgatcc cacagaaata caaactaccg tcagagaata ctataaacac 3360 ctctacgcaa ataaactaga aaatctagaa gaaatggata aattcctcga cacgtacact 3420 ctcccaagac taaaccagga agaagttgaa tctctgaata gaccaataac aggctctgaa 3480 attgaggcaa taatcaatag cttaccaacc aaaaaaagtc cgggaccaga tggattcaca 3540 gccgaattct accagaggta caaggaggag ctggtaccat tccttctgaa actattccaa 3600 tcaatagaaa aagagggaat cctccctaac tcattttatg aggccagcat catcctgata 3660 ccaaagcctg gcagagacac aacaaaaaaa gagaatttta gaccaatatc cttgatgaac 3720 atcgatgcaa aaatcctcaa taaaatactg gcaaaccgaa tccagcagca catcaaaaag 3780 cttatccacc atgatcaagt gggcttcatc cctgggatgc aaggctggtt caacatacgc 3840 aaatcaataa acgtaatcca gcatataaac agaaccaaag acaaaaacca catgattatc 3900 tcaatagatg cagaaaaggc ctttgacaaa attcaacaac gcttcatgct aaaaactctc 3960 aataaattag gtattgatgg gacgtatctc aaaataataa gagctatcta tgacaaaccc 4020 acagccaata tcatactgaa tgggcaaaaa ctggaagcat tccctttgaa aactggcaca 4080 agacagggat gccctctctc accactccta ttcaacatag tgttggaagt tctggccagg 4140 gcaatcaggc aggagaagga aataaagggt attcaattag gaaaagagga agtcaaattg 4200 tccctgtttg cagatgacat gattgtatat ctagaaaacc ccatcgtctc agcccaaaat 4260 ctccttaagc tgataagcaa cttcagcaaa gtctcaggat acaaaatcaa tgtgcaaaaa 4320 tcacaagcat tcttatacac caataacaga caaacagaga gccaaatcat gagtgaactc 4380 ccattcacaa ttgcttcaaa gagaataaaa tacctaggaa tccaacttac aagggatgtg 4440 aaggacctct tcaaggagaa ctacaaacca ctgctcaatg aaataaaaga ggatacaaac 4500 aaatggaaga acattccatg ctcatgggta ggaagaatca atatcgtgaa aatggccata 4560 ctgcccaagg taatttatag attcaatgcc atccccatca agctaccaat gactttcttc 4620 acagaattgg aaaaaactac tttaaagttc atatggaacc aaaaaagagc ccacatcgcc 4680 aagtcaatcc taagccaaaa gaacaaagct ggaggcatca cgctacctga cttcaaacta 4740 tactacaagg ctacggtaac caaaacagca tggtactggt accaaaacag agatatagac 4800 caatggaaca gaacagagcc ctcagaaata atgccgcata tctacaacta tccgatcttt 4860 gacaaacctg agaaaaacaa gcaatgggga aaggattccc tatttaataa atggtgctgg 4920 gaaaactggc tagccatatg tagaaagctg aaactggatc ccttccttac accttataca 4980 aaaattaatt caagatggat taaagactta aacgttagac ctaaaaccat aaaaacccta 5040 gaagaaaacc taggcaatac cattcaggac ataggcatgg gcaaggactt catgtctaaa 5100 acaccaaaag caatggcaac aaaagccaaa attgacaaac gggatctaat taaactaaag 5160 agcttctgca cagcaaaaga aactaccatc agagtgaaca ggcaacctac aaaatgggag 5220 aaaatttttg caacctactc atctgacaaa gggctaatat ccagaatcta caatgaactc 5280 aaacaaattt acaagaaaaa aacaaacaac cccatcaaaa agtgggcaaa ggatatgaac 5340 agacacttct caaaagaaga catttatgca gccaaaaaac acatgaaaaa atgctcatca 5400 tca 5403 // ID LTR12E repbase; DNA; HUM; 1322 BP. XX AC . XX DT 26-APR-2001 (Rel. 6.03, Created) DT 26-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE LTR from human ERV9-like endogenous retrovirus- a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV9; LTR12; KW LTR12C; LTR12D; LTR12E; PTR5; PTR7; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1322 RA Jurka J.; RT "LTR12E."; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC Another subfamily obtained primarily by variation of the R66-like CC minisatellite. XX SQ Sequence 1322 BP; 252 A; 419 C; 400 G; 244 T; 7 other; tgagaggtga caacgtgcta gcagncctcn cagccctcgc tcgctctcgg cgcctcctcg 60 gcctbggcgy ccactctggc cgcgcttgag gagcccttca gcccaccgct gcactgtggg 120 agcccctctc tgggctggcc aaggccggag ccggctccct ctgcttgcgg ggaggtgtgg 180 agggagaggc gcgggcggga accggggctg cgcgcggcgc ttgcgggcca gcgcgrgttc 240 cgggtgggcg cgggctcggc gggccccgca ctcggagcgg ccggccggcc ctgctggccc 300 cgggcaatga ggggcttagc acccgggcca gcggctgcgg agggtgtact gggtccccca 360 gcagtgccgg cccaccggcg ctgcgctcga tttctcgccg ggccttagct gcctccccgc 420 ggggcagggc tcgggacctg cagcccgcca tgcctgagcc tcccacccac tccatgggct 480 cctgtgcggc ccgagcctcc ccaacgagcg ccgccccctg ctccacggcg cccagtccca 540 tcgaccaccc aagggctgag gagtgcgggc gcacggcgng ggactggcag gcagctccac 600 ctgcggccct ggtgcgggat ccactaggtg aagccggctg ggcttctggg tcgggtgggg 660 acttggagaa cttttctgtc tagctaaagg attgtaaaca caccaatcag cactctgtgt 720 ctagctaaag gtttgtaaat gcaccaatca gcactctgtg tctagctaaa ggtttgtaaa 780 tgcaccaatc agcactctgt atctagctaa tctggtgggg acttggagaa cttttctgtc 840 aaaggtttgt aacgcaccaa tcgggtgggg acttggagca ctnctgtgtc tagctaaagg 900 tttgtaaatg caccaatcag cactctgtaa aaacggacca atcagcactc tgtaaaatgg 960 accaatcagc aggatgtggg tggggccaaa taagggaata aaagctggcc acccgagcca 1020 gcagtggcaa cccgctcggg tccccttcca cgctgtggaa gctttgttct tttgctcttc 1080 gcaataaatc ttgctgctgc tcactctttg ggtccgcact acctttatga gctgtaacac 1140 tcaccgcgaa ggtctgcagc ttcactcctg aagtcagcga gaccacgaac ccaccgggag 1200 gaacaaacaa ctccggacgc gccaccttta agagctgtaa cactcactgc gaaggtctgc 1260 agcttcactc ctgaagtcca gcgagaccac gaacccacca gaaggaagaa actccggaca 1320 ca 1322 // ID MLT1K repbase; DNA; HUM; 588 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Mammalian long terminal repeat (MLT1K subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MER98; KW MLT1K; MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 106-568 RA Jurka J.; RT "MLT1K."; RL Direct Submission to Repbase Update (03-JUN-1998). XX RN [2] RP 1-588 RA Smit A.F.; RT "MLT1K."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1K retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 27-28%. CC Pos 124-588 are 74% similar to MLT1L. Replaces MER98. XX SQ Sequence 588 BP; 128 A; 164 C; 155 G; 133 T; 8 other; tgtggncagc tgttgtttct gcctgcccag cgtccattcc cccttcttct ggtaacagca 60 ccccaacntc ccttagggaa ccacccttcc cccactctca gtccatgtgg ttcgggtggg 120 gctgaccccn cccctagctc caggggtggg cacgtgaccc aggcctggcc aatcagagca 180 ttccatcccc ctggccacag tgattggttc agggatgggc acgtgaccca agctgggcca 240 atgagagtca gccctgggac ttttgctgga actatnggga aagagangtt ctctttctgc 300 tggggttgct aagctggnag gatgtaagcc tggagctgct ggnggccatc ttgccaccac 360 gnggagagag cctgcctgag aatgaagcca acacagagga aagcagagcc aagagatgga 420 gagagacaga ttcctgatga catcgtttga gcacctggat ccagccatgc ctgaagccag 480 ctacccctgg acttttcagt tacgtgaacc aataaattcc cttttttgct taagccagtt 540 tgagttgggt ttctgtcact tgcaaccaaa agagtcctga ctaataca 588 // ID HSAT5 repbase; DNA; HUM; 86 BP. XX AC . XX DT 01-JUL-2003 (Rel. 8.06, Created) DT 17-JUL-2008 (Rel. 13.07, Last updated, Version 2) XX DE Human centromeric satellite. XX KW SAT; Satellite; Simple Repeat; Centromeric; HSAT5; KW Satellite repetitive element. XX NM HSAT5. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RA Smit A.F.; RT "HSAT5: Human centromeric satellite."; RL . XX RN [2] RP 1-86 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [1] (Consensus) XX CC CC [2]. XX SQ Sequence 86 BP; 22 A; 30 C; 18 G; 16 T; 0 other; cactgaccag gtccttactg acaaggcctc actgacaagg cctcactgac caggtcctta 60 ctgacaaggc ctcactgaca aggcct 86 // ID SN5 repbase; DNA; HUM; 455 BP. XX AC L06278; S61639; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human centromeric SN5 satellite DNA sequence. XX KW SAT; Satellite; Simple Repeat; Centromeric repetitive DNA; SN5; KW alpha-satellite. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-455 RA Johnson H.D., Kroisel M.P., Klapper J.H. and Rosenkranz W.; RT "Microdissection of a human marker chromosome reveals its origin RT and a new family of centromeric repetitive DNA [see comments]."; RL Hum. Mol. Genet 1, 741-747 (1992). XX DR GenBank; L06278; Positions 1 455. XX SQ Sequence 455 BP; 97 A; 115 C; 143 G; 100 T; 0 other; cttcccttca gggacctcaa agtgaccagc ttccccttga agaatgactc tccaaggccc 60 aggagcccag cttctgggcc tccaagccag gccatctggc gagggagtcg gtggacgtgc 120 cctggcttct tccatgttga gttggtacta cccaccaagg ggggtagaga ggcgagcaga 180 tgttgtctct ggcctgtgtc ttgttatcat ggtgctgact aggcctggta cagggccctg 240 atggggttgt cctgggtggt cacgggggtg atgagaagaa gatgcagaat ggattgctgt 300 gaggatgaat gagacgactg tcagtacaga caggcacacg gtgaagtgtt cagggattcc 360 cctcagtagc tgcccagacc caaaacctga ctcctgagtc acgttactgt cccactatac 420 gttaagagga gggaaagctg ggtcgcgcag gtccc 455 // ID TIGGER7 repbase; DNA; HUM; 2487 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Autonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW Autonomous DNA transposon; MER44; TIGGER7; KW Tc1/mariner supergroup. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-660 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 1-2487 RA Smit A.F.; RT "TIGGER7."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC TIGGER7 is a pogo-like DNA transposon of the mariner-Tc1 family. CC The open reading frame from pos. 320-2131 encodes a transposase CC 68% CC identical to that of TIGGER2. Average divergence of copies 17%. CC 23 bp terminal inverted repeats, TA target site CC Most common internal deletion derived non-autonomous elements: CC MER44A bp 1-74 / 2225-2487 CC MER44B bp 1-353 / 2289-2487 CC MER44C bp 1-660 / 2409-2487 CC MER44D bp 1-238 / 2019-2487. XX SQ Sequence 2487 BP; 795 A; 511 C; 553 G; 625 T; 3 other; cagtagtccc cccttatccg cggtttcgct ttccgcggtt tcagttaccc gcggtcaacc 60 gcggtccgaa aatattaaat ggaaaattcc agaaataaac aattcataag ttttaaattg 120 cgcgccgttc tgagtagcgt gatgaaatct cgcgccgtcc cgctccgtcc cgcccgggac 180 gtgaatcatc cctttgtcca gcgtatccac gctgtatacg ctacccgccc gttagtcact 240 tagtagccgt ctcggttatc agatcgactg tcgcggtatc gcagtgcttg tgttcaagta 300 acccttattt tacttaataa tggccccaaa gcgcaagagt agtgatgctg gcaattcgga 360 tatgccaaag agaagccgta aagtgcttcc tttaagtgaa aaggtgaaag ttctcgactt 420 aataaggaaa gaaaaaaaat cgtatgctga ggttgctaag atctacggta agaacgaatc 480 ttctatccgt gaaattgtga agaaggaaaa agaaattcgt gctagttttg ctgtcgcacc 540 tcaaactgca aaagttacgg ccacagtgcg tgataagtgc ttagttaaga tggaaaaggc 600 attaaatttg tgggtggaag acatgaacag aaacgtgttc cgattgacgg caatcgggtt 660 gcgccagaaa gcattgagcc tatacaaaga cttcagcaag ggatcccctg aaacgagtga 720 caccaagcca tttactgcaa gtaagggatg gttacacaga ttcaggaata ggtttggact 780 gaaaaatata aaaattactg gagaggccgc atctgccgat gaagaagctg ctgccacatt 840 tccggcagag ttgaagaagt tgattaagga gaaaggatac catccaaagc aagtcttcaa 900 ctgcaatgaa accggactct tctgggagaa gatgnccaat agaacctaca ttcataaaag 960 tgcaaaggag gcaccagggc ataaaacatg gaaggacaga ttaactctgg tactatgtgg 1020 caatgctgca gggcatatga taaagccagg cgtagtgtac agagcaaaga acncacgcgc 1080 tctcaaaaac aaaaccaaaa attatttgcc cgtgttctgg caacataatc agaaagcgtg 1140 ggtgacagcc atcttgttta tggaatggtt ccaccaacgc ttcatcccag aagtgaaaaa 1200 atacttggaa gaggaagggc tggaatttaa agtcttatta ataatagaca atgcacctag 1260 ccatcctgaa tctgtttgct atgaaaatga aaatgtcgag gttgtatttt tacctccaaa 1320 tacaacctna ttgcttcagc cccttgacca gggcatcatt tggtttgtca aggccacata 1380 cacccgcctg gtatttgatc gcattcgatc agcaattgat gcagacccta atctggacat 1440 aatgcagtgc tggaaatcat tcactattgc tgatgcaata acattcatca aagctgcaat 1500 ggatgaatta aaaccagaaa ctgcaaatgc ctgctggaag aacttatgga gtgaagtcat 1560 gaatgatttt aaaggcttcc cggggatcga tggagaagtt aggaaaatca ttcatgcagc 1620 aagacaagtt ggtggagaag gatttgccga catgcttgat gaagtggaag aacatattga 1680 aggccatcga gaagtgttaa caaatgagga actggaagaa cttgttgagt catctacaga 1740 ggaagaggaa gatgaagaaa aaactgaagc agaaccagca atgtggacat taccgaaatt 1800 tgctgaagtg tttcaaattg cacagacatt aaaggacaaa attatggaat atgatcctcg 1860 gatggaacgc agcattaaag tcacccatat gatcaatgaa ggattacaac ctccgcagca 1920 acactttgat gagttaaaaa gaaagagaca acttccgatt acaatgttct tccaaaaggt 1980 ttcggcaaaa aaaccttcaa ctatcgagga tccccagcca tcgacatcgt ctgctcctga 2040 catccaacca tcgacatcgt catggctcga tgatccagga tcacccgaag cagatgatcc 2100 tccttctgac gtatcgtcag aaggtcaata gtagcctaac gctacgtcac aatgcctacg 2160 tcattcacct cacttcatct catcacgtag gcattttatc atctcacatc atcacaagaa 2220 gaagggtgag tacagtacaa taagatattt tgagagagag accacattca cataactttt 2280 attacagtat attgttataa ttgttctatt ttattattag ttattgttgt taatctctta 2340 ctgtgcctaa tttataaatt aaactttatc ataggtatgt atgtatagga aaaaacatag 2400 tatatatagg gttcggtact atccgcggtt tcaggcatcc actgggggtc ttggaacgta 2460 tcccccgcgg ataagggggg actactg 2487 // ID L1P4b_5end repbase; DNA; HUM; 1783 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from primates. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1P4b_5end. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-1783 RA Smit A.F.; RT "L1P4b_5end - L1 Non-LTR Retrotransposon from primates."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC L1PA16. XX SQ Sequence 1783 BP; 317 A; 641 C; 543 G; 270 T; 12 other; agaagcacca agatggctga ctagaagcag ctagtgtgtg ctgctctcac ggagaggaga 60 cagagtggcg agtaaacact agctcttcaa gtggatcatc caggaggcca cattgggatt 120 catcaaggaa gcaatggcga cccatggaga gcagagagga gcgaggcagg acagccgccc 180 acctgggatt ggcacggagc cagggaggct ccctaccatg gggaaagggt gagtgagcga 240 gagcccctgg ggacccacac ttctgccacg gacctttgca atcctgggca caggagatcc 300 cccctgaccc cccgggcctc cagaccgaca cggagagctg cctggagtct gggcagagcc 360 gccgctcagg cccacgtgga gccccacggg ccttggatcc ctgagcaccc cggcgccagc 420 tgccgtagcc ccgccaacaa gggaggccag gctctctcgc gtacccctag gataggggcc 480 gcatccacgg tgctgaggag cagatggact gcaggcccca cctccgctgc acctcgccag 540 gcaaggccca ccggcctggg nccccagcgc agccacccca ccccngcctg agcactccgg 600 ccggttgcgg ccctgcattt ctctgggata gagctcccag aggtaaccaa caggcccgct 660 gcgattgccg ctgccacggt ccccacccct gctgccctca ggctggggag ggaggaagag 720 caaagatgcc tcaagaactg tcacgggcct ccagcacgcc acagctgcca tacggaaaag 780 cggccagact gttttccacg tgggtccctg cccctgctgc tcctcaccgg gcagggcctc 840 ctggcctggg cccccagcgc agccgcccca cccctgcctg atcacttcgg tcggtggcgg 900 ctctgcattt ctctggggtg gagctcccag aggcaaccga caggccctct gccattgccg 960 ccgcagcggt acctgccctt gctnccctca ggctggggag ggaacaaaga gcctgattgc 1020 ttttgcatgc ctccagcacg ccgcagctgc cctacggaga ggaggccaga ctgtcttccn 1080 cgcgagcccc tgacncccct gctcttcacc aggcagggcc tcccggcttg ggcccgcagc 1140 gcagccgccc cacccccggc tgatcattcc natcggcagt ggctctgcgt ttctctgggg 1200 tggagctccc agaggcaact gacagcccct ctgccactgc cgccactgcg gtacctgccc 1260 ttgctgcccc caggctgggg agggaacaaa gagcctgatt gctttnctca cacctccagc 1320 atgccgcagc cgccctacag agaggaggcc agactgtctt ccccgtgagc ccccnccccc 1380 cctgctcttc accaggcagg gccccctagc ttgggccngc agcgcagccg ccccaccccg 1440 gctgatcact ccaatcggcn atggctctgt gtttctctgg ggtggagctc ccagaggcaa 1500 ctgacaggcc ctctgccatt gccgccgcaa ggtccccgcc cctgctgccc ccaagctggg 1560 gagggaacaa aaagcctgag ctcgccccag ggctgcggtg nacagctcgg gagtgccgag 1620 ccgagatctg tggccagcac ttaagcggaa gaggagccca cactctcaga gcactgagag 1680 gggtgagtcg cgtgggctcn tgggctgccg cgggagcggg gcatgcctcc ctccacaggg 1740 ccagcccgga aaaggtgtgg cctgtctccc tgccgcggcc tct 1783 // ID MER20B repbase; DNA; HUM; 798 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Non-autonomous DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; MER20; MER20B; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-798 RA Jurka J.; RT "MER20B."; RL Direct Submission to Repbase Update (MAR-1999). XX DR [1] (Consensus) XX CC Over 500 copies per human genome. XX SQ Sequence 798 BP; 238 A; 131 C; 146 G; 278 T; 5 other; cagtggttct caactaggat tgtattaccc cctaggggac atttggcaat gtctggagac 60 attttttggt tgtcacaatg attggggggg rtgctactgg catttagtgg gtagaggcca 120 gggatgctaa acatcctaca agcantgcac aggacagtcc cccacaacaa agaattgtcc 180 tgcatcccac atgactttca aatgtcccac tagacattca tgtaggtgaa aaaacctgtt 240 tataattatc tgagcctaga acctaactct gttttacata taaacacaaa gtattttttg 300 catagtttta atatacactg aattttctag gaatgcaact acvattgtat gtaaattgag 360 ggaagattgt actttgtttt gtttagaact ttaccaaaga gttgttcacc attttggaaa 420 atcatatcac taatggncaa tactcgctca tggtatttga gttgccaata caacacacct 480 gtatcagtct gcatttgtag ctgtcacatt cacggtgatt ctatngtata ggtgcaagca 540 tctgactact tcattatgtc ttctagtgta gtcatgcctg agcatttaca tattgaaata 600 catattattt tattataaat tactttcctt ttttctcttt tatattacag ttagagcatt 660 atattgattt tttttaaaat taatgtgtat aggtaggtta tattatctat gaatttcatt 720 tcaggataaa taaaagaggc attacaaaat atttgttata aaaaggggta ttgggtctga 780 tagggttgag aaccactg 798 // ID L1M3D_5 repbase; DNA; HUM; 1375 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE L1M3D_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M3D_5. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1375 RA Smit A.F.; RT "L1M3D_5."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC 5' end of LINE elements connected with L1MB1 and related CC subfamily CC 3' ends, comprising the 5' UTR and part of ORF1 (from pos. 780) CC [1]. XX SQ Sequence 1375 BP; 480 A; 292 C; 320 G; 258 T; 25 other; gagtgacatc agcaagatgg cataatagga agccctggac ctttcttccc ttcacagaca 60 cactgattca gcaacaattc acggaaaatt acctttgtga gaaatgcaga aactagttga 120 gaggctcctg caccctgggc gagcgcgaaa ccagacccac atcaaagccg gtagggagat 180 tcaggacacc ctctcatcga agtccctccc cccggcwcag cgcmgtgcga tcggaaggaa 240 aaaaccccca actcccggct tctcccaggg gaggaaaaga gttggttcgc acgtcaagtg 300 ccccracttt tccgaggggc tacccagagg actgtcttct gtcttgccwg tctcrgagct 360 ctgataggcc cggcataatc tagacacccg ggggagaaca gagatggtgg tttgggctgg 420 tagatgccat agctnctcac ccctgctcag cacagaacaa gnagatgaaa acccccagnt 480 ctcagctttc ccctgaggag gaaaanagtt gaatggactg gaaaacagaa ttgaatggag 540 catccaacaa tccagctttc tgggagtgcc taaggaaccg attgcatttc aacttgtcgc 600 gctacgctga tangattnan cataccctan atgctcggcg actgcaaaga acaaaaanca 660 ggttggacta gtacgaaggt ttgagaggnc cccaaaatct ctggctaggc tgatcggtga 720 aggtcttctc ctgcataagg ccagtctgtg aagactgaga gaggtggctg ctttgtataa 780 tgcgcagaca ccaatacaga gagtcaagga aaataaagaa tcagggaaan atgttccaaa 840 caaaggaaca ggataatttt ccagaaactg accctaataa attggagtta tanaatttac 900 ctgacgaaga attcaaaaca attgttntaa agatgctcat gaataacatg ataaagatgc 960 tcaccaagat caggaaaaca atacatgaac aaagtgagaa tttcaacaaa gagatagaaa 1020 atgttaaaaa gtaccaaaca aaaatcatgg agctgaagaa tacaataact gaactgaaaa 1080 attcactaga gaggttcaac agcagactag atcaagcaga agaaaggatc agtgaactca 1140 angacaggtc attcgaaatt atcgagtcag aggagcaaaa agaaaaaaga atgaaaaaga 1200 gtgaagaaag cctaagggat ttatgggaca ccatcaagng aaccaanata cacatcatgg 1260 aagtcccgga aggagaagag agaganaaag gnccagaaag cntattcgaa gaaatagtga 1320 ctgaaaactt cccaaatctg gggaaagaaa tggacatcca gatncaagaa gccca 1375 // ID LTR40A repbase; DNA; HUM; 519 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate LTR40a repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR40A; KW Long terminal repeat of endogenous retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-519 RA Smit A.F.; RT "LTR40A."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC LTR40 long terminal repeats are found flanking an internal CC sequence CC (HERVL_40) related to the foamy-virus like MERVL. 5 bp flanking CC sites CC duplications. Average divergence of copies from consensus 24%. XX SQ Sequence 519 BP; 113 A; 124 C; 130 G; 141 T; 11 other; tgttgggaga caattctcca tgggtctctc gcatttctgc acgtcttgtg agcagaggca 60 ctgactgcct ttgttctgga ctatcttttc aaggatgttt gtatagcgaa cagccttgga 120 agatagagat agtgtctccc tctggagcaa agggcaggtt tgcttactag ccttgnaara 180 taaagataat gtctccctcc ggggcaaagg gcaggcatgc ttactgccca ttataaaaga 240 ttngggtttc ctaagctcgg ggttcctcws ctgtracgca aacccactgc gtgtgcagna 300 ntcatctggs ccccttcgca tcgccctcgt gggacttggg ggncaagggg aactgacgca 360 aacatgatgc tcatgctgcc tgctgtgctg tgartaataa agtcctttgt ctctgaccca 420 ggagtctcgt gtcttctgcc agcatccatg aaactgtggc aggctaactt gttagcttgc 480 aagtagggta aaatctcaga cccttcacag ttcttgaca 519 // ID CHARLIE2 repbase; DNA; HUM; 2760 BP. XX AC . XX DT 09-OCT-1997 (Rel. 2.09, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE DNA transposon. XX KW hAT; DNA transposon; Transposable Element; Charlie2; KW DNA transposon fossil; MER1_type (hAT) family. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-2760 RA Smit A.F.; RT "CHARLIE2."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC An internal deletion product of a member of the CC hobo/Activator/Tam CC group of DNA transposons. The ORF at 1570-2145 encodes a peptide CC similar to the C terminal region of the Charlie1 transposase. CC 15-16 bp terminal inverted repeats. 8 bp target site CC duplications. CC Individual copies on average 26-27% diverged from consensus. XX SQ Sequence 2760 BP; 866 A; 466 C; 496 G; 870 T; 62 other; cagtggtctt caaactgggg tatacatacc cctgggggta catgaagact ttccaagggg 60 tatgcgggca cggatagttt taagggaatc aatttccaga tcctcarctt ccatatgtac 120 tctttcctaa aactgatctg cctgagaacg cgcctgtggc gagggcctgc cgnctttccc 180 acttcccctt tcacgatcgc ccttctccca ctttacaaaa gaaaggcata cctctcaccc 240 atcccgaatc ttactatggt gcattgccct ggggtgtaaa aacctccggg gcaccaaaca 300 aagggacaat tcgaaatact ggtgttggtg aagcctcctt taatcaaggc accataarcc 360 cgnngtacag ttttatgtct tccctggctt tayaaatatt tctgttaagg gtaaagcatg 420 atgttggaac aaggtacttt ggcycatgtt ggggtgttct gaattcagat atatcntaga 480 gtggggtggt gggagtgatg acgatttttn cttgacgatg ttgcttcttc catcnctatt 540 nacaaagaat acattgctcc tgaggaagag tcctgagagc aaagcaaaga gaacattgnt 600 aagaaatggc gaagatggca gtgcnttatt tcatccaggt gacaaactca tggcgaggtc 660 tatctatctg akagttggaa tattcaagat wtgkaaaagg cattctggga aataccaatc 720 ngctacgaag catgcctcct ctgcactttc accattctca gtantgagaa agagcttggt 780 gagtactctc attcacctgc gtcttagtct gkgtctcagt tgcatatttt gcatgatttc 840 aaggmggtgg aggcgaaaag ctctgcaatt acttctaaca gatcaacatt acattttcaa 900 gtaaaaggaa catatattgg aggtaagttm rtgtatkcta ttttcttgaa catttattca 960 gattmatagg agaaacattt tcattaactt ttgccaaaga tttctagata gtgtaaatat 1020 atttttctat ttaggcamaa gtctcctgct cactgtcact catgaacmac ttctctgttc 1080 atttattnat tcctaccata tacttactag agttagatta anttaacagg aatatgttgc 1140 agattctact gtaantaatg cacwtaatag cagtcagtaa tataactttt gtaaacccat 1200 anttattaat gatccaatan cttctctctc nttttgctgw cgatttccac aaagtagatt 1260 aaactgtact cttaaaagca gaacattcac ttatgtacga gtgcaggaca gaatgttcca 1320 aaatgcaats tagaatgcga tgcccwgaac ttcagaaaac cagcttcact taattaggat 1380 taatttctcc cgctcggang ctaatatact gttttanttc tgtcaaatgn atnattataa 1440 gtaataattt ttnacaataa cgaaattant antatataca tgaatannct caagtgtccg 1500 tccctctgtc atatttttaa aatgcatttn gagacgttct taaaaaatga aatwtggtat 1560 tgtntatagg tctctgttcg tagtcgakga gamaagtccc caaatncaca atttacaatt 1620 tttcgwtttt tccaactcct tccatgtata ttgaggtcca taagcaaggt gcctctaagt 1680 gaaagagtag caggnataat taatagtcat ttgataagtc ttggtgaagc cttttgggta 1740 tacttcctag aaactgagaa agtgaatgac tctaatgact gggtaacaaa tccttttgca 1800 agtcaggtgg tttccaattc tttgctttca acaaaattga aggaggacct aatcgagttg 1860 tcagctgaca gatcattaaa aataattttt gatgatagat caytatgtga tttttggcat 1920 ataactcgga aggagttcaa agaattgagt gacattgcta taacaaaact ccttccattc 1980 ccatctactt atttatgtga acaagrtttc tcagcgctta catctataaa aatgaaaaat 2040 aggaatagaa ttgatgctga actctgtctc attctagcaa taagtaatat tcatccacgg 2100 atacatgaac taattgggga aacaaggccc catccatctc attaagagat gcatttccaa 2160 taaaatttta ctttttatgt ttawtattta tcaaaatttg taatatgttt atgttgtttt 2220 gatcaattgt atattaataa taattgtaat gataactcaa tccagaagaa aawttttaac 2280 acttagagcc ttatggtcan arkaaatata aaaaattaaa tttcaattta tatacatatt 2340 tttgttgcag agaagtatga tagggtgatc aataaaagac tttcaagcat aaaaatatat 2400 tacattagga taaaattctg tgggggaagt ggaatggaaa tacgagttca aggagaaaaa 2460 gagaacaatg taaaatttcc gactgttaaa gaagagcttg ctcatgtatt ttttaaatgg 2520 atgatggtgg gtatcaaatc gctatggtat ttagattcca ttggatacat ttaaaagagt 2580 gatgtaacag ttttatttta aaatgtcaat atttacaata tgccagaaat tacatccttt 2640 gcaactattt aaacttatga tgaaaaattt tagatgtcaa cttaaaaatg tgcgagggrg 2700 tacatagttt ttcaaaattc ttttagggga tacgcaagca aaaawgtttg aagaccactg 2760 // ID L1MA1 repbase; DNA; HUM; 1049 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MA1) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M1; L1MA1; L1MA1 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1049 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1049 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 9%. XX SQ Sequence 1049 BP; 411 A; 171 C; 210 G; 256 T; 1 other; ttaataacca gaatatataa ggagctcaaa caactctata ggaaaaaatc taataatccg 60 atcaaaaaat gggcaaaaga tttgaataga catttctcaa aagaagacat acaaatggca 120 aacaggcata tgaaaaggtg ctcaacatca ttgatcatca gagaaatgca aatcaaaact 180 acaatgagat atcatctcac cccagttaaa atggcttata tccaaaagac aggcaataac 240 aaatgctggc gaggatgtgg agaaaaggga acccttgtac actgttggtg ggaatgtaaa 300 ttagtacaac cactatggag aacagtttgg aggttcctca aaaaactaaa aattgagcta 360 ccatatgatc cagcaatccc actgctgggt atatacccaa aagaaaggaa atcagtatat 420 caaagagata tctgcactcc tatgtttgtt gcagcactgt ttacaatagc taagatttgg 480 aagcaaccta agtgtccatc aacagatgaa tggataaaga aaatgtggta catatacaca 540 atggagtact attcagccat aaaaaagaat gagatccagt catttgcaac aacatggatg 600 gaactggaga tcattatgtt aagtgaaata agccaggcac agaaagacaa acatcacatg 660 ttctcactta tttgtgggat ctaaaaatca aaacaattga actcatggac atagagagta 720 gaaggatggt taccagaggc tgggaagggt agtgggggnt tgggggggag gtggggatgg 780 ttaatgggta caaaaaaaat aagaaagaat gaataagacc tactatttga tagcacaaca 840 gggtgactat agtcaataat aacttaattg tacattttaa aataacttaa agagtgtaat 900 tggattgttt gtaactcaaa ggataaatgc ttgaggggat ggatacccca ttctccatga 960 tgtgcttatt tcacattgca tgcctgtatc aaaacatctc atgtacccca taaatatata 1020 cacctactat gtacccacaa aaattaaaa 1049 // ID L2B repbase; DNA; HUM; 419 BP. XX AC . XX DT 22-AUG-2000 (Rel. 5.07, Created) DT 22-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE 3'-end of L2 (LINE2) repeat (subfamily b) - a consensus. XX KW CR1; Non-LTR Retrotransposon; Transposable Element; KW L2 (LINE) family; L2B; LINE2B subfamily; Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-419 RA Smit A.F.; RT "L2B."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Average divergence from consensus 30%. XX SQ Sequence 419 BP; 61 A; 154 C; 88 G; 107 T; 9 other; tcccccttgc tcactctgct ccagccacac tggcctcctt gctgttcctc aaacacgcca 60 ggctctttcc cgcctctggg cctttgcaca tgctgttcyc tctgcctgga acgcccttcc 120 ccwctccttc ancctggcca actcctactc gtccttcagg kctcagctca ratgtcacct 180 cctccaggaa gccttccctg acttcccagg ccgagttagg tgccctcctc tgggcccccc 240 cggtcctacc ctgccactct gggttatmat tgtctgtkng cangtctgtc tcccccactg 300 gactgtgagc tccgcgaggg cagggactgt gtctgtcttg ttcaccactg tatccccagc 360 gcctagcaca gtgcctggca catagcaggc gctcagtaaa tgtttgttga atgaatgaa 419 // ID MER61I repbase; DNA; HUM; 5217 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 21-MAY-2008 (Rel. 13.06, Last updated, Version 2) XX DE Primate LTR retroviral-like element MER61I - a consensus. XX KW LTR Retrotransposon; Transposable Element; MER4I-group; MER61; KW LTR retroelement; MER61I; internal portion. XX NM MER61I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5217 RA Kapitonov V.V. and Jurka J.; RT "MER61I."; RL Direct Submission to Repbase Update (31-JUL-1998). XX DR [1] (Consensus) XX CC MER61I is the consensus sequence of an internal part of LTR CC retroelement flanked by MER61 LTRs. It belongs to the MER4i CC group. The closest relatives of MER61I are MER57I, HUERS-P2, CC HUERS-P3B and HERVG25. 3' portion of MER61I (position 4300-4900) CC is similar to the 5' portions of MER57I, HUERS-P3B and HERVG25. CC MER61I primer binding site (PBS) is similar to the PBS in HERVK9I CC endogenous retrovirus. Individual sequences are about 90% CC identical to the consensus sequence. XX SQ Sequence 5217 BP; 1414 A; 1034 C; 1068 G; 1641 T; 60 other; tttttggcac ccaacgtggg ggcttgagaa agggtgagtg agatgcaaac caaaaaatct 60 ttttcccttt tgcttctaag ccttttcatc cttggacttc tgagggtagg ggaaaccatg 120 cccccacccc catcactccc aggggtcgga ggcctttcca tggccttttc cttccttttt 180 cgggatggac cngtgagcag cggctccccc ctccctcccc tccctgctgg ggctgggacg 240 catggcccaa gggtccccag kggcatggct ggcgttctct gccacrtrtc cacagagtct 300 tcccctcccc tggccaagga gttcagctcc atcngacagc aattaagctt ctctccctgg 360 tggaggaacc atttgcataa gaataagagg ttcttcccca ggcattttta aactgttttt 420 tttcttcyyt ttctccaccc tgtcagcagt taacttttaa gtnagktttt ttcttttaga 480 agatgtttta ctaggccagg aatcataagg atcactgttt atattctctg taaagtttta 540 attgtgaaaa aggatttgtg aggctggtct taagctgtag ccaatctggt gtgctttgca 600 tgtctgtatg gttcgtagca aactttgctg caggcctcca tcttgtttta cgtccttggg 660 ggcgtggcct gtaaccacgt ggcaaggctt ttcgtttagc ctctgccatt ttayagtggt 720 ggcccgggtt caatcctggc ttagggaatg agtcctttct ggtttgatat ctgcgtgact 780 tttgccattt gttgattctc ttcccctyca cgaaccgcct tgaattttcc tttctctgag 840 ttryytttaa agsttytara ttttgtaaga actgcttamc ccctctgaaa atacctcata 900 caatggcagt taaatcataa ycttaattgr kgcttgttgg tttcacctgt gaagttacct 960 ttagtaaagt ttgaaagcca gaaatattgg ccgcttggcg cggctaaagt caggtaataa 1020 gggagtttaa aaggattttc ttaaagagcg ctcagcttaa ttaaaagtgg atacccaagt 1080 tataggtata tttaaaaggc ctttatgttt ttcttttctt ggatcttgtt ttgctggaaa 1140 aaggtttttt tctcagtcga ctgaattmtt tttctccatt ttgccttgcc actcttaatg 1200 cacgcatgag aggggagaga cctctgtttt cctcatggaa ccccaggaat taaaagcgga 1260 tagatccctc tcaaaatctg tttttgctsc awytatrcct rtttattagg ccytagaarc 1320 trcatgtttt cctagccctg tctcttaaag ggccccaccc agargccaat aatccaatta 1380 ggagattggc aaacgaaara tcttatggct actgggtttt cttctgcctg tctgtgtagt 1440 tatgtatgtg ttgtgtgtgt gatgtctata aaaagagctc taattaattg gcctaaagaa 1500 agacaagcac ttggatcaaa tattttttaa agggaagata aaagctgtgg tacctttcag 1560 ttcatgtgac tttaatcttt gagaaataaa aacagcctta aagattattg gtaaaaagca 1620 gatgtyntca aaatgtaaat aggtgaacta aattatgcag gtcagatgca aggtttgcta 1680 aatgttttaa ggttataaac tgctttttgg gttttgagaa ctatttgact tgccggcttc 1740 acaactggta aggcctgggg acatatggaa ctaaccacac ccttaattat gctggaagga 1800 gtcaaacctt ggctgcacct agcacacaat taaaacaact taccaggttt tacattaaag 1860 ttaaaaattg ctaggagtta ccattataac atgtaattga nactactgga aatagattta 1920 catgcaaggt atgtaagaac agtaaaatgt gtttttagta aaaggttatt aagaaggcat 1980 ggaaatgtaa attyttgcct agggtaaagg attgttttaa attagataag aaaaagctga 2040 aggttcaaac aagtggtgga agaattgtgg aaattaatct tgcaraagtt ctctgtgtga 2100 acatattgac taaattcaaa agggtattat atggtttttc tgtaaattga rcattgaaat 2160 aaaagcacaa caaggtattc ttaagrcact aatctgctct ttrgcaaaat ttgtaaaggg 2220 ttataaaagg tttttgctty tttaaaattt ctgagtcatc attttggcaa aataaataay 2280 ttatggtaat ctggaattct atttcataat atcaagtgtt ttaaacatat ttaacagsct 2340 tcccaaaatc aaacttcagt ttcaaaattg tctttcctga tgcctggctt tttggatgct 2400 tcagagggcc cctggagtat ccagaaaaga gaggtaaaca ggattatttg acatgtttag 2460 gtacatggga ttgccaaaat gatgttcaat cttctttagg ttatattttg gtraataata 2520 ctaatatatg ttccaaaatt gtatgggatt tctaaaattc taatgtctga gtatatgcta 2580 tcaatcataa ttaaggttgt tatgttaagt tattgtaaac canggagata accaaacttc 2640 tttgtcaatt gtgtttctaa ctgtaactac cctggacatt ttgttattca cagacaattg 2700 ttgtcttgtt ttaatccttt tcaaagatgg tttataataa gctatagaac tttgacaggt 2760 gctctcaaat acaggtttct gataactttg gagattgtaa cattggaata aaggaaaatg 2820 tacaggactc atgaagagct aaaatgttca cgaatatcaa gcaaaacaag agttaactaa 2880 atggactgaa ctcagaaagc tgaagcaatc tttttgactt ttgcttggaa tattgctgat 2940 ccttgttttg tttttcagag tcaaggaaac ttattttgaa ctatttatgg cctttaataa 3000 ttgagtaagg tatactcctg tgaacaaaat ttggagcatg tttgtttctc tctgcctggt 3060 tcctctagaa tttggaaact atctgtgagt attcttaact tatggcaata tagttgtttg 3120 catcaagtgc aataagaatc catttttctt ttgcaacagg acrcaattgg agaaastggt 3180 tattttacca aggctttgac tggaagggta tgcttccctt taaggagtca akcttgactt 3240 gcagagccaa taaaagcccc ktgggaaaac tggcctcata cccttgtcta cacagtccct 3300 gtacagggtt cctgacctgt ggtcagtaaa gaatgtcact ttctaacagg yccaggagct 3360 ccaagtttat cttgggacct taagaggaga ggatcaccca actcacaggt atttgaggat 3420 acaaacccat ggctgggctc agctttaaaa ggtcttatct gagattcctt gtggaacaga 3480 gttccatcaa agccaatcta aaaggcctat gtagaaatar ttattcttgc tgcactttat 3540 gcaaataatc aggccaagta taagactaaa gtctattttg caaacaactc agtcctatca 3600 tgattttttt taacaaaaat gaggactgga gagagagaaa ttatgtttca aaacttatca 3660 tacatttgtc attaaattct aaactcatta gttgttttta agtttttgcc tacattttag 3720 actaaccctg cttgttcctg tgaaccaacc agcaatctcc ggctgcagct cagaaagaac 3780 aaaagggatg ggtaatgtag aaatctggat caatattcta gttctgagca attatcctgc 3840 aaatcctgcc aggtgatggg aataaatagg atgcccatca cttggaggtt tcctttttgg 3900 gaaagtaaga ccaagggagc taaccaaagc caagcaccat gcacccaaat cttagcaagc 3960 ataactatag ccaccagtta tctgggtrtg tcacaagaca tccttttctc tcccttgttg 4020 gaggaggact caattccaca gtttcacctt agcatttagc ttatgataag gagtccatgc 4080 aacccccccg agacacattt ttgtcccaaa ctcaattcca agcttygggt caaagcccta 4140 ggaaggaaaa ctggatctga gggatccaga ggcagatgat aacagaagtt aaaaggcaca 4200 gtgcaggtga gcatggctga ttcctgccga ttaagccaag cttcccgttt catggataaa 4260 ggtcatgtta gtatccatgg cataaatgag gtctagggaa ttcaaggcta ctgacagcag 4320 gggagatagg gcatacgtgg gtagagcgga taattcccat cccctaggcc cccctgcttc 4380 atgggtgcaa gccgctttga cacccatggt ggcacctgcc aaggtcactg ggactcgggg 4440 atgcaaggac ggaagaggga aagaggacgc tcttccttct ctccctcacg taccctgggt 4500 atctgctagg aagagaaggg aaccagggat gcctgctccc ctctttctag atgggtagcc 4560 attcatcttc agtctgtacc cctttcgaat gcatcctgaa cccctgggac tcctttgaaa 4620 aaatgccttc ttttttcctt tttcctcctc tgttctctct tcactgatag gtaattgtgt 4680 ctccatacta tgggacactc ccctcagatg catcctccaa actggaaaga gttaatttcc 4740 caaaccttaa actggttggc ttaggattgg gctcagggga agggaaccca gaagcccaac 4800 atgccggcaa aaggtaaagt ttttttttnn ttnntttgnt ttttttttgt ttttttcttt 4860 ttgttttttt accagtcagg cttttggcct ccctctccct gtgcaaactg gtaaaaggcc 4920 ttgggatttt tgagctgtcc ttacccctcc ccttgtttca ttttgataca tgttttctaa 4980 taacctggtt tgtctgttct tgccttcagg ccatcaaact ccaaatggtc atgcaaccrg 5040 agcctctgac aatggcccct tctgctrgga acccttagat aggcctctga gggagatctg 5100 actgccgttt tcccaaaaca gtgccccctg tcagcaggaa gcagttaaga ttggtcttcg 5160 tccttatcct tatccttatt ctaatggcag ttagatgtac ttctttagag gggggaa 5217 // ID LTR36 repbase; DNA; HUM; 612 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Putative long terminal repeat of LTR-retrotransposon; DE MER4I-group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR36; KW retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-612 RA Jurka J. and Kapitonov V.V.; RT "LTR36."; RL Direct Submission to Repbase Update (MAR-1998). XX DR [1] (Consensus) XX CC LTR36 is a putative LTR related to the MER4I-group. Its 134 bp CC long CC 3' terminal portion is 71% identical to the MER87. XX SQ Sequence 612 BP; 153 A; 185 C; 102 G; 167 T; 5 other; tgtaaccaag tacccccatt tttctaagaa aaagagaatg agttttatta tttttttttc 60 tyttttctcc tttttcccct gttccccact tcctacttag ccctttagaa atgcaattat 120 aaccttttac ctccccttca ccagacactc cctacagggc aagttcatct aactatgtgc 180 ttagaagctc cagagcggaa ctctctccca ccaggagatt gcctcgagag ataacagtcr 240 atttacaacc caaagtatgc ccgctacgaa actctctccc acctggagag ttttggccac 300 ytttacaacc tagttctgcc cacgaaggcg ccagcagtca ccagctcaac cgcctggtag 360 ataaggcacc gaagcaagtc acgtagaccc ccacctgctg cttcctcccc tgcatgccat 420 tcatgccaag ccccctttta aaagyscctg ctttctgctc caaaagcgaa gcggtaccct 480 taaggcagga agcctgtact tcttccccct aagctagctt tggaataaaa agtcactttc 540 tttataccag acctcgctct tgttaattgg actctgcaag cggtgagcaa ctgaacctgc 600 gtttcagtta ca 612 // ID MER4C repbase; DNA; HUM; 465 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 4) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; subfamily MER4C. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER4C; KW MER4I-group; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-465 RA Smit A.F.; RT "MER4C."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX SQ Sequence 465 BP; 135 A; 111 C; 76 G; 143 T; 0 other; tgtgaaagga aaataaaaac ttgggacccc aattcactat gccaaaagga aaaaattaag 60 ctgaaagctg agtcatgcaa gaaactgcct ttccttttgt tcctaagcag atagctacag 120 ataaaaggtt aaatatctcc acaggtagct actctatgtt caccttatct tatgtaaagt 180 gccgatttac tgagcacgag acgaatacat aattgactat tcccctacct gctccttttc 240 tcttgcaaca tgtggattca gtaatgtgac cataccctcc ctctttcccc tccagcccgc 300 ttttcccctt taaatattga agccctcaaa atcatctttg gagaaaggca cagaccacag 360 atgtttctgt gatttcgtgt ttctttctcc cgggcatgtc cttaaccttg gcaaaataaa 420 cttctaaatt gattgagacc tgtctcagat actttttggt ttaca 465 // ID MER94B repbase; DNA; HUM; 133 BP. XX AC . XX DT 18-JUN-2008 (Rel. 13.06, Created) DT 27-OCT-2008 (Rel. 13.11, Last updated, Version 2) XX DE MER94B is a non-autonomous DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; KW nonautonomous DNA transposon; hAT superfamily; MER81; MER114; KW BLACKJACK; MER94; MER94B; conserved; CNE. XX NM MER94B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-133 RA Jurka J.; RT "A non-autonomous hAT-type subfamily of DNA transposons from the RT human genome."; RL Direct Submission to Repbase Update (18-JUN-2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 133 BP; 33 A; 31 C; 23 G; 45 T; 1 other; tatggcgacc atatgtcccg gattttctag gacagtcccg atttcaaata ttctrtccta 60 ttgtcccata agtacactca tacttgtcag accatgtgtc ctgatttttg gttcggaaaa 120 tatggtcacc ata 133 // ID MLT1M repbase; DNA; HUM; 672 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; ERVL-MaLR; KW MLT1M. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-672 RA Smit A.F.; RT "MLT1M - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 5 bp TSD; >30% substitution level in borEut13. AATAAA signal. Pos CC 58-247 and 440-672 (end) match MLT1K (distantly). XX SQ Sequence 672 BP; 168 A; 181 C; 199 G; 119 T; 5 other; tgtactagac atgtcaatca cggtgcctgc cacgcccaca gccccttcta agggaaactg 60 ccccgcccac agcccctgct gaaggggcag ccctaggcgg ccatgttttg taccacgtga 120 ccctgccctc ccctggccac agctgattgg accaggggtg ggcacctgac ccaagggcag 180 ccaatccata ggctggccag cgacctatga cgtggcctgg cgcgaaaaga tgagctgggc 240 caatcagatt ctctctctcg ggaatttgaa ctgggaaaca cggagagaat gaggcagtta 300 gcagcgggag ctgaagctga aaggatgcat agagagaagc catgaggtag agtcggggcc 360 atgatgggcc atgtgcaagc cgaagttatg aggaagcaga aactatgagt aagcagagga 420 agccggtcgg tagagagaag agaacggagc agacgngcag agagaagccg agacgcgtga 480 tgagagaggg accggacgag agcngcngag gtccctagag ctgccccggt tccggccgct 540 tccagtccct gttcctggcg ntttcccagt tccagttccg gtccacgtgt atccttacaa 600 taaacccccc ttttcttgag ntaacttgag tgagtctctg ttccttgcaa ccaaaagagc 660 ctaactaaaa ca 672 // ID Tigger2b_Pri repbase; DNA; HUM; 1068 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Mariner DNA transposon from primates. XX KW Mariner/Tc1; DNA transposon; Transposable Element; mariner; KW TIGGER2; Tigger2b_Pri. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-1068 RA Smit A.F.; RT "Tigger2b_Pri - a subfamily of Mariner transposon from RT primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC Contains pos 1-744 and 2461-2718 of Tigger2. It includes a 66 bp CC "unique region" also found in Tigger2f in carnivores and CC cetartiodactyla. The dog element comprises a full Tigger2 CC element plus an insertion showing a 7 bp TSD, and the most CC parsimonious explanation is that Tigger2b is a deletion product CC of Tigger2f, although it beats me how these elements ever CC interacted (the ORF is disrupted by the insertion). Pos 811 CC corresponds to pos 2461 in Tigger2. XX SQ Sequence 1068 BP; 336 A; 204 C; 208 G; 320 T; 0 other; cagttgaccc ttgaacaaca cgggtttgaa ctgcgcgggt ccacttatac gcggattttt 60 ttcaataaat atattggaaa attttttgga gatttgcgac aatttgaaaa aactcgcaga 120 cgaaccgcgt agcctagaaa tatcgaaaaa attaagaaaa agttaggtat gtcatgaatg 180 cataaaatat atgtagatac tagtctattt tatcatttac taccataaaa tatacacaaa 240 tctattataa aaagttaaaa tttatcaaaa cttacgcaca cacttacaga ccgtacatgg 300 cgccattcgc agtcgagaga aatgtaaaca aacgtaaaga tgcagtatta aatcataact 360 gcataaaatt aactgtagta catactgtac tactgtaata atttcgtagc cacctcctgt 420 tgctattgcg gtgagctcaa gtgttgcgag tatccgctta aaacgccgtg tgacgctaat 480 catctccgcg tgagcagttc gtctctccag taaattgcgt atcgcagtaa aaagtgatct 540 ctcgcggttc tcgcgtattt ttcatcgtgt ttagtgcaat accgtaaacc ttgaataaca 600 ccatgggacc catacgaagt gccactagtg atgctggaag tgctcccaag aagcagagaa 660 aagtcatgac attacaagaa aaagttgaat tgcttgatat gtaccgtaga ttgaggtctg 720 cagctgcggt tgcccgccat ttcagacaga tgattcatct tgtaaacaga tgacgtaaac 780 ttacggtatc gataaataca gtacagtact gtaaatgtat tttctcttcc ttatgatttt 840 cttaataaca ttttcttttc tctagcttac tttattgtaa gaatacagta tataatacat 900 ataacataca aaatatgtgt taatcgactg tttatgttat cggtaaggct tccggtcaac 960 agtaggctat tagtagttaa gtttttgggg agtcaaaagt tatacgcgga ttttcgactg 1020 cgcggggggt cggcgcccct aacccccgcg ttgttcaagg gtcaactg 1068 // ID L1ME4A repbase; DNA; HUM; 868 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1ME4A) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1ME4A; L1ME4A subfamily; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-868 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [1] (Consensus) XX CC ORF2 ends at bp 678; average divergence of copies from consensus: CC 27% CC First 50 bp are from L1ME3A. bp 398-868 are 79% similar to L1ME5. CC High divergence may indicate that it represents several CC subfamilies. XX SQ Sequence 868 BP; 344 A; 129 C; 139 G; 243 T; 13 other; cttgtatcca gaatatataa agaacgccta caactcaaca ataaaaaaac gaatttccca 60 acaaaaaaac ggacaaagga cacgaanaga ccgtttacaa aagaagaaat ggaaataact 120 ancgaacatg aaaaatgttc aacctcacta ataatcaaag aaatgcaaat taaaacaaca 180 atgagatncc gttcttcntc gtctancaaa ctggcanaga tataaaaaga taatakccag 240 tgttggtgag gatgtggaga aacgggcact ctcatacact gctggtggga gtataaattg 300 gtacaacctt tctggaaggc aatttggcaa tatntatcaa aagccttaaa aatgttcata 360 ccctttgacc cagcaattcc acttctagga atctatccta aggaaataat cagaaatgtg 420 nacaaagatt tacgtacaaa gatgttcacc gcagtattat ttataatagc aaaaaattgg 480 aaacaaccta aatgtccaat aataggggan tggttaaata aattatggta catccataca 540 atggaatatt atgcagccat taaaaatnat gttttcgaag aatatttaat gacatgggaa 600 aatgctcatg atataatgtt aagtgaaaaa agcaggntac aaaactgtat atacagtatg 660 atctcaactt tgttataaaa ttacatatat aaatgtatac gtatntacat agaaaaaaga 720 ctggaaggaa atacaccaaa atgttaacag tggttatctc tgggtggtgg gattatgggt 780 gatttttatt ttcttttttc tttgtatttt ctgtattttc caaattttct acaatgaaca 840 tgtattactt ttataatcag aaaaaaaa 868 // ID TIGGER5_B repbase; DNA; HUM; 446 BP. XX AC . XX DT 31-MAR-1998 (Rel. 3.02, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE Non-autonomous DNA transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW MER47; MER47B; Repetitive sequence; Tc1/mariner superfamily; KW TIGGER3; TIGGER3_B; TIGGER5_B; TIR; nonautonomous DNA transposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-446 RA Smit A.F.; RT "TIGGER5_B."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC A differently internally deleted DNA transposon. XX SQ Sequence 446 BP; 134 A; 100 C; 86 G; 116 T; 10 other; cagatgctcc tcgacttacg atggggttac atcccgataa acccatcgta agttgaaaat 60 attgtaagtc gaaaatgcat ttaatacacc taacctaccg aacatcatag cttagcctag 120 cctaccttaa acatgctcag aacacttaca ttagcctaca gttgggcaaa atcatctaac 180 acaaagccta ttttataata aagtgttgaa tatctcatgt aatttactga ayayartaca 240 ctgtagarta yyggttgttt accctcgtga tcgcgcggct gactgggarc tgcggytcac 300 tgycgctgcc cagcatcgcg acagagtatt gtaccgcata tcgcyagcct gggaaaagat 360 cagaaattcg aagtacggtt tctactgaat gcgtatcgct ttcgcaccat cgtaaagttg 420 aaaaatcgta agttgggaac catctg 446 // ID MSTC repbase; DNA; HUM; 428 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 4) XX DE Long terminal repeat (MSTC subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MSTC; KW retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX RN [2] RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MSTC retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 17%. Intermittent subfamily CC between MSTB1 and MSTD; 75% similar to MSTB1 over the entire CC length. XX SQ Sequence 428 BP; 114 A; 97 C; 104 G; 113 T; 0 other; tgctatggtt tgaatgtttg tcccctccaa aactcatgtt gaaacttaat ccccaatgtg 60 gcagtattga gaggtggggc ctttaagagg tgattgggtc atgagggctc tgccctcatg 120 aatggattaa tccattcatg gattaatgga ttaatggatt aatgggttat catgggagtg 180 ggactggtgg ctttataaga agaggaagag agacctgagc tagcatgctc agccccctcg 240 ccatgtgatg ccctgcgcca ccttgggact ctgcagagag tccccaccag caagaaggcc 300 ctcaccagat gcggcccctc gaccttggac ttcccagcct ccagaactgt aagaaataaa 360 tttcttttct ttataaatta cccagtctca ggtattctgt tataagcaac agaaaatgga 420 ctaagaca 428 // ID L1P4e_5end repbase; DNA; HUM; 1391 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from primates. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1P4e_5end. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-1391 RA Smit A.F.; RT "L1P4e_5end - L1 Non-LTR Retrotransposon from primates."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC L1PA16. XX SQ Sequence 1391 BP; 338 A; 448 C; 389 G; 209 T; 7 other; gagccaagat ggccaactag atgcagccag gaagagcttc tcccactgag agagaccaga 60 acatcaagta gaccggcaca ctccgaacag atcttcngaa agaaggcatt gagagtggat 120 agagggagga cgcagacccg gggctgaaag gggaggaagc tgggaaccct gcacggggtt 180 gccgagcacc gggactcgtt cctggccctg agtggctcct agggaagggg tgagtgaaat 240 aggcgtggag cggcccactc tcgccacgga cctccgggat cctagctgca ggagacccca 300 tgacccccac ggacatttga gctggcaggg agaactgccc ggagagttgg cagagacaga 360 actccagcct gcacggagcc cagagggttt ggcgcgggaa cggctgcagt ggagcacggc 420 catgggcgcc catcccccaa ggctcgccat actcctctag gtggctttag cctttgttag 480 ctgccagacc tgganagagc agggctgtct tgcccgcggg actggggcga gtctgatctg 540 agcgcccccc tgtctgccgg cctctcccag ggtccctgcc tggccgcacc cgcttgcagc 600 gcagcctcag ctgcccagcc gaagcgcttg ccagcggcca ccgccatagc nctttcgcca 660 gcagcccctc gccatcccgc cggagcgctt ttgccagtgc ccacgcaccc accgccgccc 720 tgccggtgcg cactcgcctg cagcctcccc gccgccctgc ggtgcgcatt gcccacngcc 780 cccactgccc cgctggcgca atgctttcac acggcgnccc ccgccgcccc gccggagcac 840 ttttgccggc agcccccatc ggagtgttgt tgccagcaga ctgggagcac tctcggcccc 900 tccagcgcag caggtgctta acctcgaggg gccagagaac aaagctgcgg gcctggtccc 960 agccccccag ggttagagca cgcagcccag gagtgctgag ctgagccttg gccccctgaa 1020 agcatccaga aatgaagcca atcgactaaa cccaacttat accacagtca aaccctcaag 1080 ggcatcaaag aatataaaag caaaaagccc catccaaagg acagcaactt caaagattaa 1140 aggaacatca gcccacacag atgagaaaga accagcgcaa gaactctggc aactctaaaa 1200 gccagagtgt cttcttacct ccaaacgacc gcactagctc cccagcaatg gttcttaacc 1260 agattgaaat ggctgaaatg acagacatag aattcagaat ctggatggca aggaagctca 1320 ncgagataca ggagaaggtt gaaacccaat ccaaggaaan cagtaaaacg atccaagagt 1380 tgaaagatga c 1391 // ID MER63C repbase; DNA; HUM; 930 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 28-AUG-2008 (Rel. 5.05, Last updated, Version 5) XX DE MER63C repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW nonautonomous DNA transposon; hAT superfamily; MER63C. XX NM MER63C. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-930 RA Smit A.F.; RT "MER63C."; RL Direct Submission to Repbase Update (30-NOV-1995). XX RN [2] RP 1-930 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [2] (Consensus) XX CC Putative internal deletion product of a hAT-DNA transposon, CC sharing CC with these the characteristics of 15 bp terminal inverted repeats CC and 8 bp target site duplications. Copies on average 23% CC diverged. XX SQ Sequence 930 BP; 303 A; 159 C; 160 G; 306 T; 2 other; cagtggtgtg ctggagccgg ctcataccgg ctcgcgagag ccgattgtta aattttcagg 60 aattttgcga gccggttgtt aaacacagcc attattaaaa attaaattat ataaacttac 120 aattaaataa attatattaa aaacaaaggt aataaatact caaaactcat cacttcctaa 180 ttattttact acattttact attatctatg ctcttgaggt tatttacgtc tattgtatct 240 gtatggtgga aatactatat aatggtgtgc tactgcgcat ctcttcccaa ctccgcgttc 300 agtgacgtca cgttggtagc ttgaaatcgg ccatggtggg agtatttaca ccacggaaat 360 tggcaaacgc tacaaatcag ggcttgattt attgttttgt tgattgtcta gacttaagaa 420 agtgatggag aaaatgttaa taatgcagat taaacttaaa agtgtgtcgt gtctgtagcc 480 gttacattgt gaatagcaca aaaaattgag gaaatattct tccagtattt gaaaactatt 540 atccgattca gcaaagaagt cactcacatc attgacgaat gagtgaagtt ccaacatacg 600 tcttcgttgt ttcactttcg tcttactcat taatgtaaac gaaaatatca accaacattc 660 atgttggaac tacacttgtt cgtcaattgc aaccataggt tggctataga tgxaggagtt 720 cggcaaaatt caaxaaaagc attctgtgag aatcaactgg ctatatggaa tttacaataa 780 agagtattgt atattttatt attatttgta aattgtgtgc tacacatcct ttatatcagt 840 aaaatttata ataaacttat atatgtatat acatacatac attttttccc ccagagagcc 900 agttgttaaa catttaccag cacaccactg 930 // ID LTR86B1 repbase; DNA; HUM; 493 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR86B1_LTR; LTR86B1. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-493 RA Smit A.F.; RT "LTR86B1 - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSDs, with a bias for NNNNC. 28% subst in dog human. CC Orientation based on ATTAAA site conserved in other LTR86 CC consensuses. 85-90% similar to LTR86B2, <75% similar to LTR86A CC and CC C. rnd-4_family-54. XX SQ Sequence 493 BP; 105 A; 133 C; 134 G; 117 T; 4 other; tgcaggaatg gacctcaggc aggcctgaag cctgggcctg ctgagggatg ctatgcctgg 60 gaaattgacc ttcgattcac ccagtctcac agtaaacact caggaatgtg ctggggttgt 120 tttgcaccag ttacttgcac ctggtgagca ggcaggcacg tagccagagt ctccagaaca 180 gtcaggcggn agggagatgc agacaggagn ntaaanctcc ccatgagaat ggcaaaggga 240 gcttctcgcg cctggcggaa tcctcactcc acgcgggtgg tgtcatccgc agctgcatgt 300 ccccatgggg aactttgggg gacctgggaa gccgtacctc cgtctgggag catgctgtgt 360 tgtctcctgc tttgtgtaac catctccgta agtttccgta tcctttgcca ttaaagaaac 420 tttacatcct ctaactgtgt ctgttggcgt ctttccatca atcacatcac cgtcccgttg 480 tgacaaccac gca 493 // ID LTR49 repbase; DNA; HUM; 595 BP. XX AC . XX DT 30-JUL-1998 (Rel. 3.06, Created) DT 25-APR-2009 (Rel. 14.05, Last updated, Version 2) XX DE Long terminal repeat of endogenous retroelement - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; retroelement; LTR49. XX NM LTR49. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-595 RA Kapitonov V.V. and Jurka J.; RT "LTR49."; RL Direct Submission to Repbase Update (30-JUN-1998). XX DR [1] (Consensus) XX CC LTR49 is a putative LTR of the retroelement related to the CC MER4I-41I-57I-65I group. LTR49 is presumably a result of CC recombinations between MER4D and LTR29 related retroviruses since CC its left half (positions 1-320) is about 80% identical to the CC middle part of MER4D (positions 408-680) and the remaining part CC (positions 320-568) is about 88% identical to the 3'-terminal CC part of LTR29 (positions 400-619). The average similarity of CC LTR49 sequences to the consensus sequence is about 82%. LTR49 CC family can be subdivided into three minor subfamilies. LTR49 has CC 4 bp target site duplications. For an example of the internal CC part flanked by LTR49s see GenBank sequence U62317 (positions CC 10730-1100). XX SQ Sequence 595 BP; 141 A; 144 C; 117 G; 187 T; 6 other; tgaaggaaat caaaatattt yaccccaaaa tatayttctt tgacatattt tgagatggct 60 rttcagaggg cctgcaaaca gaagtagccc tgcaaagctg tcttttgtgg gggagatttg 120 catctgtaga gaaaatctgc attgatgcag ccaggctttc tctgaggccc tcccttgtct 180 ggatctagga aagattaact gagagtctga cacctttaaa ggtctgaaag aaacatttac 240 catctattct ctctgagggc tgctacctgt gaggtttcat ctacataaca agaccacctt 300 tgctagccag gcctcctctt ctctccctcc cataacctgt cttgccacta taacctgatt 360 taccaccata acctgttttg ggccatgctc cgagccccca ttctttctgt aacctcaaga 420 tggtatataa gcttctgtac cccattgggg ggagttttgg gtattcacts tgattctccc 480 gtgtrtrcac gttaataaat ttgtatgcct tttctcctat taatctgcct tttgtcagtt 540 gatttttcag cgaaccttca gagggcgaag gggaagtttt cccttggccc ctaca 595 // ID MER104A repbase; DNA; HUM; 744 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Non-autonomous Tc2-like DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; MER104A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 741-314 RA Kapitonov V.V. and Jurka J.; RT "MER104A."; RL Direct Submission to Repbase Update (JAN-2000). XX RN [2] RP 1-744 RA Smit A.F.; RT "MER104A."; RL Direct Submission to Repbase Update (05-MAY-2000). XX DR [2] (Consensus) XX CC Tc2-related non-autonomous DNA transposon. TA target duplication CC site [1] CC 30 bp terminal inverted repeats. Average divergence from CC consensus CC 25-26%. Consensus inverted from [1] after coding region in HSTC2, CC a prototype of an autonomous transposon involved in MER104A CC transpositions. XX SQ Sequence 744 BP; 225 A; 133 C; 159 G; 225 T; 2 other; ccgtatttca tcgattctaa gatgcacatt ttttcacatt ttaacatctc tgaaatcggg 60 atgcatctta caatcgatgg catcttacaa tcgctgtcag ccaggcggca gtcgtgacgt 120 agttgtcatt gcctgcacgt gtgcgaactt ggtcgttatt cctagcggca tgactgggca 180 tgcaaccttt cgcgtttcag ttaacaaacc atttaaggac catttgagga aggaatatga 240 gtcctggttg ttgtctgaaa accttctgtt ganaccttct ggtaagatca agaaagcgcc 300 agcatcaaaa cttgcagaat gggtgtcagc ggcttggaag aaaatccaga caatagtgga 360 gcactctttt aagaaatgct gcatcaccaa cgctcttgan gcacagagga cgatattgtg 420 tggaaaaaca cggacatcga tgactctgag tcgaaaagtg attcagaaga gttggactct 480 gaatgtgaag aagttttagg aataccttaa ccaatttatt tcgcttatat tttccttttt 540 atgtatgcac aagagtgata tatgataaaa atctgtgtct aaataagtct aaaagagctc 600 tttcaataag tataaaataa aaattctaat gataaggaaa gcattgtgtc atagtttaat 660 tggcagcgtt ttttctttct tagtggtaca taaaataatg gtgcgtctta caatcgatgg 720 catcttagat tcgatgaaat acgg 744 // ID MER83C repbase; DNA; HUM; 373 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 18-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER83C; KW MER83I; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-373 RA Kapitonov V.V. and Jurka J.; RT "MER83C."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC MER83C is a subfamily of LTRs from MER83I retrovirus. CC MER83C individual copies are about 90% identical to the consensus CC sequence. 5 bp target site duplications. XX SQ Sequence 373 BP; 86 A; 122 C; 74 G; 91 T; 0 other; tgtggagtcc tgataagata agtaagcaac aatgaggaag gggccccagg tgggggagaa 60 caattgttct gagagacggc taatcacaga caacccgctg gcacaacatc ctgttcccaa 120 atacctcgct ccgcatgtag ccccagcagc acgacctcat tctgcacgta gccccctcca 180 gtacaaccct ataaaacttc cctccagccc ctgcctcttt gcagacagcc ccttctctgc 240 tgtgctgccc attgcaccct tgcaacgtat ctttgtactt tctctaataa atctgccttt 300 ctttacctat gactgtcttg gtaaattctt ttactgtccg cgatgccggc cccagccagt 360 cgcacccgcg aca 373 // ID MER51E repbase; DNA; HUM; 482 BP. XX AC . XX DT 18-SEP-2000 (Rel. 5.08, Created) DT 18-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Putative LTR of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER51E. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-482 RA Jurka J.; RT "MER51E."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC ~85% similar to consensus. XX SQ Sequence 482 BP; 116 A; 114 C; 109 G; 138 T; 5 other; tgaggcagga gaatagggaa ttagggtaac caagggttaa ggcataagca aaagaacagc 60 aggtgcagcc agttctaggc aagattaggc agcayacagg ccacatcctc actcctgtga 120 taacaagaca gaagtttcca cttcagcctc tgattgacng tgggccaagt ctccacttca 180 gcctctgatt ggtcrcaggc caatccttca tagggtgtaa ccaattggag gcctctaaag 240 ggcacctagg ggtgttaccc aaattctttt agcttaataa aaaccctaaa gaacattgca 300 atcgcggggc tcttgagccg cttgctcgag ccygctccca ctctgtggag tgtactttcg 360 cttcaataaa tctgtgcttt cgttactncg ttcttttgtt gctttgtctt tcgttgcttc 420 gttcttttgt tgctttgtgc attttgttca attctttgtt caacacgcca agaacctgga 480 ca 482 // ID LTR40A1 repbase; DNA; HUM; 584 BP. XX AC . XX DT 18-JUN-2008 (Rel. 13.06, Created) DT 05-AUG-2008 (Rel. 13.07, Last updated, Version 2) XX DE Primate LTR40A1 repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; ERVL; KW Long terminal repeat of endogenous retrovirus; LTR40A; LTR40B; KW LTR40C; LTR40A1. XX NM LTR40A1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-510 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 663-663 (2008). XX RN [2] RP 1-584 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (01-AUG-2008). XX DR [1] (Consensus) XX CC [2] Extended consensus to 3end. Often nucleates simple repeats. XX SQ Sequence 584 BP; 136 A; 143 C; 147 G; 155 T; 3 other; tgtcgggaga caatnctcca tgaatatttt cacgtttctg cacggtcagg gctttctgag 60 caaagancac tggcaacctg ggttaaagga tgattgaatg gcaaacatgc cttggaagtt 120 agagatagtg tattgctccg gagagattta gagacttatc tcccccggag ccatttgctt 180 acattccaag ggtagtaaac ctagagacct tcccctcctc tccccagaga ggatttgttt 240 acattccaga gcaaaggtct ctctctctct ctctaggagg gaggangggc agatgtgcca 300 gccgccctat ataagctccg agtctcataa tttcggggtt cctctcctgt ggtgcaaccc 360 cgctgcacgc gcaggtgaac atctggccct catcgcgtcg ccccgtgggg aattggggcg 420 tggggaaccg gcgctaagat gctctgtgag taataaacgg tctgttctct gatccagaga 480 tctcgtgttt cctgtcagta tatatatata aaactgtggc aggctaactt gttagcttgc 540 aagtagggta acatctcaga cccttcacag tttcggactt aaca 584 // ID L5 repbase; DNA; HUM; 2265 BP. XX AC . XX DT 06-OCT-2006 (Rel. 14.07, Created) DT 24-MAR-2010 (Rel. 15.04, Last updated, Version 2) XX DE RTE Non-LTR Retrotransposon from mammals. XX KW RTEX; Non-LTR Retrotransposon; Transposable Element; LINE; RTE; KW L5. XX NM L5. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-2265 RA Smit A.F.; RT "L5 - RTE Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (21-JUL-2009). XX DR [1] (Consensus) XX CC 35% subst level in borEut13. ORF from 6-2072 encodes the CC C-terminal half of a pol protein 59% similar (42% identical) to CC that of L4 (probably more as L4-pol still has many ambiguous CC residues). The ORF starts at a position matching ca. pos 500 of CC the complete pols of Expander etc. XX SQ Sequence 2265 BP; 677 A; 522 C; 409 G; 633 T; 24 other; tttaaaccaa antagagcca natanacgaa aggtttggca naatcattac agtaagatct 60 ttggggttct ctcttgggca tgtagtcaaa attttntaat agacataacn aatttgcctc 120 agtggnctcc agttaccaca ggngagatta aaggtcttag tgcatctctt tcctctggca 180 aggcaccagg agaggatgtg ttgcccccag agntatttaa acaatttccc gactggtggg 240 cnccaattct ggctaaattg ttcacgcaga ttagcaaagc aggggtttct cctgctgagt 300 ggaaacagaa tattgtcttc ccaatattta aaaaggacaa naaacaggac ccaggtaact 360 atcgcccaat aagtctcttg gatgtagcct ccaagttata tggcaaacac ttattgaaca 420 agctagaaga ctgggaaaaa tccaataacg tcatccaccc tgaacaagct ggttttagaa 480 gaggacaatc aacaactgac cattgcgtaa ctctccgtta cttagcncaa caaagcatat 540 gnagncctnc taaatacctt tacgctgcat ttgtagatct agcngcagcc tttgactcgg 600 tcaacagaaa ccggctctgg cacaaattan ctggcactaa cattgacagg cgtctcttat 660 ttctgcttca gcagcttcac agcgacancg ccgccagaat aaaagcaggg atttccggtt 720 cttcgacaga ggtgatctct attgaccaaa ggatnaaaca aaggcgtctc ttagccccac 780 ttctattcaa tctttacctt aatgacataa ttaaaangtt atctggccca gaattttttc 840 ttctctcaat tggctctcgc aaaatctcta tccttctgta tgctgacgat atagtcctac 900 tatcctctac tacttacgta ggtctcaaaa agctactgtc caaactctat gatgcgttaa 960 aagaggaatc tttaaatatt aattattcaa aaaccaaagt gatgattttn agaaagaaac 1020 ccagcaantt tcgatgggct ataaataatc agccgatcga tcagtgctgg gtatttaaat 1080 atctaggcgt ttattttaat gaaacgcttt cctggaaatc acacaccaag atagtaaagg 1140 ccacagtcac taaaaccata ggagccatac tgaaattcta tcgcactaaa ggtggccact 1200 taattgatcc tgcnctaaaa ctcttccata gcaaagcagt ggcccaaatt ctttatggag 1260 cagaggtatg gggctgggac gatacacaga ttacaaatct ggaaacctta caaaacagtt 1320 ttcttaaaaa catcttacat ttgcccccta gtatcccggc agctctaatc cgggcagagg 1380 ttggactccc ctcaattaga gcccatgttc atgtggccat aatcaaatac ttaaagaaac 1440 tgaaagtttc ccctgagaac catctgtcaa aattgtgcta tgtccagcta cagaactgta 1500 aggactgggt ttataaatac catagactgc ttcaactcta ttccatctct gaggactcac 1560 aggtcatttc tcaagcaggc accaatctac gcgactggat cttcgatcaa aacgctntgt 1620 ccgacaggct ggctatttta gacacaaatt tttccaggcg gtataggata attaaaagtg 1680 atcacagtag atcattctac ctggtcaatc ttacctttcc taagctcaga caagccttta 1740 cggcaatctg tttccaaacc atgcccactg ccatgatcga aggcagatac cgccggactc 1800 ctctagccca gcgaacctgt atctgtggag cccctgagct agaggacctt ccacattacc 1860 ttttattctg ccccatgtat ctggaaccac gccagaagtt tcttggggta attttaacta 1920 gtattcactc tagaacaata ccggaaaagg taagttactt actgtccgac acggacacgt 1980 acgtaacttt tagagtctct tattttgcac tggccgcttc aaaaatcaga gctaaagcta 2040 ttttagacac tacagttaaa acgacacggt gatgtattgg tctgatgatt ccttttatga 2100 aatcaactct aaaatgttac ctatttttac gctcagaaac tcactctaac tttgttctgt 2160 tttgatcttt ataacttatt ttaaagatca cattgtacct actctttgct ctgtaagtct 2220 tgcaatggcc tttggccaaa agcaataaaa ttctgacctg acctg 2265 // ID L3b_3end repbase; DNA; HUM; 482 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE CR1 Non-LTR Retrotransposon from mammals. XX KW CR1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L3b_3end. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-482 RA Smit A.F.; RT "L3b_3end - CR1 Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC alternative 3' end of L3. XX SQ Sequence 482 BP; 151 A; 61 C; 136 G; 122 T; 12 other; aaaaggatgt ggagaanttg gagagagttc agaggagagc nacaaagatg attaaagggt 60 tggaaaatgg gacctatgag gaaaggttaa aggaactggg attattcagc ctggagaaga 120 gaaggctgag gggngactta ataacagtct tcaagtatat gaagagttat tacatagagg 180 atggtgacca gctgttctcc atctccactg aggacagaac aagaggaaat gggcttaaat 240 tgcagcatga gggatttagg ttagatataa ggaagaattt cctgacagtg agagctgtta 300 aatactggaa tgggttgccg agggagattg tggaatttcc ttctctggag agnctttaaa 360 aatagaatgn atnctcatct gtctgggatg ntttaaaggt aatcctgccc aaagntnggn 420 gnanggattg gactagatga cctctgaggt cctttccaat tctgagattc tatggtttta 480 aa 482 // ID LTR22 repbase; DNA; HUM; 571 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 04-JUN-2009 (Rel. 14.07, Last updated, Version 2) XX DE Long terminal repeat of ERV2 Endogenous Retrovirus from primates. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR22C; LTR22. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-571 RA Smit A.F.; RT "LTR22- a subfamily of endogenous retroviruses from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 6bp duplications, 4-5% divergence from the consensus. XX SQ Sequence 571 BP; 149 A; 118 C; 144 G; 158 T; 2 other; tgttgggatt cactcaggat ggtggcagaa atattaaagg gaaatattag ggaaagttat 60 agggaatagt cacaaacctt tttggaaggc tgaaaggtta catagcttgt aataattgaa 120 caggctgaag gcagccggtt cttaccttag agcattaggt catagggtaa atactaggga 180 caatagaggc ttccccagtt aagtctgttt accctacctc cattaactaa cctttgagcc 240 agatggccct cttgggggag gtcgaccagg gatattgccc cctaatggta tttactttag 300 accgnggtac ctgagcttta atcattcgta gaactactct cttaaccatg ttaattatcc 360 acaagtgtgt tgactcagag cttctgttgt taattgtata ctaaataaat gcctggagtg 420 caagctgctc agggccggcc gcagtgacaa acctctcttg gtgtgcaggc ggtcggacac 480 tcagcnggac tggcaaaaca gaatatctgt gtgtcagtgt acgttttatt catccgtcgt 540 ttgggtcagg gtctgcgggc agacccccgc a 571 // ID LTR77B repbase; DNA; HUM; 700 BP. XX AC . XX DT 31-MAY-2008 (Rel. 13.05, Created) DT 31-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Long terminal repeat of LTR-retrotransposon: consensus sequence. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; LTR77B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-700 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(5), 607-607 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 700 BP; 168 A; 150 C; 175 G; 201 T; 6 other; tgtgtagtaa agaatttaac cttgcccaaa gagaggtctg gcctttgccc ttggcttctg 60 ggaggtaatc tctaagccct tggaatgtca tgcctgatag gagtgtcttt gtttgcctgg 120 gggccttggg tcacactaga tagtctaaca atgtgattta gggtgggggc tggccatacc 180 agaaagacca acaatgtgat ttagggtggg ggctttgggt cacatggtat cagtcyaact 240 ccggagggcc tggagactga gatcaaccay atgggcaatc aatcaatcat gcctatgtga 300 tggagcccca ataaaaactc tgaacaccaa ggctyaggtg agcttccctg gttggcaata 360 ctccatgcat attgtcacac attgatgcca ggaaagtaac actgtctctg actccacagg 420 gagaggacaa ctggaagctc catgtttggt actttcctgg actctgccct atgtactatg 480 tgcctcttcc cttggctgat tttaatctgt atcctttccc tgtaataaac cataacyrtg 540 agtataayag ctttcagtga gttctatgtg agtccttcta gcaaattatc aaacctgagg 600 gtggttttgg gaaccccttg aacttgcagt tggtgtcaga agtgagggtg gtcttgtgtg 660 gactgtgtcc ctctaacttt acagttggct aactttcaca 700 // ID LTR88c repbase; DNA; HUM; 862 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; Gypsy?; LTR; KW LTR88c. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-862 RA Smit A.F.; RT "LTR88c - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC 4 bp TSD; 3' end matches LTR85, which is tentatively a Gypsy CC LTR. ~80% similar to LTR88b. Many CpGs. Middle region poorly CC defined. Outrageous substitution level (>35% in borEut13) partly CC due to CpGs. XX SQ Sequence 862 BP; 178 A; 211 C; 308 G; 141 T; 24 other; tgtagcaggg gtcccagctt gagcctaagc tgtgttcacc ctaggattca gacatgtctg 60 ggcatgtctg gaggactggt ggggcgggcc cgccaggggt ctatttgcat gagggaccga 120 ggagcctcct gggaaagaac tcatcctaag ggaagagaga gtcgaggcac acaagtttgg 180 tccaaggaca gtgggccagn gtcggagggg aggggcgatt ctgagtacag cacggtgtct 240 gtcactcaga ttgtcctccg gcccagcccc catggactca tgcctgagtc ctagggagag 300 gggactgcaa taaaagagca agtaaaaact aaaagagctg tttcactaaa atctccgtgg 360 gacattgaga gcgcaagncg tcagcagcgt tggcgccggc agcgncagcg gcgacggngg 420 cgtagcacag agtggngaaa gggggcagtc tcncccactt cggctgggan cgcagcgtgg 480 ctncggnnac ctgnngcacc ggtgacctga nacgttgncc tgaggagcgg cggcacgana 540 gcagcaggcg gcagcggcct cggcagcgcc tttggcggtc tcgcggaggg cgccggcggc 600 acggcggcgc tgcaggagct ggcanctggc gcgagacagt gcccggcgga gcggcagngg 660 cgccnagtgg aancagactt gttcgcgagc acacgtgaga caccccctgg ggactcccag 720 aaatanttgg ggagganttt gaagggggct ggagttccgc gngagcgggt gggggcaaga 780 gccagagaaa tatngnttat tgctgttatg tgaccctatt tttaccccca ggctggtgtg 840 gcctggggaa acacgggtta ca 862 // ID ZOMBI_C repbase; DNA; HUM; 333 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 2) XX DE Medium reiteration frequency repeat, non-autonomous DNA DE transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW MER46; ZOMBI; ZOMBI_C; nonautonomous DNA transposon. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-333 RA Jurka J. and Kapitonov V.V.; RT "ZOMBI_C."; RL Direct Submission to Repbase Update (MAY-1998). XX DR [1] (Consensus) XX CC Subfamily of non-autonomous ZOMBI transposons. CC 26 bp terminal inverted repeats, TA target site duplication. CC ZOMBI_C is 72% identical to ZOMBI_B. CC Individual copies are about 81% identical to the consensus. XX SQ Sequence 333 BP; 109 A; 62 C; 52 G; 110 T; 0 other; caggtccaca atcccttatc tacaattcta aaatccaaaa agctctgaaa actaaaagtt 60 tttttataat ttgaaactca tttggcagca aaacctgacc tgaactgata tgaggctatt 120 tatagtcttt atttatccca cttagtgtga atattcatat atttcactgc agaaatatta 180 atgtgtttga ttatagggtg ctgccccaga ccccactggg ggtgttatat aatatatagt 240 atatgcacta tattaccttt ctaaaatcta aaaaattctg aattctgaaa cacatctggc 300 cccaaggatt tcagataagg gattgtggac ctg 333 // ID L1PA16_5 repbase; DNA; HUM; 4083 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 07-FEB-2000 (Rel. 5.01, Last updated, Version 2) XX DE Primate L1PA16_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L180; L1PA16_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1696 RA Smit A.F.; RT "L1PA16_5."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1697-4083 RA Jurka J.; RT "L1PA16_5."; RL Direct Submission to Repbase Update (JAN-2000). XX CC 5' end of LINE elements with L1PA15-16 subfamily 3' ends, CC comprising CC the 5' UTR and extending to position 3296 relative to L1 sequence CC in CC this database. The UTR region from 714 to 1238 contains 5 (a CC variable CC number of) 113 bp tandem repeat units. ~77% identity with L1. XX SQ Sequence 4083 BP; 1461 A; 951 C; 825 G; 799 T; 47 other; tttttttccc aagatggcgg attagaggct tttagtatgc ctcagccact tggaaatggn 60 aaaatagtgc ataaagatca actctgtgag ctttaattca agaaggaaaa tgggaatcca 120 ccataatcgt gaaggacacc ccagatccta gggaggagaa tgtnggcaaa cagcccctat 180 gatggcgtcc agctgataaa agtgagtgaa gccccagtac gcgagagagg cagagagtct 240 ccctctgtga ctcacttttc cactggggat ccgagcaacc caggccaagg gagaacactt 300 tgtttctccc aagccctgga gctaacgtgg ggagaggctt ggagatgctg tgagggaaag 360 acaccgggaa aagctgcaga cattttccca gacctaggam caagagcagg atgccatttt 420 taatccgggc gcatacaaag tcagccattc tttggcgacc cggcagcgtg gccgcgcagg 480 cattttagtc tcaggccaga gattggagcg cctgctctgg agtagggtag gggcctccac 540 agccagaact gtgaaaagcg cctcagcagt aggcgctgga attgtgctct cccctactgc 600 aagcctgggg cgggaggaga gctgctacag ctgcagtttc tcctgggcgg cgagacttgc 660 agccagggcc agcttggcga cctggaactg gtctgtgtgt gccattgctg ggtgccccag 720 cctgctcccc tgagatcgtg gtgcagsggg gccctctctg ctccacgccc aggcagatct 780 ccaggcattc agagcacccg ctcgcctggw tcagcagcct gagccgcccc acccttcctg 840 kgcatagatc gtggtgcags ggggccctct ctgctccacg cccaggcaga tctccaggca 900 ttcagagcac ccgctcgcct ggwtcagcag cctgagccgc cccacccttc ctgkgcatag 960 atcgtggtgc agsggggccc tctctgctcc acgcccaggc agatctccag gcattcagag 1020 cacccgctcg cctggwtcag cagcctgagc cgccccaccc ttcctgkgca tagatcgtgg 1080 tgcagsgggg ccctctctgc tccacgccca ggcagatctc caggcatctg gagcacccac 1140 tctcctggat taggagttta agccgcccca cccttcccgt gcagagaact tggggctgag 1200 gaggtttccc tgctccacgc ctaggcacac ctctgggcgc ttggtggctg cccactggat 1260 tctcccttgg cgctggcgct tgtgcccgcc atcgggagat ctgtaggcgg acctgcctag 1320 tccggcccca cccatcttgg mccccgcccc tccagggctg agcagrsagt tcagancact 1380 ntgcattcca tgcatcagcc cattkcctga ggcaacagag agcttctncc agtaaacaag 1440 gatcaaatat atacccagcc acactggccg tagctagctc ttacctataa gcgccatcta 1500 ctggcttgta ggtcaaactg cacwgcccaa tataaaacct gctaaaagaa gtgcataggg 1560 ctatagaagc aaagccaaaa gaccataccc agcattctct acagtcacac cmcctaggga 1620 ggaggagaaa ggaaagggaa agaaaaaaca ccaataatat tatagggaaa gaaagaaaag 1680 aaaaaaccct actcncatga aaataattac aaaaattaga agtgccagca tctccagatg 1740 agaaggaacc agcacaagaa ttctggcacc atgaaaaatc tgaatgttgt gacaccacca 1800 aaggatcaca ctagctctcc agcaatggty cctaaccaaa atgaaaactc agaaatgaca 1860 gataaagaat tcaaagcatg gattgcaagg aagctcaatg agatccaaga caaggttgaa 1920 aatcaacaca aagaaacttc taaagcaatc caggaaatga aggaagagat aaatatctta 1980 aaaaaaaatc aatcagaact tctggaattg aaaaactcac ttaaggaatt tcaaaataca 2040 attgaaagct ttawcaatag actagaccaa gcagaagaaa gaatttcaga gcttgaagac 2100 tggtcttttg aattaaccca gtcagacaaa aataaagaaa aaagaatttt aaaaaatgaa 2160 caaagtctty aagaaatatg ggattatgta aagtgaccaa acctatgaat tattggcatt 2220 cctgagagag aagaagaaaa aagtaaacaa cytggaaaac atatttgagg gaaataattc 2280 aagaaaattt ccctaatctt gctagagagg tagacatcca gatacaagaa attcagagaa 2340 cacctgtgag atactataca aaatgaacat caccaaggca tatagtcatc agactrtcca 2400 aggtcaatgc taaagaaaaa aaaaatctta aaggcagcta gagaaaaagg tcagatcacc 2460 tacaaaggga accccatcag gctaacagca gacttctcag cagaaacctt acaagccaga 2520 agagattggg ggcctatttt cagcattctt aaagaaaaga aattccaacc aagaatttya 2580 tatcctgcca aactaagctt cataaatgaa ggagaaataa aatcttttcc agacaagcaa 2640 atgctaaggg aatttrttac cactagacca gccttacaag aratccttaa gggaagttct 2700 aaacatggaa acaaaagaat aatacctgct accacaaaaa cacacttaag tacatagccc 2760 acagacccta taaagcaact acacaataga aactacaaag caaccagcta acaacatcat 2820 gataggatag ataggatcaa aacctcacat atcaatatta accttgaatg taaatggtct 2880 aaatgcccca cttaaaagrc acagagtggc aaattggata aaaaaaaaaa aaacaagacc 2940 catccatctg ctgtcttcaa gagacccatc tcacatgtaa tgacacccat aggctcaaag 3000 taaagggttg gagaaagatc tatcatgcaa atggaaaaca aaaaaagagc aggggtcgct 3060 attcttatat cagataaaac agactttaaa ccaacaacag taaaaaaaga caaagaaggg 3120 cattacataa tgataaaggg ttcaattcaa caagaagact taactatcct aaatatatat 3180 gcacccaaca ttggagcacc cagattcata aaacaagtac ttctagacct aygaaaagac 3240 ttagacagcc anacaataga cagcctgtca ataganatag ccacacaata atagtggggg 3300 amcttcaaca ccccactgac agcattagac agatcatyaa ggcagaaaac taacaaagaa 3360 attctggact taaatttgac acttgaccaa ttggacctaa tagacatcta cagaayactc 3420 cacccawcaa ccacagaata tacattcttc tcatctgcac atggaacata ctctaagatt 3480 gaccacatgc ttggccataa agcaagtctc aataaattta aaaaaaaaat caaaatcata 3540 ccaascatac tctcagacca cagtggaata aaaatagaaa tcaataccaa gaagatctct 3600 caaaaccaca caattacatg gaaattaaac aacttgctcc tgaatgactt ttgggtaaac 3660 aataaaatta aggcagaaat taaaaaattc tttgaaataa atgaaaayag agacacaaca 3720 taccaaaatc tctgggatac agcaaaagca gtgttaagag gaaagtttat agcactaaat 3780 gcctacatca aaaagttaga aagatctcaa attaacaatc nnccwctaac atcacaccta 3840 gaggaactag aaaaacaaga acaaactaaa cccaaagcta gcagaagaaa agaaataact 3900 aaaatcagag cagaactgaa tgaaattgag acccaaaaat ccaaaacaaa acaaaaaaac 3960 atacaaagga tcaatgaaac caaaagttgg ttctttgaaa ggataaacaa gattgataga 4020 ccactagcta gattaacaaa gaaaganann agagaagatt caaataagca caatcagaaa 4080 tga 4083 // ID MER31 repbase; DNA; HUM; 483 BP. XX AC . XX DT 27-JAN-1997 (Rel. 2, Created) DT 07-MAY-1999 (Rel. 4.04, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group. XX KW Endogenous Retrovirus; Transposable Element; LTR; MER31; KW MER4I group; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 315-478 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 149-479 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-483 RA Smit A.F.; RT "MER31."; RL Direct Submission to Repbase Update (1996). XX DR [3] (Consensus) XX CC Putative retroposon LTR; related to MER67. XX SQ Sequence 483 BP; 100 A; 156 C; 84 G; 138 T; 5 other; tggtgacaaa gactctctcc ttgaccaaac tttagtcagg ctcctctgag ccctcttctc 60 aactaagccc cgaccttggg cyctgtcctt ggcctgcwna gtccagtttt agcaagaatc 120 ctgctaagtc agtttagaga gaatccccca ccctcgatat ctgatcaggt tcctcatcct 180 ccgccatccc ccaggcgatg tctgatcacc ctggcctgcc ttcagcaaga atcctgttag 240 gtcagtttag cmagaatccc cctacccctg atgtytcctc ttagtaattt tccatccact 300 gacccccacc ctgctccttg gctataaatc cccacttgtc cttgctgtat tcggagttga 360 gcccaatctc tctcccctac tgcaaaatcc cattgcagtg gtccctgtac ctatcgcaat 420 ggtcctgaat aaagtctgcc ttaccgtgct ttaacaagtg tcgttgaata attttctctg 480 aca 483 // ID LTR11 repbase; DNA; HUM; 684 BP. XX AC X16660; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE LTR from human HTLV-I related endogenous retroviral sequence DE (HRES-1/1). XX KW LTR Retrotransposon; Transposable Element; endogenous retrovirus; KW LTR11; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-684 RA Perl A.; RT "Direct submission."; RL Direct Submission to EMBL/GenBank/DDBJ (23-AUG-1989). Perl A., RL Roswell Park Memorial Institute, 666 Elm Street, Buffalo, NY RL 14263, USA. XX RN [2] RP 1-684 RA Perl A., Rosenblatt D.J., Chen S.I., DiVincenzo P.J., Bever R., RA Poiesz J.B. and Abraham N.G.; RT "Detection and cloning of new HTLV-related endogenous sequences RT in man."; RL Nucleic Acids Res 17(17), 6841-6854 (1989). XX DR GenBank; X16660; Positions 310 993. XX SQ Sequence 684 BP; 241 A; 141 C; 151 G; 151 T; 0 other; tgtgtttctg caggatgtac agccctccca gcacggtgct cgcttcccta atgccattcc 60 acagtatttg ttgcagagaa ggaaggcagc atgccaggac agatggagac aggactaatt 120 tggcctgagg tatgtaattt tgaacttgag cctctctctg ggactgtaaa actccaaatc 180 aaagctaatc tgagaataca tacatctgaa agatgattag gactgtaaac atctattaat 240 attcaactct gatacaaagt acaagttgtt tattcttacc acgcaaggcc aaaaaagggg 300 agaaaaaaaa aaaagcacac agcatatgca ctggaaagtt tcgcttattc aaaacagtat 360 ttgtcaagca cctccagtct ggtgctgcag gggaaacaaa gattaaacag ccaggcggac 420 actgctctgc ttccaaggtg cttacggtct taagaaggag acaagacatg tttataaata 480 gccaaaatgc aacccagaaa aggctaaaaa acactgagag ggagggagaa ataaacgaag 540 caagaggtct ccggaggaag agatgaatga attagcctat taataactcc gtcactgtaa 600 tcccaatgta aagcaagaat tccaaaccag gaaaggtcaa actgaagtat ttgaggaaca 660 caggcgtcgc ctaagccctt caca 684 // ID MER121 repbase; DNA; HUM; 399 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 12-NOV-2010 (Rel. 15.12, Last updated, Version 3) XX DE Interspersed repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; MER121. XX NM MER121. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 30-289 RA Jurka J.; RT "MER121."; RL Direct Submission to Repbase Update (31-AUG-2000). XX RN [2] RA Smit A.F.A.; RT "MER121."; RL Direct Submission to Repbase Update (30-MAR-2004). XX RN [3] RA Kamal M., Xie X. and Lander E.S.; RT "A large family of ancient repeat elements in the human genome is RT under strong selection."; RL Proc Natl Acad Sci U S A 103(8), 2740-2745 (2006). XX RN [4] RA Jurka J.; RT "MER121."; RL Direct Submission to Repbase Update (10-NOV-2006). XX RN [5] RP 3-396 RA Smit A.F.A.; RT "MER121."; RL Direct Submission to Repbase Update (30-NOV-2007). XX RN [6] RP 1-399 RA Kapitonov V.V. and Jurka J.; RT "MER121 is a DNA transposon that belongs to the hAT RT superfamily."; RL Direct Submission to Repbase Update (10-NOV-2010). XX DR [6] (Consensus) XX CC Originally this element was discovered in the human genome and CC described by 270-bp long consensus sequence [1]. It was also CC preliminarily classified as a "possible nonautonomous DNA CC transposon", although none of structural hallmarks of DNA CC transposons were detected at the time [1]. In 2004, an updated CC 412-bp version of the MER121 consensus was obtained [2]. In 2006 CC it was shown [3] that MER121 is a conserved element: all CC mammallian genomes contain a few hundreds conserved copies of CC MER121 at orthologous positions. In 2007, the MER121 consensus CC sequence was improved and characterized by 15-bp TIRs, including CC TA termini [5]. Based on this observation, MER121 was classified CC as a putative Mariner DNA transposon, characterized by the TA CC target-site duplications [5]. Later, MER121 was re-classified as CC a member of the hAT superfamily of DNA transposons, based on CC observation of 8-bp target site duplications around some of CC full-length copies [6]. It was also noticed that the 13-bp TIRs CC of MER121 are similar to TIRs of some hAT transposons from frogs CC and fish, e.g. hAT-N2_XT [6]. XX SQ Sequence 399 BP; 111 A; 90 C; 71 G; 126 T; 1 other; tagggatggg cgaaccggcc gcgttttggg ttcgtcgaac atctcaaact attttcaaac 60 gttttgggtt cggcaaaacc caaaacgcat ttttgccaag cacttttccc cttaattttt 120 aaacccatgt gtatttcaag ggaaatttaa tccatatgtt tctgattcat ttacacttaa 180 ctcatcaaaa tgttgttttg taagagctat ttgatgtcca agaagccttt tgagcctttt 240 aatagctttt ctaaaccttt ttccccttag aaacaggaag tcgcattttg ccaagagtaa 300 acgaactcga acccaaaagg ttcgagttcg gttcgaaact cgaacccagg agttcaagtg 360 ggttctaaac ttggcaaaac cattctctcc catccctam 399 // ID L1PREC1 repbase; DNA; HUM; 6460 BP. XX AC . XX DT 05-OCT-2000 (Rel. 5.09, Created) DT 05-OCT-2000 (Rel. 5.09, Last updated, Version 1) XX DE L1PREC1 is a subfamily of L1 - a consensus sequence. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 subfamily; KW L1P3B_5; L1PA8A; L1PAXX_5; L1PREC1; LINE1; ORF1; ORF2; KW endonuclease; reverse transcriptase. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-606 RA Jurka J.; RT "L1PREC1."; RL Direct Submission to Repbase Update (MAR-1999). XX RN [2] RP 607-1608 RA Jurka J.; RT "L1PREC1."; RL Direct Submission to Repbase Update (JAN-2000). XX RN [3] RP 5565-6460 RA Smit A.F.; RT "L1PREC1."; RL Direct Submission to Repbase Update (03-MAY-2000). XX RN [4] RP 1-6460 RA Kapitonov V.V.; RT "L1PREC1."; RL Direct Submission to Repbase Update (04-OCT-2000). XX DR [4] (Consensus) XX CC It is a complete consensus sequence of the L1PREC1 subfamily of CC L1. Average divergence of L1PREC1 copies from the consensus CC sequence CC is 7%. 5'- and 3'-ends of L1PREC1 were reported as L1P3B_5 [1-2] CC and CC L1PA8A [3], respectively. CC A putative 341aa RNA-binding protein is encoded by CC ORF1 (position 1331-2356): CC MRKNQRKNTENPKGQSASSPPNDRNASPARAQNWTEDEMDELTEVGFRRWVIKNSAELKEHVLTQCKEAK CC NLDKRLEELLTRITSLERNINDLMELKNTARELCEAYTSINSRIDQAEERISEFEDHLAEIRHADKIREK CC RMKRNEQSLQEIWDFVKRPNLRLIGVPEGDGENGTKLENTLQDIIQENFPNLARQANMQIQEIQRTPLRY CC STRRSTPRHIIIRFSKVEMKEKMLRAAREKGQVTYKGKPIRLTADLSAETLQARREWGPIFNILKEKNFQ CC PRISYPAKLSFISEGEIKSFPDKQMLRDFVTTRPALQELLKEALNMERKNRYQPLQKHTKI CC A 1210aa protein composed of the endonuclease and reverse CC transcriptase domains is encoded by ORF2 (position 2616-6248): CC MESKKKAGVAILVSDKTDFKPTKIKKDKEGHYIMVKGSIQQEELTILNIYAPNTGAPRFIKQVLRDLQRD CC LDSHTIIVGDFNTPLSILDRSTRQKINKDIQDLNSALDQVDLIDIYRTLHPKSTEYTFFSVPHGTYSKID CC HIIGSKTLLSKCKRTEIITNSLSDHSAIKLELRIKKLTQNHTITWKLNNLLLNDSWVNNEIKAEIKKFFE CC TNENKETTYQNLWDTAKAVLRGKFIALNAHIRKLERSQIDTLTSQLKELERQEQTNPKASRRQEITKIRA CC ELKEIETQKTLQKINESRSWFFEKINKIDRPLARLIKKKREKNQIDTIKNDKGDITTDPTEIQTTIREYY CC KHLYANKLENLEEMDKFLDTYTLPRLNQEEVESLNRPITSSEIEAVINSLPTKKSPGPDGFTAEFYQRYK CC EELVPFLLKLFQTIEKEGLLPNSFYEASIILIPKPGRDTTKKENFRPISLMNINAKILNKILANRIQQHI CC KKLIHHDQVGFIPGMQGWFNIRKSINVIHHINRTNDKNHMIISIDAEKAFDKIQHPFMLKTLNKLGIDGT CC YLKIIRAIYDKPTANIILNGQKLEAFPLKTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGIQIGREEV CC KLSLFADDMIVYLENPIISAQKLLKLISNFSKVSGYKINVQKSQAFLYTNNRQAESQIMNELPFTIATKR CC IKYLGIQLTRDVKDLFKENYKPLLKEIREDTNKWKNIPSSWIGRINIVKMAILPKVIYRFNAIPIKLPLT CC FFTELEKTTLNFIWNQRRPRIAKTILSKKNKAGGITLPDFKLYYKATVTKTAWYWYQNRHIDQWNRTETS CC EITPHIYNHLIFNKPDKNKQWGKDLLFNKWCWENWLAICRKLKLDPFLTPYTKINSRWIKDLNVKPKTIK CC TLEENLGNTIQDIGMGKDFMTKTPKAIATKAKIDKWDLIKLKSFCTAKETIIRVNRQPTEWEKIFAIYPS CC DKGLISRIYKELKQIYKKKTNNPIKKWAKDMNRHFSKEDIYAANKHMKKSSTSLIIREMQIKTTMRYHLT CC PVRMAIIKKSGNNRCWRGCGEIGTLLHCWWECKLVQPLWKTVWRFLKDLEPEIPFDPAIPLLGIYPKEYK CC SFYYKDTCTRMFIAALFTIAKTWNQPKCPSMIDWIKKMWYIYTMEYYAAIKKNEIMSFAGTWMKLEAIIL CC SKLTQEQKTKHHMFSLISGS CC L1PREC1 is a putative recombination product of two different CC subfamilies of L1. Its 5'-portion (position 1-1739) is 68% CC identical CC to a 5'-portion of L1 (position 2-1428) whereas the remaining CC portion CC of L1PREC1 (position 1740-5714) is 93% identical to the remaining CC portion of L1 (position 1430-5403). The recombination position, CC 1740, CC splits the RNA-binding protein encoded by ORF1 into 2 domains: CC the first 137-aa domain is only 49% identical to the CC corresponding CC portion of a protein encoded by ORF1 in L1. XX SQ Sequence 6460 BP; 2445 A; 1522 C; 1310 G; 1183 T; 0 other; ggggcggggc caagatggcc aactagaaac agcagcgatc agaggctccc atcgaaaaga 60 accataatta gcgtgtgaat ccttcaccgg caaccaaggt atccaggttc tctcatcaga 120 actgactagg cggctgacgt gatccacgga gaggaaggaa gagcagtgtg gtgcggcggc 180 ccacctgaga gccgcacggg gcaggggagc ccccaccccc cagccaaggg aggcggtgag 240 tgagcgtgct acccagccgg ggaaaccgtg ctttttccac ggaactgtgc aacccacgga 300 tcggaagatc ccactcgcga acccacgcca ccggggccta gggtcccaac cctggagccg 360 cgcagattct caacagcctc tcagctggaa tctgcttaag cctgccgagc tcccgggggg 420 aggggcgacc agcaccacag ctgcggctgc ctgctgccta agccatttga gctccttggg 480 ggaggggcag cagccagcac tgggactcat aactgcctaa cacactaagc tccctgggcg 540 ggggaagggc ggcagccatc tctatagctc caggccgcgc ttttcccctg ctggagccag 600 ggaggctgga cggcttggtc cccaagaggt gtcccccaca gcccaacaca ccggctgtgg 660 cagactgtgg ccagagcgcc tcttcaggcc tgaccctgac acatccttcc tcactgggcg 720 gggcttccct gcaggaactc caacaactcc agccagaggc tcagggacag aacccggatc 780 tccctgggcc tgagccccta gagggagggg tggccgcagt ctctgcggac cagcagactt 840 agcctttcct cctggtagtt ctgaggaatc cgggcagccc agatgagtgg gtttcccccc 900 agcgaagcac accccctcca ccaagggaca gtcaaagtgc ttcattaaat gggtcctgtt 960 ccctgtgcca cccaactggg tgagaccctc caacaggggt tgtcagacac cctatacagg 1020 agcgatccta ctggcatcag gttggtgccc ctcgaggtca gagatcccag aagaaggagc 1080 aggcacccat ctttgctgtt ctccagcctc cttgagtgac atctccaggc gcgggagcga 1140 accagatgaa cagggcctga agtgaacccc cagcaaaccg cagcagccct gcagaagagg 1200 gacctgacca ttgaaagaaa aacaaacaaa cagaaagcaa caacagcatc atcaacaaca 1260 aaaagtcccc acaaaaaccc catccaaggg tcagcagcct caaagatcaa aactagacaa 1320 actcacgaag atgagaaaga atcaacgaaa aaacactgaa aacccaaaag gccagagtgc 1380 ctcttctcct ccaaatgatc gcaacgcctc tccagcaagg gcacagaact ggacggagga 1440 tgagatggac gaattgacag aagtaggctt cagaagatgg gtaataaaaa actccgctga 1500 gctaaaggag catgttctaa cccaatgcaa agaagctaag aaccttgata aaaggttaga 1560 ggagctgcta actagaataa ccagtttaga gaggaacata aatgacctga tggagctgaa 1620 aaacacagca cgagaacttt gtgaagcata cacaagtatc aatagccgaa tcgaccaagc 1680 ggaagaaagg atatcagagt ttgaagacca ccttgctgaa ataagacacg cagacaagat 1740 tagagaaaaa agaatgaaaa ggaatgaaca aagcctccaa gaaatatggg actttgtaaa 1800 aagaccgaac ctacgattga ttggagtacc tgaaggagac ggggagaatg gaaccaagct 1860 ggaaaacaca cttcaggata ttatccagga gaacttcccc aacctagcaa gacaggccaa 1920 catgcaaatt caggaaatac agagaacacc actaagatac tccacgagaa gatcaacccc 1980 aagacacata atcatcagat tctccaaggt cgaaatgaag gaaaaaatgt taagggcagc 2040 cagagagaaa ggccaggtca cctacaaagg gaagcccatc agactaacag cagacctctc 2100 agcagaaact ctacaagcca gaagagagtg ggggccaata ttcaacattc ttaaagaaaa 2160 gaattttcaa cccagaattt catatccagc caaactaagc ttcataagtg aaggagaaat 2220 aaaatccttt ccagacaagc aaatgctgag ggattttgtt accaccaggc ctgccttgca 2280 agagctcctg aaagaagcac taaatatgga aaggaaaaac cggtaccagc cactgcaaaa 2340 acacaccaaa atataaagac caatgacact atgaagaaac tgcatcaact agtgtgcaaa 2400 ataaccagct agcatcatga tgacaggatc aaattcacac ataacaatac taaccttaaa 2460 tgtaaatggg ctaaatgccc caattaaaag acacagactg gcaaattgga taaagagtca 2520 agacccatcg gtgtgctgta ttcaggagac ccatctcaca tgcaaagaca cacataggct 2580 caaaataaag ggatggagga aaatttacca agcaaatgga aagcaaaaaa aaagcagggg 2640 ttgcaatcct agtctctgac aaaacagact ttaaaccaac aaagatcaaa aaagacaaag 2700 aagggcatta cataatggta aagggatcaa ttcaacaaga agagctaact attctaaata 2760 tatatgcacc caatacagga gcacccagat tcataaaaca agttcttaga gacctacaaa 2820 gagacttaga ctcccacaca ataatagtgg gagactttaa caccccactg tcaatattag 2880 acagatcaac gagacagaaa attaacaagg atattcagga cttgaactca gctctggatc 2940 aagtggacct aatagacatc tacagaactc tccaccccaa atcaacagaa tatacattct 3000 tctcagtgcc acatggcact tattctaaaa tcgaccacat aattggaagt aaaacactcc 3060 tcagcaaatg caaaagaact gaaatcataa caaacagtct ctcagaccac agtgcaatca 3120 aattagaact caggattaag aaactcactc aaaaccacac aattacatgg aaattgaaca 3180 acctgctcct gaatgactcc tgggtaaata acgaaattaa ggcagaaatc aagaagttct 3240 ttgaaaccaa tgagaacaaa gagacaacat accagaatct ctgggacaca gctaaagcag 3300 tgttaagagg gaaatttata gcactaaatg cccacatcag aaagctagaa agatctcaaa 3360 tcgacaccct aacatcacaa ttaaaagagc tagagaggca agagcaaact aatccaaaag 3420 ctagcagaag acaagaaata actaagatca gagcagaact gaaggagata gagacacaaa 3480 aaaccctcca aaaaatcaat gaatccagga gctggttttt tgaaaaaatt aacaaaatag 3540 atagaccact agctagacta ataaagaaga aaagagagaa gaatcaaata gacacaataa 3600 aaaatgataa aggggatatc accactgacc ccacagaaat acaaactacc atcagagaat 3660 actataaaca cctctatgca aataaactag aaaatctaga agaaatggat aaattcctgg 3720 acacatacac cctcccaaga ctaaaccagg aagaagtcga atccctgaat agaccaataa 3780 caagttctga aattgaggca gtaattaata gcctaccaac caaaaaaagc ccaggaccag 3840 atggattcac agccgaattc taccagaggt acaaagagga gctggtacca ttccttctga 3900 aactattcca aacaattgaa aaggagggac tcctccctaa ctcattttat gaagccagca 3960 tcatcctgat accaaaacct ggcagagaca caacaaaaaa agaaaacttc aggccaatat 4020 ccctgatgaa catcaatgcg aaaatcctca ataaaatact ggcaaaccga atccagcagc 4080 acatcaaaaa acttatccac cacgatcaag tcggcttcat ccctgggatg caaggctggt 4140 tcaacatacg caaatcaata aacgtaatcc atcacataaa cagaaccaat gacaaaaacc 4200 acatgattat ctcaatagat gcagaaaagg cctttgataa aattcaacat cccttcatgt 4260 taaaaactct caataaacta ggtattgatg gaacatatct caaaataata agagctattt 4320 atgacaaacc cacagccaat atcatattga atgggcaaaa gctggaagca ttccctttga 4380 aaactggtac aagacaagga tgccctctct caccactcct attcaacata gtattggaag 4440 ttctggccag ggcaatcagg caagagaaag aaataaaggg tattcaaata ggaagagagg 4500 aagtcaaatt gtctctgttt gcagatgaca tgattgtata tttagaaaac cccatcatct 4560 cagcccaaaa actccttaag ctgataagca acttcagcaa agtctcagga tacaaaatca 4620 atgtgcaaaa atcacaagca ttcctttaca ccaacaatag acaagcagag agccaaatca 4680 tgaatgaact cccattcaca atcgctacaa agagaataaa atacctagga atacagctta 4740 caagggatgt gaaggacctc ttcaaggaga actacaaacc actgctcaag gaaataagag 4800 aggacacaaa caaatggaaa aacattccat cctcatggat aggaagaatc aatatcgtga 4860 aaatggccat actgcccaaa gtaatttata gattcaatgc tattcccatc aaactaccat 4920 tgacattctt cacagaatta gaaaaaacta ctttaaattt catatggaat caaagaagac 4980 cccgtatagc caagacaatc ctaagcaaaa agaacaaagc tggaggcatc acgctacctg 5040 acttcaaact atactacaag gctacagtaa ccaaaacagc atggtactgg taccaaaaca 5100 gacatataga ccaatggaac agaacagaga cctcagaaat aacaccacac atctacaacc 5160 atctgatctt caacaaacct gacaaaaaca agcaatgggg aaaggatctc ctattcaata 5220 aatggtgctg ggaaaactgg ctagccatat gcagaaaact gaaactggac cccttcctta 5280 caccttatac aaaaattaac tcaagatgga ttaaagactt aaatgtaaaa cccaaaacca 5340 taaaaaccct agaagaaaac ctaggcaata ccattcagga cataggcatg ggcaaagact 5400 tcatgacgaa aacgccaaaa gcaattgcaa caaaagccaa aattgacaaa tgggatctaa 5460 ttaaactaaa gagcttctgc acagcaaaag aaactatcat cagagtgaac aggcaaccta 5520 cagaatggga gaaaattttt gcaatctacc catctgacaa aggtctaata tccagaattt 5580 acaaggaact taaacaaatt tacaagaaaa aaacaaacaa ccccatcaaa aagtgggcaa 5640 aggatatgaa cagacacttc tcaaaagaag acatttatgc ggccaacaaa catatgaaaa 5700 aaagctcaac atcactgatc atcagagaaa tgcaaatcaa aaccacaatg agataccatc 5760 tcacgccagt cagaatggcg attattaaaa agtcaggaaa caacagatgc tggcgaggct 5820 gtggagaaat aggaacgctt ttacactgtt ggtgggaatg taaattagtt caaccattgt 5880 ggaagacagt gtggcgattc ctcaaggatc tagaaccaga aataccattt gacccagcaa 5940 tcccattact gggtatatac ccaaaggaat ataaatcatt ctactataaa gacacatgca 6000 cacgtatgtt tattgcagca ctatttacaa tagcaaagac atggaaccaa cccaaatgcc 6060 catcaatgat agactggata aagaaaatgt ggtacatata caccatggaa tactacgcag 6120 ccataaaaaa gaatgagatc atgtcctttg cagggacatg gatgaagctg gaagccatca 6180 tcctcagcaa actaacacag gaacagaaaa ccaaacacca catgttctca ctcataagtg 6240 ggagttgaac aatgagaaca catggacaca gggaggggaa caacacacac cggggcctgt 6300 cggggggtgg ggggcgaggg gagggagagc attaggagaa atacctaatt tagatgatgg 6360 gtcgataggt gcagcaaacc accatggcac acgtatacct atgtaacaaa cctgcacgtt 6420 ctgcacatgt atcccggaac ttaaagtaaa atttaaaaaa 6460 // ID ALRb repbase; DNA; HUM; 171 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 14-NOV-2005 (Rel. 10.11, Last updated, Version 1) XX DE SAT Satellite from primates. XX KW SAT; Satellite; Simple Repeat; ALRY-MAJOR_PT; ALRb; ALRa. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-171 RA Smit A.F.; RT "ALRb_ - SAT Satellite from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 75% identical to ALRa. XX SQ Sequence 171 BP; 54 A; 27 C; 33 G; 54 T; 3 other; ttgtggaatt tgcaagtgga gatttcaagc gctttgaggc caawnktaga aaaggaaata 60 tcttcgtata aaaactagac agaataattc tcagtaactt ctttgtgttg tgtgtattca 120 actcacagag ttgaaccttc ctttagacag agcagatttg aaacactctt t 171 // ID LTR9 repbase; DNA; HUM; 612 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 5) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HUERS-P3; KW HuRRS-P; LTR9; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kroeger B. and Horak I.; RT "Isolation of novel human retrovirus-related sequences by RT hybridization to synthetic oligonucleotides complementary to the RT tRNA(Pro) primer-binding site."; RL J. Virol 61(7), 2071-2075 (1987). XX RN [2] RA Harada F., Tsukada N. and Kato N.; RT "Isolation of three kinds of human endogenous retrovirus-like RT sequence using tRNA pro as a probe."; RL Nucleic Acids Res 15, 9153-9162 (1987). XX RN [3] RA Smit A.F.; RT "LTR9."; RL Direct Submission to Repbase Update (1996). XX RN [4] RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [4] (Consensus) XX CC LTR9 long terminal repeats flank sequences like HUERS-P3 and CC HUERS-P3B. CC 4 bp target site duplications. Represents one of the youngest of CC many CC subfamilies of LTR9-ERVs, with copies on average 13% diverged. XX SQ Sequence 612 BP; 157 A; 170 C; 145 G; 139 T; 1 other; tgatacagga gttaagaaga aatcacttag gcagatagta agggtatggg agtcctcggt 60 aaggcttttc tttttaatga aaagcagccc caaatcattt tctaacaaag agcagcctgt 120 aaagtcgagc tgcagacata gacaagcaag ctgggagctt gcacgggtga atgccggcag 180 gaactaggga ctagacatgt tcaagatggc ggctccatct tcccttctct gccagccacg 240 tgtacagtaa ggagcagaca agatggcgcc ggccaagtgg aaagcccatt tgcataataa 300 gattagggtg gggcgaccag ccttccccgc gcgctatgta aacgtcatac ctgatcgaac 360 caatctgtga gccctacgta aatcagacac cgcctcctca agccggacta taaaatccgg 420 cgcatccgcc accagccggt cctttccgct cggaagaccc ctctctctat agagagagct 480 gtttctcttt ctcttctctt ctgcctatta aacctccgct cctaaactcc tcgtgtgtgt 540 ccgtgtccta aattttcctg gcgcgngacg acgaaccccg gggtatatac cccagacaac 600 gtagccgctt ca 612 // ID Tigger16b repbase; DNA; HUM; 337 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Mariner/Tc1 DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; Tigger; KW Tigger16b. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-337 RA Smit A.F.; RT "Tigger16b - Mariner/Tc1 DNA transposon from mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC Fragment; 5' end undetermined. Pos 171-337 (end) are identical CC to pos 767-933 of Tigger16a. Pos 92-148 match pos 812-868 of CC Tigger16a in reverse. XX SQ Sequence 337 BP; 79 A; 70 C; 90 G; 89 T; 9 other; ttncgggnng gaggnagcgg cgcgaggacg ggggnntccg ttcctctgct gagactccgg 60 agcagggaag atgtgttcct ggcgtcccga gttggaactc ggaacgcatt ttcccacaga 120 aacantgtta tanatggtgg ttaggttcta tagtaccgtt agtactatac ttcagntaca 180 ttatgggtta aataggcttt tgtgggctgg cctgggaacc taaccaccat ttataacatt 240 gtttctatgg gaaaatgcgt tccgagttcc aaacaactga cttacaaacg aacttttgga 300 acacaacccg ttcgtaagtt ggggactgcc tgtactg 337 // ID LTR3B repbase; DNA; HUM; 500 BP. XX AC . XX DT 16-JUN-2000 (Rel. 5.05, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE LTR from human DNA related to mouse mammary tumor virus (MMTV) 3' DE LTR. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK3; LTR3; KW LTR3B; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-500 RA Smit A.F.; RT "LTR3B."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC LTR of class II endogenous retrovirus HERVK3. 6 bp target site CC dups. CC Pos 1-421 are 84% similar to LTR3. Copies 9-10% diverged from CC cons. XX SQ Sequence 500 BP; 120 A; 127 C; 118 G; 134 T; 1 other; tgttgcaggc cgaaagagtg agggtcgtga tcaactcagt ataccactgg aggctatatg 60 agtaaacagc aaactgttct catgaatgca ggatgttggc aaactgacaa actgcgtctg 120 ccgcccagaa ggaatgctga gggcagtcac gncccaggcg caagtgtttc ttgtgattag 180 gcacatctga agcctgttag caataatgtg aacctgtgat caatcaagca gctgaccaat 240 cgttacctcc tcctccctgc tctttctacc caataaatac gaagggctgt agaagctcag 300 ggcggctgcc tttgctcact agaagcaggg agccctcttc ttcttccctg gaccccttct 360 ttaaaacagt ttcttttgtc ttaagttttc atttctgcgt tcgtccccct tcgttcagtc 420 ccgtagtgac ggtctcaagt agtaacagta gtaactgtcg tagtgacggt ctcaagtagt 480 aaccgtggca gtctgccaca 500 // ID MER4D_LTR repbase; DNA; HUM; 903 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER4D1; MER4D_LTR. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-903 RA Smit A.F.; RT "MER4D_LTR - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC mer4 group. XX SQ Sequence 903 BP; 259 A; 238 C; 156 G; 249 T; 1 other; tgtaaaccaa aaataaaatt ctaagccccc caaccgactg aatggacccc tcctctcggc 60 caaggggatc ccaaagaaac ctgaaaaact agttcaggcc atgatgggaa ggggggtcgg 120 acatgcctcg ttataccctc ctccctttgg agttcaggca caactgacca gcattaacat 180 taaaacagag atcntaagac tgacaaaaca gactctttgt agcaataaga taccaaattc 240 caacctgact ctagtatagc atcacatgac agatagcagg ccctgaagga aatcaaagta 300 ttttacccca aaatatattt ctttgacata ttttgaaatg gccctgcaaa gccgtctctt 360 gtgggggaaa tctacattct gtagagaatc cccttccctt tccaggtctt ttcctgatcc 420 aggagagatt taactaagag tctggcacct tttaaggtct gataagagac atttaccatc 480 tattctctct gaagcctgct acctggaggc ttcatctaca taacaagaac cttggcttcc 540 acaactcccc ttatcttaac ccaagcattt ctttctgctg acttcaactc tttaggcaaa 600 gcttaactct ttcaaccaat tgccaatcag aaaatctttg aatccaccta tgacctggaa 660 gcccccgctt cgagatgtcc cgcctttccg ggccgaacca atgtatacct tacatgtatt 720 gatttatgtc tttgcctgta acttctgtct ccctaaaatg tataaaacca agctgtaacc 780 caaccacctt gggcacatgt tctcaggacc tcctgaggct gtgtcacggg ccatggtcac 840 tcatatttgg ctcagaataa acctcttcaa atattttaca gagtttggct tttttcgtca 900 aca 903 // ID MLT1J repbase; DNA; HUM; 516 BP. XX AC . XX DT 14-MAY-1998 (Rel. 3.04, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 3) XX DE Long terminal repeat (MLT1J subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MLT1J. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-516 RA Jurka J.; RT "MLT1J."; RL Direct Submission to Repbase Update (05-MAY-1998). XX DR [1] (Consensus) XX CC 3'-similar to MLT1I and possibly to MLT1H around positions CC 89-201. CC LTR of MLT1J retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 27%. CC Pos 132-516 77% similar to MLT1L, pos 102-200 82% similar to CC MLT1I. XX SQ Sequence 516 BP; 130 A; 128 C; 116 G; 139 T; 3 other; tgtggcagag actgctagtt gtcccccaat atccattctc cccttcttcc ttagtaatag 60 aamccccaat ttttagctgg gcacatggcc acccagaaat aaagactaca tttcccagcc 120 tcccttgcag ctaggtgtgg ccatgtgact ttctaagttc tggccaatga gatggtaagc 180 agaagtgatg tgtgcaactt ctaggaaatg tccttaaaga gaggggcayg cccttctttt 240 ccccttcctc cttcctgctg cctggaatgt agatgtgatg gctggagctc tagcagccat 300 cttggaccat gaggtgaaag ccacatgcta aggatggcag agcagcaaga tagaaggagc 360 ctgggtccct gagactatgg agcagagctg ccataccagc cctggactgc ctacctctag 420 acttctatat gagagagaaa taaattctat cttgtttaag ccactgttat tttgggtttt 480 ctgttacttg cagctaaacc taatcctaac ayacca 516 // ID UHG repbase; DNA; HUM; 1357 BP. XX AC L36587; XX DT 27-JAN-1997 (Rel. 1, Created) DT 10-JUN-2008 (Rel. 13.07, Last updated, Version 3) XX DE Homo sapiens spliced UHG RNA. XX KW snRNA; Pseudogene; retroposon; repeat; Small nucleolar RNA; UHG. XX NM UHG. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1357 RA Tycowski K.T., Shu M.D. and Steitz J.A.; RT "Requirement for intron-encoded U22 small nucleolar RNA in 18S RT ribosomal RNA maturation."; RL Science 266(5190), 1558-1561 (1994). XX DR GenBank; L36587; Positions 1 1357. XX CC Contains Alu at positions 897-1021 (masked). XX SQ Sequence 1357 BP; 310 A; 276 C; 287 G; 362 T; 122 other; gactggcgga taaggtcttg tgcgtggcct cgaggcttaa aagtagcagt ggggctttgt 60 gaaggacaaa atggcgatgg cgggccgtgt aggtccccct tcctatgatg aggacctttt 120 cacagacctg tactgagctc cgtgaggata agtaactctg aggagatggg ccctgcaagc 180 ctccttctta gccgtctgtt cagaaaatag cgttttcgaa atgccctgag ttgacctaat 240 gtcttattgg gctcctgtct gcaggattta cgcgcacgtt ggaaccgaag agagctctgt 300 tgttgcaatg ttcagcccac aagagcttac tggtgaagga atgggacaag acccatcttt 360 atgcaaagcc agcgttacag taatgttcca gcatctcata atctatcctg gggaattcag 420 ctgcctccca gggtgaatac aggtattcct gatgacagtc tgcctctatc ttacagagca 480 gcttgttgct atataccatt gaaaagcctt cagagctgag aggtactact aaccaataac 540 ctgcttggct caaagggcca gcaccttctc tctaaagccc aagaggagtt tgaggaaaac 600 taggtgtctg tgttcactcc aggctgaagt tacaggtctg agcaaataag gtgtataaaa 660 aatggaatct gtcttggagg acatcagaag gtgaattttc caagttcttg gacaacctag 720 ctgttgaaaa gctttctggg tttggggggt atttcagatg taccttaaag tgttagcaga 780 cacagattaa gacactggga gccaatgaaa cagcagttga gggtttgctg tgtatcacat 840 ttctgtattt tatcaccccc ttcctgcaac attatttatc tggaatctac ctgccctttt 900 gxxxxxxxxx xxxxxxxxxx xxxxxxxxxx xxxxxxxxxx xxxxxxxxxx xxxxxxxxxx 960 xxxxxxxxxx xxxxxxxxxx xxxxxxxxxx xxxxxxxxxx xxxxxxxxxx xxxxxxxxxx 1020 xxxactttgc tgcctttctt acatgatcca ggcccagaac ccaaactcag gcactgtata 1080 gatgaccact ttcgtaaact actgacctag cttgttgcca attgttgatt gaacttccca 1140 taactccact tcgtgtctgt tcctctgtat acagccacct tctgttcccg tcatgagcct 1200 ttaggtctcc atttgcatat tgcaaatact atgttccatg taggtagctc attcagggcc 1260 ttgctcttca cttcaaaaaa ggttcccttg aggactggct gtcaatttgt gttgctgtgt 1320 tggttgttga tgaaaataat aaaatgattg attacat 1357 // ID PABL_B repbase; DNA; HUM; 667 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; subfamily PABL_B. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; PAB; KW PABL_B; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Fukagawa T., Sugaya K., Matsumoto K., Okumura K., Ando A., RA Inoko H. and Ikemura T.; RT "A boundary of long-range G + C% mosaic domains in the human MHC RT locus: pseudoautosomal boundary-like sequence exists near the RT boundary."; RL Genomics 25(1), 184-191 (1995). XX RN [2] RP 1-660 RA Smit A.F.; RT "PABL_B."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX SQ Sequence 667 BP; 197 A; 148 C; 146 G; 175 T; 1 other; tgtggcaggc caggtctcac taacagctga acaggcaggc ctccatgaca actgtttcag 60 cactgactga gtggttaagt taaatattaa aagctganag agccagtgcc cttatacaaa 120 ggctggaatg taacaaaagc ccaccaagag ttttgcctag gcctttcctg ggccttgaag 180 catgacaaga taacgaagga attcttaaca ggacccgttt aggattaaac aagttttatt 240 gggggtctga agaaactccc cagacctcca caaacaagtt ttattggggg tctaaaggaa 300 ctccccaaac ctccatgatt tagcaggaga caagataagg gtaatcaccc cggcacctgg 360 acccatttag attaagtaaa tttactgagg ctccagagga aggtcttaca ggactcagac 420 cttagttata gattagaagt taatcactta tgtctttaga tgaatgcaca cttacacgta 480 gacatatagc ttagaaggta tataagctct ggaaaacttt gtaattttga gttggtctgg 540 tgatattttc ccggccttct ccctgtaacc ggttacagaa ataaactctc ttctttccca 600 gttcatctgc atctcgttat tgggccacga gaataagcag cccgaccctc ggtttggtcc 660 gggaaca 667 // ID MER11B repbase; DNA; HUM; 1236 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 4) XX DE LTR from HERVK-related endogenous retrovirus HERVK11. XX KW ERV2; Endogenous Retrovirus; Transposable Element; ERVK; HERVK; KW HERVK11; LTR; MER11; MER11B; subfamily MER11B. XX NM MER11B. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-1236 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 1-1236 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-1096 RA Kapitonov V.V. and Jurka J.; RT "MER11B."; RL Direct Submission to Repbase Update (17-OCT-1997). XX RN [4] RP 1-1236 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [3] (Consensus) XX CC MER11 is a retroviral LTR [3]. It has been proliferated by CC HERVK-related CC retrovirus HERVK11 [3]. 6 bp target site duplications [3]. CC [4] ~10% div. XX SQ Sequence 1236 BP; 307 A; 306 C; 244 G; 366 T; 13 other; tgttgcggga agtcagggac cccaaacgga gggaccggct gaagccatgg cagaagaaca 60 tggattgtga agatttcatg gacatttatt agttccccaa attaatactt ttataatttc 120 ttatgcctgt ctttactgca atctctaaac ataaattgtg aagatttcat ggacacttat 180 cacttcccca atcaataccc ttgtgatttc ctatgcctgt ctttacttta atctcttaat 240 cctgtcatct tcrtaagctt catgagctga ggatgtatgt cgcctcagga ccctgtgatr 300 attgcgttaa ctgcacaaat tgtttgtaca gcatgtgtgt ttgaacaata tgaaatctgg 360 gcaccttgaa aaaagaacag gataacagca attgttcagg gaacaagaga gataacctta 420 aactctgact gccggtgagc crggcrgaac agagccatat ttctcttctt tcaaaagcaa 480 atgggagaaa tatcgctgaa ttctttttct cagcaaggaa catccctgag aaagagaatg 540 cgyacctagg ggtaggyctc tgaaatggcc cccctgggag tggcctgtct tttatggtng 600 aaactgcagg gatgaaataa rccccagtct cccatagcgc tcccaggctt attaggawga 660 ggaaattccc gcctaataaa ttttggtcag accggttgtc tgctctcaaa accctgtctc 720 ctgataagat gttatcaatg acaatgcgtg cccgaaactt cattagcaat tttaatttcg 780 ccccggtcct gtggtcctgt gatctcgccc tgcctccayt tgccttgtga tattctatta 840 ccttgtgaag tacgtgatct ctgtgaccca caccctattc gtacactccc tccccttttg 900 aaaatcccta tttaatttcg ccccggtcct gtggtcctgt gatctcgccc tgcctccayt 960 tgccttgtga tattctatta ccttgtgaag tacgtgatct ctgtgaccca caccctattc 1020 gtacactccc tccccttttg aaaatcccta ataaaaactt gctggttttt gcggcttgtg 1080 gggcatcacg gaacctaccg acatgtgatg tctcccccgg atrcccagct ttaaaatttc 1140 tctcttttgt actctgtccc tttatttctc aagccagccg acrcttaggg aaaatagaaa 1200 agaacctacg tgattatcgg ggcaggttcc ccgata 1236 // ID LTR1D repbase; DNA; HUM; 983 BP. XX AC . XX DT 02-OCT-2000 (Rel. 5.09, Created) DT 02-OCT-2000 (Rel. 5.09, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like sequence - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR1; LTR1B; KW LTR1D; LTR20; LTR27; LTR28; Long terminal repeat; MER52A; MER52B; KW MER52C; MER61; MER61B; MER61C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-983 RA Jurka J.; RT "LTR1D."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC Similar to a number LTRs listed in keyword (KW) section. XX SQ Sequence 983 BP; 235 A; 300 C; 244 G; 196 T; 8 other; tgatagggac aggaggcaga gaaattctag gcagaaaagg gyaggtcccc aggtaaaacc 60 ccaccctcaa gcygaaaagc ctgaaaccac agcccaaagt gagaacttat atccctgttt 120 tcctgcttga atgttgcctt ttcctaaacc acccatggcc ctgccccacc ccatccccca 180 tcctgtgcct ataaaaaccc cagactcagc cagcagagag gagaagcagc tggacatcag 240 agactatggc tggacgtcag agagaagtgg cttgacttca gagggacagc ttgatggcat 300 aacttcagag aagaatccgg ccagagatgg ccagacttca ggggaagatt accttcccac 360 cccatcccct tttcagctcc ccttcccact gagagccact ttcatcggca ataaaatccc 420 ctgcatttac catccttcaa tttgttcatg tgacctcatt tntcctggat gcyrgacaag 480 agctcaggag ccatgagtgt ggatacaaaa ggctgtcaca ctggcccttt gcccttgctg 540 gcagagggca gctgcctcac gtgaaaaggc agagggccca ctgagctgtt aacacttaag 600 ccrtccayag atggcagagc taaaagagca ctgtaacact ccctctgggg cttcaggggt 660 cacaggcacc ccccccctag atgctgccgc ggggcctgca tggagtttgc tcctgccggt 720 gcccaaaagc actcaccctg gctcctgcac ccactcacct gtgcgctccc tcccatgagg 780 ggtggagcac agcgggtctg agtgagtgga gtttgcccct gctggcactg aagcggccag 840 ctagttccag cactcatgca ctccagttcc cacctcgttc actcacatgc tccctcctgc 900 aaggagttga gagctgyggg ctgagtaaac gaggcacccc tgtcgcgagt cccgcgaagg 960 ggtcagggaa atatcctgct tca 983 // ID MER77 repbase; DNA; HUM; 605 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 5) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; MER21-group; MER77. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 605-1 RA Smit A.F.; RT "MER77."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-605 RA Smit A.F.; RT "MER77."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Putative LTR of class I retrovirus-like element with 4 bp target CC site CC duplications. Copies are on average 19-20% diverged from the CC consensus. CC MER77 is related to MER68 and more distantly to the MER21-group CC of LTRs. CC Orientation reversed from [1] according to internal sequence CC orientation. XX SQ Sequence 605 BP; 131 A; 156 C; 155 G; 157 T; 6 other; tgtgcagtaa agggttaact cagcaggcct gggttgtcca aaccctgcac attccaaaga 60 aaganctggc ccttgaccgg ctcctgggag ataacctcta agcccttgga atatcctgcc 120 tgataagagt gtctttgtnt acctggrgcc ttgggccacg cnagatagtt tatgctaaca 180 atgtgattta tggtgggggc cttgggccac gctgtatcag tttgacctct ggaggggctg 240 gagactgagt agctaaggtc agccacgcgg gcgctccatg cctacatgac cgacccccaa 300 taaaaaccct ggacaccaag gctcgggtga gcttccctgg ttggcaatac tctntgcatg 360 ttgtcacaca tcgttgctgg gagaattaag cgctgtctgt angactccac tgggagagga 420 caactggaag cttgtgcctg gtctctcctg gactccgccc tatgcgcctt ttccctttgc 480 tgattttaat ctgtatcctt tcactgtaat aaaccataac cgtgagtata acagcttttc 540 tgagttctgt gagtccttct agcgaatcac tgaacctgag ggtggtcttg gggacccccg 600 acaca 605 // ID LTR53 repbase; DNA; HUM; 519 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; LTR53; KW Long terminal repeat; MER54; MER74; MER88. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-519 RA Jurka J.; RT "LTR53."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC Patchy similarity to MER74, MER88 and MER54. Present in dog CC (C. familiaris). Average similarity to individual repeats 76%. XX SQ Sequence 519 BP; 118 A; 151 C; 115 G; 129 T; 6 other; tgtggtgtaa ggcctaaaat taaggcccaa tattatgtgc tgccttgaca tctggtgaaa 60 tcaggagggc ctcaaatggc ctaactacaa gttcccctcc ccactctgct cccatggata 120 aggtccccta gccaaacaac cctccttatc aaggggacca ggcacagttc ctgcttatcc 180 ctgntgagta gygggtttca gttccctgcc agcccgtgga attattcaaa yaagccaatc 240 acatcctcct gcgggaacca ggggtcacct caccctcttg atactacaaa gcctgcctcc 300 cacagcccct ggttgttcac tctgttcctg agtgcaaccc ccatgtggcc ctgtgtggna 360 tgtggtgtcc tcctccccca ggctgtgagt atatgtgatt aataaactgc tgtcaatctc 420 atctgtccag tgttgggtgt catgtgttta rccatcccca taaccctagg gtgggaatcc 480 ctccctcacc aatggggtga agaggaggca atwaaaaca 519 // ID GSAT repbase; DNA; HUM; 217 BP. XX AC X68545; XX DT 18-APR-1997 (Rel. 2.03, Created) DT 04-AUG-2008 (Rel. 13.07, Last updated, Version 3) XX DE H.sapiens gamma satellite DNA. XX KW SAT; Satellite; Simple Repeat; Centromeric satellite DNA; GSAT; KW Centromeric; tandem repeat. XX NM GSAT. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RA Lin C.C.; RT "Direct submission."; RL Direct Submission to EMBL/GenBank/DDBJ (30-SEP-1992). C.C. Lin, RL Dept. of Lab. Medicine & Pathology, University of Alberta RL Hospitals, 8440-112 Street, Edmonton, Alberta, T6G 2B7, CANADA. XX RN [2] RA Lin C.C., Sasi R., Lee C., Fan S.Y. and Court D.; RT "Isolation and identification of a novel tandemly repeated DNA RT sequence in the centromeric region of human chromosome 8."; RL Chromosoma 102(5), 333-339 (1993). XX RN [3] RP 1-217 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR GenBank; X68545; Positions 1 704. XX CC CC [3]. XX SQ Sequence 217 BP; 41 A; 64 C; 88 G; 24 T; 0 other; gctgggagcc tcccaaggag gcctctccca tcccagaagc ccccagggct gtcccgggcg 60 ggctgtaaag ccccaggctt tggagcaggg tgcctgtgtc tctcgcggaa ggcccccaca 120 agcgaaaacg gggccgcagg gtggcgtggg cgggccgcag ggactcaggg ggacgttgag 180 gcaggcagag gggagaagcg gcgagaccgc agggaat 217 // ID LOOPER repbase; DNA; HUM; 1556 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 23-APR-2008 (Rel. 13.05, Last updated, Version 3) XX DE Molecular fossils of autonomous DNA transposon - a consensus DE sequence. XX KW DNA transposon; Transposable Element; KW Putative autonomous DNA transposon; TTAA-superfamily; LOOPER. XX NM LOOPER. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1556 RA Kapitonov V.V. and Jurka J.; RT "LOOPER."; RL Direct Submission to Repbase Update (31-MAR-1998). XX RN [2] RP 1-1556 RA Kapitonov V.V. and Jurka J.; RT "LOOPER."; RL Direct Submission to Repbase Update (12-MAY-1999). XX DR [2] (Consensus) XX CC LOOPER encodes 273 aa-long protein (position 577-1395) similar to CC the transposase-like protein encoded by ORF1 in IFP2 (PiggyBac) CC DNA transposon from cabbage looper (see IFP2 transposon in the CC invrep.ref section of Repbase). There are about 200-500 copies of CC LOOPER preserved in the human genome. Most of them are severely CC damaged by mutations since LOOPER is relatively old element. CC There is 80% average nucleotide identity between LOOPER's copies CC and the consensus sequence. LOOPER belongs to the TTAA CC superfamily of DNA transposons in mammals. Hallmarks of this CC superfamily are TTAA target site duplication and short terminal CC inverted repeats, including 5'- and 3'-terminal CCC and GGG, CC respectively. Activity of the protein encoded by the LOOPER-like CC elements could be related to multiple transpositions of CC non-autonomous elements MER75 and MER85 identified recently in CC the human genome. The consensus sequence may be incomplete. XX FH Key Location/Qualifiers FT CDS 577..1395 FT /product="LOOPER_1p" FT /translation="MAKRKKLTEEDISQLLDESEDECKETDSSTLDSNDDG FT EIDHISEISDYESSDDDILDEFSQTQESTSEQYISKDKKEIWYSHPVSHST FT GRTSSRNILRQEPGPSHFAKRTCDSILSSFMMFVHQIYLIQFVSGQMLKAG FT MFTKGNWKEIDEEKKKIIELIILIGVYKSKNENVLQLWSKEDVSLQQNYEP FT SKFSKVLRFDDVSMEEKTRNNNKLEPIRDVFEIWNQYLQDRYVPGSCMTVD FT EQLVAFKGHCPFRIYIPSKPGKYGIKIWVCYV" XX SQ Sequence 1556 BP; 553 A; 230 C; 260 G; 513 T; 0 other; ccctcggtat accatcaggg tccattggac ccaattttag tttttgagtt tctttttgag 60 cagttctaac tatttgtaag gattgatatt tcatgacttt tattctttct tagaggtctt 120 ccaaagaaca aagagaaaat ttacttattt taaatagaat aaaactcatt ctatcttgca 180 attaccatat gggtccattg gaccctttta taaatctaag atacattatg ggatcttagt 240 gatcttattt tttctatatc ttgaaacatt ttgctatttc atcatcctag gaattatttc 300 atcattactc atcaattatt cccaactatg cttaaaaaag actaaaataa taagaaaatg 360 gaagaatgat ggaattacct agaaggatga tgcaatagtg aaataaatca tcactattac 420 atcatccttc agttttctta ttgcattgcc caaagtattg catcatcttt caagaaggta 480 taaaagaagt ctggagacac catctttgta gtcttttttt agctttcatt gaacacagtt 540 gagaattcag aatttttcat tttctaccca taatggatgg caaagagaaa aaaattgaca 600 gaggaagaca tttcacaatt attagatgaa tcagaagatg aatgcaaaga gacagatagc 660 agcactctag actctaatga tgatggtgaa attgatcata taagtgaaat ctcagactat 720 gagtcttcag atgacgatat cctagatgaa ttttctcaaa ctcaagaatc gacgagtgaa 780 caatatattt ctaaggacaa aaaggaaata tggtattctc atccagttag tcattcaaca 840 ggaaggactt catcacgcaa tattttgcga caagaacctg gaccatccca ttttgctaaa 900 aggacatgtg acagtattct ttcatctttt atgatgtttg tgcaccaaat ttacttgata 960 cagtttgtaa gtggacaaat gctaaaggca ggtatgttta caaaaggtaa ctggaaggaa 1020 atagatgaag agaaaaaaaa aatcattgaa ttgatcattc taattggtgt ttataaatct 1080 aaaaatgaaa atgttttgca gttatggagc aaagaagatg tctctcttca acaaaattat 1140 gagccctcaa aattttcaaa agtattacgt tttgacgatg taagtatgga agaaaagacc 1200 agaaataata ataagctaga acctattaga gatgtatttg aaatctggaa tcagtattta 1260 caagatagat atgttccagg ttcatgcatg acagttgatg agcagttagt tgcattcaaa 1320 ggacattgcc catttcggat atatatacct tcaaaaccag gaaaatatgg aataaaaatt 1380 tgggtttgct atgtttaaat tcttattaaa atttctaata aagttgtttt tcactatccc 1440 tttattctta cttctgtaaa ttatttgtaa aatgacttaa aaatataaaa aataaaaagg 1500 gtccattgga cccagatggt aaatggtgat gactattttt cctggtatac tgaggg 1556 // ID LTR16E repbase; DNA; HUM; 655 BP. XX AC . XX DT 27-DEC-2001 (Rel. 6.11, Created) DT 27-DEC-2001 (Rel. 6.11, Last updated, Version 1) XX DE Primate LTR16E repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL family; KW LTR16E; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-655 RA Smit A.F. and Hubley M.R.; RT "A few more common, ancient interspersed repeats in the human RT genome."; RL Repbase Reports 1(4), 28-28 (2001). XX DR [1] (Consensus) XX CC LTR of ERVL-class endogenous retrovirus. Bases 1-488 appear CC unrelated to other repeats yet, pos 489-655 is ~75% identical to CC the 3' end of LTR16C. Average divergence of copies from CC consensus is a whopping 28%. XX SQ Sequence 655 BP; 115 A; 234 C; 166 G; 137 T; 3 other; tgtatcggac acaaatctta tgcgcctcct cagattccct tggcctcatc cgcctcccgg 60 accctcagcc gcttgctctg cctcagccgc cgccatagct gaccaactcc nnncgggccc 120 acgcggttct gccgcctgag gccgaccagc cacacgccca gagtctctgg ctcctcccgc 180 cacttccaga cttggatgaa acgccacacc gcagggcatg ggatctggct tcccgagcgg 240 ctgccaaagg ggccggatga cgcaacccgg aagtgcaggg gagttaactc cccgtggggt 300 gaactttgac caatgggaaa caggagacag gagggagccg ggcagataaa ttcctcctcc 360 tttctccctt ccatggactg ctccgaggcg cggtttctcc ttgcagccct gtccggagaa 420 gtccccgtgt gccgagcgga cgcacctgcc gagcgacctg ctgtgtctct tcgcggctcg 480 tcgtgaagca gtggccagcg cggtaacgca tcaccttgca ttgcttccca tccttccctg 540 cctcacttcc cttttctctc actctcactg ccctgggctt gcacctccca aataaagcgt 600 cagcacttta atccttgcct caggctctgc tttctaggga acccgggcta agaca 655 // ID TIGGER2 repbase; DNA; HUM; 2718 BP. XX AC . XX DT 19-FEB-1997 (Rel. 2.01, Created) DT 07-MAY-1999 (Rel. 4.04, Last updated, Version 3) XX DE Autonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW Autonomous DNA transposon; TIGGER2; Tc1/mariner supergroup. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-1998). XX DR [2] (Consensus) XX CC TIGGER2 is a pogo-like DNA transposon of the mariner-Tc1 family. CC The open reading frame from pos. 603-2486 encodes a transposase CC 59% CC identical to that of TIGGER1. Average divergence of copies 12%. CC 24 bp terminal inverted repeats, TA target site CC Includes MER28 (bases 1 to 59; 2343 to 2708) (see there for CC refs). XX SQ Sequence 2718 BP; 882 A; 549 C; 585 G; 700 T; 2 other; cagttgaccc ttgaacaaca cgggtttgaa ctgcgcgggt ccacttatac gcggattttt 60 ttcaataaat atattggaaa attttttgga gatttgcgac aatttgaaaa aactcgcaga 120 cgaaccgcgt agcctagaaa tatcgaaaaa attaagaaaa agttaggtat gtcatgaatg 180 cataaaatat atgtagatac tagtctattt tatcatttac taccataaaa tatacacaaa 240 tctattataa aaagttaaaa tttatcaaaa cttacgcaca cacttacaga ccgtacatgg 300 cgccattcgc agtcgagaga aatgtaaaca aacgtaaaga tgcagtatta aatcataact 360 gcataaaatt aactgtagta catactgtac tactgtaata atttcgtagc cacctcctgt 420 tgctattgcg gtgagctcaa gtgttgcgag tatccgctta aaacgccatg tgacgctaat 480 catctccgcg tgagcagttc gtctctccag taaattgcgt atcgcagtaa aaagtgatct 540 ctcgcggttc tcgcgtattt ttcatcgtgt ttagtgcaat accgtaaacc ttgaataaca 600 ccatgggacc catacgaagt gccactagtg atgctggaag tgctcccaag aagcagagaa 660 aagtcatgac attacaagaa aaagttgaat tgcttgatat gtaccgtaga ttgaggtctg 720 cagctgcggt tgcccgccat ttcaagataa atgaatccag cataaggacc attgtaaaaa 780 aagaaaagga aattcgtgaa gccgtcgctg cagctatgcc agcaggcgcg aaaaccttgc 840 actttttgcg aaataccttt ttatctcgta ttgaaaatgc agcttttatg tgggtgcagg 900 attgctataa gaaaggcata cctatagact ctaatatgat tcgagaaaaa gcgaagtcat 960 tatatgacaa cttaaagcaa aaggaaggtg aaggatctaa agctggagaa tttaatgcca 1020 gcaaaggatg gtttgataat tttagaaaga ggtttggctt naaaaatgtc aagataacag 1080 gagaagcagc ttctgccgac caagaggcag cagacgagtt cccagatgcc attaagaaaa 1140 tcattgagga gaaaggatat ctgcctgaac aggtttttaa tgcagacgaa agtgccctat 1200 tctggaggaa aaaaatgcca caaaggacat ttattagtaa ggaagagaag caagcaccag 1260 gatttaaggc aggaagggat aggctaactc tactgttttg tgcaaatgca gtcgggttta 1320 tgatcaggac tgcccttatc tataaagctg ctaacccccg agccttgaag ggaaaagata 1380 aacaccagct gccagtcttt tggttgtaca acaagaaggc ctggacaacg agaacccttt 1440 ttctggattg gttccatcga tgctttgtcc ctgaagtcag gaagtacctt gccagtaagg 1500 gactgccttt taaagttctt ttgatattgg acaatgcccc tggccaccca gaaccccatg 1560 agttcaacac cgaaggcgtc gaagtggtct acttgccccc aaacacaacg tctctaattc 1620 agcctctaga tcagggggtc ataaggacct ttaaggctca ttacacacgg tactctatgg 1680 aaaggattgt caatgctatg gaagagaacc ccaatagaga gaacatcatg aaagtctgga 1740 aggattacac cattgaagat gccatcgttg ttacagaaaa agccgtgaaa gccatcaagc 1800 ccgaaacaat aaattcctgc tggagaaaac tgtgtccaga tgttgtgcat gacttcacag 1860 gatttacgac agagccaatc aaggaaatca tgaaagagat tgtggatatg gcaaaaaagg 1920 tggggggtga agggtttcaa gatatggatc ttggagaaat tcaagagcta atagacacca 1980 caccagagga attaacagaa gacgacttga tggagatgag tgcttccgaa ccagtgccag 2040 acgatgagga agaagacgta gaagaagcag tgccagaaaa caaattgaca ttagacaatc 2100 tggcagaagg gttccgatta ttcaagactg cttttgactt cttttacgac atggaccctt 2160 ctatgatacg ggcactgaaa ctaaagcaaa cggtggaaga aggattggta ccatatagaa 2220 acatttttag agaaatgaaa aagcaaaaaa gtcagacaga aattacgatg tatttccata 2280 aagttacacc gagtgtgcct gcctctcctg cctccccttc cacctcctcc acctcttccg 2340 cctctgccac cctgagacag caagaccaac ccctcctctt cctcctcctc ctcagcctac 2400 tcaacgtgaa gacgatgagg atgaagacct ttatgatgat ccacttccac ttaatgaata 2460 gtaaatatat tttctcttcc ttatgatttt cttaataaca ttttcttttc tctagcttac 2520 tttattgtaa gaatacagta tataatacat ataacataca aaatatgtgt taatcgactg 2580 tttatgttat cggtaaggct tccggtcaac agtaggctat tagtagttaa gttttkgggg 2640 agtcaaaagt tatacgcgga tttttgactg cgcggggggt cggcgcccct aacccccgcg 2700 ttgttcaagg gtcaactg 2718 // ID MER97B repbase; DNA; HUM; 1053 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE MER97B repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; MER108; KW MER97B; nonautonomous DNA transposon; hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-642 RA Jurka J.; RT "MER97B."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-1053 RA Smit A.F.; RT "RepeatMasker release June 11 1998."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC The repeat has been classified as a hAT like nonautonomous DNA CC transposon [2]. CC A portion of MER97B has been independently deposited in Repbase CC Update CC as MER108 [1]. To avoid a confusion, MER108 is deleted from CC Repbase CC Update (June 2000). XX SQ Sequence 1053 BP; 326 A; 163 C; 190 G; 352 T; 22 other; cagtggcgta ccaagggcgg ggcggtggga gcggtccgcc ccaggtgcag gcaataaggg 60 ggtgcattgt ctgtagagaa tttaaaaaca ataataaaac tgactaaaag tcggtctgct 120 ttttattatc accatgcgcc ggcaattcta aacaatgtca gtgataaaat actcctcccn 180 naaaaatctt ttgttggtct aagttctaaa caattgctgc ggttactgtt gagttttaat 240 aatatatata tgtaaacttc aaattagcac atttttatta cttatccttt aataaacatt 300 gtattctaca tggaagttaa ttcggagaac tcccagttat acagtcggcc cccgacacac 360 gcggactcag ctacacgnat tcgtttcgag agtaagttca taanggttcg gaatcattcg 420 agctcgcttc gggtncagtt cntgtctcca acccctgtgg tactacatat tcctgcgttt 480 aaacagtaga tttnaaataa acaatgatag cacagtgatt gtaaagacga agaaacagaa 540 cttgagttac ttcaattctg tcattctatg tgaccacttg gagtttttat ttgtgtttaa 600 aatttaaaac agtgaaacag agtgcgaact gcgaggtgta atatttttgt ttggtaagtg 660 caaattttag ttcatacatg aaatatttta ctgaatttga ataatatctt taaaatngaa 720 atttattctt cttnaaattg ttaattattt gttttaaaac taaagaacaa aatcaagaaa 780 atgaagcatt acaccagtgg tatgntttwg tagttgccta aattgtacct tttgcagacg 840 ttttagtttt mttaaaattg gcmttmtgat ttttactgtc ttaactatac acaaaagttn 900 ataaaanaaa ttttnaantn tttntatttt tgawgcatta ttattattac tgattattac 960 atgattatta ctgaaaataa ttttgtcata tagaggaagg gngtgttaaa aaatgatccg 1020 ctctgggtgt cgaatacgct aggtacgcca ctg 1053 // ID MER47B repbase; DNA; HUM; 418 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Mariner/Tc1 DNA transposon from placental mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; MER2_type; KW MER47B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-418 RA Smit A.F.; RT "MER47B - Mariner/Tc1 DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC (Tigger5). XX SQ Sequence 418 BP; 100 A; 93 C; 107 G; 118 T; 0 other; cagacggtcc ccgacttacg atggttcgac ttacgatttt tcgactttac gatggtgcga 60 aagcgatacg cattcagtag aaaccgtact tcgaattttg aattttgatc ttttcccggg 120 ctagcgatat gcggtacgat actctctcgc gatgctgggc agcggcagcg agccgcagct 180 cccagtcagc cacgcgatca cgagggtaaa caaccgatac tctacagtgt actgtgttgc 240 cagatgattt tgcccaactg taggctaatg taagtgttct gagcacgttt aaggtaggct 300 aggctaagct atgatgttcg gtaggttagg tgtattaaat gcattttcga cttacgatat 360 tttcaactta cgatgggttt atcgggacgt aaccccatcg taagtcgagg agcatctg 418 // ID MER2B repbase; DNA; HUM; 335 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Nonautonomous DNA transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER2; MER2B; KW MER44A; MER44B; MER44C; MER44D; MER8; MER82; TIGGER7. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-335 RA Jurka J.; RT "Direct submission."; RL Dirrect Submission (October 2000). XX DR [1] (Consensus) XX CC 80% similar to MER2. Related to other transposons listed CC in the keyword section. XX SQ Sequence 335 BP; 90 A; 69 C; 61 G; 111 T; 4 other; cagtcatccc ttggtatcta trggggattg gttccaggac cccctcggat accaaaatct 60 ghggatgctc aagtccctga tataaaatgg catartattt gcatataacc tatgcacatc 120 ctcctgtata ctttaaatca tctctagatt acttataata cctaatacaa tgcctacaca 180 tcacttcatt cacgtggatt caatgtagta ctyggtgtat ggcaaattca agttttgctt 240 tttggaactt tgtggaattt ttttttccaa atatttttga tccgcggttg gttgaatcca 300 tagatgcaga acccatggat acagagggct gactg 335 // ID MLT1_I repbase; DNA; HUM; 1375 BP. XX AC . XX DT 24-JUL-2000 (Rel. 5.06, Created) DT 07-AUG-2009 (Rel. 14.09, Last updated, Version 2) XX DE MLT1- LTR retrotransposon internal sequence - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MaLR family; KW LTR retrotransposon; MLT1R; MLT1c subfamily; MLT1CR; MLT1_I. XX NM MLT1CR. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL PhD dissertation, Univ Southern California, 1995. XX RN [2] RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [2] (Consensus) XX CC Internal sequence consensus for MLT1A retrovirus-like element CC (MaLR). CC The ORF from pos 48 to 1154 encoded a protein regionally 34% CC identical (48%similar) to AA 480-569 the ERVL GAG protein (e.g. CC GenBank acc# CAA73250). This aids to the earlier indications [1] CC that MaLRs have been derived from ERVL-type endogenous CC retroviruses. XX SQ Sequence 1375 BP; 391 A; 230 C; 404 G; 347 T; 3 other; gattttggta ccgggaagtg gggtgctgct gtaacaaata cctaaaaatg tggaagtggc 60 tttggaactg ggtaatgggt agaggctgga agagttttga ggcacatgat agaaaaagcc 120 tagattgcct tgaagagact gttggtagaa atatggacgt taaaggtgat tctggtgagg 180 gctcagaagg aaatgaggag agctgtagag aaagcttcta tcatcttaga gaatacatat 240 atcgtcatga acagaatgtt ggtagaaata tgaacgttaa aggtgcttct ggtgaggtct 300 cagacggaaa tgaggaacat gttattgaaa actggaggaa aggtgatcct tgttataaag 360 tggcagagaa cttggctgaa ttgtgttcta gtgttttgtg gaaagtagaa cttgtaagcg 420 atgaacttgg atatttagct gaggagattt ccaagcaaag tgttgaaggt gcggcctggt 480 ttctccttgc tgcttatagt aaaatgcgag aggaaagaga taaattgagg aaggaactgt 540 taagcaaaaa ggaaccagaa cttgaagatt tggaaaattc tcagcctatc cagattgcaa 600 aagatgagaa agcatgctct ggagagaaca ccaagggtgt ggctggacaa ccatttgcta 660 aagagattag gtatgtgact catggatcca atcaaccatc tcagcagaag ccaggaatag 720 agatggggtt atccaggaag gatctgtgga ggaccctctt gtctaatggc gtggaccccc 780 atgacttgca cgggaggccg acaaggtttt tgagaatttt ataccagcag aaacactgcc 840 agcctggact gaaggggaca gagatgggac aaaatgaagg aaggatgact ctgagggcgg 900 agccacggat gcagaggcca tgggggctgc ggccnccatg ggccaagagc atggggtcac 960 cccagcgggc ccggaagaca gagcatcgag ccacagagga ttattctcga gccttgaaac 1020 ctaatggaat tttccctgct gggtttcgga cttgcttggg acccgtgacc cctttnttcc 1080 ttccnatttc tcccttttgg aatgggaatg tctatcctat gcctgtccca ccattgtatt 1140 ttggaagcag ataacttgtt ttctggtttc acaggtccac agatggagag gaattttgcc 1200 ccaggatgaa tcataccctg agtctcaccc atacctgatt tagatgatat ttagatgaga 1260 ttttggactt agagttgatg ctggaatggg ttaagacttt tggggatgtt gggatggggt 1320 gaatgtattt tgcatgtggg aaggacgtga attttggggg agccagaggg cagac 1375 // ID HERVG25 repbase; DNA; HUM; 6996 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE HERVG25 LTR-retroelement - a consensus. XX KW Endogenous Retrovirus; Transposable Element; HERV17; HERV9; KW HERVG25; Internal sequence of retrovirus-like element; LTR25; KW MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6996 RA Kapitonov V.V. and Jurka J.; RT "HERVG25."; RL Direct Submission to Repbase Update (APR-1998). XX DR [1] (Consensus) XX CC HERVG25 is an mosaic retroelement; its portions are similar to CC MER4I; CC MER41I; MER57I; HERV17 and HERV9. CC HERVG25 is flanked by LTR25s. CC Glycine tRNA has been used as a PBS. CC HERVG25 (positions 2700-2500) encodes protein sequence most CC similar CC to the reverse transcriptase from multiple sclerose associated CC endogenous retrovirus (HERV17), leukemia viruses in apes and CC endogenous retroviruses in feline and bovine genomes. CC HERVG25 is most close to internal sequences flanked by LTR27, CC MER52- CC and LTR9-like LTRs. XX SQ Sequence 6996 BP; 2194 A; 1346 C; 969 G; 1965 T; 522 other; tattttggtg cattggccgg gaaagaaagg rattcatcgg aagggtgagt aggagtggac 60 atttaattct ttactttcat tttggagkct tgtcctcagt tttttttttt ttcttctcaa 120 gaahcaaaca aaacactggg ccyctgtyrg ccagttaaaa gctdttagdg cggctdccag 180 ccttaagact caggggacag gcttgctgga gaggahtttg tcaatccccc atcgccctha 240 ggtgttggga atgttggctc tgttctaatc cagtttcctt tcacggaggg cctagccgtc 300 gcatggggct ggaaggaggt cctggggcaa ctgaaggttt ctggttgagg ctacacctca 360 gtgttacctg aaggcccctg gactaactcc agtccccgac agcccatgca gggtgtcggc 420 accaggactt ccagtctttt ctattkcatt ttcttccttt cttttctcga ctatcatgtc 480 tcctatccct tctttgtatg caatgttgtg ggtgttttta cagcctgggg atataatctt 540 gttgagtaaa gtcagtcagt gccttagtaa tcagaaatgt aactcarwga attgttgtyt 600 ttgtgatttc cttgaahtga adaaattcha aatcctbdat ctgtagacct wtttctcycc 660 cagtrataaa cattcatggc actgtatgag rgratatttc accctgagya aatayccycc 720 tttgcattta ahhtsttttt tttcctycat gtgaaarsyc agcaytgtcc aatgaatcta 780 aacagycyyt ctatgagaca agttawtttt tttstwctgg grcayatrct atrggracag 840 cctatcaarc cccaaacstc tctttctaac ttttgcctga aaarwatwwa gtyrgagttt 900 ttacctarca tttcagacct tacaggacca cctagtggra tggggttktt ctccatrggr 960 agccytgtca accctttgcc ccaaacctac tgtytcccaa ttcttttctc ttttaagtcc 1020 ctctgtcagt gatcagtccc catrccccat ttywagccaa gaaaattcaa ctttcaatag 1080 cccggaggaa gccatcctga caagacagat tttagccywk akwctatctc catsraagga 1140 argacagcta ttcaattctt acgttatcct traggcacct gttcttcatc maactacatt 1200 gnratttaaa caaaaaaagg attttatatt tgaaagtcaa ctggtcccac tctctgggat 1260 tctratgttt ccctggggcc atagcaaggg aagccaaaga tagtgtttag gcactccctc 1320 cattaaagtc tgttgccyaa atccaactac gacataatct ctccccggtc cctggggtac 1380 cttgggagcc ttttgggctg agtgggtcta ggaaaccagc agaatggaaa actaggacct 1440 kagacagatg agcacataac twgtcctgcc acctacgtcc tccagatcta tgggtgaaga 1500 tcatacttgc atccaygggt gaaacctatg gtggttaccg agacccagag gwcaaggaag 1560 tgaagaggag aagggagatg ccctttctct ctttctctcc accctaggtc actcagaagg 1620 gaaaraggag actaagggat gcctttgtct ctcctctttt tctagatagg taacaaacca 1680 tctacagtct acactcctct caagtgcatt ctgaaacact ggaactcctt tgaccctgag 1740 actytgaaga aaaagcaact tatattctat trcacaaggg cgtggycatc ttaccarctr 1800 cargacagac gggaggcctg gccttctcag gaaagtgtta attctaacac tatycaacaa 1860 ctagatsttt tctrcagayr ggaggrcaaa tggtccragg ttccctatat acaadctttc 1920 tttgccctgy gagacaaccc aratctttrt aagcattgta aaattaaccc tgccctcttg 1980 acagccatat cagacaatac tacaaaagat aattccccaa agtcagagac aaakacaact 2040 tctaggtgcc tttcctgcyc cccttatttg aggcccccat agccatatca tcagctcctc 2100 cagttttgct acccaagaaa cccctacatt cactgttacc tctacragaa atgcccatca 2160 gacakagkac tactakggtt caagttccct tctcatcaca ggaccttaga caaataaagg 2220 grgacctagc aaagttctct gakaaccctg atagatatat raaggctttc caaaatctam 2280 yacaagtgtt taatcttaca tggagraakn gtakackact tctaagccaa accctaacta 2340 ctamcaagaa acagacracc ctacagacaa caagaacatt cagagatgaa cattcctcct 2400 atgaccagtc raaaagagaa cccagtcaaa rttaaagagg wgaaaaagag acaagatccc 2460 aattcccaat aggawgagaa acagtgcccc twgataatcc taatgagagc cctagtgatc 2520 ycatagatgr atgagtagaa aagaaaaaca ctttckatga gacatattga aagactkaca 2580 agaacacmga wccagacatc ttaattactc taaacygtct atgttaaaca raaatccaga 2640 taaaaatccc tcagccttta tggaagggct gagaaaagct ttrataaaac acacctccct 2700 kcctatcaat tcagtaaaga acagatttat tactcrraca gcccctaata tcrtaragaa 2760 gttrcagaaa cagaccctgt ccaaaaatct ctctgrtttt tctcaycctc aagttaaaac 2820 tttacagtat ataaatarcr ctctcctctg tgccccaact raagatgtct carrraagrc 2880 actgarrctc tycttaattt cttarctgaa agrrcatata gggtctcaaa atctaargyt 2940 carctctatc aaacttcagt aaaatrccta ggtctagtct tatcagaagg gacmagaaca 3000 ccaggtgagr aaaraattaa gcccatttcc tcytttccct ttcccaaaac tcttaaacar 3060 ttgaggggat tcttagacat tactggattt trcaaattat gggtatstgg gwatggtraa 3120 atagctaayc ytttatacca ccttataaaa aaaamctcaa gcacctaaaa ctcactysct 3180 aacttgggaa cctaaaactm aaaagccytt aaccaaytaa arcaagcctt acttaaagca 3240 ccarccctca gtcttcccat arggaaggca tttaatctyt atgtatcaaa aaggaagtka 3300 atgaccctgg gagttttaac taaggctcaa ggtccagctc aacaaccagt gggttaccta 3360 agcaagaaac ttgacttgat ggctaragga tggccagcyt gcctctgagc agttwyrgtg 3420 gtggctctgc tggtaccara ggccacsaag ttaacmmtgg ggaataactg tytrcayycc 3480 acacaaataa yaggactgct gtcctctaaw ggaadtctct ggctaacaat cacctcctca 3540 aatatcaaac tttgytrcta rrrkratctr cagtccrrtt raaaacctgc ccttgcctra 3600 acccagycac tttctcccag argaaactar agarcctraa cakrattgtr aacagstart 3660 ggtryaaact ggtaaaagaa ataagaagaa tcactgttta tattctctgt aaagttttaa 3720 ttaattaaat aaacattttt aaagtgtact caacttaatg aaaagtgaat atccaagcta 3780 taagtatatt caaaaagcct ttctattttt atctttataa aacttgtttt cctggaagag 3840 gdttttttct cacttaactg aattactttt atccactctt tcttgtcact gttgatgcaa 3900 gcatagaagg ccctaaaata acctctggtg gcctaagact cctcaagaaa acaaaaaagc 3960 caccacaaat tvcattttrr aaaaaatctc tgcttttttt catrgaaacc ctagaattar 4020 aaabaaataa gtccctctca aaatcwgctt ttktcttcta gctatgcttr tttrttaggc 4080 cctggaaact atattcctag ccctgttctt aaaaggcctc aaccagagac caataatcca 4140 attagaaaay tggcaaacaa aaaatcttat agttactgaa tyttcttctg tttgtbtaga 4200 tggttatata cgtgwtktgt gtgatgtcta taaaaaacct ctaattaatt ggtgtacaaa 4260 taagcacttr ratcaaahat tatttmaaaa saawataaag gctgtagtgc ctcttggttc 4320 atgtaacttt aatatttaav aaataaaaac attcttgtaa aatacaaacg tcttmaaaat 4380 gtaaataggt ggtctaaatt atgcaggtca aatactaggt ttgctaaatg ttttaakgtt 4440 gtaaactgct tctttggcct ttaagtactg tcaacctgcc agcttcacaa ttagtaaggc 4500 ctggtgacat atdaaagtaa ccatgcccct aactatactg gaagaagtca gactttatct 4560 rmwyctagca cataattaaa acaacttacc aggttttaca ttaaagttaa aattacaaaa 4620 agttaccatt ataacatgta attgagacta ctgaaaatgg atttgcatgc aabgtgtgta 4680 aaadcagtaa aattttttaa taaaaaatta taagaaggca taaaaatcta catttttcct 4740 aggagtaaaa gattgtctta aattaaataa agtgaaagtt ttaagcaaat ttttgaaata 4800 ctrtaaaaat taatytttwt ttaamctaaa ttcaaaggaa tatcatatgg tgttccttta 4860 aattaagcat tkaaatgaaa gcacaacaaa rywytcttaa aatgctaatc trctctdtat 4920 caaaatttct aaaagattat aaaagatttg taaamatcaa actggttaag attaaatara 4980 rttatcyata arrkttcatt aaaattgggr ttaacattaa tartaracta rtrcaargrk 5040 aaaatttrrc tttytctytt waacagratt ttyaygtart artwargrcy aataaaagat 5100 wtttgctttt tcaaatwttt raktcatktt rrcaaaayaa rtarcttatr rtaatctaaa 5160 aktctattyy wtaakatyaa mtgttttara mctctaacat attyaasaar skycccaaaa 5220 tyaaacttca gtytcaagrt trtctttcct rayscmtrrc ttttagrgcm cctararcat 5280 caaaagaaag ryaaacaarw tattkaayat rtttarrtas rtgggattgy maaaatgatr 5340 tyttyttytt cagwttatat ttmrrtawat aayattraya tatgttccaa aaytrtatrr 5400 rrtgtctaag rttctartgt mtamatatrt gctaycaaty awaattaagg ttrttatrtt 5460 rsrwtattrt aaamtcarar ataaccaaat ttytttgtca rtcgtgtcar acaattktct 5520 tgtttkaatc ctcttaaaaa tgrtttataa tcarctrtrr gactttaaya rrtrctmtca 5580 aatrcagrtt tctrataaca gawaaamrta crgaactcat aaaaarctaa aatrtttayr 5640 ratatcaarc agaacaaagt taayaraatr raytkarcta atrraaaact raarsaatgy 5700 ttttaacttt trcttattaa aasttttaac mactragcaa rryatactsc ttaaacawaa 5760 tttrgamcwt rtytrtttct ytttgcctgg ttcykctara awtmaraaac tadttataaa 5820 tattyttaac ttryarcaat atasytrttt rcatcadtdv aamaaaatcc attttcttat 5880 gcaatgaaac acaatagaaa aaygctagtt cttttacaag rctttaactg gaagggtgtg 5940 ttttccttta agaaatcaag tttaagttgc aaagccagta acagcctctt gggaaagctg 6000 gtctcatacc ttgtctacac agtcctcata cagaattcct ggcctgtggt gagtaaaaaa 6060 atgtcacttt ctaacagact cagaaacact atghtcttgg gacctcaaaa atacaggagt 6120 ttacccaact cacaaatatt taagggtaca aatccatggc ttggcccaac tttadaaagt 6180 cttatctaag atttcttttg gaacagadtt ccatcaaagc cttatbaaaa aggcctatgg 6240 agagatagtt actcttgctg cactatgttc aaatartyag gccaagtata ataataaagt 6300 ctattttgca aacaattcar tctatyrtga kttrttttta acaaaaagaa aactaaaaga 6360 aagaaatyat gtttcaaadc ttatcataca tttgtcatta aattctaata gttatktttt 6420 aagtttttgh btacatttta aactaaccct acttattcct gtgaaccaac cavhgatctc 6480 bvactvtaac ttaaaaaaac aaaaaggaad ggataatata aaaactaaaa wmcgtctaat 6540 tctagacaag tatcctacaa atcckaysrr adaatgaaaa taaataggat gcccataacc 6600 cagaggttta tttatttaga aaadcaagac caaagaaact aacaaagccc haatacaccc 6660 aaatcttaac agacataatt atavtcacca attatcaggd batatcaaca gcctcaacat 6720 ttttagdctt gtccttaccc ccgttgtctc attttaatac atgtcctcta ataacccaaa 6780 ttrtttcttt tyayctaaaa actatcaaac tccaaatgrt aatrcaartg raatgatgca 6840 taaacacncc tttcytctra gracccttaa accagcctcr rgaraartcc taactgctgt 6900 tncctacacr acacccctyt ccagcargaa gtagccaaaa waatyawcgc ycaatctccc 6960 taacarcagt tggrgtctcc actyctgagg gaggac 6996 // ID MER104B repbase; DNA; HUM; 915 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Non-autonomous Tc2-like DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; MER104B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-915 RA Smit A.F.; RT "MER104B."; RL Direct Submission to Repbase Update (05-MAY-2000). XX DR [1] (Consensus) XX CC Tc2-related non-autonomous DNA transposon. TA target duplication CC site. CC 30 bp terminal inverted repeats. Average divergence from CC consensus 25- CC 26%. Contains 167 bp insert compared to MER104A (at pos 327 of CC MER104A). XX SQ Sequence 915 BP; 274 A; 165 C; 203 G; 266 T; 7 other; ccgtatttca tcgattctaa gatgcacatt ttttcacatt ttaacatctc tgaaatcggg 60 atgcatctta caatcgatgg catcttacaa tcgctgtcag ccaggcggca gtcgtgacgt 120 agttgtcatt gcctgcacgt gtgcgaactt ggtcgttatt cctagcggca tgactgggca 180 tgcaaccttt cgcgtttcag ttaacaaacc atttaaggac catttgagga aggaatatga 240 gtcctggttg ttgtctgaaa accttctgtt ganaccttct ggtaagatca agaaagcgcc 300 agcatcaaaa cttgcagaat gggtgtcagc ggcttggaag aaaatcccgg agacaatagt 360 ggagcattct tttaactcct agaaaccaaa tggttgtggg nangggaggg agaaggagtg 420 aatcagacat gtttagcaac attcctnaag cgggagtcaa aagtaggcta nctctacata 480 attgcaaagc cggctcagga gcccagcacc aatggctctc agttntttta tggattcttt 540 taagaaatgc tgcatcacca acgctcttga ngcacagagg acgatattgt gtggaaaaac 600 acggacatcg atgactctga gtcgaaaagt gattcagaag agttggactc tgaatgtgaa 660 gaagttttag gaatacctta accaatttat ttcgcttata ttttcctttt tatgtatgca 720 caagagtgat atatgataaa aatctgtgtc taaataagtc taaaagagct ctttcaataa 780 gtataaaata aaaattctaa tgataaggaa agcattgtgt catagtttaa ttggcagcgt 840 tttttctttc ttagtggtac ataaaataat ggtgcgtctt acaatcgatg gcatcttaga 900 ttcgatgaaa tacgg 915 // ID MLT1F repbase; DNA; HUM; 542 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 4) XX DE Mammalian long terminal repeat (MLT1F subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1F; KW MaLR family; retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX RN [2] RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1F retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 22%. XX SQ Sequence 542 BP; 134 A; 153 C; 130 G; 124 T; 1 other; tgtggtagcc agcctccaag atggccccca atgatccctg cctcctggta ttcacgccct 60 tgtgtagtcc cctcccacat tgaatagggc tgacctgtgt gaccaataga atatngcgga 120 aatgatggtg tgtgacttcc gaggctaggt cataaaagac attgcggctt ctgccttgct 180 ctctttggat cactcgctct gggggaagcc agctgccatg ttatgaggac actcaagcag 240 ccctgtggag aggtccacgt ggcgaggaac tgaggcctcc tgccaacagc cagcaccaac 300 ttgccagcca tgtgagtgag ccatcttgga agcggatcct ccagccccag tcaagccttc 360 agatgactgc agccccggcc gacatcttga ctgcaacctc atgagagacc ctgagccaga 420 accacccagc taagccgctc ccaaattcct gacccacaga aactgtgaga taataaatgt 480 ttattgtttt aagccactaa gttttggggt aatttgttac gcagcaatag ataactaata 540 ca 542 // ID LTR3 repbase; DNA; HUM; 432 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE LTR from human DNA related to mouse mammary tumor virus (MMTV) 3' DE LTR. XX KW ERV2; Endogenous Retrovirus; Transposable Element; HERVK3; LTR3; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 2-416 RA May E.F. and Westley R.B.; RT "Structure of a human retroviral sequence related to mouse RT mammary tumor virus."; RL J. Virol 60, 743-749 (1986). XX RN [2] RP 1-432 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of class II endogenous retrovirus HERVK3. 6 bp target site CC dups. CC Copies on average 9-10% diverged from consensus. XX SQ Sequence 432 BP; 98 A; 124 C; 99 G; 105 T; 6 other; tgttgggagc tgaaagmctg agggtcgtga ccaactcagc attccactgg aggctatatg 60 atcaaacagc aaactgtttm tcatgaatgc aggatgtggg caaactcgca tctgcncctg 120 ccaccagaag gtatgctgag ggcagtcact ccctggcgcc agtgctcctt gaggttatct 180 actggaacat ctggagcctg ctgttcaaag aawgcagtca tgcgggcctg cgntaaatca 240 agcagctgac cgacaaccac ccccttctcc ctatcccctc tacccaataa atacgaaggg 300 ctgtagaagc tcagggccct tgttcactag aagcaaggag ccccctgacc ccttcttcca 360 aacatactct tttgtctttg tctttattcc cgcgtttgtc ctcctttgtt cagtccaaca 420 gggwctgcgg ca 432 // ID MER110 repbase; DNA; HUM; 500 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Putative long terminal repeat from endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER110; KW retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-500 RA Kapitonov V.V. and Jurka J.; RT "MER110."; RL Direct Submission to Repbase Update (SEP-1998). XX DR [1] (Consensus) XX CC Putative LTR of retrovirus-like element. CC MER110 individual copies are ~75% identical to the consensus CC sequence. There is a 63% identity between 200 bp long 3'-terminal CC portions of MER110 and MER90. XX SQ Sequence 500 BP; 152 A; 131 C; 72 G; 140 T; 5 other; tgaaaactga aaccaacata atttcctgtc cctgdgttaa acaatactgg gaccaggcat 60 acttttctgt tcctatgtta aacaatactg agaccaagca aaaataactt agctacttgc 120 tccaggaaat acytgctcct ggaagataag actgtgaacc aactaaaata gcttacttat 180 caagactaac agcttactca tcaaaactcg tttcaagacc ctcgcctcac tgtgcccacc 240 aatccaaagc tattatgtca taaactctgc ccaatcccaa ccagttcccc gccttgcaag 300 acccacctta aaatcaccca gcccaggccc taaaacccta taaataatcc tnccctaatt 360 tttccatttt gagacactac taagactctg tatctatgtc aaggtgatgt tcttccttac 420 tgcagtaagt ctaataaaaa ctcagctttg cttgatcaac aggttttntt ttctggtggt 480 ctttttgggg agycgacagt 500 // ID MamGypLTR2b repbase; DNA; HUM; 922 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 02-JUL-2009 (Rel. 14.08, Last updated, Version 2) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; MamGypLTR2b_LTR; KW MamGypLTR2b. XX NM MamGypLTR2b_LTR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-922 RA Smit A.F.; RT "MamGypLTR2b_LTR - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; 34% subst in dog-human; 5' end undefined; 80% similar CC to MamGypLTR2c which extends further 5', but is also undefined CC there. Pos 568-922 (end) are 65-75% similar to the similar CC region in MamGypLTR1b. XX SQ Sequence 922 BP; 230 A; 215 C; 301 G; 146 T; 30 other; cctccctccc cccagannag ataaagaccc tctggactgg agggaggagg agagctggag 60 aggagagaga gagttagacg ctggtgggtc tctgagaagg gccctgcgcc cctctcccct 120 cctgggccga tcccggggng ggggnaaatg gaannctcag ataggtttgg gggtccnaga 180 gcagagagga cttgtgcctn cttcccgggt gaagccnggg aggcggcaag cctcgcagag 240 nngccctgca tccacatggc nngagagcgg cagagcagag atggctgcgt ggggtgtcta 300 ggcagagggg cctgagaggc ncccccgagt ctcccgacag cccagagtgg cacnggagag 360 canccaggtt tccctgctcc tccaagaagg gcgcgagaat tagctgagag agagccgtgg 420 cagaaantag cagaggcctg cagccagggg ccagctggga ngagnanaag gngcatgcct 480 gggggaagga tgccagcggc cggagaccag atgggaagtg gccacctcag cggatgccag 540 cngggagggg tgncgacgnc cgaggaccag acaggacaag gtacatctca gcggatgcca 600 gcagaccagg acagatgang accgagaagc ggacgccncn ccctcccaat gatacggcan 660 ctgtgtaagc cccctggaac ttaganncaa ccccagggag aaggggagag aagggggaaa 720 atcctgaatt gactgagttt taaacctgaa atgactgaga aatcactgaa tttgactgag 780 tttacctgga agtgactaga ttaagttttc tgccatcagg cagaatgggg gctcgagata 840 gaaattaagt tcagttatag aaaaataaag ttacattttt gcacacctga gtttgtggct 900 tgtgaaattc gtacctgcta ca 922 // ID MER61B repbase; DNA; HUM; 425 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 02-DEC-1997 (Rel. 2.11, Last updated, Version 1) XX DE Primate MER61B repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR of retrovirus-like element; MER4-group family; MER61B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-425 RA Smit A.F.; RT "MER61B."; RL Direct Submission to Repbase Update (NOV-1997). XX DR [1] (Consensus) XX CC Putative LTR of MER4-group retroviral like sequence. 4 bp CC duplication CC sites. Bases 130-end 95%, 84% and 81% similar to MER61C, MER61 CC and CC LTR20, resp. XX SQ Sequence 425 BP; 86 A; 115 C; 115 G; 107 T; 2 other; tgatagagac aggaggcagc caagggtccc ccggtgaaac cccaccttca agcctaaaac 60 agcctgaagg ctgaaaaacc agactgctgg tcccggatga agcccaccct ttcctgactg 120 attctctctg aataatgccc acctgcgcac tgggaggacg gggtggagcc acgggaagtt 180 cgtgccttgt gcagngggga ggagcctggc ctcttctgtt cctgtgtggt ggcctggggt 240 tcaatctgtg aggtgggagc ctgttggcag gactccctct cgctttgctg agagttgttt 300 ttcctttttc cttttcgccc aataaattct gctcctcacc cttcaatgtg tccgcgwgcc 360 taatctttcc tggtcgtgtg acaagaaccc agttttagct gaactaagga gaaagttctg 420 caaca 425 // ID L1M2A_5 repbase; DNA; HUM; 2233 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate L1M2A_5 repetitive family - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 family; KW L1M2A_5; LINE. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-2233 RA Smit A.F.; RT "L1M2A_5."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [1] (Consensus) XX CC 5' end of L1M2 LINE1 elements with L1MA4-6 subfamily 3' UTRs. CC ORF1 starts at pos. 1960. 5' UTR < 70% similar to that of L1M2_5. XX SQ Sequence 2233 BP; 594 A; 745 C; 537 G; 348 T; 9 other; gagagtgacg tcagcaagat ggccgactag aagcccctag cgctcgtccc cctcacaaag 60 acagccaaaa caacgaataa acaactacat tttaacgaaa ataactaaag gagagcgccg 120 gagtacatca aaggagtaac agaaaccctg gtgagcacag aaactcagga tggccacata 180 gagaacggaa ggaaacaccn ggcctccacc accccatccc ccagccggga tcagctggga 240 accaggagga acttctccct acggngagaa ggtaagcaag aggatcccag caacccccat 300 caacaccttg gacacctaca gtcctcacca ctggggtccc ctgcagtcct cacaggcact 360 aagcccagct gagggagctg cctggagtcc acacagctgt gctcccccca gagaaggagc 420 cgacactgtg ccccgccccc tgtggcccac acggctactg cgctacgcca tcttggaact 480 ggaactactg ctggagtgtg tcttgctctg ggggcgagta gccatngcac cccttcatcc 540 ctgaggctaa gccgccactg aaccaccccn gcccggtggc ccaacatccc caagccgagc 600 tgcaagcagc tgttacaccc ttccccgtgg ggccaagcag cggtggagcc gctccaccta 660 cccctcccag tgctgctgca ccctgccccc tcaggccaga gctgaagcag taccctgcct 720 cctggggaaa cagtgccttg gccacccaga gcagtcacgc ctccctggtg cctaagctga 780 agcagcgccc tgcntcccag gaaacggtgc cttggccacc cagagcagtc acacccccca 840 ggcctgagct gaagcggcac actgcccccc ggggaatcgg tgccctggcc gagctgagca 900 gctgcacatc ccagggctga gctgatgtag taccccgcgt cccagggaaa cagagcagtg 960 gctgagctga gacaccccgc cctacaggcc aaacaactct agtaccctgc ttccctggag 1020 ctggactagc cccctagagt ctgagctgct gagacacccc cctccctggg gagtggagtc 1080 atcgctgcgc tgctccctgc cccccgcagg gcccaagcga cagctgtgct ccgccattct 1140 ggggtccttg ctgctgctgc acctggcctc acagagtctg ggatactgcc gagccccacc 1200 atcccagggt ccagagtcac cactacgcgg tgcctcatcc cctgggaccc gagttgccac 1260 tgagccctat tggctcaggt tcccgaattg cagccgtacc ctgctccccg ggcccaaacc 1320 tccagagcac cccttcttcc ccggagtcag gccagtgctg tgccctgccc cccagggnta 1380 gaatcacagc tacaacccag ccccctgggc ccgagctgct agggggtgcc tcagagtcac 1440 agatcctggc tctgtgggca acctacatcc aaccctgcca cagagagtaa acctgcaccc 1500 caagacccag gtgccacaat aggttcgcga gaccctgagc ctaggacccc ggccccacag 1560 ccgctccgag cacctgcacc tggaacccag cgccgctgca gctgcttgta ggccatgtca 1620 gacccgacac caagagggat cccctcggct aagtctcccc attgtgggga aaatgagaat 1680 aggaggaccc caaaagccct tgacaccaag gacattaaca acctacgctg ccaccgccgc 1740 tgccacaaac ttctacagcc taggccactg aggcacccac agttattgct gacgttgaac 1800 gcagctgaag aagctgcacg gagactatac cactgcacct acctggaaac agagtcacca 1860 cacccttccc aaccggcaca ctaagaccca actgcaggtg aaagtctttc tctatgaaag 1920 ccactctaga aagtttggaa gaggcgattg ttccaccaga tgcacagaca tcaatgcagg 1980 gacacaagaa acatgaaaaa gcaaggaaat atgacaccac caaaggaaca taataactct 2040 ctagtaacag accccaanna aaaggaaatc natgaattgc cagaaaagga attcaaaata 2100 atgatcttaa ggaaactcag tgagatacaa gagaatacag atagacaatt caatgaaatc 2160 aggaaaacaa ttcacgatat gaatgagaaa ttcaacaaag agatagatat cataaaaaag 2220 aaccaaacag aaa 2233 // ID L1MC2 repbase; DNA; HUM; 1091 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MC2) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M4; L1MC2; L1MC2 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1091 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1091 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 16%. XX SQ Sequence 1091 BP; 414 A; 186 C; 215 G; 271 T; 5 other; ctgktatcca aaatatacaa agaactctta aaactcaaca ataagaaaac aaacaaccca 60 attttaaaat gggcaaaaga tctgaacaga cacctcacca aagaagatat acagatggca 120 aataagcata tgaaaagatg ctcaacatca tatgtcatta gggaattgca aattaaaaca 180 acaatgagat atcactacac acctattaga atggctaaaa tccaaaacac cgacaacacc 240 aaatgctggc gaggatgtgg agcaacagga actctcattc attgctggtg ggaatgcaaa 300 atggcacagc cactttggaa gacagtttgg cagtttctta caaagctaaa catantctta 360 ccatacgatc cagcaatcgt gctccttggt atttacccaa atgagttgaa aacttatgtc 420 cacacaaaaa cctgcacacg aatgtttata gcagctttat tcataattgc caaaacttgg 480 aagcaaccaa gatgtccttc aataggtgaa tggataaaca aactgtggta catccataca 540 atggaatatt attcagcgat aaaaagaaat gagctatcaa gccatgaaaa gacatggagg 600 aaacttaaat gcatattgct aagtgaaaga agccagtctg aaaaggctac atactgtatg 660 attccaacta tatgacattc tggaaaaggc aaaactatgg agacagtaaa aagatcagtg 720 gttgccaggg gttcaggggg agggagggag ggatgaatag gtggagcaca ggggattttt 780 agggcagtga aactattctg tatgatactg taatggtgga tacatgwcat tatacatttg 840 tcaaaaccca tagaatgtac aacacaaaga gtgaacccta atgtaaacta tggactttag 900 ttaataataa tgtatcaata ttggttcatc aattgtaaca aatgtaccac actaatgcaa 960 gatgttaata ataggggaaa ctgtgtgngg gnggggtgag ggggtatatg ggaactctct 1020 gtactttctg ctcaattttt ctgtaaacct aaaactgctc taaaaaataa agtctattaa 1080 ttttttaaaa a 1091 // ID THE1C repbase; DNA; HUM; 375 BP. XX AC . XX DT 24-JUL-2000 (Rel. 5.06, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 1) XX DE Long terminal repeat (THE1C subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LRS; LTR; KW MaLR family; O-repeat; retrovirus-like MaLR element; THE1C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Sun L., Paulson E.K., Schmid W.C., Kadyk L. and Leinwand L.; RT "Non-Alu family interspersed repeats in human DNA and their RT transcriptional activity."; RL Nucleic Acids Res 12(6), 2669-2690 (1984). XX RN [2] RA Paulson E.K., Deka N., Schmid W.C., Misra R., Schindler W.C., RA Rush G.M., Kadyk L. and Leinwand L.; RT "A transposon-like element in human DNA."; RL Nature 316(6026), 359-361. XX RN [3] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX DR [3] (Consensus) XX CC LTR of THE1C retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 9 % Intermittent subfamily CC between THE1B and MSTA; 90% similar to THE1B over the entire CC length. XX SQ Sequence 375 BP; 75 A; 94 C; 91 G; 115 T; 0 other; tgatatggtt tggctgtgtc cccacccaaa tctcatcttg aattgtagtt cccataatcc 60 ccacgtgtcg tgggagggac ccggtgggag gtaattgaat catgggggcg gttaccccca 120 tgctgttctc gtgatagtga gtgagttctc acgagatctg atggttttat aaggggcttt 180 tccccctttg ctcggcactt ctccttgctg ccgccatgtg aagaaggacg tgtttgcttc 240 cccttccgcc atgattgtaa gtttcctgag gcctccccag ccatgctgaa ctgtgagtca 300 attaaacctc tttcctttat aaattaccca gtctcgggta tgtctttatt agcagcgtga 360 gaacggacta ataca 375 // ID MER21A repbase; DNA; HUM; 931 BP. XX AC . XX DT 16-JUN-2000 (Rel. 5.05, Created) DT 01-JUN-2008 (Rel. 13.07, Last updated, Version 2) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MER21; KW Long terminal repeat of retrovirus-like element; MER21A. XX NM MER21A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 538-782 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 2-931 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-931 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [3] (Consensus) XX CC LTR of a class I retrovirus-like element. 4 bp target site dups. CC Copies are on average 16% diverged from consensus. CC MER21A is a member of a closely interrelated group of LTRs CC further CC including MER34, MER39, LTR29, LTR48 and LTR49. XX SQ Sequence 931 BP; 208 A; 235 C; 247 G; 228 T; 13 other; tgtggtgtta tgatatatat atgggttttc atccacagtt cctggctcat aactcccata 60 gcccttgtta cagtcttttg ttataatgtt ggggtgcgtt aggcctcagg ggcagcctca 120 gaaacagaat ctctgacctt ctcctgccct cctttcacct gccccaaggc aggactctaa 180 tcttctccca cctttctgat tgtgggtcnt aagaccctca ttccagaggg ggtcccgccc 240 cataccctgg aggaaggaat gctgcacaga gagnccagga agaatctgaa cggacaggcc 300 ttgctgggnt tagatcanac cctttttgnc caatcacatt tcnacagtcg tccatgcttc 360 agtcatggac agccaatgaa gcctccataa aaanccaaga ggacngggtt cggggagctt 420 ccggatagct gaacacgtgg aggctnccgg aaggtgaacc cggagggtgg cgccccagng 480 gcatggaagc tcctgcgccc cttcccccat acctcgccct atgcatctct tcatctgtat 540 cctttgnaat atcctttata ataaaccggt aaatgtaagt gtttccctga gttctgtgag 600 ccgctccagc aaattaatng aacccaaaga gggggtcgtg ggaaccccaa cttgaagcca 660 gtcggtcaga agttccggag gcccggactt gcgactggtg tctgggggtg ggggcagtct 720 tggggactga gccctcaacc tgtgggatct gacgctatct ccaggtagat agtgtcggaa 780 ctgaattgga ggacacccag ctggtgtccg ctgcttggtg tgtggggaaa aacccccaca 840 catttggtca cagaagtctt ctgtgttgat gattgttgtn gtggtgtgag agcagaggaa 900 aaacacggtt tgagagagtt ttcccgaaac a 931 // ID Charlie13a repbase; DNA; HUM; 1514 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.1, Created) DT 06-OCT-2006 (Rel. 13.1, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; hAT-Charlie; KW Charlie13a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1514 RA Smit A.F.; RT "Charlie13a - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC rnd-3_family-5891 ORF from 141-1283, encoding a protein 63% CC similar (40% identical) to the C terminal half of the Charlie5 CC transposase. XX SQ Sequence 1514 BP; 440 A; 302 C; 345 G; 424 T; 3 other; caggggcatc caacatgcag cccgcgggcc aaatgcggcc cgcctgaccc cagggtgcgg 60 cccgcctgag atttttagca aaaatgtttt tacctaatta gctagcacac atgaactagt 120 agggcctaac cacctgccag taaggaattt gagaagtttg gtctaaacat ggaaaagctg 180 agttcacttg ccacagatgg ggcacctgca atgaaaggga agaaaggttt caacagttta 240 ttcaagtcaa aagagaaggt tggtgtgccc agcttccatt gcatcattca tcaggagagt 300 ttgtgctgtg aactttgcaa gtcaggttca ttgcatgatg tgatggagga agtgatcaag 360 attgtgaatt ttcttcgtgc tcgtgccctt aaccatcgcc agtttatggg atatttggaa 420 gaagttgaag cagagtatgg agatttagtt tattttaatg cagtcagatg gctaggtcgt 480 ggaaacttgt tgaagagatt tactgagctg cttcctcaga tcaaggactt tttggaatta 540 aagggctctg agagacccaa cttgttagac ccccagtggc tcacaagatt gtactttctt 600 actgatgtga caagacatct gaacacactg aacttgaaac tgcagggaaa aaacaagagc 660 attgctgatt tgttcaagga agtgcaggta ttcagactca aactggacat gtggattgag 720 cagatggcaa ctggagactg cactcatttc ccattgctga actgccctga gctcaatgga 780 atcacagatt ttgaagaact gcagagctat ttggtggaaa tgaagtcaca atttcagaag 840 agattcacag attttgatga gtatgaatca tgctttaagt ttctgcggct gcctttggag 900 tgcaaacctc aggatgtgtc tgaattatca agcatctgcc ctatcagtgt ggctcagttt 960 caagaggaac tgattgagct gaaagcgaac tatgcccacc aagaagacac agtatccctg 1020 gaattttgga gatgagtata tgaatcccag aactatcctg aaatttctgg ctatgtggcc 1080 aaactctggg caatgtttgg gtccacctgg ctctgtgaaa gtacattctc tttcatgaaa 1140 ctgctgaaat cgaagctgag agccaccatc agtgatgtaa acctggagtc agaattgaga 1200 tgtgccctga ctgaatacac cccacagttc tcaagaatag ttcagtctnt taaatancag 1260 tattctcatt gacttgatca aaattgatca atgactagca ctaggcctat aactgtgcac 1320 ttttgtatga ataaagttga ttaaactgtt ttttggactg cttttgtatt actgcttaaa 1380 atccatattt ttgaatagct aacaggctat attttcacca ttgttatcaa taaaaaaatt 1440 catgcagccc gcacacatat ggatttctga tcatgtggcc cactattgaa aaaacntgga 1500 cgcccctgcc ctag 1514 // ID MamRep4096 repbase; DNA; HUM; 426 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; MamRep4096. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-426 RA Smit A.F.; RT "MamRep4096 - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 8 bp TSD not clear. May be something else altogether than a hAT. CC 25% subst in dog-human. XX SQ Sequence 426 BP; 131 A; 83 C; 89 G; 122 T; 1 other; cagggcctct cagaggtcga gagaggcccg ggccacttcc attttttgag gctcccggta 60 tattaaaaaa tgaagaaatg ccaaaacagg gttacaaaaa ttgtggtata ttttaaatgt 120 ttacatttaa caaattaatg cttttaacac aaaaaataca atgcaatata attgtgctat 180 tcacaagata attacaggat ttatwaaaaa tattaattca tagtgcacta caggcggtgt 240 ggtccggtaa tgggacacaa gtttaaagtt gtatgatgaa cgtcttcttt caatcctgtc 300 agtgtatctc tgtgactgta tgtataacct catttggaga taacgtcaaa agtctaaatt 360 tgaggccctt cgtgaatgtg aggcccgggc caaatggccc tcctggcccc cccgtgacag 420 gccctg 426 // ID MLT1L repbase; DNA; HUM; 615 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Mammalian long terminal repeat (MLT1L subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1; KW MLT1J; MLT1K; MLT1L; MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 135-489 RA Jurka J.; RT "MLT1L."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-615 RA Smit A.F.; RT "MLT1L."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1L retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 28%. CC Pos 69-615 are 74% similar to MLT1K, pos 153-615 75% to MLT1J. XX SQ Sequence 615 BP; 146 A; 139 C; 153 G; 171 T; 6 other; tgtggcagac acngttggtt gcctacccaa tagccattct cccttcttcc ttgctaacag 60 aaccctgatt ttgttcaggt atcaggcagc catgtgcttt aggggaggct ggccctctcc 120 tcagccccag agggtgaatc ttgattggtc taagccaatc atggtaatcc cattcccctt 180 gccagtgatt ggtttaggaa tgggcatgtg acacaattct ggccaatgag acatgagggg 240 aagtctgctg ggagggcttc tgggaaaggt tttcttctct nattaaaaaa cntaaagaga 300 aaacatgtcc tcttttcttg ctcctgcttt ggacgttgtt gtgtgaggat gtgatgcttg 360 gagctgcggc agccatcttg caaccatgag gggacmagcc tgagangaaa agccaacacg 420 ctgaggatgg cagagcggaa agatggaaag aacctgggtc cttgatgata tcgttgagcc 480 gctgaattaa ccaaccctgg aaccgcccta cctccggact tcttgttatg tgagataata 540 aattttcctt attgtttaag ccacttttag ttgggttttc tgttwcttgc agccaaaagc 600 atcctaactg acaca 615 // ID LTR1C3 repbase; DNA; HUM; 638 BP. XX AC . XX DT 01-MAR-2009 (Rel. 14.06, Created) DT 18-JUN-2009 (Rel. 14.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR1C3. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-638 RA Smit A.F.; RT "LTR1C3 - ERV1 Endogenous Retrovirus from primates."; RL Repbase Reports 9(6), 1174-1174 (2009). XX DR [1] (Consensus) XX CC 9.5% subst, 25 copies. XX SQ Sequence 638 BP; 152 A; 204 C; 168 G; 113 T; 1 other; tgatacagaa cggctgggct cccggctaaa ccccaccctc aagcctggaa cctcggccct 60 aagtgaaaac agctgacccc gtttttccgc ccaaatgatt gcctttttgg cccgccccgc 120 ccctatcctg tgcccataaa aacagacttc agctggcaga gcaacacaag cggctgatgc 180 aagcggtcgg ggatgcaagc tgctgagcgt cggggataca agcggctgag cggcgagcag 240 agaagcaact gagcgtcgga gactacggat agacgcggct aacttcagac ggtgcagctt 300 cggaggggag cccggccaga gacggctggg cttcagggaa agatcacctt cttcccgcac 360 catccccttt ccagctcccc attccgccga gagccacttc caccgcccaa taaagtcctc 420 cgcatncact acccttcaaa cagttcgtgt gacctgattc ttcctggaca ccgaacaaga 480 actcgggtgt caaaaagggc aggtgcagga ggctgtcacc ctgacccttc actgagctgt 540 taacacttag ccgtccacgg actgcaggct gagtgaaacg agccactcca gttcctgccc 600 acgaaggggg tcaaggtcaa gggaacaatc ccgtctca 638 // ID MER91B repbase; DNA; HUM; 184 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE MER91B repetitive element; non-autonomous DNA transposon. XX KW DNA transposon; Transposable Element; Nonautonomous; MER91B; KW Nonautonomous DNA transposon fossil. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-184 RA Smit A.F.; RT "MER91B."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative nonautonomous DNA transposon fossil. 6 bp TIRs. 5' 10 bp CC similar to MER1 group TIRs. Average divergence from consensus CC 25%. XX SQ Sequence 184 BP; 46 A; 43 C; 48 G; 46 T; 1 other; cagggctgcc atgtacagtt gtgcaggttg tgcactgcac aactctaggg ggcgccattc 60 acatcataga catcacagat ttgtataatg acaattttcc aacagatggc agtaaagtgt 120 cttgaggaag gggcgccttt ttctaattca cacaaaggcg ccgtatgggc tagcnctggc 180 cctg 184 // ID LTR32 repbase; DNA; HUM; 471 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE LTR from human endogenous retrovirus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR32; KW Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-471 RA Kapitonov V.V. and Jurka J.; RT "LTR32."; RL Direct Submission to Repbase Update (15-DEC-1997). XX DR [1] (Consensus) XX CC LTR32 sequences are ~83% similar to their consensus sequence. CC There are about 2000 LTR32 copies in the human genome. CC These sequences may be subdivided at least in two subfamilies. CC LTR32 sequences belong presumably to the endogenous retrovirus CC HERV32 CC related to the human retroviruses HERV18 and HERVL, and mouse CC retrovirus CC MERVL. Pol protein shows significant similarity to the Pol CC proteins CC encoded by MERVL, human and simian foamy viruses, fish retrovirus CC (walleye) and Gypsy-related transposon MAG from silkworm. CC An example of HERV32 retrovirus is present in the GenBank CC sequence CC AC002465 (position 121765 <- 126433; both LTRs are included). CC This retroviral sequence has been inserted into L1 repeat CC (L1M4_5) CC and it carries an extra insertion of MER1 transposon (position CC 124031-124366). XX SQ Sequence 471 BP; 106 A; 116 C; 124 G; 123 T; 2 other; tgtcnataac caagtgtatg gtagacgcac ctgacagcaa taacttaagc ataccctgag 60 aatgaccctg tatggcagat gcacctgaat gtgtgtttgg agttctgagc taaggaatcc 120 gggagtggcc aacccggaga ttcattcctt atctatgagg aacatctgag cccccggccc 180 gtcccgtgga acgcaggcca tacaggggat cgaggccctt tgttttgggt taaatgaagg 240 ttgccaggtg gaggttgtta gggggagggt gctaagtgaa aatgctatat aaactgcatg 300 ctttttrcaa gcggttgcgg ttctcctgtc cagcccacca ccactggact gtcttccctg 360 tatgtaagtc cccaataaac cctatgtctc atttgctggc tctgggtctc ttcttcggcc 420 tcttgaacct ggtgccatcc ctattggagt caataggggt ccggcacaac a 471 // ID MER4CL34 repbase; DNA; HUM; 765 BP. XX AC . XX DT 03-AUG-2008 (Rel. 13.08, Created) DT 03-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of en endogenous retrovirus from MER4 group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; retroelement; MER4C; MER4CL34. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-765 RA Jurka J.; RT "Mammalian long terminal repeats."; RL Repbase Reports 8(8), 825-825 (2008). XX DR [1] (Consensus) XX CC This LTR combines features of both MER4C and LTR34. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 765 BP; 215 A; 213 C; 116 G; 216 T; 5 other; tgtgaaagaa aataaaatct cgggacccca aactcactat gccaaaggga aaagttaagc 60 ttgggaactg agtcacgcaa aaactgcctt cctttttttc ctaaacagat agctgtaatt 120 tcacaaccct gtgtcatagc ctcatccata agccaggttc ccacaatgat agaaggccac 180 atatctcccc agatggcctc cctcacaaat tgctcacaag gaaattcctt gtgggcccct 240 aaatctttca gratacatat cccccctata aactagccct aaaacagagt tctgttgaat 300 ctcaccctga caatgtcaat taccagctta tcttcacagg tacgggacaa ggacaagact 360 agaaatcatc cctccgccca tcctgagacg aatgcataat tgactttttc ctctactccc 420 tcttttyaca tgtttatctt atgtaaaatg cagatttact gagcgtgaga tgaatgcata 480 attgactttt cctctacccc ctcctttcac atgtaaaatg tagattcast gagcgctaat 540 caaagcctca caagaatgta accacttgcc tcattgccta cccatccttc ttttctttcc 600 tctttcccct actgcccgct ctttcccctt taaatattga agtccycaaa accctctttg 660 gaaaaagcac aggtcacaga tgctcctgtg acttgtgttt tttcccgggc gcgtcctcaa 720 ccttggcaaa ataaacctct aattgattga gacctgyctc agtca 765 // ID MER33 repbase; DNA; HUM; 324 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Nonautonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; MER33; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 202-281 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 1-324 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [2] (Consensus) XX CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. XX SQ Sequence 324 BP; 111 A; 43 C; 48 G; 117 T; 5 other; ctgcgctgtc caatacggta gccactagcc acatgtggct attgagcact tgaaatgtgg 60 ctagtccaaa ttgagatrtg ctgtaagtrt aaaatataca ccagatttca aagacttagt 120 acgaaaaaaa gaatgtaaaa tatctcatta ataattttta tattgattac atgttraaat 180 gataatattt tggatatatt rggttaaata aaatatatta ttaaaattaa tttcacctgt 240 ttctttttac ttttattaat gtggctacta gaaaatttaa aattacatat gtggctcgca 300 ttrtatttct attggacaac gctg 324 // ID HUERS-P2 repbase; DNA; HUM; 3088 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Primate HUERS-P2 repetitive element - a consensus. XX KW Endogenous Retrovirus; Transposable Element; Nonautonomous; KW HUERS-P2; Nonautonomous retrovirus-like element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-3088 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Genbank (APR-1998). XX DR [1] (Consensus) XX CC This sequence is associated with LTR1 long terminal repeats. It CC seems to CC have encoded only a gag-like protein similar to that of HUERS-P3 CC (70% CC similarity at DNA level), and thus presumably was a nonautonomous CC element. About 11% divergence from consensus. XX SQ Sequence 3088 BP; 775 A; 800 C; 719 G; 721 T; 73 other; actgggggct cgtctggaat cagcagcagg gtgatktaca gatgwggaac tgtcggatgt 60 gcctcttttc taagaccctg ccacctctct ttcttntggg taaaaggctn tgtttccctt 120 cacagaggtc tcgctgkcac gcgggactgg agcagagwcc tggggcwact gaaggcatcw 180 tttgctggaa ggccccgasa ctgaactctg tcggccagga cccccagact tcgcttggtg 240 tnttttctct ctctcacagt ttamaaatgg ctcttatctc ctttataatg ttaagngttt 300 tgctacaggc tgcggcaatg ttactaagta naatgagcat ttggctcagc catcaaaggt 360 gcaaatcaga acaatgtggt ttccattttt tcttagaggt gccatscttg cccccaccct 420 ganagccaca ggcgcgcacg gcgcagggca cctcccctcc ttaccccctc ccctcccggc 480 tcaggcgcct gggcgtgccc acggcatgca aaagccgcgc ccaacagcca cgaagggtgg 540 gagaaaaccg aggctgccgc tgggacccca cggggctggc tggccggtgc ctcctctcag 600 ccgcgccaan ggaacctttc ctnccctggc caaggaatnc aaactagtct gaaccgggga 660 aaggatacaa taattaaagg gacncatttg cactgagcaa ggggttcttc cccccgactm 720 cccccttttt gncctttaaa ctgtttttct tttttccttt tctaagtgag agggttccct 780 ncccakcact ctgcttctga tagggaagtt aacagaggas sagcgacccc tgctggcgga 840 tagctgcaaa ttcggcaggg cncatttgag acaatctaaa cagatagatn cagcccctna 900 aatatctttt tagtcccaaa cttgattcca agcttcaggt tgaggcccta gaaagaaaaa 960 ncagatctga gggatccaaa gccaggcaac aggcacaatg taaatgggca ggaccaattc 1020 ctgctgacta aacccccgcc ccatggaagg aggccatgct ccttggcata aacgaggccc 1080 agggaactca aaggttgtcg acagcaggga ganagggagg cataggcgag ggcggatcat 1140 tcctwntctc cgggccttcc ctgcttcatg gatgaatgcc acattngcac ccatgggtgg 1200 cacctgccaa ggtcaccggg actcggggat aaaaagtgga aanngaaagg annatgctcg 1260 ctttctctcc ccatcacacc ctgagttttc actgaaagaa ggaagggaaa tgagggacgc 1320 ctctattccc tgtctttcag aacgggcaac cagctctctt caccaccccc agcttatact 1380 cctctggagt gtatcctgaa ccattgggac tgctttgacc ctcggaatct gnaggaaaaa 1440 cgcctcatag ccctctgcac aaaggtttgg ccaaattatg acttacaasa aggactagct 1500 tggccttagg aaggaaccgt tcattttgat accatncggc tgttggacct tttctgnaaa 1560 cgtgaggaca gatggtctga ggccccatat gtgcaggctt tctatacctt gcagggcaat 1620 ccagaccttt gccgacagtg taggattgat ccagccctcc tgtttgccat ctcaggagag 1680 gctgcaaggg gcaatcccag ggaactaaag awacgagtcc cagaggcacc cccagcagag 1740 aagccagctc cctcnagccc tgctcctccg ggtccaccct gacctcccta tccagcttca 1800 gcctctcact tgccccctcc tagaaattct caccctagac aagccccggt ctcactcttg 1860 ctcctccaac agatgcctgg tgaatttggc cccagtaagg tccaggtccc cttctctcta 1920 caggacttaa agcaaattaa gggggatctt ggcaagtttt cagatgaccc tganagatat 1980 atagaggctt tccagaattt canccaaata tttgaactct cctggagaga nagttatgtt 2040 acttttgaat cagaccctga tggacactga gaagcangcc gctctgcaag cagcagagag 2100 atttggggat gagctttgta tnacatatag catcaggaaa gggggcgaat nttatccaac 2160 tggaagagaa gcagtaccag tgaatgaccc tggatgggat cccaatgatg agatgggaga 2220 ctggangagg agacactttc aggtgtgcat aaggagggct tacgtaggac taggaccaaa 2280 cmcctsaact ataccmmgtt atccatgatn gaccaggaat ttgatgaaaa tctcattgcc 2340 ttcttggaaa ggctaagaga ggccttggta aagcacacct ctctatctcc tgattcagtc 2400 gagggacaac taatcctaaa ggataaattt attactcagg cagcccctga tatcaggagg 2460 aagttgcaga aacgggccct gggaccagat agtactttag aggacctcct gaaagtggcc 2520 acctcggtct tttacaatag agacagaggn ccaggacctt gagttcagta gacacaggna 2580 agagacctgg gaagcttnag tagccaccgt gtaagcccac aaaccccaga antnccaagg 2640 tgnacctgtt aactgctaaa gatatggcaa gaatagttan ctccttctaa agtttatntg 2700 ctctcgtaca agstttaatt tcttncacca gggstgaccc aamasctcag ggtacaatnt 2760 tgctgttagt atatttcact tcttatttct gtaatctttg gcactanatt ctttccttgt 2820 ataatacacg tttaacccat gcatacttaa ccttatagaa ckkgtttttt ttttttctca 2880 cgcctagagg ccatcaaact ccaaatggnc aggcaactga agcctcggac aatgactccc 2940 ctttgccagg aacccttaga tagacctctg ggagaaattt gactgccgtt ttccccaaaa 3000 caacgccccc tgtcggcagg aagtagctaa gaccggtcat cgtccatatt ctaatggcag 3060 ttagatgtgc ctcttcagag aggggaaa 3088 // ID LTR85b repbase; DNA; HUM; 784 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; LTR85b_LTR; KW LTR85b. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-784 RA Smit A.F.; RT "LTR85b - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; 33% subst in dog-human; 80-90% similar to LTR85a over CC pos 1-711; LTR85c has short match to MamGypLTRs. XX SQ Sequence 784 BP; 219 A; 137 C; 251 G; 160 T; 17 other; tgtaacagag aggaaaaaat tgctatttaa aaccacaact gactgcagct gcttctgcct 60 cctaagggag tggcanaatt cctctccgga gnagatggct ctttgtttag gaaaatacct 120 tgataggccn ctttgggtgt gaaaggtgag gcccccaggg catggtctgg aaggagacag 180 tgaaacaaag aganagctaa actgctctgc ataanaaaat gaacagaatt tnggggannt 240 ggagggnngg naggagaggg gngagggagn tgagagaggg gagacagggg caagcaactg 300 agagaagtca ggagatatgg gaagcctgtg gagaaangtg gccagtgaga aattcccggt 360 ggcggaggtg gccgaaggac ttttaagaac agggatgtct aatattcaat tttaagttgt 420 ttgcgttgct gtgatgtaac cccctccgtc nccccaaacc ttcagtaaag tctgctacac 480 acacaaatgc cttgtgtgag tggtgttttg gggaaatcaa ggaaaggggc tgtgttccat 540 gtctgggtcg gcgtggagca gagagaagag aacagccacg ggaggtgaga cgcgagtgag 600 attgagagtt cagcggaagc aggaantcgg agccagaggt gaccatgaga acgtaagccc 660 cccgggaatt cgcagaaatc ttggggaggg cattggactt cccacaggat gtgggatggg 720 ggtttgagcc aattttatnt aaatctcaaa ggacagggtg acctcagctg acatctgggt 780 taca 784 // ID Kanga11a repbase; DNA; HUM; 970 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE Mariner/Tc1 DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; TcMar-Tc2; KW Kanga11a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-970 RA Smit A.F.; RT "Kanga11a - Mariner/Tc1 DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC Pos 1-337, 320-739, 734-782, & 862-970 (end) match Kanga1 pos CC 1-302, 471-891, 1455-1500, & 1637-1745 by 80-90%. The CC differences are big enough to suggest an independent invasion of CC a transposon very similar to Kanga1. The name Kanga2 was taken, CC so Kanga11 seemed okay. XX SQ Sequence 970 BP; 301 A; 179 C; 214 G; 276 T; 0 other; ccgtatttcc tcgattctaa gacgcacgtt ttttcacatt ttaacgtttc tgaaatcggg 60 atgcgtctta caatcgatgt caaaagaaac ttgccagccg ccaggcagag gagtaagttg 120 tgacgtagtt gtcattgcct gcgcatgtgc gaacttagcc gtgcatagaa ggtatctgtt 180 catccgattg tcacctcagt tgagttattt gcattggtag caccacacgc ggttgaattt 240 taacttaaat ttggatccct aattgtcgct taaaatgtct tcaaaaagat tacactatga 300 tgcagcattg aaacgaaaag ttattgtgta cgcagaagat tgcctgtcac acgccaggca 360 atgcaattaa aggcagtaga aattgccaaa tctctcggaa tagatcatag aattttcaaa 420 gctaggagag gttggtgtga ccgattcatg cgtcgtgaag gactatcact caggcgccga 480 acatctatct gtcaaaagct tccggctgac tttcaagaga agctgtttaa cttccagcga 540 tacgtaattc aattaaggaa aaaacgaaac tacgagttta accaaatagg aaatgcagac 600 gaaaccccgg tattcttcga tatgcctcga aattatactg tcaatcctaa aggtgctaaa 660 gaggtcaaga tcacgagcac gggttatgaa aagcagcgtg tcaccgtgat gctatgcata 720 actgccgatg gccaaaagtg attcagaaga atctttagac tctgaatgtg aagaaggctt 780 agactcaaac tttgattgtg atactgaaga agaaagtggt atgtaattgt atggataaat 840 gtatgctatt gtcggttagt taaaaaacat aatgtacatt taatgtagtg ttttttctct 900 tccgaaaagc tgttattaaa tcgatggtgc atcttacaat cgatggcgtc ttagaatcga 960 ggaaatatgg 970 // ID MER69C repbase; DNA; HUM; 2513 BP. XX AC . XX DT 28-JUN-2000 (Rel. 5.05, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE hAT-like DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; MER69; MER69C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-2513 RA Smit A.F.; RT "MER69C."; RL Direct Submission to Repbase Update (2000). XX DR [1] (Consensus) XX CC Incomplete reconstruction of an autonomous hAT-family DNA CC transposon CC related to MER45 and Zaphod. The product of the ORF from 1438 to CC 2158 CC matches these and Arabidopsis transposases (28% ident. to GID CC 4538984) CC Average divergence from consensus 25-26%. 8 bp target site dups. CC 11 bp terminal inverted repeats. XX SQ Sequence 2513 BP; 852 A; 416 C; 499 G; 708 T; 38 other; cagaggcaga tttaccgtga agctaatgaa gcttaagctt cagggcccct cacttgcacg 60 ggccccttcc aaggccctgg gaggggccct agcaatgtgt tcacatggtc atatgttttt 120 gtaaaatttg caaaagtaag atattttaac cgcaatcggt taagaccgct gtctctttcc 180 actccgactt cccctccgtc acacttcccc tcgtgtcggg tggcgttgga gtggccgtgg 240 gcattttngg gatccggcta aggggaagtt gagttgggga tacatttagt ttgggtttag 300 tgggatatat ttatgtggtt cgcagtcact tccgtgtata gttaagttat tgctagccgt 360 cccggtgtag gaatggcttc caggaatact cctactgccc actgtgccga ctcacccggc 420 gtcgtgacac gaaggtgcag ggccagaggt cgtatcgcga tatgaacgtg tcctacggca 480 cctggcaccg gaagtatgtg ggtagtggag gagaaacaag gtttgaaatg tatggagcca 540 gaagctagtc tgtggaaaat tcttccaatc atcagacgtg taaaattgta agcggaggat 600 tcggttctca tcgacgccta gtcaaaacgg aagttctctc ctgtcaggaa tatactcgat 660 aatgcagcgt atacaattat aaatgcacca tacatttttt ttcatttttt gatgggaatc 720 acgcgaaata gaatttatca gaattcctgt gtttgtaggg cacaaacctg tagcagtact 780 acaaacagcg agnacatctg tgtgtgaagt cgcatgtttt atgcatccca atatattgga 840 tcgtgtcttt agcgtatctg atgcatcttg ccctgacgaa gtctggcggt tccngacgaa 900 acggcacgca aaattgccac taacgcagcg aaatggcctg aagaaacaag tgttccagtg 960 acaaaactcc tanacatatt catcaataag tcaatgtatg tagtataana gtaatttgat 1020 tacacaatta tgtanctcaa tacaatgtag cggcaatttn aaaatgcctt aatttcanat 1080 gaattttgtn ttgttcttca gaattgttga tcataccaaa attcaaatat gatgaggaag 1140 cantagtcta aggaacgaca aanatgtaaa ccgaaagaaa ggatatgggg ganagcttca 1200 aaatgtcaaa aaccctcatt tatcacaacg gnaantaaaa actctgatng tcnnaatcat 1260 gaagacaaga aaataagatc agaatancca agaaaatnta ggtaataaaa atgacagaag 1320 aaaaaagaaa gttatgngaa ttggtacact tttaaacagg aaacaaagac gagaagaaan 1380 atgaaagaaa tacaatntat ntgaacatna gtagnanatg ggtaatgnnn nnnnnnnaag 1440 tttgaatatg ccattttaac tacaatttgg aaagatgttt tggaacgttt caataaaaca 1500 agngagaaat tacagactcc tgatttggat atacatgaag agtatcttct tttgtcatct 1560 ttaaatttat taaagaaccg agagaaaatt cagataaaaa taatggaata tgaaacaaaa 1620 gcaataaaga tgaataatga aatcaataga aattattctg acatcgagaa gcgaattgta 1680 acaaaaaaat tttcagatca taccaaaagc agtaattcat taagaggaag agataaattt 1740 cgaatagaag taatgaatag gctcttggat tgtttgataa tccaattaat gaagaggagt 1800 gaatcatatg aacacattgg gaaaagattt aaatttcttg ctgatttgac acgaaatact 1860 gacatcgacg aagataacat aaaactcata atacgccact acaacgagga catcgacgac 1920 aaactggtta atgagtgtcg tcaattcaaa gagtatttaa gattagtcac tgcacaagaa 1980 aacttgaaat gccctgaaat cttacagctc atatatgaaa gaaacttgat agaggttttc 2040 ccaaatttga caacaatcct aaaaatttac atgacattac caataacgag ttgtgaagct 2100 gaaagaaact tttctaaact atcaataata aaaaacaaat tttgatcaac catgctagag 2160 gaaagactga attatctttc tattctctct atagaaaatg atattacaaa atcattgtca 2220 tatgaagagg cgatcaaaga gtatgcagcc aaaaaatgta gggaaaaagt attatagagg 2280 tgtgtcaggc agttaattaa taaaaatatt atgttatttt tctggatttt gtgatgtttg 2340 tggtatttgt cagcttttta aaatttgtaa tttgttgtga tttnttttct cattctaaat 2400 aaatattcac ttttgtacct aattttgtat ttgtaatttt gtattctttt tcttaaagag 2460 ggccccccaa attgtataag cttcaggccc cacaaaacct ggatccgccc ctg 2513 // ID MER49 repbase; DNA; HUM; 923 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; MER4 subfamily. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR-like sequence; MER4 subfamily; MER49; MER4I group; KW retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-887 RA Kapitonov V.V. and Jurka J.; RT "MER49."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-923 RA Smit A.F.; RT "MER49."; RL Direct Submission to Repbase Update (1997). XX DR [2] (Consensus) XX CC LTR related, similar to MER4. XX SQ Sequence 923 BP; 263 A; 246 C; 175 G; 237 T; 2 other; tgtaaactaa aaataaaatc ttaagccccc cgccgactga acggaccccc tcttggccaa 60 ggggacccca gagaaacctt aaaaactgag ttcccggcca tgacgggatg ggaggtcaga 120 cacgcctcat tataccccct cccttttgtg gtttagacac aacaactgac cagcattaat 180 gttaaaatag agatcataag actgacagaa cggactcttt gtggcaataa gataccaaat 240 tataaacagg acctaaggcc atgccaggca agggttaagt cacgcacccc tacacttaaa 300 gaataaacta tgttctaact gccacaaggt ttttcttttt ctctaacagc taaacaagca 360 ctggcctcga gataagcaat attaaaacaa ttgcagctca tccascacca gacgctgact 420 aactgacccc ctgttccacc agccataact acagctttga ttggacaaga gactgatttc 480 agtaactttc tcctgataag agaccaccgg ccatggactg gttctggcca gtttacagag 540 gctgtgcact tgcacgcctt cgtgtcctga aaasaccttt tgacgtatag ggcctaattg 600 taatacattt aaatgttaag tctccacccc aaagtgaaca tgggtcgtat gttacatgca 660 tgtttgttca atacgcatgc gtcaggacca ccttcatgaa tattcatagc tcctcctgta 720 acctgttgaa tatgtatgct tagccaaccc gttcagcata aagctcctgc cccaacccct 780 cctccttcga agtgcctgtc tctggtcttg gccagaggct acgcttccca gcctgcggga 840 tggccacctt gcaggctgta accctttata agaaataaag tctcctttcc aaatttatag 900 atctcgtgat ttttcagttg aca 923 // ID LOR1I repbase; DNA; HUM; 8120 BP. XX AC . XX DT 20-AUG-1998 (Rel. 3.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 2) XX DE Primate LOR1I repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV1 class; KW Internal sequence of retrovirus-like element; LOR1; LOR1I; KW MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-489 RA Kapitonov V.V. and Jurka J.; RT "LOR1I."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-8120 RA Smit A.F.; RT "LOR1I."; RL Direct Submission to Repbase Update (AUG-2000). XX DR [2] (Consensus) XX CC LOR1I is an internal sequence of a retrovirus-like elements with CC LOR1 CC LTRs. This retrovirus is a member of the non-autonomous CC MER4-group of CC elements [1]. LOR1I PBS is related to Glu-tRNA (GenBank M31637) CC [1]. CC It shares the typical mosaic character of this group: CC The LOR1I PBS is distantly similar to the PBS in MER51I [1] and CC Bp 465-2806 are 87% identical to bp 938-2946 of MER51I CC Bp 593-625 match part of 5S RNA. CC Bp 4169-7167 appear derived from the 3' end of a MER49I CC retrovirus- CC like element (also a MER4I member), including bp 1-71 of the 3' CC LTR. CC Several subfamilies exist with large deletions and insertions CC with CC respect to the current consensus. CC Copies are on average 13% diverged from the consensus sequence. XX SQ Sequence 8120 BP; 2371 A; 1355 C; 1730 G; 2635 T; 29 other; gattttggtt ccctgaccgg gaacgcgttg ctcgtggctc ggctgccgtg ggccaggaga 60 gtttcagaag ccctcctaag cagctgcccg accctttttt ggccggaggt gggtttcggt 120 ctctctctct ctggccccgc cgctgccggc cccaaccgcg ttcctgattg cctaggaaga 180 acagcctttg aaatttgaca tctgcgtccg gataggtgag tgtcttttgt gggtaccaga 240 cagcgggatc tgctcctctc aatttgggaa attctgaagg aatttccatt tgcaggttga 300 acaagcccaa ctgacggaga gaggaaagca ccccgactgt ttcagtttgg acactcttgg 360 ggcttgtttg ttgctgcagc agttggattg tgttttggtg attgtttgtt gtgtgtgtgt 420 cgatatagtc atgggaaatc agaattcgat aaactgatat tcttttgtaa tactgtttgg 480 ccccaatatt ctttggaatc tggagaagtt tggcctctcc atgggcttca ttttgctgtt 540 gaatgggaaa gcgggatgga gttccntgta tccaggcttt tatgctgctg ttctaagcag 600 ggttgggcct ggttagtaca tgatgttctt ctgtggtgct gtttggcccc agtgttcttt 660 ggagtctggg gaggtttggc ctttaaaaat caaactgcca tggaaactgc tttacccaaa 720 attttggttc acagccttca ctggattacc tatcggggca aacaaagttt agccatgtga 780 acatgttcgt agaccggtga gtttgtattg ctatctcatg gctagagttc cgaggtaaaa 840 gctattggat ctttgtgtgt atgtggtgtg tacatgtcta gatgtgttta tgtgtatgta 900 catttatagt tatatgttat gtctaccaaa ttggcttata aataaaagag cactcataaa 960 ttaagtaaat aagtccaagc atttttcaag ttcacgtgac ttaagtaaat ctttaataaa 1020 caagctggct ttaaaattat tggtaaaata aaaatagaaa tgtcttcaga attgtcagca 1080 tacatttttg tctgggtttt atatttgtct ctgctagata ttttgaggtg tcagggtttg 1140 gcacagaagg ttataaaact ataaacccag ccaaaacaaa atgatctttg tgtgattttt 1200 ttgataaata agactaattt aatgttgttg gtttaataaa aacagctgaa tcttctgagt 1260 tattggtgaa aatacccatg tatttaactt taagttctta cttaggtgaa cacctgatat 1320 tcacaggcta taaaaatggt taacaaggaa ataacttgaa atgatgacta gctttgtcta 1380 atatctcagt tttcagaagt aatctagata aactgttaaa aatgaatgaa ttgagtacat 1440 gtaaatggga taaatgcttg taggtgaact ttttgtgtaa tttaaaatct taaaattatt 1500 tttgatgctc attggatgtc tgggtcattt ccaattaaga aagggttatg atatggggaa 1560 acatgttttt aaaaattgtg gaatgttctc atctataaaa tgctaatatc tgatagacag 1620 ttcaggattt cttgcttcct aggttttcac taaaatttaa ggttactaag aataagaatt 1680 ntagttaata tataattctg tatataaaat gtgccaaaga agatgtgttc ttattgagaa 1740 aaagaataat tttgtctaat tcagaagtta tctaaaggtt aattcaaatt atggacttgg 1800 aaaggttatt tatgaaacaa ggtagaaagg aaccagtaag taggggagag agatgtaaag 1860 aaagttatgg atatgaagat gtatttttgg taagaaagat tataaagaaa agaataattt 1920 tatatgagaa aggatcttgt atggtaaatt tttgtcctga gtaaaatgac tggttatttt 1980 naaaagaaaa tttaggacaa aacagaaagt ccaagcatgt catagatggt ctgtgtaagt 2040 catatgtgtt tttcctgttt ctctgtgtgt ctgtcttcat gcacatacag agaaaataga 2100 aagttgaaaa agtttagata gtaaaatatt ctttaaaacc tgatagaaaa ttggagaaat 2160 ttggctaatt aacattgctc atagttaaag ctcttagtct tgatgaaggt aaaataagaa 2220 atattgtaaa gaaatacatt ggcagtttgg caattctttt ttaatatagt taagcatgaa 2280 gccagattta gcatggagcc aaatttcaca taaatgcttg cattgctttg tttcacactg 2340 tatttgctat tctgcataga tagtactagc actaaagtac ttactggtca tgtgcctnaa 2400 gtgaatttct taattgcaca aaatgtatag tggtattggt ggacttaaag acattaattt 2460 gtataccagg aacaaaatat ccatcatgtg ttttttttag gctctgggta acactgtagc 2520 ctccaaggta aactgagtag gagaaaaatt gggggttggt ttcctgttta tttgtttttg 2580 cttttaattt tcatttattt gctgtttgtt ctcctttggg ttttacttat atatacatat 2640 ataaaaccat tgatgttttt tagtttctaa tggaaggctt ntatttggtt ctatgaatag 2700 tcattttgtt tcctatgcat ttccaacaat tcatcatttg ctctatttat ctaaaattcc 2760 taagctacct ttgtcaagcc tccaaaaatt gatagagcac accagccatt taaaatttga 2820 tcggttttgc ttacctctga tgatctagag agctacaaga gctttaaggt tcctggcaaa 2880 aaaaaaataa ataaaagact tatttttata agttctgaac agaaatagta cattatttat 2940 tttgttattt ggaaaagtag gtgagaatag aaatgtttaa atggtgttta tttccaaggt 3000 aattcaattc aatcaataat ttgagttggt ttcagatctt ttcctttagg taatgaggaa 3060 aaactgtgat atgggtacaa agttttaatg ttcaggaaag attggccttg tccttaagga 3120 aattatattg actgggattt ctctcaaact actttagttg tgtttaccat tattaaaatt 3180 aagtgacatt cacttggatt aagtagtaat aaaaatgtga gactttctag tgatttttga 3240 tcccaagccn tttatcactg ttgggccttc atgtgtgtac ttgaaaacaa aatatgtaca 3300 agtgttgcac tggtttgaag attctagtgg tgaaagttac ctaatcagtt gtcagtactg 3360 tatctagaaa ccaatcttgg aaatgtgtga tgatgctctt ttaaaatagc tgaaaagaaa 3420 ttattgtgtg cttgttctta ctttgtcctt gttttgttgt atagtattta agtgaaagga 3480 gattatttat cctcatactg aatttccaaa actgatattt gcatttacca ttttttaaat 3540 gatggagaga aaagttaatt gtcttacttt gataagtttg gcataggacc tatcacattt 3600 tttatgcttt tggtcacagt tctgtcacta gaatgctagc aattagacat atgcaangag 3660 taacctaacc actttaatac agtggtttga agtgctgcag gcagtaacta ctagacacca 3720 aatcacagtg ttttaatttg tgacatgtta gagagaatga taggactttc tgcagtataa 3780 atatcctatt aactaatcct tgtgctgtta agttacaggg ctttgactcc tgggtctgaa 3840 aaaggcaccn actcctgcta aatcttgaac attgacacca gtcaaagcct cgtcttcaga 3900 cccgggagaa ggtgacaatc aaaatgaact gctttcgtga gacacagggc cagaaattaa 3960 aactattcaa tccctctagg cccagggact atcgcggaag aggtgggcac gtgagattgt 4020 aagggccgat tttgagggat aagattagtt cagagttttt ctataaatta aacattaata 4080 tcaaaagcac actgatgcaa ggccagcatc tgggcccctg tgtcggaata acagggtttt 4140 cttggagcat tgatctgctc tttaatagaa aattgtaaaa ggttataaaa ggtttatgga 4200 aatcttacct tatggtcaaa ctgattaaaa ttagatagat ttgtttataa ggttttatta 4260 aaattagctt taacattaat aatacaccat acaaaggtaa aatttggttt tctcttttga 4320 acaaaatttt tgtgtaatat taagagataa taaaagattt ttgtttacct tttgagtaaa 4380 ctgcaggaaa aaangagggg ggagagacag atttagttgg cctcatgctg tctttattag 4440 gtcttattgt ttgggaaact gagtctcctc tctatcaaag agtaaacgtt tttgttttat 4500 cattttggct aaatgaatga ctattttata gtgacctgtg atcctatttt gtgatatcaa 4560 gtgtcttaaa cctttgatat ttgacaaact ttccaaaagc aaaatttcaa gttctaaatt 4620 cagtcttttt gacctcaaac taactttttt ggatattggg tcccctgaag tccaagagag 4680 acatattagg cttatttggt atgttagaat tatacaggaa gcattgtcaa atgtgaggtg 4740 gtgtttaact ttctttgggt tatatttata tagatgtgtt gttaatatgt gttccaggat 4800 tgtatgagat tcctgaaatt ctgatatgtc ttaatatatg ttgtcagtaa taattatgat 4860 tattatgtta aattgttgta tgccacagaa ataaccaaat ttccttgtca actgtgtctt 4920 taactatggc tgtcctaaga cttttgtcat ccacaattgt tgttttgctt tgattcttct 4980 caaaaagcgg cttataatca gctacagtcc agggcttgct tctttggggg agttcatgaa 5040 aaggactctt gaatgcaggt ttctgataac tttggagatt gtgccattgg actagagaga 5100 aaacttccag gactctaatt gaaaggctga tgtgttcata aagattgcta acccaatatg 5160 aagcagagca ggagttgatt gcatggactg aactaatagg aggactgaaa taatttttat 5220 ggcttttttt tgtttgaaat attgctgatt ctttttgttt tgtttttcag agtctggaga 5280 acttttttcc ttttgagcta tttatagcct ttaacaattg agtagagtat actcttgtaa 5340 acagaatttg aggcatattt ctctctctct gcctgatttc tccagaattc gnaaactatt 5400 tgtgaatatt cttaattcat ggcaatgtgg ttgtttgcat aagtttaata agaatctgtt 5460 ttcttttata acgggacaca gttggaggaa ctggttattt tcccagggct ttgactgaaa 5520 tggcatgttt tcagatatga gcagactgct ttgagaaact gaaattgact ttatagagcc 5580 aatgaaagtc ccttggaaag actggccttg taccttgtct acgcagttcc ttcgcagggt 5640 tcctggcctg tggtaagtaa agaatgtcac tttctgacag gcccaggaac ctcaagttgt 5700 tctggggcct caagaagaga gggattctcc caattcatac aggtatctgc aggcgcagat 5760 aaatccttgg ctgggctcga gaggcctttg aaggtcaagt ctgagattcc ttgtgagagg 5820 ttccagcaaa gccaatttag gagagcctat atggacaatg attcttgctg cactttgtgt 5880 gggtaatcag gccaagtata tgggactgaa gcttattttg caggtagntt ggtcctgctg 5940 tgatttgtct ttggtggaag tgggggactg gagagagaaa gattgtgttt cagaagaaaa 6000 ctatagtatt agattaacct ttgattcctg ggtggccaca tggtcaccca tggtatggag 6060 ctgcaactgt gctgcattca gttattaaag gtaaagttac cagtggaatt tagagatgga 6120 ttcagctcct ggggagctgg ctcctggatg cataaggaaa tncgaactaa taaggaaaaa 6180 gcaaaatatt gaattccttt gttattgtta tctataatag ctacaacgaa agtaagagag 6240 tgctgggttg ggncttgagn ctggaccaag ctcagatgtg ggnctgtctg agctcagatc 6300 actagcctca aagctaccca caaaagggga aattatgcca ggcaccaaaa gtacctctga 6360 gacctgcggt ttccaanaag gtagtcaatg tngggggaag ggcaaaacca agtaactatt 6420 gaaaccagaa ggtataacgt gaaggaatta ttccgttttg tagattggta tcatcagctt 6480 cctnagaaac ctttactaaa atgnattgtg agagtaacta acttaagagc aatgtctttg 6540 gttttaaatg ctgcagagtg gaagagcatg ttttggtgat gcaggaccca cagctcacaa 6600 ttgaacaatc gcagatggat gtatatgtaa ccagacacan aggacgttat tcccaagaga 6660 acagccagcc tggtggactg gataaaagcc actataagat ctgtttaccc tgagaaaaga 6720 aactgctcaa ttccacctat caatgncaag tggagcacct cagatgaagc agntgatatg 6780 ctttcgtatg caaaccatgg gggactggct ttatgatgac aggagtatta accttacttt 6840 ttggcttttg gtttttggct cttatgttac ttaaagggtt ttaagggtta atgagtgcct 6900 gcccacctcc attcctgtct ggcctagaac gtttaattgg ctataagtct tttgactcta 6960 agtcccttgg ctatagggnt cccactgagg gacaggatgg acccagggca ngtagccaca 7020 ccaccccggc aacgatatgg gacaaaataa aagnttggac atcaatgctg cctctggcat 7080 gcattgacca aaaggggcca aactaaaaat aaagtcctaa gccccccatc gactgagcgg 7140 acccacttgt ggccaagggg accccagttg ccaagagaca aatcttacct gggaaaaggt 7200 cttgcccctt gccctgctga ggatacgagt agcccccaga agtgggttgg ctcttagccc 7260 cttcgaaatg tatggaagac catttctcta ccagactccc tgtcacttga ggattttttc 7320 tcctctgaaa cagaagctag atcatatata aaacaattag gaaatatatt aactagtctc 7380 tctgagtttg cttccaacag gctccagttc cctacagatg tgcctctcca ctctttgaaa 7440 ctgggagacc aagtcctgct gaagacctgg aaatcccacc aggctgaaga ccagctgcaa 7500 ccacaatggg tcagcccttt tgaggtgctg ctgaccaccc actcatctgt caagttagcc 7560 ggtgttaagc cgtggattca ccatactcgg gtaaaaccag tccctctggg atccctccag 7620 gggaaacagt catggtcttg tgaaccctcg gacggcctta agttaatatt caaagcccag 7680 ccaaagaccc tagataagaa atcataaagg gaacatgcgc ttttcaggct gttattgttc 7740 tccccnaaac cntgnctttt tgcatgcggg atgtaatgaa tcaggaagac ttttggtagg 7800 cttaggattg ttctcttgga ttccccaggg gatccactcc atattctttg gtattttaaa 7860 atttggntta tctatgttat taatcatcct agttcaatgt ggcttaaaat gttgttctaa 7920 aaccataata aaagtaccca gatcatggtg ctccaacaag ccagatgcca accaggtact 7980 catgagtact tccaattaca ggtgtgacgt tttcattcct catcattatc ccacaacgcc 8040 cctcctcagc atgaagcagc cagaaagatc gacgaccaga ttccccatga ttgaggaatt 8100 gataaataga aaggggggac 8120 // ID MER57E2 repbase; DNA; HUM; 402 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 22-MAY-2008 (Rel. 13.06, Last updated, Version 2) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER93; MER93a_LTR; MER57E2. XX NM MER93a_LTR. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-402 RA Smit A.F.; RT "MER93a_LTR - a subfamily of endogenous retroviruses from RT placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC mer4 group, 20-21% diverged from the consensus. XX SQ Sequence 402 BP; 117 A; 101 C; 67 G; 110 T; 7 other; tgttaaaata attaaatggg aggccattag actgaggtgg ctctaacgcc ctgggttcct 60 acgtaagcaa accgaaacct aactcaaatg catttcttnt aagtnactac cttaggagga 120 aacgaaactt aagctcagcc aatcacaagc ngccaactgg gcattagtta tattatcang 180 aacttcccac cgggatagtc caaataaggc aactgctcaa actttaacca atcaaataat 240 ttntttgctc tgcttccgca ttcaccctat aaaagccttc ccttcangcc cctccggtgg 300 agccccgaac cacttccggt ttggngctgc ccgattcatg aatcgctgtc tgctcaaata 360 aactctttaa aattttaatg tgcctaagtt tatcttttaa ca 402 // ID MER51D repbase; DNA; HUM; 657 BP. XX AC . XX DT 23-AUG-2000 (Rel. 5.07, Created) DT 23-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE Putative LTR of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER51D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-657 RA Jurka J.; RT "MER51D."; RL Direct Submission to Repbase Update (23-AUG-2000). XX DR [1] (Consensus) XX CC Partially similar to MER51A,B,C towards the 3'-end. XX SQ Sequence 657 BP; 234 A; 125 C; 163 G; 128 T; 7 other; tgaggcagga gaaaatagca gagggaattg gaagttggat aaagggagaa tgagtaaaag 60 cangagagca gaagcaaggt aaagaggcgg gtgagcaaga agcaagataa gaagcagaag 120 ttgagcagcc aaaacaaaag taagatnana aagaagtgag taaggagccc acatggctgg 180 ctagatccag accaaaccag taaggggcag ctcctcagag atgggcatgt acattagaga 240 gaaaaagtat ccttaaaatg accccgtatg ataatcagct cattaaagct catgcatatg 300 gactgcatat catgcatgta cttaaaatta tgggatggag gtgacgcgca agawgtcaca 360 agcacacagg ggccatagka ttaagtaact aagcaaccca cctatcaatc aaaaggcaga 420 tgctggctag agattaggca gccttgggaa gagaagaaaa aaaaaacaca taaaaagacc 480 caaagtacac caaactgacg ctgatctcat ttcgcagagg tcagcccact ctcccctctc 540 tgagagtgta atactgtgct taataaactt ttgctgcttt gctatctgtg tgtgtcttgt 600 ccaattcttt gtttgggaca ccaagagcct ggaactgcac rgcaccakct ggtaaca 657 // ID L1MA8 repbase; DNA; HUM; 1540 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 15-SEP-2000 (Rel. 5.08, Last updated, Version 2) XX DE 3'-end of L1 repeat (subfamily L1MA8) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M2; L1MA8; L1MA8 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1038 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1038 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX RN [3] RP 1-1540 RA Jurka J.; RT "Direct submission."; RL Direct Submission to Repbase Update (15-SEP-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 14%. XX SQ Sequence 1540 BP; 577 A; 243 C; 296 G; 415 T; 9 other; ttaatatcca aaatatataa ggaactcaaa caactcaata gcaagaaaac aaataacccg 60 attaaaaaat gggcaaagga cctgaataga catttctcaa aagaagacat acaaatggcc 120 aacaggtata tgaaaaaatg ctcaacatca ctaatcatca gggaaatgca aatcaaaacc 180 acaatgagat atcacctcac acctgttaga atggctatta tcaaaaagac gaaagataac 240 aagtgttggw gaggatgtgg agaaaaggga acccttgcac actgttggtg ggaatgtaaa 300 ttagtacagc cattatggaa aacagtatgg aggttcctca aaaaattaaa aatagaacta 360 ccatatgatc cagcaatccc actwctgggt atatatccaa aggaaatgaa atcagtatgt 420 caaagagata tctgcactcc catgttcatt gcagcattat tcacaatagc caagatatgg 480 aatcaaccta agtgtccatc aacggatgaa tggataaaga aaatgtggta catatacaca 540 atggaatact attcagcctt aaaaaagaag gaaatcctgt catttgcgac aacatggatg 600 aacctggagg acattatgtt aagtgaaata agccaggcac agaaagacaa ataccgcatg 660 atctcactta tatgtggaat ctaaaaaagt tgaactcata gaagcagaga gtagaatggt 720 ggttaccagg ggctggggag tgggaggatt tggagagatg tctgtcaaag aatacataat 780 tacagttgga taggaggaat aagttcaaga gatctatttg tacagcatgg tgactatagt 840 taataatatt gtatttttga aaaatgctaa gacaatgtta tgtgctctca ccacaaaaat 900 gttaactatg tgaggtatta attacctaga attaagcatt tgacaatgta tatatacttc 960 aaaacatcat gttntacaga ataaatacac attttatctg tcaatttaaa aatatatttt 1020 aaaaacatta tagaaggata acaatgtttc aaatactgtc tgtgtctttg tcataaactt 1080 ggctgaatag tatcaaaata tatagttttt gtgcttggtw gaatagtatc aanatatata 1140 gtttttctgt ttttgtcatt taatttgtca gtcataacca tagaaactct gatatttacc 1200 agcatgttct ggacccagca cagtgcatgg gagaagccaa tgtactttag ggcttttact 1260 ttaagcttgg ggcacctgga gtttctggtg ctgatggtaa tggtatggaa gacactaaaa 1320 nggcaggtgt tgctnatggt cccatgactg gccactctgt gaacacagta aacaagtttg 1380 catgcaaaat aactgaggaa atgttttaat ccaaaagctg ccatgatctc caaaattttt 1440 ccagagaaaa tgaccaagga gttggctaya gttaggtgac taagaataaa aactgtagac 1500 tgaacttcac ccactaaaaa aataatawga gaaattcctc 1540 // ID L1P4d_5end repbase; DNA; HUM; 2035 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from primates. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1P4d_5end. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-2035 RA Smit A.F.; RT "L1P4d_5end - L1 Non-LTR Retrotransposon from primates."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC L1PA16. XX SQ Sequence 2035 BP; 521 A; 632 C; 572 G; 300 T; 10 other; gacaagatgg ccgactagac gcagccagga aacgcctctc ccactgagag aaaccaaaat 60 atcgagtaaa ccatcacact ttgaacagat cttttgagag aaaacactga aagtcgatag 120 agaggcgacg cagacaccga ggctgaagag ggaggaagct gggaagcctg catggagtcg 180 ctgagcgcca ggaccggctc ctggtcctga gcaggtccta aggaaggggt gagtgaagga 240 actccagggc accacactcc cactacggac ctctgggatc ctagctacaa gagatcccat 300 gacccccata gacatttgaa ttggcagggg gaactgcccg gagagtaggc agaggcagag 360 ctcgaacctg catggagccc agaaggtttc gcgcggggac agctgcagca aaacgtgacc 420 ataggcgccc atcccccaag gctctccatc ttgctctgag tgactntagc ccctgctgac 480 tgccgggccg ggagagagca gggctgcctt tcctgcggga ccggggcgca tctgatctgc 540 atgccccctt gtccaccggc ccctcccaag gcccctgcct ggccgctccc gcaagagggt 600 gcacacagca cagcctccac tgccccgcct gagtgttttg ccggtggcct gggagcagtt 660 cggccccccc agcacagccg gtgctcgacc ccgaggggcc agaggacaaa gccgcgggcc 720 nggtcccaac cccccagggt ttgagcacac cgcccagggg tatcgagctg agatctgtgg 780 ccngagctcg agcgggggag gagcccccac tctcagaaca ctgagaagag tgaggcgcgg 840 gttcgtgtgc cggcgtggga gctgggcatc cctccctctg caagaccggt ccgggaaggg 900 tgtagcctgt tggccagcca cagcttctgc ccgagggagc cccacagcct ggaacacctg 960 gaacagccca gcgatctggg cgcagaaggc ttgggacaaa actagctggt cgggcctgct 1020 cctggggcag acaccggagg gagacccggt cgggggagcg cgagctgggc ggnccccaca 1080 gccgtctgct gggcaaaaaa ccccgggccg cgggcgccac accagctgca cacccatggc 1140 accaccgccc tgcctgggga tcctccgccc ttgacccact gcatcaccag accacccgca 1200 gacatacccc acaacctgct ctgactctgc caagcncaga ggaccagcgg gtccccgggg 1260 agttgcgggt ctcctggtga cctaaccttc ggctcgggcc gcccctaagg gaggggggag 1320 tgcagcctgc cagggccccc cttggggcta aggaaacgca ggcgcggtgc cagtgattgg 1380 agggggctcc cccaaggccc aggaacggac ttggcgaggg ggtcatctct cgcccccctc 1440 catccctccc cccagagcac tgctgcgnat gcgctgaaat acaaaagagg cgcgtggctg 1500 agtaagagcc tatctgccgg cccttactct taagcaccat ctactggatc gcagcctgaa 1560 ttacaccacc aaaaanaaat tccttcagca cacancgcct gtgaaaccca atgcaggaaa 1620 ctagccacaa ntaaggaacc cgtacagagc cttggccctc tgaaagcacc cagaaacgaa 1680 gccaatcaac tatacacaac atacaccaca gtcaaaccct caagggaaaa aagaatataa 1740 aaacaaaaag ccccatccaa acgacagcaa cttcaaaaag ataaagaaac accagccctc 1800 tcagatgaga aggaatcagc gcaagaactc cggcaattca aaaagtcaga gtgtttcctt 1860 acctccaaan gattgcacta gctccccagc aatggatcct aaccagattg aaatgtctga 1920 aatgacagac atagaattca gaatctggat ggcaaggaag ctcaatgaga ttcaggagaa 1980 agttgaaacc caatccaagg aagccagtaa aatgatccaa gagttgaaag acgac 2035 // ID MamRep564 repbase; DNA; HUM; 357 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Interspersed Repeat from mammals. XX KW Transposable Element; Interspersed repeat; MamRep564. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-357 RA Smit A.F.; RT "MamRep564 - Interspersed Repeat from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 28% subst in dog-human. No idea what this is and the ends are CC very iffy. Remarkable about MamRep564 is that the region 90-220 CC is generally present in extant copies with no or very few gaps . CC A candidate for an exapted repeat, thus. XX SQ Sequence 357 BP; 103 A; 96 C; 77 G; 71 T; 10 other; ctcatcttta gncataagca cagcatcggg ggcgngcggg gcgtgggggg nggacacgcg 60 cgccccccca acttcccaga gggaaaaaaa attttgtaac tgtcagaaac gtgatagaac 120 tgtcaaaagt acatgaaatc agctacgtaa attgtgaaac ataagtcacg gttctatttg 180 ttctgcgaca gtgtaaaaat cgcaaatttt tcatcaagat agaaaataaa aacaaagaaa 240 aactatgagc gccatctcgt ggagagacct gccactacca cgtccaagtt acctgtgccc 300 ccccgccccc canncntttc catcctgcac ccntgccnac gggncccagc ntcctgg 357 // ID GOLEM_C repbase; DNA; HUM; 323 BP. XX AC . XX DT 25-OCT-2000 (Rel. 5.09, Created) DT 01-OCT-2005 (Rel. 10.11, Last updated, Version 2) XX DE Nonautonomous DNA transposon - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW 35S; GOLEM; GOLEM_A; GOLEM_C; MER7; MER7A; KW nonautonomous DNA transposon. XX NM GOLEM_C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-323 RA Jurka J.; RT "GOLEM_C."; RL Direct Submission to Repbase Update (OCT-2000).. XX DR [1] (Consensus) XX CC Major differences between GOLEM_A and GOLEM_C are in the internal CC region. XX SQ Sequence 323 BP; 109 A; 50 C; 61 G; 95 T; 8 other; cagtcatgca ctgcataatg aygtttcagt caacratrga ccacatatac gayggtggtc 60 ccataagatt ataatggagc atatatagaa acctgatata tggcacttga tattggcatt 120 gcagatcaag taggggnaaa tgantgatat tcagtaatgg tgctgggaca tttggttttc 180 catatgaaaa atatatatat aaataaaaat atatatacca tctaggtttg tgtaagtaca 240 ctctatgatg ttcacacaat gacaaaattg cctaatgang catttctcag aatgtatccc 300 ngtcattaag tgacgcatga ctg 323 // ID L1ME3D_3end repbase; DNA; HUM; 989 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from placental mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1ME3D_3end. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-989 RA Smit A.F.; RT "L1ME3D_3end - L1 Non-LTR Retrotransposon from placental RT mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 93% identical to L1ME3B & C. XX SQ Sequence 989 BP; 383 A; 168 C; 199 G; 235 T; 4 other; ttagtatcca gaatatataa agaactccta cgaatcaata agaaaaagac aaacaaccca 60 atagaaaaat gggcaaaaga catgaacagg catttcacag aagaggaaac acgaatggcc 120 aataaacata tgaaaagatg ctcaacctca ttagtaatca gggaaatgca aattaaaacc 180 acaatgagat accatttcac acccaccaga ttggcaaaaa ttaaaagtct gacaatacca 240 agcgttggcg aggatgtgga gcaacgggaa ctctcataca ctgctggtgg gagtgtaaat 300 tggtacaacc actttggaaa acaatttggc attacctagt aaagttgaac atgcgcatac 360 cctacgaccc agcaattcca ctcctaggta tataccctag agaaactctt gcacatgtgc 420 accaggagac acgtacaaga atgttcatag cagcattgtt cgtaatagca aaaaactgga 480 aacaacccaa atgtccatca acagtagaat ggataaataa attgtggtat attcatacaa 540 tggaatacta tacagcagtg aaaatgaatg aactacagct acacgcatca acatggatga 600 atctcaaaaa cataatgttg agcgaaaaaa gcaagtcgca gaagaataca tacagtatga 660 ttccatttat ataaagttca aaaacaggca aaactaaaca atatattgtt tagggataca 720 tacatatgtg gtaaaactat aaagaaaagc aagggaatga ttaacacaaa attcaggata 780 gcggttacct ctgggggggg gagggaagag ggggatgcga tcgggaaggg gcacgcaggg 840 ggcttcnaag ntactggtaa tgttctattt cttaagctgg gtggtgggta catgggtgtt 900 cgttttatta ttattcttta aactgtacat atacgttnta tatattcttt gtatgtatga 960 tatatttcac aattaaaaaa taatnaaaa 989 // ID LTR81B repbase; DNA; HUM; 1393 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR81B_LTR; LTR81B. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1393 RA Smit A.F.; RT "LTR81B - ERV1 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; >35% subst in dog-human; 85 similar to LTR81A. XX SQ Sequence 1393 BP; 354 A; 325 C; 422 G; 278 T; 14 other; tgtaatgggg ataatatttt gaaatatatt aatgtgcttt tccctttatt gtgctttctn 60 cgtgaccttc tccctagtca gctcgaggca tccatctgcc tcagggaagg attaggattg 120 ttacagcagg aatgcaaaga gaaagaaaga gttaatattc agcttctgac atccaaaata 180 ggattttgca gcaagacaat agtcttgaaa gccaggcttt gtcgagagag aaaggatttt 240 ctaaattctt tagctccctt tagcatatca agagccaggc ctggnggact cagatcatag 300 agtttcttcc atagtgtaga gaggatntcc ttcccatgat ggctaggcca tgaggcttgc 360 tgccctaggg naaaagggga tatgatanag aggaagtgaa aagccgaagc ctgccccttc 420 tggccctggn ggattgtggg aagaagaagg agacagaagn agagcgagga ggtcagacgc 480 cagggtcctc gctttccttc ccttggggcc gaaccccagg gggagggggg ctttagaaac 540 atccagatag gtatggggga gcccgagagc attggggcta gtggcntgct tccccgggca 600 tagctggggg aggctgcaag cctctaggag aagccccgca cgnggccact tccaacatgg 660 tacaggagta atggtacaga ggtggcggcg ggaggcgggt agatagatga gcctgaggca 720 gcgctcctgg ntccccatgg cctgngcgtg gcatgcaggg gacccagaag ttcccgcgtg 780 ccccggtgag gggacgcgga ggtgctgaga gngccggtgg accagcagag gcctggggtc 840 aggacgaaga ggccgccgtg ggcggggact ttgagaccag gggcaaatgg ccgggaccac 900 ggactccagc ggtgggtgcc agcacatcac cccaaaaggc cagatgggac cagtcgcacc 960 tcagcggtca ccagtccagg gagcagacca gnccagccac tctgcagcag agaccagcga 1020 ggatccagag gacaccgcgt ggatccgagg accccttcct cctgccgcca cgaggtcacg 1080 taagccacnc cccccataca cccagacgcc atcttggaga ggagcagggg gagggggagg 1140 aaatctgaaa gactgagcat ttacctaaag agactgagtc atccaaaaga gactatttaa 1200 cctgaagaga ctgtttaaat tattggatcg gactaagttt accagattgg actaaaattt 1260 agttctcttt ctccctgcta cccagcaggg tgggggctcg tgaggaagat cagatcagtt 1320 atagagaaat aaagaagcta cattttcttt gcacatctga gtgtagtgtg agtaaatttg 1380 cgaccccgct aca 1393 // ID IN25 repbase; DNA; HUM; 854 BP. XX AC . XX DT 27-JAN-1997 (Rel. 2, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Consensus of an insertion at position 1510 of L1-25 (MER25) - a DE consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; IN25; L1-25; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-854 RA Jurka J. and Kapitonov V.V.; RT "IN25."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX SQ Sequence 854 BP; 251 A; 223 C; 177 G; 169 T; 34 other; gtggaaagtt cctcatagca gagacacaat tgcagtgctg ggtacagtag ggaaagtctg 60 cacctttacc ccaacaggca ggcagcctct gtgatcatga agggtcttgg agaagggatc 120 cttgttcccc nctggcnctg gtannccact gcagacacag ctggggcttc tcccacagga 180 acgcagcatg gatgcaccta tagacagcat tcctggaaca attcagggtg attgcagccc 240 cacaggagga gcactctcca gattcaggcc tncatgagag gcagtcacaa ttcctcccta 300 cttggaacat caanattnct acagatgaaa agaggtgcct gtctgatctg aatagctgga 360 acactgggac aggagtgagg ctgtgaggtg gacagntttc ctgctgacct ggcangngan 420 ctgaggtagc tcccaccctt caccctgana aaacctcagc acatctaatt gagagctcnc 480 ccagccaccc tcatcaaggc tgggaccttt gcccactatt ggatattaaa tctacccacc 540 tactttagct acanctggtg cctacccagg gatacctccc ttattgccct naagcctgaa 600 tcatcaactc agtaaataaa atactgnsga gggaaaaatt aaataaataa ataaataaag 660 tgtacacyac kagagaacga gataagcttc awgagaycyc tgccattcca acyccatagg 720 agacagtgaa ctcgcycaca caccaaghac gtmactacta caaccagcat ctgrgaaaky 780 cakcacacaa agactctcta taacyaagga actcatacag agtcttcacc cctamaagca 840 ccmagagyca aatt 854 // ID Tigger3b repbase; DNA; HUM; 1231 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Mariner DNA transposon from primates. XX KW Mariner/Tc1; DNA transposon; Transposable Element; GOLEM_B; KW mariner; Tigger3b. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-1231 RA Smit A.F.; RT "Tigger3b - Mariner DNA transposon from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC (MER7B) 15% div. XX SQ Sequence 1231 BP; 399 A; 218 C; 235 G; 375 T; 4 other; cagtcatgcg ccgcataacg acgtttcggt caacgacgga ccgcatatac gacggtggtc 60 ccataagatt ataatggagc tgaaaaattc ctatcgccta gtgacgtcgt agccatcgta 120 acgtcgtagc gcaacgcatt actcacgtgt ttgtggtgat gctggtgtaa acaaacctac 180 tgcgctgcca gtcgtataaa agtatagcac atacaattat gtacagtaca taatacttga 240 taatgataat aaacgactat gttactggtt tatgtattta ctatactata ctttttatcg 300 ttattttaga gtgtactcct tctacttatt aaaaaaaaaa gttaactgta aaacagcctc 360 aggcaggtcc ttcaggaggt attccagaag aaggcattgt tatcatagga gatgacagct 420 ccatgcgtgt tattgcccct gaagaccttc cagtgggaca agatgtggag gtggaagaca 480 gtgatattga tgatcctgac cctgtgtagg cctaggctaa tgtgtgtgtt tgtgtcttag 540 tttttaacaa aaaagtttaa aaagtaaaaa aaaaataawt ttaaaaatag aaaaaagctt 600 atagaataag gatataaaga aagaaaatat ttttgtacag ctgtacaatg tgtttgtgtt 660 ttaagctaag tgttattaca aaagagtcaa aaagttwaaa aaattwaaaa gtttataaag 720 taaaaaagtt acagtaagct aaggttaatt tattattgaa gaaagaaaaa tattttwaat 780 aaatttagtg tagcctaagt gtacagtgtt tataaagtct acagtagtgt acagtaatgt 840 cctaggcctt cacattcact caccactcac tcactgactc acccagagca acttccagtc 900 ctgcaagctc cattcatggt aagtgcccta tacaggtgta ccatttttta tcttttatac 960 cgtattttta ctgtaccttt tctatgttta gatatgttta gatacacaaa tacttaccat 1020 tgtgttacaa ttgcctacag tattcagtac agtaacatgc tgtacaggtt tgtagcctag 1080 gagcaatagg ctataccata tagcctaggt gtgtagtagg ctataccatc taggtttgtg 1140 taagtacact ctatgatgtt cgcacaacga cgaaatcgcc taacgacgca tttctcagaa 1200 cgtatccccg tcgttaagcg acgcatgact g 1231 // ID MER72 repbase; DNA; HUM; 730 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 4) XX DE Putative long terminal repeat of endogenous retrovirus; DE MER4I-group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER4I-group; KW MER72; Repetitive element; putative LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 31-698 RA Smit A.F.; RT "MER72."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-730 RA Jurka J.; RT "MER72."; RL Direct Submission to Repbase Update (24-SEP-2000). XX DR [2] (Consensus) XX CC Contains a 300 bp module similar to a region in the MER4B LTR. CC Also similar to MER49, LTR59, LTR51, LTR31, LOR1I and MER66I. CC ~82% similar to individual sequences. XX SQ Sequence 730 BP; 185 A; 208 C; 137 G; 191 T; 9 other; tgagaaataa aaataaaatc ctaagccccc caactgactg aacagaccmc ctcttggcca 60 aggggacccc agagaaacct tgaaagctga gttcctggcc atgatgggat gggagggtca 120 gacatgcctc gttatacccc ccccttacta accaccatta ggctttcttc cctaagggct 180 aaacagaaac cagccctttc aaaagactcc accactgata tcaaccaacc acctgatgct 240 gcccctccct tttgcggttt caacacaaca actgaccagc aatgcattnc nttcctgata 300 agagaccacc gaccacggag tggttctggc cagtctacag aggatgtaca gtgagggttt 360 tcgtgtcctc tgcttcacct tttgacatca gagggccaaa aactccaccc tyggatcatg 420 ctaatgctgc cagttttttt gwacatggga cccatgaagr ggcatgaagc tcaattgcac 480 atgtgcatgt ttctcctttc ataaatattc atgactcctc ctatagctta ttgaatatgt 540 atatttggcc accctgctca gcataaatty ctgttccctt tttccctccc tcgaagtgcc 600 tgtttctggc ttctggccag aggctaygct tcccagcctg tcagaatggc caccctgcag 660 gctgcaaccc tttatgagaa ataaagctct cctttccaaa tttatgaacc tygtcattct 720 tcagttgaca 730 // ID L1ME3 repbase; DNA; HUM; 909 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1ME3) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M4; L1ME3; L1ME3 subfamily; MER36; MER38; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 471-728 RA Iris F., Bougueleret L., Prieur S., Caterina D., Primas G., RA Perrot V., Jurka J., Rodriguez-Tome P., Claverie J. et al.; RT "Dense Alu clustering and a potential new member of the NFkappaB RT family within a 90 kilobase HLA class III segment."; RL Nature Genet 3, 137-145 (1993). XX RN [2] RP 1-909 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [3] RP 1-909 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 23%. XX SQ Sequence 909 BP; 351 A; 163 C; 174 G; 216 T; 5 other; cttgtatcca gaatatataa agaacgccta caactcaata ataaaaagac aaacaaccta 60 attaaaaaat gggcaaaaaa cttgaacaga cacttcacaa aagaagatat acgaatggcc 120 aataagcaca tgaaaagatg ctcaacatca ttagtcatca gggaaatgca aattaaaacc 180 acaatgagat accacttcac acccactaga atggctaaaa ttaaaaagac tgacaanacc 240 aaatgttggc gaggatgtgg agcaactgga actctcatac attgctggtg ggaatgtaaa 300 ctggtacaac cactttggaa aatagtttgg cagtttctnc taaagttaaa catacgccta 360 ccctatgacc cagcaattcc actcctaggt atatacccaa gagaaatgag nacatatgtc 420 caccaaaaga catgtacaag aatgttcata gcagctttat tcataatagc caaaaactgg 480 aaacaaccca aatgtccatc aacaggagaa tggataaaca aattgtggta tattcataca 540 atggaatact acacagcaat aaaaaggaac gaactactga tacacgcgac aacntggatg 600 aatctcanag acattatgtt gagcgaaaga agccagacgc aaaagagtac atactgtatg 660 attccattta tatgaagttc aagaacaggc aaaactaatc tatggtgata gaagtcagaa 720 tagtggttac ctttggggag ggttattgac tgggaagggg catgagggaa ccttctgggg 780 tgatggaaat gttctatatc ttgatctggg tggtggttac atgggtgtat acatatgtaa 840 aaactcatcg agctgtacac ttaagatctg tgcattttac tgtatgtaaa ttatacctca 900 attaaaaaa 909 // ID LTR76 repbase; DNA; HUM; 675 BP. XX AC . XX DT 27-SEP-2000 (Rel. 5.08, Created) DT 27-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Long Terminal Repeat from human endogenous retrovirus - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR15; LTR4; KW LTR61; LTR76. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-675 RA Jurka J.; RT "LTR76."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC 3'-similar to LTR4, LTR51 and LTR15 (<75% identity). Individual CC LTR76 sequences are, on average, 88% identical to this consensus. XX SQ Sequence 675 BP; 193 A; 147 C; 142 G; 190 T; 3 other; tgaggcrgga aattaaagaa agaaagaaaa ataaaattaa aaagaaagag aaataagctt 60 tcctgtatta ggctgacttg tcccagaggc agcaacaggc acagcccaga cccaggaaaa 120 gtcttgataa tattatctaa tgtgctctgg agactctccc agcactccct caacataggg 180 agaagaaaaa acaaattttc ctttgtttta tggtatgagt ttatagattc ctgttctctg 240 taactagtaa cttcaagtat tctgttttat ctaagcagta cagtgaaggt catgagaagc 300 ctgagcaggc ctgaactaca gccacctggg caccatagtg aaggttatgr gataagcccg 360 tgcaaaaggc tctagagcaa acctagataa cagacatctg ggttgcatag caatggtcat 420 gtgtaatcct gagttatgaa cctgtcacaa tttgattaac tgtctttgtt ctgcctctgt 480 atccctgctt tcatgccact gtaagcttgc ttcaagctag cccaccccct tttgtgaagt 540 gtgtataaaa gtcaagtgct gtctttgttc tgggcccagt ctttggatgt taagtctgct 600 gggtctgagt gcactcaata aaagatcctc ctgtttcacc ccgaggtctc tctcgtcctc 660 ctgattccyg caaca 675 // ID MER84I repbase; DNA; HUM; 4954 BP. XX AC . XX DT 16-JUN-2000 (Rel. 5.05, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 2) XX DE Internal sequence of endogenous retrovirus MER84I. XX KW Endogenous Retrovirus; Transposable Element; KW Internal sequence of endogenous retrovirus; MER4I-group; MER84I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-661 RA Smit A.F.; RT "MER84I."; RL Direct Submission to Repbase Update (FEB-2000). XX RN [2] RP 1-4954 RA Smit A.F.; RT "MER84I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [2] (Consensus) XX CC Consensus sequence of a putative endogenous retrovirus with MER84 CC LTRs. CC The gag/pol/env genes, in the current consensus with some frame CC shifts, CC encode proteins closely similar to those of HERV17 (HERV-W). CC Average divergence from consensus 11%. XX SQ Sequence 4954 BP; 1343 A; 1289 C; 963 G; 1335 T; 24 other; tcttggtggc ccatacgggg actttactgg gatttctccc ttctttttcc tcctgcttcc 60 ctcggtggtc tggttcttta ctcttgggaa ctgaaggtcc ctggcngagg ccgctcttcg 120 gtgggatcct gaagccctag agaagggata cctgtctgtc gttgccctta ggggtgaggg 180 actggccagg gctcttttct gttttcggac tgccagtgaa ccagcttgag tactctttgg 240 caattgangg tttctggccg agggccactc cccggtgtta cccgaaggcc aagacaaaag 300 agcgaatttg ctattgcccg tcagggtggc aagtccactt tcactttaac actctgtaaa 360 ccgtgncttg gaaacgagca gcagtgatct caactctgcg cagacacact ctactggttg 420 cggacccaat tttggattca acttcgtcac aggcaccaca tcccaagtta cgggtgagtt 480 ctccttcaca ttaggtttga gctgaccact caaacaaggg cacacctgga ctggtcatcc 540 aggcaagggc aggccctcta tccgtggtgg gatacccctg aatagagtga gccaaaggga 600 aaagggaggt ccaaatccct cagggatgcc tcagggatct tgtagtccct tatctaaacc 660 caacatgggt tcaattcatt cttcaattca ntccnactcg cccttgggtt gcattcttaa 720 aaattggtcc cattttgacc cacaaactct caaaaagaag cgtataattt tcttttgtaa 780 tacagcttgg gttcaatata agctnccnaa taaattaaat tggcctatta atgaaacctt 840 ggattgnaat attattttac aactagactc attttgccgg aaccttggaa aggattcaga 900 ggtcccatat gttcaggtct ttttggcttt atcccaaaac ccaaaattac ataaaaattg 960 tcgcgtatgc ttccaaggaa cttcctccct ccctgattct gatgtcttag atgatccttc 1020 cttttgccta tcacactctc ctcagcctgc tcccncttca cctacaccct ctccatctgc 1080 tccatccccc agtcaacccc caccatatcc agatacttta tccccctcac atactcacac 1140 aggagtcaca tatgccacta gtacagagtc ctcagaaaat cccaaaaata ttttgcctct 1200 ccgcaaggtg gcaaatggag atttgggaac aattcgagtt catgtccctt ttccaatgtc 1260 tgatcttttg caaattcaat ccaagttggg ttcatttagc caggatccct ctaagttcat 1320 tcaagaattt cgggctttaa ctattgcctt tgatttaacc tggcaagaca tattcgtggt 1380 attaactact tgctgttccc atgaagaaaa atcacgcata tggtctttag ctcgagcttg 1440 ggcagatgaa gctcatgctc gtaatcctaa tgataataga gctggggcag aagctgtccc 1500 cgacacagaa cccaattggc agtaccaggc cgccgatgcc ggcccaaaca gaggcagggg 1560 cagacgagat tatatgataa cttgcttgtt ggaaggaatg aaaaaggctg taataaaacc 1620 tgttaatttt tctaaattac gagaaatcac ccaggagcca tctgagaacc ctgccctttt 1680 ccaagctaga ctggtggagg ccatgcataa atacacaaat ttagaccccg aaagccctga 1740 gggccaatcc attctggcca tacattttat aagtcaggct tccccagaca tcagacaaaa 1800 actccaaaaa ttagagcaag gcccacaaac tccctttcct actttattaa atacagcctt 1860 taaggttttc aataaccggg aggaaacatc aaaaataaaa aaggctcaat tggaggagga 1920 aaaatgccgt cgccaagcta attacatggc gacagcattg gcacattctt tttcgttagc 1980 taataacccc aaggctcgtc cctataatac taacagaacg ggggcctgtc atcgctgcag 2040 aaatccagga cactggagta gagaatgtcc caaacctccg ggttacaagc cgcccccggg 2100 accctgtcct cattgcaaac aagagggtca ttggaagagc gagtgtccct ctctccctca 2160 tgaggggggg gcacctcttc cttctgggct gtcacagcca caacctcgcc aacctacccg 2220 acaagggggt cctgcagaac gaggacaagg gcaagggcaa ggacaagcac ctctaactct 2280 attcctggat tatgatcaag cctctgaaag tcatcctcta gatgactgat ggggccttga 2340 ggccatccag gcccctgtct tttccatctc tatggatgag ccttgggtaa atctgattgt 2400 ggctgaacaa gaaataatgt tccttataga tacagggttc agctttaaac gtttattata 2460 ncccaatgtg ccagtcctcc attttcctca cgggtattga tggaaaacct caatgaggct 2520 gtttcacacc gccgctccct tgnaaaatgg aaagctattc ctttacccac tccttttagt 2580 cctgccaagc tgccctgttc cattattggg tcatgactta ctcacaaaat tacaagctaa 2640 tttacagtta aggcctcacc ttctagccgt attaactcac acttcaccga aagagccact 2700 gcagtcnata gaacctcgca ttctaaaaca agtgccattt gaggtttgga atacntctgc 2760 tcctggccgc tcaattatca gctgctcccg tcgtcattca gcttaaaaat cccaatgagt 2820 tccccagaac cccccaacat cccttggaac cagaagcatg aaaanagtta aagcccgnaa 2880 tgacaaaact tttaggccat ggattactgn gcccatgcaa ctcgccttgc aacactccca 2940 tttnagctgt aagtaaacaa gatggctcct accgactagt acaggacctt agaattatta 3000 atgaagctgt tattcctatt catcctattg tcccaaaccc ttacaccctt tttggacaaa 3060 ttccctccac cacagcttgg tttactgtac ttgatcttaa ggatgccttt ttctgcattc 3120 ctgtacaccc agatagccaa tttttgtttg cttttgaatg gcaagaccca gatactcaaa 3180 taactcaaca gttaacttgg acagttctgc cccagggatt cagagatagc ccccaccttt 3240 ttggacaggc cctagctaaa gacctgtcca ccctgcagct tctcccagat agcaatctac 3300 tccagtatgt ggatgaccta ctaatctgta gtcctaacaa ggctgtttca gaccaaaata 3360 cagtattagt actaaacaaa cttgctgatt gtgggtacaa agtatctcct tctaaggtac 3420 aaacatccac acaaagagtt caattttggg gtcttatttt aacccccggt acaaagagcc 3480 tctctagcgc tcgtaaagat cttatcttaa acgtgacaac cccngnaact aaacaacagc 3540 tttggtcctt tttggatatg gccgggtttt gcagaatatg gattccttcc ttcggattaa 3600 tagcaaaacc tttatatgaa gccctcaagg gaactgagga acaacctcta tcctggacta 3660 atgatatgaa gcatgctcta aacactttaa aacaggcttt aatctcagcc ccagccttag 3720 ccctancaga tctgactaag cctttntttt tgtatgtaca cgaacgaagg ggaatngctt 3780 tgggagtctt agcccaaaat ctggggccct ctaagtgccc tatagcatat ttttcaaaaa 3840 ctttagactt ggtatcccag ggatggcccc ctgctttaaa gctttagcag cagtggccct 3900 cttagtccaa gaaagcctca aactatatta cccgcccctc ctgggctctt acggctttgc 3960 ggcaccgcca ataattattt aaaccctttt caagctttgg ccctatccca ccttgataat 4020 tctcttcatt atggtgattg tactctggga acagtagctc ccacccaaat cactgtcttg 4080 aacataactt ccgattcaga attccattct agaagaaaaa gggccctagg acttattgtg 4140 gccagagttg tgggaactat cgcaactctc gccccttggg gaggttttac ttaccatgaa 4200 atcacactac gagaacttac cgcctccctt gaaatagcct tagcaaaaac tggcgcaagt 4260 ntatcagcgc tagaaaagtc tttagactca ctagcaggaa tggtttttga taatagacga 4320 gctctggatt acctcctagc tgaacaagga ggagtctgtg ctgtcatcaa caaaacctgt 4380 tgcacctaca ttaatgtgtc tggagaagtg gaaactaatg tccaagaaat tttcaaacaa 4440 gccaaatggc tacacacact ttcccaaagt aaccaagact gggccaaaac ctttactgat 4500 tggtttccaa aaatcacttg gcttctccca ttccttggac ctttattcct cgtcattctt 4560 cttttaatat ttggtccctg cctttttaat gctctcatta agtttatatc ttccagatta 4620 caangattcc acctacagat ggctatgcaa tcccaatacc agcctgcaac agcaacttcc 4680 atttacatgg ggcctcttga tggaatccgg tcttccccca tgaacaagtt tttcatgacc 4740 cttcattccc ttcatgacag agagcaagaa agggaaaaat gcaacttatc cctttcaatg 4800 ccccctttca gcaggaagta gccagacaga ctcgacgccc ctcttcactg tgccattttc 4860 cctttcttga gaccccaata ggcagcaggt agacatgagc atgggggaat ataaagggtc 4920 aaagatttga ccaagatatt tgtcaggggg aaaa 4954 // ID HERV39 repbase; DNA; HUM; 9084 BP. XX AC AC005697; XX DT 01-MAY-2001 (Rel. 6.04, Created) DT 01-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Internal part of the HERV39 endogenous retrovirus. XX KW Endogenous Retrovirus; Transposable Element; Nonautonomous; KW Class I; HERV39; LTR39; MER4I-group; KW Nonautonomous endogenous retrovirus; env. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-9084 RA Kapitonov V.V.; RT "HERV39."; RL Direct Submission to Repbase Update (APR-2001). XX DR GenBank; AC005697; Positions 53252 65453. XX CC HERV39 is an internal part of the HERV39 non-autonomous CC endogenous CC retrovirus, which is related to the MER4I group. CC Long terminal repeats of HERV39 are deposited in Repbase Update CC as LTR39. There is ~80% identity between LTRs flanking this copy CC of CC HERV39. Copies of other transposable elements (ALU, LTR12, LTR8, CC and MER57B) have been removed from this sequence. CC Remnants of the env protein are encoded by the HERV39 copy CC (positions CC 8549-8767). This env is related to the one encoded by the HERVH CC env. XX SQ Sequence 9084 BP; 2710 A; 1709 C; 1770 G; 2895 T; 0 other; attagttggc aactacaaag gggcgaaagt cccaaccggt ggccttgccc atggcacacc 60 agcccctggc tgcagccacc cttggaccct gtccggcagt tggctgaatt attttgctca 120 gggatggatc catgcatttt atgcttgacc aggtgtcatg ggccatggca tttttacttt 180 tgtagcatta aaaataaggc actgggcttg gaagatgtcc ttcgtaagtg gtaggtttgt 240 gggcaacagc cccaaggtat ttttttcttt ggacactggg ttctgctttg gcaggacaac 300 tgactttgct ttggcaaggc cctgggccct gctttcttag agtatttggt ttgattgggg 360 atactcacta gagagctgaa gggatccaga acttgagaaa ccatatttgg ttttgacttg 420 ctgaaaacag acttgcttga aactctatct gaagcctggc tgaggcagca aggttttcat 480 cacctatggt tttgtcatct aaaatgggaa acacaagctc tattctacct tgcagcccat 540 tagggtgtat tctgcagaac tgggccattt ttagctttca gcccatgaaa aagaaaaagt 600 tttttttttt tttaattgta gtactgcttg gctgcaatat tctttagact ctggaggaaa 660 atggcctgaa aaggggtcct ttaaattgga ctcctaaatt caaaaaataa ttttagagat 720 ctctttttct aaacagttga tgggaaaatc aaattttaaa aaggaaatgc aatagcgtca 780 tggctagcct taagaattct cttgactaaa ttaaagaaca aaaatataac ctaaaacaaa 840 gttaaaaaat attgcaagct aaaaactaca tgacttagat cttctccagg aataacagca 900 aagaccattc catactgtag tctagcagct aaagttccac catttcacta cagcagcttg 960 ggttcagtca gggaacaagt cttattgatt tgatattcat gtgacttttg caacttactg 1020 attcttttcc tttccaggaa ccgcttttga tttcctgccc tcttccatct tagaggcata 1080 tggactttgg gggtcttcgt gtttagattc tcagctgaga ttctagagaa tatggccaaa 1140 cagaaatgtg gcttgtactc catttgtagc tagcaaaatt tttctttctt tgagctgtct 1200 tgagggtgat tctggatctt gtgagcactg attttcacct cttcggagac ctcatgcaac 1260 tcttggttga gtcacaacta atccagggtt ctaactgaat agatggcaat tgattgattt 1320 tgcaaatagt gggccctaac ataacattgt gaacacgacc catgtttact tatttcataa 1380 accaggtgta aacctgtttt aaccaatcct gagtgcaatc caagtattgt aattgttctg 1440 ctgctttgtt agttaacaaa gcaggagaac agttgttcta ataagtggat ctcttttaat 1500 tcccaggact tggggatctt ttgttctgtt gagatttttg cagggctggt atttgttgta 1560 acaattcggc tgaaagataa gaacatggat gtatgtagcc gtgtgaagtg ctttgctgag 1620 agcaaggaag attattttga gtcactgcac ctgcctgcct ccctggctat aatacaaaaa 1680 cataatcctt tcaaataaag gagtgtagga agtgaccgtc cctcagcctc accaatcaat 1740 tcaaatcagt tccaagaaaa cagattcaaa tcagtaaccc aaaccctacc cagagccaat 1800 tctttctgaa caatagctgt taccaaggtc tcaggagcat taggcgctca attctatttt 1860 aagtagcatg gttggagctt aaccccaagt caggtttaag tgattaaacc agttaagtaa 1920 ttaattttat tctgcctctt tatttaaaaa ggacatgagg ggttttacaa cttaaaatac 1980 ggtgaccatg aagcatttaa aaagagactg gaagcctcat aatggcaaag tgggaaatat 2040 tctatcagga atgtggacaa atagtttgag catgaaattt gactctgagc ttcctagcac 2100 tcaaggcaaa aagagaaatg gtggaccatg taaatttaat cacctgattt tcaaggaaga 2160 gtaagaacaa aaccaagaag tagcagcatc agcattttgt ttgtttgctt gttgacaagc 2220 agcatttttg tttggagaag caaacattca cttggcatta catttctgga aaattagatt 2280 tcgtagatcc tcatgtaaga gacttggggt aacttgttca gagatgtctt tgactgcggt 2340 tttgcagaag caaaaatggt ttaggtctca ccatgaaatc atgaaagctc gaatcagtga 2400 cgtttcttct cgggagagca gtcaatttat aattaagctc ccgcgtccac gcctgatccc 2460 atgtcacttt tatttttgac tttggttcag ggatgagagg tggttgctca caatgacttg 2520 agtttcagaa agatggattt gagagtcacg gctgatacag gtaacacaaa caagccagct 2580 tgagtcagcc accagaaaac ccccatgcct tctatttcca ctagttgctc aatactgtat 2640 ttacctctat gtgctgctct caagagagaa agtaaaaaaa ccagggtgat cttggctaga 2700 gttgccacaa ggactagcac tgacttcatg gcctgaagag gagcttcagc tgttggaaat 2760 tctcagtgtg cacattttgg caatttccac ctggaatgtg gtcctgctgg gatggtggca 2820 aacagccaga cctgtacaag tggcctgtgc tcaaaggcaa atgtcctggc cctgggcttg 2880 ccctcctgaa ccagctgaca agctggccca gttccagtgt ttaaccttgt atacaaaggc 2940 aacttttctt aattcacatt tgccggggaa ttcaattacc ttgttttctt gccttctctc 3000 ttctggtact tttgcaacca gctgtgagaa ctgcattgca aatgcctgta gggagtgttt 3060 agaatcacag tgacccctat cactcttgtc ggcgattccc agggaagatt ccagcttctc 3120 tggattgaca accaatgctt cccacaagga aagggtacag aattaaatgc agacactcca 3180 tctcctgctt ccagccttct taatgagaaa gtttccactt gtggggacag ctcagtgatt 3240 gattcttttt agctgtgtgt cttttggaag gcacagattc cttcttaggg tgccaggtga 3300 atggcagcgg tggtgagtaa cagtcttgtc tctaggacag tgtgctcttt tgtggtcaat 3360 ggaagggcat gagttggctt tgggaagcaa gggctggggc tgtccccttg ctgccaaagt 3420 caagtcaaag gacaggaaac aagctcccca atttccccag tttattaaac tggtgcattc 3480 tgcggcaccc tgtgcaggtc tgagcatagc agatgtgggg ctttccctgt ccaggtgagt 3540 caagtgattc agccctctgg ctaattttct ttcttggcac ttggctctaa gtcttgactt 3600 gactctagaa aaaatatgct tctcagaaat gggtaccact tggctaaacc acctacaagg 3660 gagccagata tctctgcaga aattctctag gctcccccag ccatccaggt agtaacatta 3720 atgtcataac cctggttaag gcctattagt ttcacaggga aggctatctt tggaaaaaat 3780 ttcaaaaacc agaaatatca gtggttcacc ccactaaaat ctggtaataa gagatgtgaa 3840 atttttttaa aagagcttta taatcagaag tcaacataat taaaacagaa tacagaattt 3900 aggctattta tgtgtgtgtg tgtgtgtgtg tgtgtgtgtg tgtgtgtgtg tgtgtgtatt 3960 ttaagacctc tgttctctct ctataaaaat ttctccatca actaaattca ttttgtcttg 4020 aactcctgct agccttatgc actccgtctg tctgtctctc cattcacttc tgttggcccc 4080 tccttcctct tgccatcctt gatgccacat gagaggacca gaaaaatacg ttctaacagc 4140 ctgagatccc ttaaggaaaa cagaaaagat gccatgaact actcttttga gaggaacctc 4200 tgtttttcct cagggaatcc caagagttgt aaatatacag aggcctcgcc tcccagacct 4260 aaaattctgt tctcttttgt attctattac cttatctgtt ggtttttgag gtgccagaaa 4320 ttactctata ttatgaaaaa aattccctta taagatcctg tggtaaattc ctgcaatttt 4380 atgttgcttg atatccattt ttagttttcc tgcagcacag cctaaactcc ttcttaaagt 4440 tgaataaatt cttgctctct ctatcttttg agacatggat ggctacacct tgcttccact 4500 ggggctccat gatgacttga accatgtggg acaaatggat tttcattcgt tccacttaca 4560 gcaacataaa ttgaatccag ctatcctttt aactttagcc agtctcatgg ccagagtttt 4620 aaaatcaaga ctgtagtgtc tttgtttatg cctgtttgga tctttattat gtgcatgtgt 4680 atgaccttgt atgttgccta tgataccaaa ttggcttgta aataaaggag tacttataaa 4740 ttaaatgaat aagtccaaat gcttttcagg ttcccatgat tttaataatc tttagtaaat 4800 aaagatagtt tcgaaattgt tggtaaaaca aaataaaagt gttttcagaa tttaatgtag 4860 acatttctgc ccagatctat tgatcagata ctgtctctgc taggtgtttt aaggtcataa 4920 aactattgct tctgtagtcc tttcgatact tgcttcactt gtctataagc ttatgtatgt 4980 ctttagattt gagccttcgg gccatgatga ggcctagatc caggaaaagt cctttgtcct 5040 ggggtctaca tctgaaacat taaaattgct tatttcctgt gcttttcatt gaaaataagg 5100 gttattaaga attaacattg taattaatat acgcagtgaa gactactaga gatgagaaaa 5160 gcaattctat atgcaaagga ttttttttaa aaaaggatgt gaggggtata tgattgtttt 5220 ttatttggtt ataaaaggtg taggaatgtg gtttttgtta aagggaaagt aaaatggaaa 5280 gaaagtttaa gagacaaagt aatttttctt ttacatgaga tacaactttg tgtggtcaaa 5340 atgatgatag agaaaagaaa gtaaattttt gtcctaaggt aaaatgatag gacaaaactg 5400 aaggtttaag caagttgtag aaaaagattt atgaaagatt aatcatgtga aaggagcttt 5460 gtgtatgatc aaattgacta aaattaaaag gggatgattt aattttttca aaaattaaac 5520 attaatatga aaagcacact aatgcagggt cagagtctgg gcctccatgt cagaatggca 5580 aagttttctt ggagcattga acttctcttt aataaacaat tataaaaggt tataaaaggg 5640 taataaaaat cttaccttgt gtggttaaaa ttaactgaaa ttggatggat ttgtttataa 5700 ggttttatta aaattatctt tagcattaat aatatgctaa tgaaaaggta aaacttggct 5760 ttctctttta ataagatttt catataatat taataagaca taataacaga ttatgtttac 5820 ccttagaata agctccaaaa ataaaacaag caaaagagaa agagacacat tcagctggca 5880 ttatgctgtc tttattaggt cttatgatta ttcggaaaac tgagtctcct ccctatgaaa 5940 tagtaaattt tgcttttcaa aatcctggaa ttatcacttt ggctaaatga atgactattg 6000 ctttatagtt acctgtgatc ctattttgtg atatcaagtg ttttaaacct ctaatatctg 6060 acaaacattc caaaattaaa tttcaaattc ttgattcagt ctttttgacc tcaaactaat 6120 ttttttatat taggacccct ggaagtccag gaaagacata ttgggtttac ttggtatctt 6180 aaaatcatac aggaaacatt gtgaaatata aaatggtatt taactttgtt tgggttgtat 6240 ttgcataaat gtgttattaa tatgtgttcc aaaattatat gagattctta aaattctgat 6300 gccttaatat gttatcagca atgattataa ttattatgtt aaattcttgt atgtcacaga 6360 ctcttgtcaa ttgcatcttt aatcatagct tttccatgac ttgctatcta taacttctca 6420 aaaagtgatt tctcctttga agaagttcat ggaaaggatt ctaacaaata ctcttgaata 6480 caggtttctg ataactttgg aaatggtacc attgactagg aaaaaacaaa aacaaaaaca 6540 aaggaaaaac ctccagaact ctaattaaaa agctgatgta ttcatgagga ttgctagctc 6600 aacatcaaac agaacaagag ttaattatat ggagctaaac taatagataa ctggaagcat 6660 ttttttactt tattgtttga aacactgctg ttttttttgt tttattttct tgagtcaaga 6720 aaactttttc ttttgagcta tttgtagctt tgaacaattg attaaagtaa actcttgtaa 6780 gcaaaacttc aagcatgttt ctctctacct aatttttcca aaatttggaa accgttagtg 6840 agtattctta gtttatagca atatagttat ttgcataagt ttaataggaa tctgttttct 6900 tttgtaacag gacacaattg gagacactga ctattttacc aaggctttga ttggaaatgc 6960 atattttcac atatgaccag actgctttga ggaactgaag ttaattttgt agagccaaca 7020 aaaagtcctt gggaaaaact gtctgcacaa ttccctcaca aagtttctga ccctgtggta 7080 agtaaagtat gtaactttct gacagcccaa gaacctcagg atattttggg acctcaagaa 7140 gaggggaatt aatgcaattc atacaggtat ctgcaggcac agataaatcc ttgacttggc 7200 tttagaggct tttaaaaagt ctaatctgat attccttatg aaaaaatatt ccagcaaagc 7260 caactttaaa agagcttata tagtcaataa ctattttcac tgcacattat gcaaataatc 7320 aggccaaaaa taagaagact aaaacttatt ttacaaataa gttggtcctg ctgtggtttg 7380 tctttgatag aaatggggga tagagagaga aaaatttctt ccattttcct gacttggact 7440 caatgaaatt gctactacct ttttctcgag ctgaaattca tgccttgtga tgttttgagc 7500 ctaatatcta gatgacccaa ctgactgccc tccggactgt aagacagctg gtttaaggtc 7560 agtttcatcc tcgatggaca ggaccatatg atgtgctgtt gatgactcat tcctcagtaa 7620 aattaagaag agtcaaactg tagatccact attcctgggc aaacctggtt ccccaagagt 7680 ttcctaaccc tatccatcag aatgtgacag aaaacaggaa ccacacctta aaaacatcac 7740 ggtcctggtc gtctaaattt ggaatgctgg cacgccccga agactgactt ctgcaggtgg 7800 actagtgaac cctgacagat ctcacgttgc tgttcagaag acagacgcct aacaataaac 7860 aataagagat acagacataa accattcttt gtcatcattt attttgtcta tcaactactg 7920 gctaagcaga ttctgtgtgc tgccctaggg tcttaattac ttcaagtgct catattgaac 7980 cataaacatg attacctttt tgttacgttt ccctgtggac tttgagcccc ctagattaaa 8040 aggataatta cgtaacttgg atttctcgaa cactggcaaa gacaaataat ctggagatac 8100 gttatctgac ctggctaata gactaacagt acaacagttc actatattgt cataatctga 8160 caatttatta ttttagtatt ctcctctttt ggttgcctca ttataaagtc tgctttgatt 8220 ttgcctcttc agatgagccc ggccctcaaa tatacctcct tagaggcctg ctctctgaac 8280 acattggaag tccctatcgc tggcttcacc tctcattagc tcccagcaaa ttaaacaact 8340 cattggaact aaatagtcca catactctgg ggatccacaa acccatattt gcctgagttc 8400 caaaaagatg gagctgacta cttctttggg cagatgttgt taccttggtg gggagtggca 8460 tcccatgagc acacaattag aaatttcttc ctcactttca aaattcttgc tgctaaaact 8520 gcatacaaca gccacccagc caagaggaat taattcattg gctcaggttg ttttagataa 8580 taggatagtc ttagattgca tcttagctga atagagaaaa atatgtataa ttgcaaatac 8640 catgtgctgt acttatataa atggatctgg gcaggtagaa actcattaga aagaattaga 8700 gaacacgaca ttttgttaca acaggtctcc ccaactgtcc gcaaggactg gctttctttg 8760 ttttcttgga ttcctcatgg aatacagtcc atattttctg gattgctaaa gttaggcatg 8820 tccgtcttgc taattttgct tatgctttct atcgtagcca aattaaaatg ttgtaataaa 8880 gcagtgatga aagcaaataa tataatgata attctgcacc atggtgccat gcctggggca 8940 cgtgaatatc ttgagctaca tgctagaaat ttatctcctc atttcctggt ccctaatctt 9000 tgtccccatt cagcagaaag tagccacagc cgtctgcgtt cctgtacccc ccaggactga 9060 gaagtgacaa aagacaggag gaat 9084 // ID LTR26 repbase; DNA; HUM; 603 BP. XX AC . XX DT 13-OCT-1997 (Rel. 2.09, Created) DT 13-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LOR1; LTR26; KW LTR8; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kapitonov V.V. and Jurka J.; RT "LTR26."; RL Direct Submission to Repbase Update (10-OCT-1997). XX DR [1] (Consensus) XX CC LTR26 consensus sequence (positions 172-593) is 67% similar to CC the LTR8 CC consensus sequence (positions 272-682). LTR26 fragment (456-588) CC is CC also similar to the LOR1 sequence (positions 344-467). CC The average similarity of LTR26 sequences to the consensus CC sequence CC is about 85%. 4 bp target site duplications. XX SQ Sequence 603 BP; 160 A; 167 C; 111 G; 161 T; 4 other; tgaaaccgtc cctataaact ttataaaatt aatcagggaa gaagrgaggg ggagaaatga 60 aaataaacca agcttgcagc acattcagca ttaatcatka ggtcagcttg ctctctgacc 120 tgcttcctca tagttgtttg gtgcctattg cctyagaatc acgtagaccc tgttacaaga 180 ttatagttcc ccttaactgc tctatagata acaacttgaa cattatgaaa cgttaagttt 240 tccctttgag atattccttc gggtcctgca taccgatgaa actactgaca actgacgyca 300 gctggtctga aggaccccac gaggagctga ctcaccaaag aatgcagttt ccacatcctg 360 atgatttcat cccccttacc ccgaccaatc aacaacccca attttccagc ccctcgccct 420 ccatgatccc cttaaaaacc ccagcccaga actcctcggg gagatggatt tgagggtctc 480 ctcccatctc ctcgctcagt gccctgcgat cattaaactc tttctctgct gcaaaccctg 540 ctgtctcagt gtaattggtc tgttactgcg cagtgggcat atgaacctgt tggtcctata 600 aca 603 // ID ALU repbase; DNA; HUM; 312 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 22-JUL-2005 (Rel. 7.05, Last updated, Version 5) XX DE Alu-Jo subfamily - a consensus. XX KW SINE1/7SL; SINE; Non-LTR Retrotransposon; Transposable Element; KW ALU; Alu-J; Alu-Jo; AluJ; AluJo; Repetitive sequence. XX NM ALU. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RA Jurka J. and Smith T.; RT "A fundamental division in the ALU family of repeated RT sequences."; RL Proc. Natl. Acad. Sci. USA 85(13), 4775-4778 (1988). XX RN [2] RP 1-283 RA Jurka J.; RT "Origin and evolution of Alu repetitive elements."; RL Molecular Biology Intelligence Unit:The impact of short RL interspersed elements (SINEs) on the host genome (ed. Richard J. RL Maraia), R.G. Landes Company, Austin, pp.25-41 (1995). XX DR [2] (Consensus) XX CC This is the oldest known dimeric Alu subfamily. XX SQ Sequence 312 BP; 89 A; 81 C; 96 G; 46 T; 0 other; ggccgggcgc ggtggctcac gcctgtaatc ccagcacttt gggaggccga ggcgggagga 60 ttgcttgagc ccaggagttc gagaccagcc tgggcaacat agcgagaccc cgtctctaca 120 aaaaatacaa aaattagccg ggcgtggtgg cgcgcgcctg tagtcccagc tactcgggag 180 gctgaggcag gaggatcgct tgagcccagg agttcgaggc tgcagtgagc tatgatcgcg 240 ccactgcact ccagcctggg cgacagagcg agaccctgtc tcaaaaaaaa aaaaaaaaaa 300 aaaaaaaaaa aa 312 // ID L1MC4_5end repbase; DNA; HUM; 2555 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from placental mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1MC4_5end. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-2555 RA Smit A.F.; RT "L1MC4_5end - L1 Non-LTR Retrotransposon from placental RT mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 20-21% div. XX SQ Sequence 2555 BP; 1138 A; 426 C; 485 G; 470 T; 36 other; tagaggggac ttccaggtag ctgaagacan tggcggcngc ctagntaccc gcctcccaat 60 atttcctcca aaaacgatac agaacaanaa gaaggaaaat aaanctacac aaaaaccaca 120 ccctcagcat aacttgaaga cagagaatnc ccaaacttca aantaactgt aagtaaaaag 180 agaaaaatca ccaaatccca gcgngcnatc tctcatgctc ctgcccaccc ctgctcctgc 240 tgcaaggctt tgtggtgagc aaaggcagac cgagaaaaac tgcagggaag acagaagagg 300 ggagctagca angggnncta aggttgatct gaaaaaacta ccgccagaaa gagtaagtcc 360 accctaagtc tgaaaatact aaaaaagtgt ccgggtagat cagagcacgg actacaggga 420 agggacttaa aagtacgcgt gatttaaagg ggcagtcttc gaaangcata gcttctgggg 480 gagagaaaag gcaaaaagga agggagaagt accctttggc aattgggtag tgaagaggaa 540 aagaagcaaa gggggaaaat ttagggtcct gcaagacaaa agagaaccac aaaatcggag 600 gacncacaac tcctccatcc accaccaaaa caaacaaaga aatctactaa agaanctgna 660 ctttgctaca ctgacagaag agggtgccct tgaactagga atcttgtaaa acatcccaat 720 atcataaaaa tgaacaagaa tagantaaat ccatacaaag ctattacaaa aaaaaaacat 780 cagaaaatga gaatcaaaac atttcagctg atgaaaattc ccccccaaaa aaaancaaaa 840 aacaaccatg aagcagaaga aaactgtaan acaacactcc aaactgaatt aaatatnctc 900 aaacaagcat ttgnggatat taaaaaaaac taccttgaat cagaaattca aaaactaaga 960 acagaaatgg acaaaaaaat aaaggaagaa atgaaanaag agttgattga actcaggaaa 1020 gaaatngaag aaaaagacaa aattatctca gaaatgaaga ctaaattaca agntgcccaa 1080 gggagaatag attcaaatga aaatttaata aggggcattg aagaaaggca ggaaaaaaac 1140 aacaagagaa taaagaaaat gagataaagg aaagaagtaa aaagggtcag agagaaagtg 1200 gtngaaatgg aagacaggca aagaaggaat aacatntata taattggagt ccctgaagaa 1260 gaaaaacaaa acaatggaac agaactaata tttaaaacta taatccaaga aaactttccg 1320 gaaataaaag aaaaagacct gaatctacat attgaaaggg cccactgggt acctgggaaa 1380 attaacccag aacgatcaac tccgagacat atcctagtaa aactattaga cttcaaagat 1440 aaagaaaaaa tcctcaaggc ctccaggcaa aaagatcaaa taacttacaa aggnaaaaga 1500 attagactgg catcagactt ctcaaaaaca acatacaaag caaggcaaca atggagcagc 1560 attttcaaga aactcaagga aagaaagtgt gaaccaagga ttttatatcc agccaagctg 1620 tccttcaagt atcaaggcta tagaaaaaca gttttnaaca tgcaagaact cagggaatnc 1680 tgtacccatg agcccttcct gaggaatcta ctagaggata agcttcatcc aaccaagaga 1740 tgactgggga aacttcagca aaaggactga tggtgagcat ttaataatat ttaattgtag 1800 atctaagact aaaacaaagt ggggacaagg gtggaagaat aatatacaaa tgttatatgt 1860 tctgacaaag tagaaataat gcaactaaaa aatgggagga gagaggggga aaggagaaag 1920 tagaataagc tcattgattg ttgtataggc aataggtggg agtcaaagga taccattaaa 1980 aactgacaaa ccagatagta aaagnttaaa taagaaaaca ggggactaag ggcattataa 2040 aaaagtataa gtacaaaggt aaccactaga acaaaaatac aaaccttcct aaataccaaa 2100 agaaatttta aaaataaaga aaacaaatca catgaaacat agaaaataca atataataca 2160 cataattata aaataatatg acagagttga gaccaaacat atcagtcata tcaataaatg 2220 tgaatgggct taactcacct attaaaagaa aaagattttc aatttggctc acaaagcaag 2280 acccaactat atgctgtata caagagacac acctaaaaaa agtgattcag aaaggctaaa 2340 aataaaggga tggacaaaga tataccaggc aaatggaaac aanaaagaag ggctgcaatn 2400 ttgatatcag ataaagtana attcaagcca aaaagcatta aacgtgacaa agaagggtat 2460 tttnaaacgc taaaagccac aattcacaat gaagatataa canttatgaa tatctatgca 2520 ccaaataaca tagtaaccac ctttatgaag cnaaa 2555 // ID Tigger15a repbase; DNA; HUM; 715 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE Mariner/Tc1 DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; KW TcMar-Tigger; Tigger15a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-715 RA Smit A.F.; RT "Tigger15a - Mariner/Tc1 DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 25bp TIRs Quite old (>30% subst in ancestor) and possibly CC mammalian wide. Classification as Tigger based on pos 466-715 CC matching pos 69-324 of Tigger14a (<70%), which shares termini CC with the Tigger-transposase containing Tigger13a; no match to a CC transposase fragment present in either Tigger14a or Tigger15a CC though. rnd-4_family-1167, rnd-4_family-1411, rnd-4_family-3911. XX SQ Sequence 715 BP; 243 A; 154 C; 152 G; 160 T; 6 other; cagtaacacc tcacttatct agagntcact tatctggcaa cctcanctat ccggaacaca 60 gctgagaacc aggaagtaag caaaaaaggc ctctgagcag ccaaaataga tgtcacaaag 120 tccatgcact aaagctcatg cactttactc ataggagagc ccctcaggcc ctcactcaga 180 gcctatttac tcttatttta nacacaattc taacaagctt ggttatctgg tttcccagcc 240 cacagcagat tagaagcagc aaattagaag ggggggaagg gctgctagag gcaggcacac 300 tgacagcagc aagaagtgac agctgacagc ctgacagcaa gggaggagac agaaaaacta 360 taaaaagcag acacaagaac tcaaaaagca cagcagtctg gggccattta gtgtaggggc 420 aaacagccct acacacctca atagcccctg agggcatcac tgtattacag cacagtacaa 480 taactgatgt tcataatgat gaccctgagt catcaagaaa aggttaaatt atgttcagta 540 tactctgttt aagaaggcag ggaagtgtgt aatacatttt agaaagattt ccatccaaaa 600 tggttaaaat tanaaaagtt ttggtgctta aagggataag cttcagttat ctggaaaatt 660 cacttatgtg gaacanctca ttccccgatg atgccggata aatgaggtnt tactg 715 // ID LTR72B repbase; DNA; HUM; 500 BP. XX AC . XX DT 04-OCT-2000 (Rel. 5.09, Created) DT 04-OCT-2000 (Rel. 5.09, Last updated, Version 1) XX DE Long terminal repeat of HERVI-like retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR72; LTR72B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-500 RA Jurka J.; RT "LTR72B."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC 3'-end similar to LTR72. XX SQ Sequence 500 BP; 130 A; 125 C; 102 G; 139 T; 4 other; tggttttgta acccagggtc cctgggtttt ggggtayrca ctgtgaaaaa gtacccactt 60 gtaactgttg caccttgagt tcttgttgtt tcaaaaagtt ccaggaagaa gctcagcccc 120 agaaaaacaa aaaccagttg gatccagaga tgcctgagtt ggagatgaac tttggcgaac 180 tctcctcatt accatactaa aaaccccacc cagggaggag cttatttgcc attttctata 240 catgtgacat atgtagaagc atgatcagca actgygcctg tgctgccttt actccacctc 300 tacatacaat gactcagcta accagcctaa taaaagccct gttttcacct ttgttcgggg 360 aggcactgct ttggggaact atccccagtg tcctccttac ttgttgcaag taataaaatc 420 cccttgttaa atcctccttg gttgtggtca ttggactgtc acctgccaag cratcaaacc 480 cacccattgt gtgggtaaca 500 // ID THE1D repbase; DNA; HUM; 381 BP. XX AC . XX DT 07-MAY-2001 (Rel. 6.04, Created) DT 07-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat (THE1D subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LRS; LTR; KW MaLR family; O-repeat; retrovirus-like MaLR element; THE1A; THE1B; KW THE1C; THE1D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Sun L., Paulson E.K., Schmid W.C., Kadyk L. and Leinwand L.; RT "Non-Alu family interspersed repeats in human DNA and their RT transcriptional activity."; RL Nucleic Acids Res 12(6), 2669-2690 (1984). XX RN [2] RA Paulson E.K., Deka N., Schmid W.C., Misra R., Schindler W.C., RA Rush G.M., Kadyk L. and Leinwand L.; RT "A transposon-like element in human DNA."; RL Nature 316(6026), 359-361. XX RN [3] RA Smit A.F.; RT "Identification of a new, abundant superfamily of mammalian RT LTR-transposons."; RL Nucleic Acids Res 21(8), 1863-1872 (1993). XX RN [4] RP 1-381 RA Jurka J.; RL Direct Submission to Repbase Update (MAY-2001). XX DR [4] (Consensus) XX CC 80 % similar to THE1A; 84% to THE1B and 89% to THE1C. XX SQ Sequence 381 BP; 76 A; 94 C; 89 G; 118 T; 4 other; tgatatggtt tggctgtgtc cccacccaaa atctcatctc gaattgtaat ccccgtaatc 60 cccgcgtgtc gagggagrga ccaggtggag gtgattggat catgggggyg gtttccccca 120 tgctgttctc gtgatagtga gtgagttctc acgagatctg atggttttat aagtgtctgg 180 caggtttccc ctgcwctcac acntctctct cctgccgcct tgtgaagaag gtgcttgctt 240 cccctttgcc ttctgccatg attgtaagtt tcctgaggcc tccccagcca tgtggaactg 300 tgagtcaatt aaacctcttt cctttataaa ttacccagtc tcaggtattt ctttatagca 360 gtgtgaaaat ggactaatac a 381 // ID MER89 repbase; DNA; HUM; 559 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat from endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER89. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-559 RA Smit A.F.; RT "MER89."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative Ltr of retroviral element (poly A signal at 508-513) CC 4 bp duplication sites. Average divergence from consensus 19-20%. XX SQ Sequence 559 BP; 159 A; 163 C; 90 G; 136 T; 11 other; tgagagactg aatatacaaa cggacaatgg ccagaccata tatgaaaata gaactctgac 60 ccacaacctc tgcagcaacc tgcccaggaa accaatcccc ttatctacaa ttacaacaaa 120 saaggcagcc tgctgtaagt cagacttgca saaagtcaga ttgctctctc tagtaancag 180 yccaggaagc caaacaacaa cctctgcaac aattggcccm aaatggccag gacttgatca 240 ataactgmca gcttccctaa tttttgtccc tgcttccaac ttaggaccaa ccagagaaag 300 cyaaatatgc wccccwaacc aatcacatag gatgccctgc ttctagttag cccgcctmca 360 gcttccccat gccaacaacc tccaatcagg gcatacctga agtcttccct tttttccact 420 ataaagcttt cccactcctc tgcctgcctt tgagtctctg ccaaacgcaa gtgatggtgg 480 ctgactccct tgctatagca agctctgaat aaatagcctt tgcttgttct catttggktg 540 gtcttcattt atttccaca 559 // ID Tigger3d repbase; DNA; HUM; 321 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE Mariner DNA transposon from primates. XX KW Mariner/Tc1; DNA transposon; Transposable Element; GOLEM_C; KW mariner; Tigger3d. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-321 RA Smit A.F.; RT "Tigger3d - Mariner DNA transposon from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX SQ Sequence 321 BP; 105 A; 63 C; 67 G; 86 T; 0 other; cagtcatgcg ccgcataacg acgtttcggt caacgacgga ccacatatac gacggtggtc 60 ccataagatt ataatggagc atatatagaa acctgatata tggcacttga tattggcatt 120 gcagatcaag taggggaaat gactgatatt cagtaatggt gctgggacat ttggttttcc 180 atatgaaaaa atatatataa ataaaaatat atataccatc taggtttgtg taagtacact 240 ctatgatgtt cgcacaacga caaaatcgcc taacgacgca tttctcagaa cgtatccccg 300 tcgttaagcg acgcatgact g 321 // ID LTR7A repbase; DNA; HUM; 450 BP. XX AC M18048; XX DT 18-SEP-2000 (Rel. 5.08, Created) DT 01-OCT-2008 (Rel. 13.11, Last updated, Version 2) XX DE LTR from human endogenous retrovirus RTVL-H2. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; LTR7; LTR7A. XX NM LTR7A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-450 RA Mager L.D. and Freeman D.J.; RT "Human endogenous retrovirus-like genome with type C pol RT sequences and gag sequences related to human T-cell lymphotropic RT viruses."; RL J. Virol 61, 4060-4066 (1987). XX DR GenBank; M18048; Positions 6 455. XX SQ Sequence 450 BP; 121 A; 147 C; 75 G; 107 T; 0 other; tgtcaggcct ctgagcccaa gctaagccat cacatcccct gtgactagca catatacgct 60 cagatggcct gaagtaactg aagaatcaca aagaagtgaa aatgccctgc cccaccttaa 120 ctgatgacat tccaccacaa aagaagtgaa aatggccggt ccttgcctta agtgatgaca 180 ttaccttgta agagtccttt tcctggctca tcctagctca aaaatctccc ctactgagca 240 ccctgcgacc cccactccta cccgccaaag aacaaccccc ctttgactgt aattgtcctt 300 tacctaccca aatcctataa aacagcccca cccctatctc cctttgctga ctctcttttc 360 ggactcagcc cgcctgcacc caggtgatta aaagctttat tgctcacaca aagcctgttt 420 ggtggtctct tcacacggac gcgcatgaaa 450 // ID LOR1a_LTR repbase; DNA; HUM; 497 BP. XX AC . XX DT 16-MAR-2006 (Rel. 11.03, Created) DT 10-APR-2007 (Rel. 11.03, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LOR1; KW LOR1a_LTR; LTR retrotransposon. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-497 RA Smit A.F.; RT "LOR1a_LTR - a subfamily of endogenous retroviruses from RT primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC mer4 group, 4bp target site duplication. XX SQ Sequence 497 BP; 123 A; 142 C; 89 G; 142 T; 1 other; tgaaaccggc ccaattgtcc catagaactg atgtttatgg tttctttgaa taaacataga 60 aattgaccct cccagtctta aaacttgaga aagttacatt tgtcttatct gagttccttt 120 ctcaggaaac caaccatcag gcctcccaga tagtatcaag gaactgaaac ttaccagatc 180 actgcatccg gacaatgaga cgtcagaccc ctcacccatc atgattgcct aactgaccac 240 ctgcttcctg ttgaccaaat tctcttcctt acccctccct aattcctgtt ttcccgcaca 300 tggttacatt tcttccctgc tatataaacc cctaatttta gtcggtcagg gagatggatt 360 tgagactgat ctcccgtctc ctcggctgca gcacccgatt aaagccttct tccytggcaa 420 tactcattgt ctcagtgatt ggctttctgt gcggcgagca gcaggaccta gaccgaaccc 480 ctggcgtttc ggtaaca 497 // ID MER41I repbase; DNA; HUM; 3944 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Primate MER41I retroelement; its LTRs are MER41 sequences. XX KW Endogenous Retrovirus; Transposable Element; KW Internal sequence of retroviral-like element; MER41I; KW MER4I group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-3944 RA Smit A.F.; RT "MER41I."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC LTRs of MER41I are listed as MER41. The consensus is yet CC incomplete. XX SQ Sequence 3944 BP; 1140 A; 685 C; 771 G; 1252 T; 96 other; tctttctggc aaccacagaa gggactacag tgcagaaacc ctcaacccaa aggctaactt 60 tgagtaagtg atagggtcct gtaacatctt tctggcaaac ccaaaaggac aatactgaag 120 aaacctccca atgcaaagga aatagactac atcattgata ggccgacctt gggcaagtgg 180 tggggtaccc aggtaaaaga tgggattggg ttagaggccc aatttaggga agtttgggtc 240 tctgctaaga cagactgggt taaaggcccc tcttaataaa tggcaaggat gcttgaccaa 300 acttggttta gagggccaac ttaggagggt tagagtcctt cctaagattt aaggggttag 360 aggcccctct cagtaaagtc cctcatggtt aagaacgggt ttggcactaa gggatgttaa 420 ctgccattct ctttggatta atctgtgttg cactctttgc tgatggctat gggtgacagg 480 attaggcatg tgatcctgtg atcacgggac atgaggagct ttttcttccc taaaagggga 540 aacttcagag ctgctgggcc tgctggaaaa gatcccttct caactgacaa gtgaccgcct 600 gaacttttga ttcagtgtct gctgcaatgg gcaggtcttt ctctggtctc cctgagcgcc 660 ttgccttccc caccctgcca taagcagtgc ttttctccct tccctttccy ctctctstct 720 gtgcaaaccg gttaaacraa cgataaaaat cactgtttat ctcctctgta aagttttrat 780 taatrgaaaa aaggattttt gaggctagtc ttaagctgta gcgaatctgg tgtrctttgt 840 gtgtctttct gtatngttct gtcataaara ggggtacctt aggatagaac gcwggctkag 900 gacmcycgta agctcactgt tcaacccagc ccagcaaact ggtcagttat aaattttgct 960 gcaggtccct gaaacaacaa caaaaaantg gatgaggttt ccctcccatc ttgttttatg 1020 tccttggrag cttgaccttg taaccatgtg gcgrtrcttt cgcttggyct ctgccatcac 1080 aatggcgtcc cgggttcagg rttcwattcc tgnctcagrr gatgagtttc tttatattct 1140 tctgtctatg tatttatatg tgttgtgtgt rtgtgatgtt tatatatraa agagctntra 1200 ttaattggct taaaraataa gaagagctta aatcaaatat tttgtcagaa aartaraarg 1260 tstartgcct tttagttcac gtgactttag taatctttgr kaaataaaga cagtttaaag 1320 attattgrta aaataaaaat gtcttcaaaa yttaatktar acatttggtc traattagrc 1380 aggtcagata ctatstctac tagatgyttt aaggtcataa actgcttcta tgacttttga 1440 taatttttya acttgcytgc tttanagcca ttngattcta ggtaaggcct ggggacatgt 1500 ggagttagcc acgtccccta gctatgctgg agagtcagac tttatctgcg cttctgcctg 1560 gtgtgtccaa ggctaggctc cacacctagt acataattaa aatcacttac taaccaggtt 1620 tttcaccaaa agtaaaagtt cttaagagtt aacattgtaa catgtaatta agactactaa 1680 agaaacagtt ccacaagtaa gtcctataag gaaagtgaaa tgtgtttttg gttaaaaaaa 1740 aattataaga agtcacggga gtnatgagtt ttctttactt tgcctaaagg gttagaggat 1800 tattttaagt tagatagaat aaagctgaag gtttaagcaa gttgtggaag gtttatttaa 1860 aaaattaatt gtaagagatt ttgtgtgtga atatattggc taaagttgaa aaggcattat 1920 tcagtttttc cataaattaa acattggaat aaaagcaaaa caggtttttg ttagagcaaa 1980 aacctgctta tgacctgctt tttaacaaac atttgtaaag gattataaaa ggtttatgag 2040 aatgttacct tatggtcaaa cattaaaatt gggtagatat gtctataagg ttttattaag 2100 aattgggttt gacatcaata atacactaat gcaacagtga catttggctg atttagtata 2160 aaagtcatag aggaagcatc atcaaatatg aaatggtgtt tggctttctt tgggctgtat 2220 ttgtataaat gtgtcattgg tacatgttcc aaaattattt taaaaaaaac ttctttaacc 2280 ctgatatgac ttagtgtatg ctattaataa ttgttatgnn nnnntaaatt attgcgtgcc 2340 acagaggtaa caaattttcc ttgtcaattg tgtctttaac tgtggctgtc ctaagacttt 2400 ttgtcatcca tagacaattg ttgtcttgtt ttggtcctct ttagaaggtg gtttataatc 2460 agctgtagaa ctctaacagg tgctcttaaa tgcaggtttc tgataacttt ggagattgtg 2520 acattagaac ggaggaaaaa cattcaggac tcatgaagag ctgaaatrtt catgaatatc 2580 aagcagaaca gggagttaac tgcatggact gaactaanag aagtctaacg tgtaaaacgt 2640 tgctgatcct ttgttttgtt tttcagagtc aaggaaactt tttcttttga gctatttaca 2700 gcttttagca attgagtaaa gtatactyct gtgaacaaaa tttggagcat rtttgtttct 2760 ctctacctga tttctccaga atttggaaac tattcgtgag tattctcaat ttatggcaat 2820 atagttattt gcataagtgc aataagaatc tgttytcttt agtaacagga cacaattgga 2880 gaaattggtt attttaccaa ggctttgact ggaatggcat acttcccttt aaggaatcaa 2940 anttgacttr ycgagccgat aaaagcccct tggggaatct grcctcatac cttnttcaya 3000 cgcagtccct gtacagggtt cctgacctgt ggtaagtaaa gaatgtcact ttctracagg 3060 cccagrarcc ccaagttaty ttgrgacctc aagaggagag gaatttacyc aactcatagg 3120 tatttgakgg tacaaancca tggctgggct cagctttaaa aaagtcttat ccgagattcc 3180 ttctatgaaa caaagttcca tcaaagccaa ttttaaaagc ctatgtgaaa aataattatt 3240 cttgctgcac tktatacaaa taatyaggcc aagtataata aarcaaaycg gtcctaccat 3300 gatttgtctt taryaaaaat ggraaactgg agagagaaaa attatgtttc aaaacctata 3360 gtacacytgt tgttarattc tartcttrcc taatgttttt cagttkttnt tatnttctrc 3420 antttagact aactctactt attcctgtga accaaccagt gatctctggc tgcwgctcag 3480 aagaaacaag rartgatggg taatataaaa atccggatnn tattctaatt ctgggcacgt 3540 attggaatcg gctaacaacc ccatatcagc ttggttccaa tagttgccca gttcatggaa 3600 agccttctaa tttagtttac ttgggataat tttgcttatt ttgctttact nttgtggaat 3660 atattgctgt tgtactcttt gtgtaggaat gcaggataag cttactraat gttttcttaa 3720 aycgaaccct tattcctctt ccagggtacc atcttttgtt gggaactcag ttacaaataa 3780 ccctcaccat accagtactt tctggaatga gctcctcttc taccctggag ggcaagagac 3840 cataatagtc aggcagaaat atcattgccc ctattcagcc tgaagaagtt acagaagatg 3900 aatctttgtc cttctacaac cttaggatta agggttcttt tata 3944 // ID L1PA12 repbase; DNA; HUM; 915 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA12) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P4; L1PA12; L1PA12 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-915 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-915 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 9%. XX SQ Sequence 915 BP; 364 A; 180 C; 180 G; 189 T; 2 other; ctaatatcca gcatctataa ggaacttaaa caaatttaca agaaaaaaac aaacaacccc 60 attaaaaagt gggcaaagga catgaacaga cacttctcaa aagaagacat acatgtggcc 120 aacaakcata tgaaaaaaag ctcaacatca ctgatcatta gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagtcaga atggctatta ttaaaaagtc aaaaaataac 240 agatgctggc gaggttgtgg agaaaaagga atgcttwtac actgttggtg ggagtgtaaa 300 ttagttcaac cattgtggaa gacagtgtgg cgattcctca aagacctaaa gacagaaata 360 ccattcgacc cagcaatccc attactgggt atatacccaa aggaatataa atcattctat 420 tataaagaca catgcacgcg tatgttcatt gcagcactat tcacaatagc aaagacatgg 480 aatcaaccta aatgcccatc aatgatagac tggataaaga aaatgtggta catatacacc 540 atggaatact atgcagccat aaaaaagaac gagatcatgt cctttgcagg gacatggatg 600 gagctggagg ccattatcct tagcaaacta acgcaggaac agaaaaccaa ataccgcatg 660 ttctcactta taagtgggag ctaaatgatg agaacacatg gacacataga ggggaacaac 720 acacactggg gcctatcgga gggtggaggg tgggaggagg gagaggatca ggaaaaataa 780 ctaatggata ctaggcttaa tacctgggtg atgaaataat ctgtacaaca aacccccatg 840 acacacgttt acctatgtaa caaacctgca catcctgcac atgtacccct gaacttaaaa 900 taaaagttaa aaaaa 915 // ID HERV57I repbase; DNA; HUM; 5343 BP. XX AC . XX DT 29-AUG-2000 (Rel. 5.07, Created) DT 29-AUG-2000 (Rel. 5.07, Last updated, Version 1) XX DE HERV57I is an internal portion of HERV57 endogenous retrovirus - DE a consensus. XX KW Endogenous Retrovirus; Transposable Element; ERVL class; HERV57I; KW Internal sequence of endogenous retrovirus; LTR47. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5343 RA Smit A.F.; RT "HERV57I."; RL Direct Submission to Repbase Update (02-AUG-2000). XX DR [1] (Consensus) XX CC Internal sequence of an endogenous retrovirus with LTR57 LTRs CC The element may be autonomous with coding regions for gag and pol CC between bp 1724 - 4161. CC Matches both to ERV1 class elements of the MER4I group (bp CC 664-1596 CC 90% id. to LOR1I and ERVL elements (bp 1784-3419 70% id. to CC HERVL18) CC Copies are on average 10-11% diverged from the consensus CC sequence. XX SQ Sequence 5343 BP; 1531 A; 1172 C; 1263 G; 1320 T; 57 other; attggcgtca caaacaggat ctgagagacc aaangatgag tcaggaaggg gcatctgcgg 60 ggggaatcct ggggtggtcg gcaacatgca tgtggggtgg agttgcccga ctgctcaacc 120 tttgtgggct gccgggtgag tatggggata cttggaaaat gccggcgggg actgagcgcc 180 tattgcaaga agctaagata ttaaagtacg ataagaatag caaatgtgct attgttgcaa 240 taaggctggc tactgagaaa tcattagagc aggaaaggga gaaagggtag aaactcctgc 300 agaagttnaa aggcatgcca ggttttctag gactccagct ggttacatat tatggcccat 360 tcttgtgcac attttnaaac tgatgggcaa attacaacaa caanaataaa ncagagctca 420 aatggttaan ctgcaactat agagttaagt agagtcttct aaagctatct gtttctctnt 480 ttccttttct gcctgctttg aatctgctgt tattaagcta ccggtgttga gataaaactc 540 actgtttatg gtaccgctaa ttcaaggcca cttggagatt ttgtttttct tatacagttc 600 agccagttct agctaaaatg taaacaatga aactcatttg aaaacgaaaa aaaagggata 660 aaagaggttt tttaaaaatc aaactgctat ggaaactgct ttacccaaaa ttttggtcca 720 cagccttcat tggattacct atcagggcaa ataaagttta gccatatgaa caggtcccaa 780 ttttgtnaaa aataatttgg atccagctgt cttttgtaaa ataatgagtt tatgatattg 840 tctcatggct agagttctga agtaaaagct attggatntt tgtgnatgtg tgtatataca 900 tgtttaagta tattgtgtat gtacatgtgt tatatgttat gtctagcatg ctaccaantt 960 ggcttataaa taaatgagta ctcagtaaag tccaaatgct tttcaagttc atgtgaattc 1020 agtaatcttt gataaataag ctggctttaa aattattggt aaaataaaaa tagaaatgtc 1080 ttcaaaantg tcagcataca tttttgtctn agtttactga ttanataagt tttatatttg 1140 cctctgctag atattttaag gtgtcagggt ttgacatgaa ggttataaga ctgtaaaccc 1200 agccaaaaac agaatgatct ttgtttgtgt ggtttttttg ataagtaaga ctaatttgat 1260 attgttggtt caatgaaaac agctaaattt tctgagttat cagcaaaaat gcccatgtgt 1320 ttaactttaa ggttcttgct taggtgaaca cctgatattc acaggctatg aaaatggtta 1380 acaggaaaat aacttggaat gatgactagc tttgtctaat gtcttggttc tcatgagtaa 1440 tctagataaa ctgctaaaaa tgaataaatt gagtaaatgt aaatgagata aatgcttacg 1500 ggtgaacttt ttgtgtagtt taaaatctta aaattatttt aggtactcat tgaatgtctg 1560 ggtcatttcc aatttaaaaa gggttatgat atggggcatt ggtcacactt ctgagcctgt 1620 taatgggaaa tgaaatctgt gatgnggggg aagcattggc ggacctcagt gagctggata 1680 aaaacaagga ccgagtccan aaagtaatca aagaacaaaa aggggatggg ccaaatgggt 1740 gcctgtacac ttgccctggc ccaggcaggc aatgaacgcg aaacaatact gcctgccagg 1800 gggacactct gaaatcaccc aaacaatcca gaaattacat aaggtacaaa tagtccagag 1860 cccctataac agccctgtgt ggcctgtgaa gaagccagat ggcacctgga aaatgacggt 1920 agactaccgt gagctaaacg aagtggtgcc ccctgtacnt gcagccgtac ccaatattgc 1980 tcaactgcta gagcaagtgg tccttaagct gggaagtgtc catgctgtga ttgacttggc 2040 taatgccttt tccagtattc ctttagcgga agattcacaa gaccagttcg ccttcacttg 2100 ggagggccaa caatggactt tccaggtgct accacaaggg tacctgcaca gccccaccgt 2160 ctntcacagt atggttgcac aggacctgtc tagactctct ttgcctgcct cagtctccct 2220 gtttcactat attaatgata ncatgctaac ctcagagtct cttacagatc tggagactgc 2280 cctacaaacc gtcttggacg gcctaaaagg acaggggatg ggaagtcaac cccnaaaana 2340 tacaggggcc cggcatagcc gtcaaattcc tgggagttac ctggttgggt aagacatgaa 2400 acatacccgg agctgtcact gataagatag cacagcagcc tgttccccag acagtaaagc 2460 aactccaggt tttcctaggt ttactgggct actggaggat attcattcct catttggcac 2520 aaaccctccg cccattatac accctaataa agaggggtaa aaaatgggac tggacacata 2580 tagagcaaga ggcatttgac aaagcaaaaa tattggtgaa acaagcccaa gcactagggg 2640 ccccactgcc acagcaccct tttgtattag aagtcactag agatgccaca gggatgaatt 2700 gnggtttgtg gcaaaagcaa ccaatgggaa tggtacctgt agggttttgg tctcaattat 2760 ggaagggggc agaatcccac tatacagtcc tagagcaaca gctactggcc atgtataggg 2820 cattgcaaca agcggaggcc atcaccagaa agcagaccat cacaataaaa actgcctntc 2880 ccataaaagg ggggatggaa ggcctcctag ccaagcccac ctctggggtg gcacaattac 2940 acaccctgca gaaatggcac gcctgtctac aacaaagggg tgtcctgtcc actagtcctt 3000 taagtcaggc actacaggaa gtgctcggac ccatccactc tgaacaagtg gagggggccg 3060 acatggcagt ggagccacct accaggccaa ccatcatata tgaggggacc ccaccaatac 3120 ccactagggc ctggtacact gatgggtcta gcaaaggcac ccaacaccaa tggtnagtng 3180 tcatggtgaa tatggacact gacancatat ggttagaatg ggaattagga caaagcagtc 3240 aatggngcan gctacgggca gtttggatac tcntcaccca cgagccctgg ccactagtca 3300 cttgcacaga taattgggct acatacagag gccttaccat gtggatcaat cagngngcca 3360 cagacanttg gcaggtttnc gncaggnccc tctgnggaac gnccatgtgg caggacatcc 3420 acatcaggtt acacgagagg gatgcccatc ttgcggtgta ccatatggat gcacacagct 3480 ccaagcnacc ttgngnaaat caggaggcgg atggccttac tcattcacgt gcnggcaatt 3540 tgcccaagcc catcggagga gnccgccgta tgnncacatc ataagagcgg ccaccaaggg 3600 gcagccacgg ggtgggccat agcaaaggca gcaggcatcc ctatccaata tgcagatatt 3660 ctggcagctg ttcagaaccg tgagacctgc tcacggctgt gacctagaaa gnttccctcc 3720 gcaccaggtc acatacgttg anccgtacaa nctacgcggg actggcaagt caattgtatt 3780 ggtcccctgc cccggaatgg agggaaaagg tatgccttaa cctgtgtgga cacaacaacg 3840 gggctactac aggccttccc aataaaacgt gccactcagc tggagaccat caagtgtctc 3900 actgctctta gctcatgtat ggcatgccaa gaaggataga taatgatcag ggcccccatt 3960 cacgggccat gatatccaac actgggcatc agaacaaaac atagactgga ggttccactt 4020 accatataac ccaacagggg caggnctcac agagaaaaaa agaatggcct gttaaaaacc 4080 caattgcgtg cactgtccca ggacggctct ttaagntcct ggactaagaa tctccctgaa 4140 gccatacaaa ttttaaatga gtcacccact accacacatg gcatcactcc ctatgaatgg 4200 ttggcaaggc ctgtaaaaca ggccccacaa actctcgggg ttacctctga gactcngagc 4260 catgctcctg aagcagatgg ccagactgtg ctcctgagaa caccagtgga tctgccaagt 4320 ggcgatggct acatggacct gaagttgagc tggaaagtgc ccccatactg gatcggtttt 4380 atggcgctgg agggtgccat gaagactgcc ggaggggaag tggtcccagc tgtgctcctt 4440 gatggaggtc cgagagnctt acgntatcaa catgcggcag caccgatacc tgctggagtg 4500 gtcatagtgt ggatagcata ggcaaggccg gaaacttacc aattggctat tatgcccgct 4560 cctagggagg gaagccatgt gtggtactgt aagccaggcc tgaggcccgc agtggcatct 4620 ccctaatagg gccaatggga gaaaatatag caataataat gttacaagga atagatacac 4680 ctatgagggt tcctactaaa cacctgtgtt tacgcccata ggccgttgtt cctgctaccc 4740 atggcagctg gtaatgtctt cctggactgg gctgcgacta cagcagcagt cagcaaccag 4800 tcctattgtt gggtatgtgg atacctcccc ctgtcaaatn gtaatggtat gccttggaat 4860 attctgcctt tctcctgaca gaactggagt gactggttca acagcaccaa taaggcaacc 4920 cgggctcact ggggattgcc tccacctgga ggccnnatcg ccaacgcgac agagaccaaa 4980 caacatacgt ccttanaggc gctacctgtt gcgcctattt ccctgatgaa gagaataatg 5040 tcacagatgc tttaaatcat ttgtcaactc agatccatga tataacccaa ttaggtttct 5100 ttgactcatt ctcaaattgg ttacacanct tacctactca ttggagttat gttttgctaa 5160 taggcatcat aattgtagtt agcttctgct ttttatgctg ttatgtatac tgtagatgtg 5220 gcctgtacgc acaagccatg gctatacgtt atagacctgt atagttcttc ccctcatacc 5280 ctactcaggg actctcacgc aagattggtg gaaagaatat aagagctggg gaacggggtg 5340 gat 5343 // ID LTR16E1 repbase; DNA; HUM; 538 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 10-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW LTR16E1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-538 RA Smit A.F.; RT "LTR16E1 - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (10-JUN-2008). XX DR [1] (Consensus) XX CC Pos 84-489 (end) almost 80% similar to LTR16C 24% subst in CC dog-human ancestor. XX SQ Sequence 538 BP; 94 A; 197 C; 135 G; 112 T; 0 other; tgtagcagat gcctctggtg ccccgcgtca catcccctcg gcccacctct gatttcagcc 60 gcagctgcgg tggacagttc cgtgcgagct cagactcacc tttgctgaca gcatcccacc 120 tcaagcgcgc gccgtgcgtc tttctgcttt ctgccccagg gccttctccg acgccgcggg 180 agcccgctcg gcccgcgcgc aagcacagcc cggaagtgcg ggggagttaa tgcccccggg 240 ggcaaccctc aaccaatggg ggacgggagc cagtggataa atgctccagc ctcccgtcct 300 tcaggtggac aattctggga ggcattctgt acgcttctca ggaggtccca gcggaatcga 360 gcccccgttg cccacagcag cgacctcgat aacgcaccct tatattggct tttcctcctt 420 ccctgtctca cttccccgct ccctcactcc tgcttcctgg gatcacctcc caaataaact 480 acctgcaccc aagtccttgt ctcaggctct gctttcgggg gaacccaaac taagacag 538 // ID L1P_MA2 repbase; DNA; HUM; 7678 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 2) XX DE LINE1 subfamily consensus; L1PMA2 subfamily. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW Interspersed repeat; L1 subfamily; L1M1_5; L1M3_5; L1MA2; L1P_MA2; KW LINE1; MER14; MER43. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1725-1900 RA Rubin M.C., Leeflang P.E., Rinehart P.F. and Schmid W.C.; RT "Paucity of novel short interspersed repetitive element (SINE) RT families in human DNA and isolation of a novel MER repeat."; RL Genomics 18(2), 322-328 (1993). XX RN [2] RP 966-1089 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 7-2259 RA Kapitonov V.V. and Jurka J.; RT "L1P_MA2."; RL Direct Submission to Repbase Update (1996). XX RN [4] RP 7-3803 RA Smit A.F.; RT "L1P_MA2."; RL Direct Submission to Repbase Update (1996). XX RN [5] RP 7520-7657 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [6] RP 6635-7678 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [7] RP 1-7678 RA Kapitonov V.V. and Jurka J.; RT "L1P_MA2."; RL Direct Submission to Repbase Update (05-DEC-1997). XX DR [7] (Consensus) XX CC Complete consensus sequence of L1 subfamily L1PM2; average CC divergence CC of L1P_MA2 sequences from their consensus is about 13%. CC L1M3_5 and L1MA2 sequences are the 5'- and 3' ends of the L1PM2 CC consensus sequence, respectively. XX SQ Sequence 7678 BP; 2974 A; 1448 C; 1512 G; 1601 T; 143 other; gaaggcggaa caagatggcc gaatagaagm ctccaccgat catcctccct gcaggaacac 60 caaattgaac aactatccac acaaaaarst accttcataa gaaccaaaaa tcaggtgagc 120 gatcacagta cctggtttta acttcatatc actgaaagag gcactgaaga gggtaggaaa 180 gacagtcttg aattgccgat gccaccactc cyccatkccc gggcagtggc wgwgtggtgt 240 ggagagagaa tctgtgcgct tgggggaggg agagtgcagk gattgtgaga ctttgcattg 300 gaactcagtg ctgccctgtc acagtagaaa gcaaaaccag gcagaactca gctggtgccc 360 acggagggaa catttagacc agccctagcc agaggggaat cgcctatccc agtggtcgga 420 acctgagttc cggcaagcct tgccaccgcg ggctaaagtg ctctggggyt ctaaataaac 480 ttgaaaggca gtctaggcca maaggactgc aantcctrgg caagtcctag tgctgwactg 540 ggctcagagy cagtggactt gggggacaca tgacctaagg agacaccagc tggggcagcy 600 aagggagtgc ttgcaccacc cctcyctyaa ctccaggcag cacagctcac ggctccgaaa 660 gagactcctt ccttctgctt gaggagagga gagggragag taaagaggac tttgtcttgc 720 aacttggata ccagctcagc cacagtagga tagggcacca rkcagagtcm tgaggccccc 780 wttccaggcc ctggctcccg gacaacattt ctagacacac cctgggccag aagagaaccc 840 gctgccttga agggaaggac ccagtcctgg caggatkcat cacctgctga ctaaagagcg 900 cttgggccct gaatgatcar cagcgrtacc caggcartac tcastgtggg ccttgggtga 960 gactcagaga cttgctggct tcaggtgtga ctcagcacat tcccagctgt ggtggctatg 1020 gggagagact ccttytgctt gagaaaagsa gagggaaaag taaaggggac tttgtcttgc 1080 accttaggta ccagctcggc cacagtgggr tagagcacca agtaggctct tggggtcccc 1140 gattccagga cttggctctt ggatggcatt tctggacctg ccctgggcca gaggagagcc 1200 cactgtcctg aagagagagt cccaggcctg gcagcattca ccacaagctg actgaagagc 1260 ccttgggcct tgagwgaaca ttggcggtag ccaggcagta ctctccatgg gcctgggrtg 1320 gtggtggcca cagggagcga ctcctttgcc tgtggaaagg ggagggaaga gtgggaagga 1380 ctttgtctcg tggtttgggt gccagctcag ccacggtaga atagagcacc aggtagattt 1440 ctaaggtttc tgactccagg ccctggctcc cggatgacat ctctggacct gcctgrggcc 1500 wgggggaact taccaccctg aagggaagga cacaagcctg gctkgctttt scayctgctg 1560 attgtagagc cctagggcct tgagcgaaca taggcggtag ccaggyagtg gttacagcag 1620 gccttgggtg agacccagtg ctrtgctggc ttcaggtctg acccagcaca gtcccagtgg 1680 tggtggccac aggggtgctt gtgtcaccmc tcccagcttc aggcagctca gmacagagag 1740 agagactcca tttgtttggg ggraagtaag ggaagagaac aagagtctct gcctggtaat 1800 ccagagaatt cttccggatc ttatccaaga ccaccaaggc agtacctcta tgagtctgca 1860 agaaccacag tgttaytggg cttggggtgc cccctaawgc agatatggct acatgaccaa 1920 aarcttagat cayaacaccc aagtccsttc aaatacctgg aaagccttcc caagaagrat 1980 gggtacaaac aagcccagac tgtgaagact acaataaata cctaactctt caatgcccag 2040 acactgacga acatccacaa gcatcaagac cttccaggaa aacatgacct caccaaacga 2100 actaaataag gcaccagtga ccaatcctgg agaaacagag agatatgtga yctttcagac 2160 agagaattca aaatagctgt tttgaggaaa ctcaaagaaa ttcaagataa cacagagaag 2220 gaattcagaa ttctatcaga taaatctaac aaagagaytg aaataattaw aaagaatcaa 2280 gcagaaattc tggagctgaa aaatgcaatt ggcatactga agaatgcatc agagtctytt 2340 aacagcagaa ttgatcaaac agaaraaaga attagtgagc ttgaagacag gctatttgaa 2400 aatacacagt cagaggagac aaaagaaaaa agaataaaaa acaatgaagc atgcctacaa 2460 gatctagaaa atagcctcaa aagggcaaat ctaagagtta ttggccttaa agaggaggta 2520 gaaagagaga taggggtaga aagyttaktt caarggataa taacagagaa cttcccaaac 2580 ctasagaaag atatcaatat tcaagtacaa gaaggttata gaacaccaag cagatttaac 2640 ccaaagaaga ctacctcaag gcatttaata atcaaactcc caaaggtcaa ggataaagaa 2700 aggatcctaa aagcagcaag agaaaagaaa taacatgcaa tasagctcca atacgtntgg 2760 cagcagactt ttcagtggaa accttacagg ccaggagaga gtggcatgac atatttaaag 2820 tgctgaagga aaaaactttt accctagaat agtatatcca gtgaaaatat ccttcaaaca 2880 tgaaagagaa ataaagactt tcccagacaa acaaaagctg agggatttca tcaacaccag 2940 acctgtcctg caagaaatgc taaagggagt tcttcaatct gaaagaaaag gacgttaatg 3000 agcaataaga aatcatctga aggtacaaaa ctcactggta atagtaagta cacagaaaaa 3060 cacagaatat cgtaacactg taattgtggt atgtaaacta ctcatatctt aartagaaag 3120 actaaaaaat gaaycaatca aaaataataa ctacaacaat tttcaagaca tagacagtac 3180 artaagatat aaatagaaac aacaaaaagt taaaaagaga ggggatgaag ttaaagtgta 3240 gagtttttat tagttttcga ttgtttgctt gtttgtttat gcaawcggtg ttgttatcag 3300 cttaaaataa tgggttataa gataktattt gcaagcctca tggtaacctc aaatcaaaaa 3360 acatacaaca gatacacaaa aaataaaaag caagaaatta aatcatacca ccagagaaaa 3420 tcaccttcac taaaagaaag acaggaagga aggaaagaag gaagagaaga ccacaaaaca 3480 accagaaaac aaataacaaa atggcaggag taaatcctta cttatcaata ataacattgg 3540 aatgtaaatg gactaaactc taatcaaaag acatagagtg gctgaatgga taaaaaaaac 3600 aakacccaat gatctgytgc ctacaagaaa cacacttcac ctataaagac acacatagac 3660 tgaaaataaa gggatggaaa aagatrttcc atgcaaatag aaaccaaaaa agagcaggag 3720 tagctatact tatatcagac aaaatagayt tyaagacaaa aactataaga agagacaaag 3780 aatgtcattt aatgataaag gggtcaattc agcaagagga tataacaatt ttatatatat 3840 gcacccaaca ctggagcacc cagatatata aagcaaatat tattagagct aagagagaga 3900 tagaccccaa tacaataata gctggagact tcwmcacctg tcttttagca ttagaaawat 3960 cwtccagaca gaaaatcaac aaagaaacat tgkacttaat ctgcactata gaccaaatgr 4020 acctaataga yatttacaga acatttyatc caacagctgc agaatacaca ttcttctcct 4080 cagcacatgr atcattctca aggatagrcc atatntnagg tcacaaaaca artcttaaaa 4140 cattcaaaaa attgaaatta tatcaagyat cttctctgac cacaatggaa taaaactaga 4200 aatcaataac aagagraatt ttggaaacta tacaaacaca cggaaattaa acaayatgct 4260 yctgaatgac cagtgkgtca atgaagaaat taagaaggaa attkaaaaat ttcttgaaac 4320 aaatgataat ggaaacacaa tataycaaaa cctatgagat acggtaaaag cagtactaag 4380 agggaaagtt tatagctgta agtgcctaca tcaaaaaaga agaaaaactt cgaataaaca 4440 acctaatgat gcatcttaaa gaactagaaa agcaagagca aaccaaaccc aaaattagta 4500 gaagaaaata aataataaag atcagagcag aaataaatga aattgaaata aagaraacaa 4560 tacaaaagat maatgaaaca aaaagttggt tttttgaaaa gataaacaaa attgacaaac 4620 ctttagccag aytaagaaaa aaagagaaga cccaaataaa taaaatcaga gatgaaaaag 4680 gagacattac aactgatacc acagaaattc aaatgatcat tagaggctac trtgagcaac 4740 tatataccaa taaatcggaa aacctagaag aaatggataa attcctagac acatacaacc 4800 tacyaagatt gaaccatgaa gaaatccaaa acctgaacag accaataaca agtaacgaga 4860 tcgaagccgt aataaaaagt ctcccagcaa agaaaagccc gggacctgat ggcttcactg 4920 ctgaatttta ccaaacattt aaagaattaa taccaatcct actcaaacta ttctgaaaaa 4980 agaggaggaa ggaatactty caaactcatt ctatgaggcc agtatyaccc tgataccaaa 5040 accagacaaa gacacatcar aaaaawaaaa ctacaggcca atattcctga tgaatattga 5100 tgcaaaaatc ctyaacaaaa tactagcaaa ccaaattcaa caacacatta aaaaratcat 5160 tcatcatgac caagtgggat ttatcccagg gatgcaagga tggttcaaca tatgcaaatc 5220 aatcacaatc gatrtgatac atcatatcaa cagaatgaag gacaaaaacc atatgatyat 5280 ttcaattgat gctgaaaaag catttgataa aattcaacat cccttcatga taaaaaccct 5340 caaaaactgg gtatagaaga acatayctca cgacacaata aaagccatat acgacagacy 5400 cacagctagt atcayactga atggggaaaa actgaaagcc tttccyttaw gatctgraac 5460 atgacaagga tgcccacttt caccactgtt attcaacata gtactggaag tcctagttag 5520 agcaatcaga caagagaaag aaataaaggg catccaaatt ggaaaggaag aagtcaaatt 5580 atccttgttt gcagatgata tgatcttata tttggaaaaa cctaaagact ccaccaaaaa 5640 actattagaa ctgataaaca aattcagtaa agttgcagga tacaaaatta acatacaaaa 5700 atcagtagca tttctatatg ccaacagtga acaatctgaa aaagaaatca agaaagtaat 5760 cccatttaca atagctacaa ataaaattaa atacctagga attaatktaa yaaaawaakt 5820 gaaagatstc tayaatgaaa actataaaac actgatgyaa gaaattgaag aggacacaaa 5880 aaaatggaaa gatattccat gtttatggat tggaagaatc aatattgtta aaatgyccat 5940 actacccaaa gcaatctaca gattcaatgc matccctatc aaaatacyaa tgacattttt 6000 cacagaaata gaaaaaacaa tcctaaaatt tatatggaac cacaaaagac ccagaatagc 6060 caaagctatc ctaagcaaaa agaacaaaac tggaggaaty acattacctg acttcaaatt 6120 atactacaga gmtatagtaa ccaaaacggc atggtactgg cataaaaaca gacacataga 6180 ccaatggaac agaatagaga acccagaaac aaatccatac atytacagcg aactcatttt 6240 cgacaaaggt gccaagaaca tacactgagg aaaagacart ctcttcaata aatggtgctg 6300 ggaaaactgg atatccatat gcagaagaat gaaactagac cccatctctc gccatataca 6360 aaaatcaaat caaaatrgat taaagactta aatmtaagac ctcaaactat gaaactacta 6420 aaagaaaaca ttggggaaac tctccaggac attggatttg ggcaaagatt tcttgagtaa 6480 taccccacaa gcacaggcaa ccaaagcaaa aatggacaaa tgggatcaya tcaagttaaa 6540 aagcttctgc acagcaaagg aaacaatcaa caaagtgaag agacaatyca cagaatggga 6600 gaaaatattt gcaaactacc catctgacaa gggattaata accagaatat ataaggagct 6660 caaacaactc tataggaaaa aaatctaata atctgattta aaaatgggca aaagatctga 6720 atagacattt ctcaaaagaa gacatacaaa tggcaaacag gtatatgaaa aggtgctcaa 6780 cataaytgat catcagagaa atgcaaatca aaactacaat gagatatyat ctcactccag 6840 ttaaaatggc ttttatccaa aagacaggca ataacaaatg ctggygagga tgtggagaaa 6900 agggaaccct cgtacattgt tggtgggaat gtaaattagt acaaccacta tggagaacag 6960 tttggaggtt cctcaaaaaa ctaaaaatag agctaccata taatccagca atcccactgc 7020 taggtatata ccccaaagaa aggaaatcag tatattgaag agatatctgc actcccatgt 7080 ttattgcagc aytgttcaca atagccaaga tttggaagca acctaagtgt ccatcaacag 7140 atgaatggat aaagaaaatr tggtacatat acacaatgga gtactattca gccataaaaa 7200 agaatgagat cctgtcattt gcaacaacat ggatggaact ggaggtcatt atgttaagtg 7260 aaataagcca ggcacagaaa gacaaacatc gcatgttctc acttatttgt gagakctaaa 7320 aattaaaaca attgaactca tggaaayaga gagtagaagg atggttacca gaggctggga 7380 agggtagtgg gaggkngkgg gaagtgggga tggttaatgg gtacaaaaat atagttagat 7440 agaatgaata agayctagta tttgvtagca caacagggtg actacagtca aaaataattt 7500 attgtayatt twraaataac taaaagagta taattggatt gtttgtaaca caaaggataa 7560 atgcttgaga tgatggatac cccatttacc ctgacgtgat tattatgcat tgtatgcctg 7620 tatcaaaata tctcatgtac cccataaata tatacaycta ttatgtaccc ayaaaaat 7678 // ID MER87 repbase; DNA; HUM; 541 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; MER4-group family; MER87. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-541 RA Smit A.F.; RT "MER87."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC 4 bp duplication sites. At several loci flanking an internal CC repeat CC similar to that of MER4 and MER57. Bp 5-176 are similar to bp 31- CC 182 of LTR8, bp 399-520 are similar to bp 351-463 of LOR1. XX SQ Sequence 541 BP; 140 A; 136 C; 107 G; 148 T; 10 other; tgtaacagtg gagggagacc tagcatgact gactccatct tgcctctgac ccccwgsggt 60 awcatccttt aggctaaaag cttctgctta ktcctgcacg taggccaagc taactatggg 120 aggaatttag tttatagttc aactttaaaa aagatggtaa cagtcccttt cccaaactaa 180 cccccgagga gataaggaaa gtatacacac aaataacaat gttatgttaa agatttatag 240 gaacattgtg acctgaccta ggacaaagaa gttttgmcaa ctcctcggac tcttgctggc 300 gcccagatgt ctgtggtcat cggtcacctc ctaaccccaa taccccnctt sttccccttc 360 ccctagcata aaaagaagcc taagattyat gctnatttga gatggttctt taggacgcta 420 gtctgccatc ttctcggttt gctggctctc cgaataaagt cactttcctt gccacaacac 480 ctcgtctctt gacttactgg ctgtcgwgcg gtgagcagta ccagctttgg attcagttac 540 a 541 // ID L1MA5 repbase; DNA; HUM; 1047 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 4) XX DE 3'-end of L1 repeat (subfamily L1MA5) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M2; L1MA5; L1MA5 subfamily; MER27; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 781-951 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 1-1047 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [3] RP 1-1047 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 14%. XX SQ Sequence 1047 BP; 418 A; 161 C; 209 G; 258 T; 1 other; ttaatatcca gaatatacaa ggaactcaaa caactcaaca gcaaaaaaac aaataatccg 60 attaaaaaat gggcaaagga tctgaataga catttctcaa aagaagacat acaaatggcc 120 aacaggtata tgaaaaaatg ctcaacatca ctaatcatca aggaaatgca aattaaaacc 180 acaatgagat atcatctcac cccagttaga atggctatta tcaaaaagac aaaaaataac 240 aaatgctggc gaggatgcgg agaaaaggga actcttatac actgttggtg ggaatgtaaa 300 ttagtacagc cattatggaa aacagtatgg aggttcctca aaaaactaaa aatagaacta 360 ccatatgatc cagcaatccc actactgggt atntatccaa aggaaaggaa atcagtatgt 420 cgaagagata tctgcactcc catgtttatt gcagcactat tcacaatagc caagatatgg 480 aatcaaccta agtgtccatc aacagatgaa tggataaaga aaatgtggta tatatacaca 540 atggaatact attcagccat aaaaaagaat gaaatcctgt catttgcggc aacatggatg 600 agcctggagg acattatgtt aagtgaaata agccaggcac agaaagacaa ataccgcatg 660 ttctcactca tatgtggaag ctaaaaaagt tgatctcata gaagtagaga gtagaatagt 720 ggttactaga ggctgggaag ggtaggggga gggggggata gggagaggtt ggttaatgga 780 tacaaaatta cagctagata ggaggaataa gttctagtgt tctatagcac tgtagggtga 840 ctatagttaa caataattta ttgtatattt tcaaatagct agaagagagg attttgaatg 900 ttcccaacac aaagaaatga taaatgtttg aggtgatgga tatgctaatt accctgattt 960 gatcattaca cattgtatac atgtatcgaa atatcacact gtaccccata aatatgtaca 1020 attattatgt gtcaattaaa aataaaa 1047 // ID L1M3A_5 repbase; DNA; HUM; 2728 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 28-NOV-2000 (Rel. 5.1, Last updated, Version 3) XX DE L1M3A_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M3A_5. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-282 RA Smit A.F.; RT "L1M3A_5."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 283-2728 RA Jurka J.; RT "L1M3A_5."; RL Direct Submission to Repbase Update (NOV-2000). XX CC 5' end of LINE elements connected with L1MA7 and related CC subfamily CC 3' ends, comprising the 5' UTR and part of ORF1 (from pos. 1323). XX SQ Sequence 2728 BP; 1025 A; 614 C; 547 G; 505 T; 37 other; gagtgawgtc agcaagatgg cagaatwgga ggtctcaggc tccagtctcc ctcacagaaa 60 gtccgactag caactattca cagacaagaa cgcctttgtg aaaaatgcca gaacttggaa 120 atgagrctga gacanctncg tggancacag aaacgaataa aaaccacatt aaaagggtaa 180 gaggaaccgt ctcactttaa ccacgttgcc cctmagtcgg cacagtrcca cacngagaga 240 awttccccgg gcctacagtt tctacagtgg gaaaagagag cttagaggta gacatccagc 300 ttccctagca ttctgagaca cttcccagga agcccactcc tgtctcacct cacagggaac 360 acagggggta atggcatggc tagaccacct ggggtcaggt agaaacaaag aaaggaggca 420 gagctcacag tgaccagtgt gtagatcttg gtggtagctc tgtgttcctg ccagcagtgg 480 cacccaatca gagataccag ccaactgcat agcccacctg caaagctgag ctggtcactc 540 ccagaagcat ggtgggaagt tcaacctggc ttgagtccct agatggctag cctccatgcc 600 cagcctcaga gcctacccca aggccccacc caggcaggga gatgcccacc tcagcatatt 660 tcggcaaagc acaggggcta gacctgccag acccaggagt tcaaacagtg gcncagctca 720 gcctcaaagc ccaccccaag accctaccca ggcagggaga tgcccaccac agcgcatttc 780 tgcaaagcat agrnnrgagg gctagacctg cctgacccag gagttcaaac agtagctcaa 840 ctcagcctca aagcccaccc caaggctcca cccaggcagg gaggcaagcc tcaaactatg 900 catttctatg gagcatagcc tctggtccta tccatcccaa gcagcaactc cacctaacct 960 cagagcccag cctgcagccc tgtccaactg cagawctcaa atagcggtac cacccagcca 1020 gggaatacac cctgtgaccc tgcctgatca gaggygattg cagtgcccag ccagcagctc 1080 cgcctgattg caagagccca gccagtggtc ttaccagaca gcagagccca gccagcagcc 1140 ccaccyaacc tcagagcaaa ggcagtrgcc cagccaacta gagaacccaa cagcaagctc 1200 tgcctgccca gggtyattac cagctggccc atccagaatc acaggctaga ctaaatagtr 1260 aaggtctatc actaccaaag aacnacacct gcaaaagcta gaagaggtgg ctgtctcctc 1320 aaatgtgcag rgacancaat gyaaagacac aaggattatg aaaactcagg gaaatatgac 1380 accaccaaaa gaaactaaca aagctccaay aatggaccct raagaaatga agatctatga 1440 aatgactgac aaagaattca gaataatcct cttaaagaag ttcagggaac tacaagaaaa 1500 tatagataga aaattaaatg aaatttggaa aacaatacat gaacaaaatg agaaatttga 1560 caaagaaata gaaacaattt taaaaaatag aaatcctaga aataaagaat acaataactg 1620 aactgaaaaa aatccatgaa aaattcaata gaaagcttca acagcagact tgatcaaaca 1680 gaagaaagaa tcagtgagct traagacaga acatttgaaa ttatccaatc agaggagcaa 1740 aaagaaaaaa gaataaaaaa gaatgaagaa ggcctatggg aattatggga caccatcaan 1800 caagagaact aacctttaca taataggaat tccagaagga gaagagagaa aaaggcccag 1860 aaagcatatt taaagaaata atggctgaaa atttcccaaa tctggagaaa gatgacaaca 1920 tccaggtaca ggaagctcag aggtcaccaa tcaaattcaa cccaaatcga ggaattcacc 1980 aagacacata aataatcaaa ttatcaaaaa tcaaagacaa agaaaaaata ctgaaagcag 2040 caagagaaaa gaaacatawt cacattcaar ggagtcccaa tatggctatc agcagatttc 2100 tcagcagaaa ccctgcaggc caggagagag tgggatgata tattcaaagt gctgaaggaa 2160 aaaaaaacct gccaaccaag aatactttac ccagcaaagc tatccttcan aaatgaggga 2220 gaaataaaaa ctttcccaga caaacaaaag ctaagggart tcatcaccac tagrcctgtc 2280 ttacaggaat tgctaaaggg agttctttaa gctgaaagaa aaggtgctgc taattaataa 2340 cataaaacat atgaaagtat aaaactcaat ggtataagta atacatagtc atattcagaa 2400 tactctaata ctgtaatggt ggtatgtaaa gcaattttat ctctagtatg aaggttaaaa 2460 gacaaaacta ttaaaaacaa ctataactaa aataaattgt taagagatac aaantayaaa 2520 aagatgtaaa ttgtgacatc aaaaacataa aatgtggggg ggtaaaagtg tagagttttt 2580 gtatgcaatc aaagttaagt tgttatcagc ttaaaatagc ctgttataag tataagatgt 2640 tttatgtaag cctcatggta accacaaagc aaaaacctat agtagatrca caaaaaataa 2700 atagaaagga atcaaaacat actactac 2728 // ID L1ME5 repbase; DNA; HUM; 507 BP. XX AC . XX DT 28-MAR-2000 (Rel. 5.02, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE 3'-end of L1 repeat (subfamily L1ME5) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1ME4; L1ME5; L1ME5 subfamily; KW Repetitive sequence. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-507 RA Jurka J.; RT "L1ME5."; RL Direct Submission to Repbase Update (JUL-1999). XX DR [1] (Consensus) XX CC An ancient L1 subfamily, 69% similar to L1ME4. XX SQ Sequence 507 BP; 242 A; 24 C; 39 G; 196 T; 6 other; ctaaggaaag aattaaaaaa agtacaaaaa tatatattca agaattttca tttcaatatt 60 ggntttaaaa caataaaata tttggaaaca atctaaatgt ctaataatgg gagaataaat 120 aaattatagt atatctataa aataaaatat tatatagcta ttaaaawtat atttttaaaa 180 aatatttaat gatataaaaa aatntttata atataatatt aaataaaaaa aataaattat 240 aaaattatat atataatata attttatatn ttaaatatat aatatatata taaatatata 300 tatatatata tnaaataaaa aaaaaagact gaaaggaaat atacaccaaa atgttaacag 360 tggttatctc tgggtggtgg gattataggt gatttttatt tttttttttt tttttatatt 420 ttctgtattt tctaaatttt ttntaaattt tctacaataa atatgtatta cttttataat 480 cagaaaaaaa ataaaaataa taaaaat 507 // ID MER57C1 repbase; DNA; HUM; 385 BP. XX AC . XX DT 22-MAY-2008 (Rel. 13.05, Created) DT 22-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER57C1. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-385 RA Smit A.F.; RT "MER57C1 - a subfamily of endogenous retroviruses from placental RT mammals."; RL Direct Submission to Repbase Update (22-MAY-2007). XX DR [1] (Consensus) XX CC Perhaps primate specific. XX SQ Sequence 385 BP; 109 A; 90 C; 66 G; 120 T; 0 other; tgttaaatta aatttggcct aaagctgcct ccgtacatag caaactgtaa cctaacttaa 60 tatgtaaaca aactgcaacc taacttgaga gtatattctt gtaacaagta gccgagtctc 120 ggccaatcat agcagctgag ctttcagcca atcacaggct gcaaactgct cagacatgtc 180 caaataaggc aaacgccgag ctgtaaccaa tcaggctatt tctgtatgtc acttcctttt 240 tctgtctata aatactgcct gcccacattg ctgggtggag ctctctgaac ctttactggt 300 tcagggtgct gcccgattca tgaatcgttt ctttgctcaa ataaactctg ctaaatttaa 360 tttgtctaaa gtttttcttt taaca 385 // ID LTR22B2 repbase; DNA; HUM; 600 BP. XX AC . XX DT 04-JUN-2009 (Rel. 14.06, Created) DT 04-JUN-2009 (Rel. 14.06, Last updated, Version 2) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; LTR22B2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-600 RA Jurka J.; RT "Primate long terminal repeats."; RL Repbase Reports 9(6), 1178-1178 (2009). XX DR [1] (Consensus) XX CC >93% identical to consensus. XX SQ Sequence 600 BP; 144 A; 131 C; 161 G; 163 T; 1 other; tgttggggtt caatcaggct ggtgggaaaa atattaaaga tagttatagt aatagtcaaa 60 aactctcttg gaaggccgtg agagtttgca tagcttcggt aattgctgtg gctgaaggca 120 gccagggtct ctttgcagga gccagaaaga ttagggtgca agtacaaagg aatgtgggaa 180 gtttatctta ctaacctgtt tacttatatg ggcttaagac taacctttgt cctaccgcgg 240 gtactttact gcctcctact gggagcgggm gggggtcggc agaagtttat tacccgcaaa 300 tggtgtttgc tttaggcctc ggaacctggc ctttaatctt taccctctag tggtgtttac 360 tcacaacttt tgttaattag tcttactgaa taaatgcgag tctcactagc tgatcagggc 420 cgagtcgcaa ctgtttacag aactcagctt ggagcctgta agcggctcgg accctcagct 480 ggactggcag agcagaatat ctgtgtgtca gtgtacgttt attcatccgt cgccgaatca 540 ggggtctgca aggaacagac cccccgcagc tagtgccccc gcgaaaggag cgctgcctca 600 // ID Merlin1_HS repbase; DNA; HUM; 1129 BP. XX AC . XX DT 16-JUN-2003 (Rel. 8.05, Created) DT 16-JUN-2003 (Rel. 8.05, Last updated, Version 1) XX DE DNA transposon Merlin1_HS - a consensus. XX KW Merlin; DNA transposon; Transposable Element; 8-bp TSD; KW Merlin/IS1016 superfamily; Merlin1_HS. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1129 RA Feschotte C. and Wessler R.S.; RT "Merlin1_HS, an old family of Merlin/IS1016-like DNA transposons RT from Homo sapiens."; RL Repbase Reports 3(5), 94-94 (2003). XX DR [1] (Consensus) XX CC Merlin1_HS is an ancient family of DNA transposons related to the CC Merlin/IS1016 family. There are less than 30 copies of Merlin1_HS CC are present in the H. sapiens draft genome sequence, they are CC 75-85% identical to each other. The consensus sequence below was CC tentatively reconstructed from an alignment of 10 copies. CC Merlin1_HS is classified as a member of the Merlin/IS1016 CC superfamily based on: (1) sequence similarities in the 21-bp CC TIRs, CC the size of the TSD (8 bp) and sequence similarities in ORF CC fragments which remain in some Merlin1_HS copies. These ORF CC fragments are likely to represent fossils of a Merlin-like CC transposase once active in mammals. XX SQ Sequence 1129 BP; 306 A; 196 C; 158 G; 369 T; 100 other; ggatcaattg aacaatttgt ccctgtgggt httttdagaa aattktyatt tcacctctcc 60 caatgsakar ryrtttattt yaagatacay trcmacctat trtyracact tcaaacctkc 120 maryymytra sttmttraag sagtgtaatt tgttatctgt gkctcctgra ygttcctcat 180 gtcaccaacy cttacdgtat gatgtcartg caaagatggc tattcrtsaa aatgyattya 240 cyrcaaytgc caatcdtyat gggtctbkct tyaaaggdat cttttttrca aawtccaaca 300 tttccctgaa aatgtggctt tatcttytat tcttatggtc tatgaaagtc acagagaaar 360 carchactgc trttaytgga atttcagccm atactatggt tgatatctac aatttctsty 420 rcaaagtatg caagcattac tttgaactrc atctgataca gmttggtrgt ccaggtcatt 480 acttgcaaat wratgagtcc tgttttagcc acaaaatcaa gtatmakcat ggcyrtgctc 540 yagagagrga aayratgggb ttttggtdtk rtwgatacta cccatcaacc agctattggt 600 tatttggaaa ttgttggtga ccattctgcc caaactttgc hgcctatttt gcaatgcata 660 gttcascctg gttctwccat tcactctgat tcayrggctg catataataa cattcagcct 720 ytccttrgtt tccaacatgc tcaggttaac cataatgatc ccaacttcca tttcatgtca 780 tctcttggca tdcataccca aaagcatctt atccatbgag tyctattgga acaaatgtaa 840 agcaaagtgc aagaccatga gaggaktttg tcatgatatg ttagactcat atttggtcga 900 atttatgtgg yatgattgat ttggaaataa tgctttcaat tcccttttac tgcatatatc 960 agaacaattt cctgttaact aatatgatgt ttyswyttat tayatatatc agaaaaattt 1020 cttattaact aacatatttt cactttggtt ttagtatgtt ttrgtacaaa tatccakrga 1080 caaattwttt aattgaatac atctgagaga caaattgttc aahtgatcc 1129 // ID TIGGER6B repbase; DNA; HUM; 1597 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Non-autonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW MER97; nonautonomous DNA transposon; TIGGER6B; KW Tc1/mariner supergroup. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-433 RA Jurka J. and Kapitonov V.V.; RT "TIGGER6B."; RL Direct Submission to Repbase Update (JUN-1998). XX RN [2] RP 1-1597 RA Smit A.F.; RT "TIGGER6B."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC This repetitive element has been classified as a non-autonomous CC pogo-like DNA transposon of the mariner-Tc1 family [1] (see CC MER97). CC Its longer form [2] contains short remnants of a transposase. CC TIGGER6B has a ~700 bp deletion at position 1010. The ORFs from CC 351-1010 and 1012-1338 encode proteins at least 39% identical CC (>55% CC similar) to the N terminus and C terminus of Tigger1 and GOLEM CC proteins [2]. Full-length copies are rare in our genome. CC 23 bp perfect terminal inverted repeats, TA target site [1] CC TIGGER6B and TIGGER6A (previously named as MER97) are deletion CC products of TIGGER6 (its sequence is not reconstructed yet). XX SQ Sequence 1597 BP; 539 A; 278 C; 336 G; 439 T; 5 other; caggcagtcc tcgctttgca cggttccgat atgcataaat ttcagttacc acggtttagt 60 taaataacac cagtccccca acaacacggt tcaaatttca gttaccatgg tatattaact 120 gtgagtaatt gcataaagta caaacttcgc tgctagctct tcagtccaca aatcactatg 180 taaataacag atgcgcatca tgatcagtga ccaatcacgt cacttctttc aaagtctgtc 240 ggtgattggt cactgtgcat ctgttattca gttcatgcac agacagcaaa gcgtgtagtt 300 gtgttgcctc cttgtctccc agtgataaac ccacgtgaca ttttacaaaa atggataatc 360 gaaagaggga attggccaac aaagatgaaa gtgcagcaaa gaaacgaaaa gtgataatgc 420 tggaagtgaa attggatgtg attagaagat ttgaaaatgg caacagcaaa gcgaagatag 480 gacgagacct aggcctgcat gaagctangg tacgaaccat attgaaaaag tctgatgaat 540 ataaaaaaca aggtaaagtc gcttcaacat cttttagttt aaattgcact aggaacagaa 600 agccgcttat ggttgaaatg gagcatttac ttctactttg gattgaagac tgtaatnaaa 660 aaacaatccc aatcagtttg gctagcattc aggccaaagc gttgaagtta gttgccgcat 720 tgaaagaaaa cggtaattac aaggagactg aagaagaatc ttttactgcc agtaaaggct 780 ggtttcatca tttcagaagt tggcatgaat tgattaatgt taagctatct ggtgaagctg 840 ctagtgcaga taaggatgct gctgtgaaat ttgcacccag attccaagga ttngttaagg 900 caggtggtta tgatgatcgt caaatatttn atgttgataa gacagatctt ttttggaagg 960 caaccccatc aagaacttan gcgaaaaaag atgtaggatc acaaagtggc cattcgagag 1020 actctagata tgcagccaga ggaacttagt gaaggcgaac ttatcgacat aaatgaggaa 1080 agtggttgtg acgaaaagga tgaagatgtc ccagaggaag tgacgccggc aaaaaacttc 1140 acattaaagg aactctcgga gatatttcac gacattgaaa gcgcaaagga taaaatgttg 1200 gaagctgatc caaacttaga aaggagtatg acaattcgcc aaggcataga aaagatgctt 1260 gctccgtatc gtaagttata cgatgagaag aagaaggcaa gcactgttca aactactctt 1320 gataagtttt ttacaaagaa ataaaacact ttaattctca atgtttctaa tgttttaaat 1380 tacagtgtac taaataaata ttagttttac tattttttca tttccctata catttataac 1440 cgacagtaag agagttttta atgttttgac aaaaattttt aaaggtcaca gaacaattgt 1500 aatttttccc attgattatt aagattgctt tgcacggttt cagcttgcac ggtcattttt 1560 acggtcccgc actaccgtgc aaagcgagga ctgcctg 1597 // ID MER45 repbase; DNA; HUM; 178 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE Nonautonomous hAT-like DNA transposon. XX KW hAT; DNA transposon; Transposable Element; MER45; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-178 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 1-178 RA Smit A.F.; RT "MER45."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. CC Orientation reversed to agree with gene orientation in MER45R CC [2]. XX SQ Sequence 178 BP; 30 A; 52 C; 50 G; 46 T; 0 other; cagggccggc ttcatgggcg tgcgacctgt gcagtcgcac agggccccgc gctcagaagg 60 gccccgcgct tggtttaatg ctctgctgtc gccgtcttga aattcttaat aatttttgaa 120 caaggggccc cgcattttca ttttgcactg ggccccgcaa attatgtagc cggtcctg 178 // ID LTR82B repbase; DNA; HUM; 830 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR82B_LTR; KW Low_complexity; LTR82B. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-830 RA Smit A.F.; RT "LTR82B - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSDs. 26% subst in dog-human. Subfamilies apparent. 88% CC similar to LTR82A, but with 15% indels. AATAAA at pos 650 CC conserved in LTR82A. rnd-3_family-1181. XX SQ Sequence 830 BP; 221 A; 175 C; 198 G; 233 T; 3 other; tgttatattg tctgtaattt actttaaaat acttcagtat agacagtgtg atatatgtgt 60 gtgtaagtta actttaatct acaccctagg ggcggttagt taacatttga agtaccctaa 120 tcaggaatcc acactccagg ggtggttagt tagcatttga aagaccctaa tcaggagtcc 180 acactccaga ggcggctact acaagcgctt caaatatcnc tatctgaatc tgcaccagag 240 ggtttgttaa ttagcataag ggatgttaga aataattttt cattggtgaa atgagtggtg 300 ttcaagatat gtggattggc tagaaatatt gtacaggcac ctccgccctt gcatgaacgg 360 ggtataagaa tctggcgagc ccagcagcct aacacctttg gagtggcgcc ctaggtctag 420 gactccattt ggtcctgtgt cccnccactt aacggaggat tctgtcgcct gatcccgact 480 agaaggttag ctgaatcctg ccaccagaat attgttgcat ctgcctcgag tgaacctttc 540 atgcaaggtg cttgtcagag tgcctaaaag gacagagagc ngggacttca ccgagcttac 600 aagaacaggt tgtatgactg tttttgtgcc tgcttgctaa taaatgtttg tacgtgtggc 660 agaattcggt ctgagacttg ctttcattgt aacataccac ctggtagcga ggttgtgggg 720 aaggagacct atagccctca cctacctcta atcgttggag gctaccgata tctaccaaaa 780 agaacctgac aattgtgaac ggccaaattg gcttaggtca gttcgcaaca 830 // ID MER119 repbase; DNA; HUM; 583 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Non-autonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; DNA transposon fossil; KW MER119; MER1_type (hAT) family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 583-128 RA Jurka J.; RT "MER119."; RL Direct Submission to Repbase Update (MAY-1999). XX RN [2] RP 1-583 RA Smit A.F.; RT "MER119."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC An unclassified core of the repeat has been found by [1]. CC MER119 has been classified by [2] as a member of the MER1_type CC DNA CC transposons, with similar 15 bp terminal inverted repeats and CC duplication of 8 bp target site (preferred NTCTAGAN). CC Sequence inverted from [1]: translation of bp 191-346 is 44% CC identical CC to the C-terminus of the Charlie3 transposase. CC 78% similarity between individual repeats and consensus. XX SQ Sequence 583 BP; 160 A; 119 C; 144 G; 160 T; 0 other; ccgcggttcc caaactgtgc gccgaggcgc cccggggcgc cgcagcgaac tcacaggggc 60 gccgcgggat attttaaatt ttcgagggaa acacagcgat actcgacatc tgtcggacac 120 cgcgcgaact actagctcga ggtagttcac agtttcaaca ttagatcgcg ctacattcct 180 ttcgatgacg tcatatcttt gcgaagctgg gttttcggcg gttgctgtga taaaaagcaa 240 gtaccgcgcg aaaatcaatg tggaacagga aatgagggtg gcagtgtcca atctgattcc 300 aaggtttgag aagttgtgca gtgcccaaca ggcgcacaca tcccattagt aagtaattgt 360 ggttatttaa gaatgaaata aaatattatt ttttctttca atttatgtgt attatttttt 420 caaatggcta ctaagttgtt aggacataaa tacttattaa gttgtttgga cctaactact 480 taataaacgg aactgttagg tatttctttt ggcctagggg cgccgtgaaa aaattactga 540 gacactaagg gcgccgtgaa ccgagaaagt ttgggaacct ctg 583 // ID MER8 repbase; DNA; HUM; 239 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER8; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 1-239 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [2] (Consensus) XX CC 24 bp terminal inverted repeats, TA target site. XX SQ Sequence 239 BP; 59 A; 63 C; 54 G; 58 T; 5 other; cagttgtccc tctgtatann cgggggattg gttccaggac ccytgtgtat acmaaaatcc 60 gcgcatactc aagtcccgaa gtcggccctg cggaacccac gnatatgaaa agtcggccct 120 ccatatatac gggtttcgca tcccgcgaat actgtatttt caatccgcgt ttgattgaaa 180 aaaatccgcg tataagtgga cccacgcagt tcaaacccgt gttgttcaag ggtcaactg 239 // ID MER101B repbase; DNA; HUM; 570 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE A subfamily of MER101, putative LTR - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; MER101; MER101B; MER4-group family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-570 RA Jurka J.; RT "MER101B."; RL Direct Submission to Repbase Update (APR-1999). XX CC Partially similar to MER51 and possibly to MER49 and LTR24B. CC ~80% similar to individual repeats. ~100 copies per genome. CC Major differences from MER101 are in the 5'-region. XX SQ Sequence 570 BP; 170 A; 146 C; 105 G; 137 T; 12 other; tgttaaagta tgcccctagc tgacagacaa aatggactcc ctgtggctaa mtgaggtgct 60 caaagttaaa acagaaccag gcagccatgg ctgggtgagg gagcagtcac atattctgtg 120 ttctcagaaa gatgtaaaag tntcacagga cctccctttc tacaatcaag ccaaaccagt 180 tcctattgty agtgccaaga taaactgcng ccagaaacca cctccccaca agcccactag 240 aaacaaacat ctgacagaga cttctgattt ggggcttgga aaccaaccaa tcagagctca 300 cctaccccag ccaatcaggg ctcagctgta tcgaycaatc agaactyagc tgnnccaacc 360 aatcagaact aagcaagttt caatccttca tttgcataaa tgracctgat tgggaacctg 420 ggcaggaagt tttgctataa aacccaaanc ttcctttgtt ctccggaaag caccttcatt 480 ttacactraa ggctgtgtct ccctggtttg caaactgttc actggaataa actctcctcc 540 aaattccttt tnagagaact tttgttcaca 570 // ID ERVL repbase; DNA; HUM; 5764 BP. XX AC . XX DT 16-JUN-2000 (Rel. 5.05, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE Internal part of endogenous retroviral element HERV-L; a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; HERVL; KW Internal part of endogenous retrovirus HERV-L; MLT2B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Cordonnier A., Casella F.J. and Heidmann T.; RT "Isolation of novel human endogenous retrovirus-like elements RT with foamy virus-related pol sequence."; RL J. Virol 69(9), 5890-5897 (1995). XX RN [2] RP 1-5764 RA Smit A.F.; RT "RepeatMasker release June 1998."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Internal sequence of endogenous retrovirus ancestral to HERVL. CC The LTRs of ERV-Lb are listed in RepBase as MLT2B1 and MLT2B2. CC With copies diverged on average 18-19% from the consensus, this CC represents a subfamily active in a common ancestor of probably CC all CC primates and maybe of some other mammals. XX SQ Sequence 5764 BP; 1569 A; 1265 C; 1411 G; 1461 T; 58 other; aattttggta ctaacagtgt atagaggaac aaaattttaa ggatgggttt tctgaattgg 60 tttcggggat ttggtaattg gctgccaaat mtggttagaw ttaaggatgc taatkaccct 120 atttccagta gtaaagagag cmcggatagt scgtggcata gcagagtata acatagcatg 180 awctgttcat agagatacgc aaaatatctg cattggatac tcctaatcaa ccatttgtaa 240 gaagcaagga gccgagtgac tcnatatata wtcnataccn aaanactttt gkaaaactaa 300 gaaatataat gacawtggtt ggttgctcct aatgttgctg gacaaagtgg cgaaagaaaa 360 ggatgagctc agggattcga attcccagct caagtagttt cataaatgac ctaagagctt 420 ctatgtgtgc cctgaaggag wsccttmtmk cctstagtkg cagggctgaa attkctgmaa 480 atcaaacgca saacctcatc ctgcgattgg ctgaattaca atgcaaattg aactcccaac 540 ctcgcagggt gtctgctntt aaagtgaggg cattgattgg gaaagaatgg gatcctgtaa 600 gttggaatgg ggacntgtgg gaagaccctg atgaagctgg ggacattgag cccctaaatt 660 ctgatgagtc ttcttttgcc agtggaagtg gcctccccac cccmagcaaa agtggcctcc 720 ccacccccag tggtagcggc ttctccaccc anagtggcat tggcctttcc accttgtctg 780 aggggattaa ccctgcattg cctgaggaaa cagtaatggc ctccnctgag gcagttgcca 840 tgcaagacaa tgctgattct cctcaggacc canccccacc acccctcttt gcttctagac 900 ctataactag actcaagtcc cagcaggccc ctaaaggtga gntacaatgt gtgacccatg 960 aggaggtacg ctacactcca aaagaactac ttgagttttc taatttatac aggcagaaat 1020 ctagggaaca tgtatgggaa tggatattga gggngtggga taatggcgga aggaacataa 1080 agttgaatca ggctgaattt attgatatag gctcactaag cagagattct gcatttaatg 1140 ttgcagcttg gggagttagg aagggctcta acagtttggt tgactggttg gctgaaacat 1200 ggatcaaaag atggcccacc gtgagcgaat tggaaatgcc taatctnccc tggtttaatg 1260 tanaggaaga gattcaaagg cttagggaga ttggaatgtt agagtggatt tgtcatttaa 1320 gacccactca cccacactgg gagggtccag aagacatacc ttttaccaat actttgagaa 1380 atanatttgt gaggggagcn ccagnatcct tgaagagctc tgtgatcgct cttctctgta 1440 ggccaaacct tacagtggga accgcagtca ctnaactgga aaacttaaat gcaatgggaa 1500 taattggatc ccggggtggc aggggccaag tggcggcact caaccaccaa aggcaagatg 1560 ngcgtantta ccataatgga cagcagagtc aaagcagcaa tcagaatagt ntgactcatg 1620 cagacctatg gcactggcta attaatcatg gtgttcctag aagtgaaata gataggaagc 1680 ctactamatt cttacttgat ctgtataagc agaaaacttc taggtcaagt gaacaaaagt 1740 ctaactcgaa tcataaaaac agagagtcat ggcccctcaa tcaattccca gacttgagcc 1800 agtttacaga cccagaaccc tttgaatgaa agggaggttg aatcccctcg aggaaggacc 1860 ctngtacact accaaaaatt tatgctgtta atctttctcc cagccttccc caaagggacc 1920 tacggccttt taccagggta actgtgcact ggggaaaagg aaataatcag acctttcggg 1980 gactactgaa cactggctct gaactgacac tgnttccagg agacccaaaa catcacngtg 2040 gccctccagt cagagtaggg gcttacggag gtcaggtgat caatggagtt ttagctcagg 2100 tccatcttac agtgggtcca gtgggtcccc gaacccatcc tgcggttatt tccccagttc 2160 cagaatgcat aattggaata gacatactca gcagctggca gaatccccac attggttccc 2220 tgacctgtgg agtgagggct attatggtgg gaaaagccaa gtggaagcca ctagaactgc 2280 ntctacctag gaaaatagta aaccaaaagc aatactacat ccctggaggg attgcagaga 2340 ttagtgccac catcaaggac ttgaaagatg caggggtggt gattcccacc acatccccat 2400 tcaactctcc tatttggcct gtgcagaaga cagatggatc ttggagaatn acagtggatt 2460 atcataagct taaccaagtg gtgactccaa ttgcagctgc tgtaccagat gtggtttcat 2520 tgcttgagca aattaacaca tcccctggta cctggtatgc agctattgat ctggcaaatg 2580 cctttttctc catncctgtc cataaggccc accagaagca gtttgctttc agctggcaag 2640 gccagcaata taccttcact gtcctacctc aggggtatat caactctcca gccctatgtc 2700 ataatttagt ttgcagggat cttgatcgcc tttcccttcc acaagatatc acactggtcc 2760 attacattga tgacattatg ctgattggac ctagtgagca agaagtagca actactctag 2820 acttattggt aagacatttg tgtgtcagag ggtgggaaat aaatccaact aaaattcagg 2880 ggccttctnc ctcagtgaaa tttctagggg tccagtggtg tggggcatgt cgagatancc 2940 cttctaaggt gaaggataag ttgttgcatc tggccnctcc tacaaccaag aaagaggcan 3000 aatgcctagt gggcctnttt ggattttgga ggcaacatat ttctcatttg ggtgtgttat 3060 tctggcccat ttaccgagtg acctnaaaag ctgctagttt tgagtggggc ccagaacagg 3120 agaaggctct gcaacaggtc caggctgctg tgcaagctgc tctgccactt gggccatatg 3180 atccagcaga tccaatggtg cttgaagtgt cagtggcaga tagggatgct gtttggggcc 3240 tttgncaggc ccctataggt gaattgcagc gcaggccttt aggattttgg agcaaggccc 3300 tgccatcatc cgcagataac tactctcctt ttgagagaca gctcttggcc tgctactggg 3360 ccttagtaga gactgaacgc ttgaccatgg gccaccaagt taccatgcga cctgagctgc 3420 ccatcatgaa ctgggtgtta tctgacccac caagccataa agttgggcat gcacagcagc 3480 actccatcat caaatggaag tggtatatat gtgattrggc ccgagcaggc cctgaaggca 3540 caagtaagtt acatgaagaa gtggcccaaa tgcccgtggt ccccactcct gctacactgc 3600 cttctctctc ccagcctgca cctatggcct catggggagt ttccctacga tcagttgaca 3660 gaggaagaga agactcgggc ctggtttaca gatggttctg catgatatgc aggcaccacc 3720 cgaaagcgga cagctgcagc actacagccc ctttctggga catccctgaa ggacagtggt 3780 gaagggaaat cctcccagtg ggcagaactt tgagcagtgc acctggttgt gcactttgct 3840 tggaaggaga aatggccaga catgcgatta tatactratt catgggctgt agccaatggt 3900 ttggctggat ggtcagggac ttggaaggaa catgattgga aaattggtga caaagaaatt 3960 tggggaagag gtatgtggat agacctctct gaatgggcaa aaaacgtgaa gatatttgtg 4020 tcccatgtga atgcttacca aagggtgacc tcagcagagg aggattttaa taatcaagtg 4080 gataggatga cctgttctgt ggataccagt cagcctcttt ccccagccac cctgtcatta 4140 cccaatgggc tcatgaacaa agtggccatg gtggcaggga tggaggttat gcatgggctc 4200 agcaacatgg acttccactc accaaggccg acctggctac ggccaccgct gagtgcccaa 4260 tctgccagca gcagagacca acactgagtc cccgatatgg caccattccc cggggtaatc 4320 agccagctac ctggtggcag gttgattaca ttggaccact tccatcatgg aaggggcagc 4380 gttttgtyct tactggaata gacacttact ctggatacgg atttgccttc cctgcatgca 4440 atgcttctgc caaaactacc atccatggac ttacagaatg ccttatccac catcatggta 4500 ttccacacag cattgcttct gatcaaggaa ctcacttcac agcaaaagaa gtgcggcaat 4560 gggcccgtgc tcatggaatt cactggtctt accatgttcc ccaccatcct gaagcagctg 4620 gcttgataga acggtggaat ggccttttga agactcagtt acagtgccag ctaggtggca 4680 ataccttgca gggctggggc aaggttctcc agaaggctgt atatgctctg aatcagcatc 4740 caatatatgg tgctgtttct ctcatagcca ggattcacgg gtccaggaat caaggggtgg 4800 aaatgggagt ggcaccactc actattaccc ctagtgaccc actagcaaaa tttttgcttc 4860 ctgttcccat gaccttatgc tctgctggcc tagaggtctt agttccagag ggaggaatgc 4920 ttccaccagg agacacaaca atgattccat tgaactggaa gttaagactg ccacctggcc 4980 actttgggct cctcatgcct ctgartcaac aggcaaagaa gggagttacg gtgctggctg 5040 gggtgattga tcctgactac caaggggaaa ttggactact actccacaat ggaggtaagg 5100 aagagtatgt ctggaataca ggagatccct tagggtgtct cttagtatta ccatgccctg 5160 tgattaaggt caatggaaaa ctacaacaac ccaatccagg caggactact aatggcccag 5220 acccttcagg aatgaaggtt tgggtcaccc cgccaggtaa agaaccatga ccagctgagg 5280 tgcttgctga aggcaaaggg aatacagaat gggtagtaga agaaggtagt tataaatacc 5340 agctacgacc atatgaccag ttacagaaat gaggactgta attgtcatga gtatttcctc 5400 cttattttgt tatgaatatg tttgtgtgta tatatacata tattaagcaa atatctttgt 5460 tttctttcct ctcttattcc cttatcatgt aacataagat gtattgactt tatattagta 5520 tttaagtatt gttaatttta catcatagta tttaagttat aggatatcaa ggagaagagt 5580 aaacatcact caaggacttt acctcctctt ctggggaagg ggttagtgca ttttcggttg 5640 tacgcaggat agttgtatca tgttaggtgg aattatgacc ttgttattgt ctttatttgg 5700 agattaagta tggtttaagg agatgcgtat gggtgccaag ttgacaaggg gtggacttgt 5760 gatg 5764 // ID CHARLIE7 repbase; DNA; HUM; 2612 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Molecular fossil of a hAT-like DNA transposon. XX KW hAT; DNA transposon; Transposable Element; CHARLIE7; KW DNA transposon fossil; hAT superfamily; MER100. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1321-2574 RA Kapitonov V.V. and Jurka J.; RT "CHARLIE7."; RL Direct Submission to Repbase Update (JUL-1998). XX RN [2] RP 1-2612 RA Smit A.F.; RT "CHARLIE7."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC A basic portion of CHARLIE7 has been found and identified as a CC hAT-like DNA transposon by [1] and refined by [2]. The ORF CC from pos. 591 to 2354 encoded a peptide at least 34% identical CC (54% CC similar) to the transposase of CHARLIE1. Like other MER1-group CC members it has 14 bp terminal inverted repeats and 8 bp target CC site CC duplications (NTCTAGAN). The ~1000 copies in our genome are CC 23-24% CC diverged from the consensus sequence. XX SQ Sequence 2612 BP; 917 A; 412 C; 477 G; 785 T; 21 other; cagtggtctc caaagtggag tgcgtgcacc ccagggagta tgcaagatga tccattgggg 60 tgcaggaaga aaatattaga acttctattt atatttattt tatctaaaaa ataagaaaaa 120 aattaagctt tactaatatt taatatatgg attgacactg gcgccctcac tcggtctnta 180 tgtcagacgg tcacatgtca catgngatac gtgaggtatc ctgagggaag agtggaagtt 240 ccacantgng gaggggttga cagtggcgcc ctcactcgtt catttgcttt cagcatattg 300 cgatatattg cagtttacat gtgcctagtt aagtggattt acggattata ttatctagtt 360 ttaactaaac taaccctcac aaaatggaca agtggcttaa aaagattcct gcaaagaaac 420 cgcggattga agataatact aataatgcaa gcacaagcga acaacaagaa aatggcagag 480 ctgacacttc tcctcctagt acgagctctt cgtcagccac attacgaggt aaaaacaatg 540 acgatctaat cagatctgac aagaagtcag caaaaaagnt tgaaattatc aagaagacta 600 tttgaaatat ggatttacat ccactatcat taacgatgaa cctcgcccta agtgtatatt 660 gtgccttgag atattagcta atgatagtat gaagccatca caattagcaa gacatttaaa 720 aatgaagcat ccagaacatg aagacaaanc ctctataatt tttcagcgat gtttaaagtc 780 atgtgatact caatccagta ctttacaaaa tttcactaaa cttaatgata antgtttaga 840 agcctctttt gaggtttctt actcaataga aaaaaaanaa aagccacata ccattgggaa 900 aacgcttgtt cttcctgcca cagtaaaaat ggctgaaata atacgtagaa aacaatatgg 960 cgacaaacta aaatgcattc ctttgtcagc aaatactgtt ggaagacgca tagaaaacat 1020 tgctgaagat ttgaagaaac aagtattaga acaaattatg cagtgtggga ggtttgctat 1080 atanttggat gaaagtacag atgtttctaa catgtctcag cttgtggtat ttgctagatt 1140 ctgtttcaat aatgaaatac ataaagaact acttttttgt gagccactaa aggaaagatg 1200 tnccggagaa gatatattct caacagtaaa tgacttcttt aatgaaaaca atgttttatg 1260 ggaaaacngt ataagtgtan ccattgatgg agcagccgct ttgactggaa tannaaaaga 1320 attccggggt aaggttacag agacagcacc acangtgaaa ttcattcact gcatcattca 1380 yaggcaagct attgcagcaa agaagttgaa gccagaggta cacgaagtgc tacaggatgt 1440 catcgatgtg gttaatttta taaaaacaag acctttaata tacagtagaa tctttacaat 1500 actttgtaat gagatgggga gtgaccatga aaatcttttg taccacacag aagtttgctg 1560 gttatctcgt ggcaaagtac ttaaaagagc tgtcaaactt aaagatgagt tatacatttt 1620 tcttttacaa aaagacaagt gttccaaatt tgctgacctt ttctgtgatg acaagtggct 1680 gtcagtagta tgctacctag cagatatttt tgaaaaaata aacacactta atctgtccct 1740 tcaaggtaaa ggtgacattt taacaatgag tgagaaagta actgcttttc gaaagaaact 1800 catgctatgg agagagcatt ttgaaaatag atgtttggaa atgtttccat cgttatgtga 1860 ttttgttgct gaaaacgatg taaatgtgtc acctataaaa attctcatat ctgcacactt 1920 taaaaacttg gaaacagaat tttctaacct gtttaaaaat cttccaaatg aagagtttca 1980 gtgggttttg aacncatttg ttaaaaatat naaaatgcaa caccttccga ttagtttgca 2040 agaacaactg attgacatca gggaagatgg aaatttacta gccgaatttc aacaaaaacc 2100 tttgcataat tggtggatgg gattgaaaaa tgagtatcat gatttagtaa gcgcagccaa 2160 cgatgcactt cttccatttg gatctacgta tctttgtgag gtatcttttt cagctatgac 2220 agccattaaa accaagtatc gaaataaact gaacttagaa ccagaccttc gaatcgctgt 2280 atcacaaagt gttaaaccaa gatttttaaa aataatgaag catattcaat cacattgctc 2340 tcactaaaaa tattaatagt aatgttttaa tgagagcaaa aggttttgta ctattaaata 2400 atnaaatana aattatttta aaatattgtt tatttcatct ttatctcatc cttttaaaat 2460 ttctantttt tgtgtatgtt ttataatgta cataatatat tagtacatag tacatgtata 2520 taatttataa ataaatatat atatattggg ggtgcatgct caaaattttt tactgatggg 2580 gatgtgcgat caaaaaagtt tggagaccac tg 2612 // ID LTR59 repbase; DNA; HUM; 597 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of LTR-retrotransposon related to the DE MER4I-group; a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR34; KW LTR59; MER4; MER4I-group; MER79; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-597 RA Kapitonov V.V. and Jurka J.; RT "LTR59."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC LTR34 is a LTR from LTR retrotransposon related to the CC MER4I-group. Individual copies of LTR59 are ~83% similar to the CC consensus sequence; 4 bp target site duplications. CC LTR59 shares modular similarity with MER4; MER79 and LTR34: CC ------------------------------------------------ CC LTR59 portion other LTRs identity CC consensus positions consensus position CC ------------------------------------------------ CC 1 - 144 1 - 145 (MER4D) 75% CC 1 - 215 31 - 247 (MER72) 81% CC 207 - 591 286 - 699 (LTR34) 83% CC ------------------------------------------------. XX SQ Sequence 597 BP; 173 A; 160 C; 88 G; 167 T; 9 other; tgagaaataa aaataaaatt ctaagccccc aactgactga acagaccccc tcttggccga 60 gggaacccca gagaaacctt ggaagctgar ttcacggcca taacaggatg ggagatcaga 120 cacgcctcat tataycccct ccctcgctaa ctaccattag gttttcttcc ctaagggcta 180 aacagaaacc agccctttca aaagtctcca cactgataat gtccattact agcttatctt 240 cccaggtaca gaacaaagac aagatgagat taatcattcc ttcacccctc cccgagacat 300 ctgcttantt tnttcctcta ttccctttty cttcaaatgt tcaccttatc ttatgtaaaa 360 tgtagattta ctgggcacta actaaagtct cacaagtatg taatcattcg tctcactgcc 420 accccctttt ttaaggaaaa tgtgtaaata ctaaacctcc tgagaacctc tttggaaaaa 480 acagccacag atgcttctgt gacttacatt tttcctrgrt gtgccctcaa gctggctcag 540 taaacctcga tgntttgaga cttatacctc aatcactcat tttggttatc acyctca 597 // ID Charlie26a repbase; DNA; HUM; 325 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; Charlie26a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-325 RA Smit A.F.; RT "Charlie26a - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 14 bp TIRs; 25% subst in borEut13 Nonautonomous; no matches at CC DNA level but pos 58-156 retains a small portion of the coding CC region that matches the C-terminus of Charlie transposases. XX SQ Sequence 325 BP; 97 A; 72 C; 59 G; 97 T; 0 other; cagtgatgag caacccgcgg cccgcccggc ttcgcgatac ggcccgcgat ctaatttcag 60 gatgaaagat tagaaagctg cctccgtgtt gctacttctc aaatatgccc agatattaac 120 attttagtgg ctaaaaagca gtgccaattt tctcattgac attcttctat tcaataaagt 180 aggtaatcta agttgtaaga atatacattt tcccccgtgg gactcaataa agctattttc 240 attttgaatg aaaaaaaaat gcggcccgta aacattttta tttttcctga attggccctt 300 atgcaaaaaa agttgctcac cactg 325 // ID MER67D repbase; DNA; HUM; 514 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate MER67D repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER67D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-514 RA Smit A.F.; RT "MER67D."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC MER4-type LTR. Duplicates 4 bp. Average divergence from consensus CC 20%. CC Bp 334-514 are related to MER31. XX SQ Sequence 514 BP; 127 A; 137 C; 83 G; 158 T; 9 other; tgaccaagac agccttaacg ttcccctcag cttgactraa ctttagacag gtttcttcct 60 gactataggc ccctgacctc ccttttctta gagcatttac tttagaaaac ttgcaattgt 120 aaattctttc tctgcccctt tgagatgtaa atcttctaca acccaggaat gtctttctca 180 aggacctggg agccatccct ttgaaatata atcawggaag gacatagggt ccctgtctcc 240 cagtctctgt ggaagggtag gagcctaact ttgataagna gcaattwgca aacacagatg 300 gcctaatcac attgaccaac ctccccacca acgtcctcca gtacttttcc actagctcac 360 cccagcgctt aaaaatccac ctgccttttg tttcagngga gttgagttca anctctaacc 420 cctattncaa tagtctctgt cctttattgc aatagtcttg aatgaagtct tccttgcctg 480 tttaacannt ttccggtgca atttttcttt taca 514 // ID LTR88a repbase; DNA; HUM; 816 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; LTR88a_LTR; KW LTR88a. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-816 RA Smit A.F.; RT "LTR88a - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSD; 3' end matches LTR85, which is tentatively a Gypsy CC LTR. ~80% similar to LTR88b. Many CpGs. Middle region least well CC defined. Outrageous substitution level (>35% in borEut13) partly CC due to CpGs. XX SQ Sequence 816 BP; 150 A; 203 C; 326 G; 126 T; 11 other; tgcggcggga gtcccggctt gagcctaaac tgggattcag acgtgtctgg gcgtgtctga 60 tgaaccggtg gggcgggccc gccaggcgtc tatttgcatg agttgatttg catggggggg 120 aagggagagc tgggggnngn gnnttncgtg tggggccgtg gggcggaggg gaagggggaa 180 acggggatgg agaggacagc acggtgtctg tctctgacgg cccggcctcc acggactcgc 240 gtctgagccc cgtggagaga ggggctgcag gcagaagctg aaggagctgt tttcacgagg 300 gactttgtga gacncggggg cacaagcagc gctgcttcgg ngcccaggtg acaaagtgcg 360 acacagagtg ggggagaggg gcattctccc cacttctgcg cggaacgcag cgcggctccg 420 gcgcggcgag gactncgggg aacgcagcgc cgttcggcac ctcgagggtc tgcagcttcg 480 ggagcgccgg gagacagcgc cctcggcacg gacatcagcg ttctcacgga gggcgccggc 540 agcagtggca gcggcgaggc gccgccctca agtggcttcg cgggcagcgg acatcaacga 600 ggaggnccgg agcggaagag gaagagcggg ccggctgtga gcacacgtga gacaccccct 660 ggggactccc agaaataact gggggagact ttgcaggggg ctgaggtcct gcgtcgngca 720 ggtgggggca agagccagcg aaatttgggt tattaccgtt aatgtgacct catttgtacc 780 cacaggctgg tgaggcctgg ggaaactcgg gttaca 816 // ID MER67A repbase; DNA; HUM; 543 BP. XX AC . XX DT 08-FEB-1999 (Rel. 4.01, Created) DT 08-FEB-1999 (Rel. 4.01, Last updated, Version 4) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I-group; subfamily MER67A. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; MER67A; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-543 RA Smit A.F.; RT "MER67A."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC MER4I-type LTR. Duplicates 4 bp. Average divergence from CC consensus 18%. CC Bp 1-75 are similar to MER31, whose LTR flanks a similar internal CC seq. CC Identified in humans and rodents. XX SQ Sequence 543 BP; 135 A; 172 C; 88 G; 144 T; 4 other; tgacaaagat tctctccttg accaaactct agccaggctc ctctgagccc ccttctccac 60 taggcctcaa cctcggccta taaagacttg aacaaacact aacatagttt ctaatagctc 120 aaggccacat ccctaggatg accctagccc ccccttaaag tgcctgcctg agaaaactca 180 aggctgccaa aataatttac tgtttgttcc agccaacacc tgaagatagg gcccctgtct 240 cccagtctct gtgggagggt aggagcctaa cttcgataag cgccagttag caaacacaga 300 tgggctaatc acattkacac tgwccaacct tttgtaattt ttcacttccc tgactctact 360 gagcccccac gcgtnccctc tccccnctcc ctcattctcc ctttaaaacg cccagtcacc 420 tctgcacaaa tcgaagctga gctcagttca cgctggactc ttttccctac tgcaatagta 480 tattactgat taaaatccgt ccttaccgct ttaactagtg tccggctttg tttatctttg 540 aca 543 // ID LTR79 repbase; DNA; HUM; 527 BP. XX AC . XX DT 02-SEP-2008 (Rel. 13.08, Created) DT 02-SEP-2008 (Rel. 13.08, Last updated, Version -1) XX DE ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; ERVL; KW LTR79. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-527 RA Smit A.F.; RT "LTR79 - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC rnd-3_family-703 5 bp TSDs 23%/28% subst. XX SQ Sequence 527 BP; 98 A; 151 C; 134 G; 144 T; 0 other; tgttaggggg gaacgcttat tccccactcc tgatgtttcc ttccatgtgg agggacctcc 60 attagcgtaa cactcctggc ctctctctgc cccctcactc atcctcccca ggggaggagg 120 agtgacttat ctgattggtg agtttgggag aaggaactgg gcatgcgtag ctcagcccct 180 tcctccctct ctctttggga ctgacctgcc tgcagagagc acgcattctg ctctgctcct 240 ccatgccgta agttttacag gggcaggctc tgcccctgca ggggaggcct gcggttgtcc 300 agcgctgcct gtgactgggt gggtaagtct gtctaattct ggggttcagt attaggaagc 360 ccattgttgc cgcacaccta agccacattc tccaacccag cctttatcag taataaaggt 420 gatattttga tctccatctg cctgactcct ttgtctattt ctcaattggt tcagaactcg 480 ggcgggaaag aggggtgcta tttattgggc cccctcaaac cccaaca 527 // ID L1PA10 repbase; DNA; HUM; 915 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA10) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P4; L1PA10; L1PA10 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-915 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-915 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 7.5%. XX SQ Sequence 915 BP; 351 A; 183 C; 193 G; 187 T; 1 other; ctaatatcca gaatctacaa ggaacttaaa caaatttaca agaaaaaaac aaacaacccc 60 attaaaatgt gggcaaagga catgaacaga cacttctcaa aagaagacat tcatgcggcc 120 aacaaacata cgaaaaaaag ctcaacatca ctgatcatta gagaaatgca aatcaaaacc 180 acaatgagat accatctcac gccagtcaga atggcnatta ttaaaaagtc aagaaacaac 240 agatgctggc gaggttgtgg agaaatagga acgcttttac actgttggtg ggaatgtaaa 300 ttagttcaac cattgtggaa gacagtgtgg cgattcctca aagatctaga accagaaata 360 ccatttgacc cagcaatccc attactgggt atatacccaa aggaatataa atcattctat 420 tataaagata catgcacgtg tatgttcatt gcagcactat tcacaatagc aaagacatgg 480 aatcaaccca aatgcccatc aatgatagac tggataaaga aaatgtggta catatacacc 540 atggaatact atgcagccat aaaaaggaat gagatcatgt cctttgcagg gacatggatg 600 gagctggaag ccattatcct cagcaaacta acgcaggaac agaaaaccaa acaccgcatg 660 ttctcactta taagtgggag ctgaacaatg agaacacatg gacacaggga ggggaacaac 720 acacactggg gcctgtcggg gggtgggggt ggggggaggg agagcattag gaaaaatagc 780 taatgcatgc tgggcttaat acctaggtga tgggttgata ggtgcagcaa accaccatgg 840 cacacgttta cctatgtaac aaacctgcac atcctgcaca tgtaccccgg aacttaaaat 900 aaaaattaaa aaaaa 915 // ID MER103C repbase; DNA; HUM; 304 BP. XX AC . XX DT 16-JUN-2008 (Rel. 13.06, Created) DT 16-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Interspersed repetitive element MER103C - a consensus sequence. XX KW hAT; DNA transposon; Transposable Element; MER103C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-304 RA Jurka J.; RT "hAT-type families of nonautonomous DNA transposons."; RL Repbase Reports 8(6), 641-641 (2008). XX DR [1] (Consensus) XX CC This element may be a composite of 2 non-autonomous transposons CC inserted in each other. CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 304 BP; 93 A; 53 C; 57 G; 99 T; 2 other; cagcatttcc caaaatatgt tctttagaac actagttcct ctggatgtta ataggtgttt 60 ctgaaaaaaa gtgttctatg gtcaaataag tttgggaaac gctgggttaa acaaarttaa 120 acaagtttct ttactgtagg acttctcaga gcctttaata tgctaatrta cattgtgaat 180 ctccaagagg gaaatatagt atgcagcgtt tcccaaactt atttgaccac ggaacccttt 240 tcttttttca agagcatatc atgggactag taatgttcca tggaacacac tttgggaaat 300 gctg 304 // ID LTR26E repbase; DNA; HUM; 622 BP. XX AC . XX DT 20-AUG-1998 (Rel. 3.07, Created) DT 20-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE LTR from human endogenous retrovirus-like sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR26; LTR26E; KW Long terminal repeat; MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-622 RA Kapitonov V.V. and Jurka J.; RT "LTR26E."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC LTR26E is a subfamily of LTR26. CC The average identity of LTR26E sequences to its consensus CC sequence CC is about 88%. CC There is 70% identity between LTR26E and LTR26 consensus CC sequences. XX SQ Sequence 622 BP; 161 A; 171 C; 113 G; 177 T; 0 other; tgaaaccatc ctcacagggc taacaagaat tacatgccgg gttctgggca gaaatatagt 60 tataattaag cattaatcag gctgcacttt ggcccacttc cttgtaacta aaagtcatgt 120 agcactagat actgaccatt tgcatcccca ttgttcctat agataggatt tctgacctta 180 gaatcatagg tttttgttta agaattgatt tgcatcccca ttgttcctat agacaggatc 240 tctgacctta gaatcataag gcttttgttt aagaattgct taagatgttt ttcagatcct 300 gaattccagc ggaacagctg atgccaacca gtttgaagac ccccacagag gaaccgaatc 360 agcatgagaa cgcagtttct tcatctccct gtcccatgac ttcaccctgc actcttcgac 420 caatcaacga tccccacacc tcggcccact ccaaacccct taaaatccct agccccaaac 480 tcctcgggga ggcggatttg aggtttcctc ctgtctcctc attcggctgc cctacgatta 540 ttaaactctt tctctgctgc aaccctggtg tctcggtgta ttgacttgcc gcgcatcggg 600 caacaaacct attacggtca ca 622 // ID LTR68 repbase; DNA; HUM; 740 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I-group - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW LTR retrotransposon; LTR68; MER4I-group; MER67C. XX NM LTR68. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 326-740 RA Kapitonov V.V. and Jurka J.; RT "LTR68."; RL Direct Submission to Repbase Update (FEB-2000). XX RN [2] RP 1-740 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR [1] (Consensus) XX CC There are 20-100 copies of LTR68; they are ~78% identical CC to the consensus sequence. LTR68 is 66% identical to the CC portion of MER67C. CC [2] mer4 group 22% div. XX SQ Sequence 740 BP; 205 A; 154 C; 153 G; 217 T; 11 other; tgttgggttt ttaatattca tctttattaa ttttatcctg aatgcacaca ngaggtgttc 60 cagatcagag acagatttct tattaattac cttacagtaa aaataagcat gttgctctcc 120 cttgccccag tccttacccc tgnggtgaca cgatgagagc caggtcaant ntcctacacg 180 agtagccgga cactccatag gtgaaggaaa agatgaggga aaaatatttt tctctttnta 240 taaaggggaa gagacagctg tctccctccc ctcctgaaag ggtttcctgg aaagataagg 300 atcctgagtc cttacnctaa ccttttggta tgtaaatana atctttccag gagccagata 360 gccccatgtg tctcagnttt tatgacctag agatgtctcc aaggtctgag gcttcatctt 420 ctttgaaatg taaataccca gggagatagc nctccagtct tcctggcacc ttggganctt 480 aacctaggga cctagtccgg gctgtaacca tttggccctc tnggagagat aagaaagttt 540 tattatcctt ttggatcaga gcaattaact agacaaatgg ctacagatct aattctcatg 600 gtatgtgaag agtaaaatgc ttctagggga agtgaaagca aacattccct atctttatat 660 tatatacatt tccgtgtctc aggaggctag ggctttttac aggagcactg agaaatccag 720 ggaagtttta tttccccaca 740 // ID CR1_Mam repbase; DNA; HUM; 2204 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE CR1 Non-LTR Retrotransposon from mammals. XX KW CR1; Non-LTR Retrotransposon; Transposable Element; LINE; KW CR1_Mam. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-2204 RA Smit A.F.; RT "CR1_Mam - CR1 Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC rnd-4_family-2657 & rnd-4_family-1485 Incomplete. 25/33% subst, CC but probably overestimated due to many ambiguous sites and CC subfamilies. Region covered matches PsLINE pos 2100-4200. CC Encoded protein is ~40% id (60% sim) to AA 230-end of CC CR1-C3_pol. XX SQ Sequence 2204 BP; 775 A; 364 C; 535 G; 484 T; 46 other; tanattggca aaatacctca tcgggacgaa atatngagga gangcttttc gataagacaa 60 attaccgttt cctagaatag gtagttttag nacccacaag gaaaggaaat angctggact 120 tggttctgag nagtgaacag gaactggcgc aggaagtatc tgtgggtgaa ccactntgtg 180 accaataatg attaaattca acattctggc gggaaaggaa aaccaaaaaa aatccaccac 240 atgttactca attttagaaa agggaactat gacaaaatgt gggcattagt taggaaaaat 300 gaaaagnana gttnaaaaag taaataaccc acaggaagcc tggagactat ttnaaaacac 360 cttattggaa gcccaggaaa aatgtgtgcc anggatcaaa aanaccaggc acttggaaaa 420 aaaaataccc ngcatggcta actggcaaag tcaaagaggc cattgtaggg gaaaaggcat 480 ctttcaaaaa atggaaagan aantccaagt gaggagaaca gggaagcccg caaagtatgg 540 caggtcaggt acaaactaga aattaggtgg gccaaaaaag aatttgagga gcaccttgca 600 agggactcca aagccagtaa taaaaagttc tttaaataca tcaaagggag gaagccagct 660 agagaatcag tgggaccatt cgatgatcac agtgcaaaag gtgnactcaa gatgaaaaag 720 gagatggcag agagactnaa tgaattnttt gcttcggtct ttactgagga agacattagg 780 gagattccca ctcccaaatt gtcttttgaa gcagacaggt cagaggtact agatcaaata 840 gtggtaaacg cacaggatgt tctagaccna attgacaaac tagatgtaga taaatcactg 900 gaccagatgg catccaccca agagttctga aggaactcaa gggtgaaact gttgacaaaa 960 tgtgcaaccn gtattgcaaa tggccnctat gcccagaaca agtgtgttca atgggctcca 1020 tccataagga ggactctaga ggccatgaaa ctaaagccaa tgagtntcan ttccgtaccn 1080 ggnaagttgg tggnntatna gcaaagagta gnactnanng cacantcaaa cataacctac 1140 taggagaaag gcaacatggt ttctgtaagg ggaaatcatg cctgactaat ctattagagt 1200 tctttgaggg ggtaaataac atgtggacaa ggagaaacca gtggatataa tttatttaga 1260 ctttcaaaaa gcctttgaca aggttccaca ccaaaacttt atttttaaaa actgagtcac 1320 catgggattt gggggaatgt tttgtcatgg atagggaact ggcttagaga caggaaacaa 1380 aaggtagaga ataaatgggc acttctctgg atggagaagt gtaaacagtg gggtccccca 1440 gggatcagtg ctgggactag tcttatttaa catttttata aatgatctgg aagagggagt 1500 gcacagtgaa atctccaagt ttgcagatga cactaagctc ttccgggtag tgaaatgcca 1560 agctgatggg gataaactgc aggaagatct cacaaggctg tgtgagtggg cagaaaagtg 1620 gcagatgagc ttcagtgtgg gcaagtgtaa ggtaatgcat ttagggaaaa ataatccaaa 1680 ctatacttan aagatgatgg gctctgagct atcagttacg acccaggaaa gggatctagg 1740 agtcattgta gactattccc tgaagacatc agcccaatgt gctgtagcca aaaaggccaa 1800 caaaatnctg ggcatcatca ggaagggnat tggaaacaaa acagaaaaca ttatcctacc 1860 tttgtgcaaa accatagtat atccacacct ggaatactgt gtgcagttct ggttgccgca 1920 nccctcaaga aagncatanc agagctgaga agggtaatta aaatgatcaa ggagatggaa 1980 ggctttnata agaggctgag ctgntttgtt taaaacttta gtctggaaag acgaaggctg 2040 agaggggata tgatcaaagt ctataaaacc atgaagggta tggataaggt gaacatagac 2100 ttgttcacca aatcccagaa tactagaact agggcagcct ttgaagcttg aaagaaattt 2160 tagggacaaa tnaaanaaaa ggtgtagact cattntacag nggg 2204 // ID LTR44 repbase; DNA; HUM; 519 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of LTR-retroelement - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR23; KW LTR24; LTR44; MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-519 RA Kapitonov V.V. and Jurka J.; RT "LTR44."; RL Direct Submission to Repbase Update (MAY-1998). XX DR [1] (Consensus) XX CC LTR of endogenous retroelement related to the MER4I-group. CC 4 bp target site duplication. CC Individual copies are ~82% identical to the consensus sequence. CC 3'-termini of LTR44 (position 438-519) and LTR23 (positions CC 353-437) CC are 71% identical. CC 3'-portions of LTR44 (position 362-519) and LTR24 (positions CC 314-490) CC are 68% identical. XX SQ Sequence 519 BP; 144 A; 116 C; 79 G; 175 T; 5 other; tgataaccta cargtcacat ttggcaggct tccaaattaa cccacctcag ggaggtcttg 60 tgattcatgg ccacatcctg tccctgagta aagaatcttg tgagttcctc aaattttatc 120 gtgagttcct caaattgttg acgtactgat taatatgtaa cctactgaca ttgaaaagga 180 cactgatttg tttctgaatc ataaagtttt gctgatttat ttntgaatca taaagtttta 240 ctgattgttt tacatataga cattttagcc tgtatgttgc aatctgtagc caatgattat 300 aacctctgta ttgtaccctc caatraaaaa agacaactcc gatatgagga gttcccctcc 360 cttctcctaa actttcttat aaaagccttc caacttgtaa magacttcgg aacacwccca 420 actttgttgg tgtgtcttcc caggtcaatc ctcacatttg gcttccaata aacctttatc 480 aaattatttc tgcctcaaca gccttaattt cggtcgaca 519 // ID MER96 repbase; DNA; HUM; 175 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 24-JAN-2010 (Rel. 15.02, Last updated, Version 2) XX DE Primate MER96 repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW hAT superfamily; MER96; Nonautonomous DNA transposon fossil. XX NM MER96. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-175 RA Kapitonov V.V. and Jurka J.; RT "MER96."; RL Direct Submission to Repbase Update (30-APR-1998). XX DR [1] (Consensus) XX CC Putative non-autonomous DNA transposon fossil related to the HAT CC superfamily. 8 bp target site duplication. MER96 is a palindrome. CC Average identity of individual copies to the consensus is 80%. XX SQ Sequence 175 BP; 36 A; 55 C; 50 G; 34 T; 0 other; cagggccagg actagggtga ggcaagtgag gcgcctaggg cgcaaaattt aaggaggcac 60 tcactctcag ggtcgtgcaa atgccgaccc tgcacttgca cgaccctgag agtgagtgcc 120 tccttaaatt ttgcgcccta ggcgcctcac ttgcctcacc ctagtcccgg ccctg 175 // ID MLT1G3 repbase; DNA; HUM; 530 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Mammalian transposon-like element long terminal repeat, MLT1G3 DE subfamily - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MLT1G2; MLT1G3; KW MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-530 RA Jurka J.; RT "MLT1G3."; RL Direct Submission to Repbase Update (JAN-2000). XX DR [1] (Consensus) XX SQ Sequence 530 BP; 126 A; 150 C; 116 G; 120 T; 18 other; tgmcactcct ccatcaagkg gtagagtcta tttccyctcc ccttgaatnt gggytggnct 60 ttntgattgc ctngaccaat agaatgcagt agaagtgata ctgtctgact tcnaaggcta 120 wggtcataaa aaggccatgc acttctacct tgctctcttg ggangcttgc tcttggaacc 180 cagccaccat gctgtgagga agcccaagcc acatggagag gccacatgta ggtgttctgg 240 ccgacagtcc cagctgaggt cccagccaac agccagcatc aaccaccaga catgtgantg 300 agtgaagaag cctccagatg attccagccc ccagctgtca agtcatcccc agcctctnnc 360 agycmtcccc agccttcaag tcttcccagc tgaggcccca gacatcatgg agcagagaca 420 agccatcccc actgtccmyt gtgccctgtc tgaattcctg acccacagaa tccatgagca 480 taataaaatg gttgtttaag ccactaagtt ttggggtggt ttgttacaca 530 // ID MER66B repbase; DNA; HUM; 486 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I-group; subfamily MER66B. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER4I-group; KW MER66B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-486 RA Smit A.F.; RT "MER66B."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC LTR related to the MER41. XX SQ Sequence 486 BP; 120 A; 141 C; 114 G; 107 T; 4 other; tgaggtagga ggtgggactc gactccggag gcggggcttg aacaccagac caaattgaag 60 actagctgaa acagggccag ggcaaaagca gctttccata agacccaccc accggtgcca 120 wgtgagttta ccattgccat ggcaacagcc agaagttact gcccctttcc atggcaatga 180 cccgatgacc caaaagttac cacccctttt ctagaaattt ctgcataaac cgccccttaa 240 tttgcatgta gttaaaagtg ggtataaata tgactgcaga actgcctctg agctgctact 300 ctgggcgcac tgcctatggg gcagccctgc tctgcaagga gcagtrcctc tgctgctgct 360 gtrcacagcc gcttcaataa aagttgctgt ctaataccac carctcgccc ttgaattctt 420 tcctgggcga agccaagaac cctcccgggc taagccccaa tttgagggct cgcctgtcct 480 gcatca 486 // ID MIRc repbase; DNA; HUM; 268 BP. XX AC . XX DT 30-JUL-2010 (Rel. 15.07, Created) DT 30-JUL-2010 (Rel. 15.07, Last updated, Version -1) XX DE SINE2/tRNA SINE from mammals. XX KW SINE2/tRNA; SINE; Non-LTR Retrotransposon; Transposable Element; KW MIR; MIRc. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-268 RA Smit A.F.; RT "MIRc - SINE2/tRNA SINE from mammals."; RL Direct Submission to Repbase Update (30-JUL-2010). XX DR [1] (Consensus) XX CC rnd-3_family-1880 5' & 3' ends differ from MIR; 5' end closer to CC MIRb; possible explanation for "conservation pattern" of MIR. CC Resembles MIR_Mars best overall and may be ancestral to that. CC 21%/26% subst in dog-human. XX SQ Sequence 268 BP; 69 A; 52 C; 71 G; 76 T; 0 other; cgaggcagtg tggtgcagtg gaaagagcac tggacttgga gtcaggaaga cctgggttcg 60 agtcctggct ctgccactta ctagctgtgt gaccttgggc aagtcactta acctctctga 120 gcctcagttt cctcatctgt aaaatgggga taataatacc tgccctgcct acctcacagg 180 gttgttgtga ggatcaaatg agataatgta tgtgaaagcg ctttgtaaac tgtaaagtgc 240 tatacaaatg taaggggtta ttattatt 268 // ID MSTD repbase; DNA; HUM; 396 BP. XX AC . XX DT 07-FEB-2000 (Rel. 5.01, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 2) XX DE Primate MSTD repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat o; MSTD; MaLR family. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL PhD dissertation, Univ Southern California, 1995. XX RN [2] RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MSTD retrovirus-like MaLR element. 5 bp target site dups. CC Average divergence from consensus 18%. Intermittent subfamily CC between MSTC and MLT1A; 85% and 92% similar to MSTC over first CC and CC last 150 bp, respectively, and 79% full-length similarity to CC MLTA1. XX SQ Sequence 396 BP; 91 A; 95 C; 96 G; 110 T; 4 other; tgctatggtt tgaatgtgtc ccccaaagtt catgtgttgg aaacttaatc cccaatgcaa 60 cagtgttggg aggtggggcc taataagagg tgattaggtc atgagggctc tgccctcatg 120 aatggattaa tgtcattatc gcgggagtgg gttagttatc gcgggagtgg gtttgttata 180 aaagnaagtt cggccccctt ttgctctctc nctctcactc tcttgccctt ccgccttccg 240 ccatgggatg acgcagcaag aaggccctca ccagatgccg gcnccwtgat cttggacttc 300 ccagcctcca gaaccgtgag ccaaataaat ttctgttctt tataaattac ccagtctgtg 360 gtattctgtt atagcagcac aaaacggact aagaca 396 // ID MER34D repbase; DNA; HUM; 579 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.07, Created) DT 04-AUG-2008 (Rel. 13.07, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER34D. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-579 RA Smit A.F.; RT "MER34D - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (04-AUG-2008). XX DR [1] (Consensus) XX CC mer4 group . Perhaps present in rodents as well. XX SQ Sequence 579 BP; 151 A; 141 C; 115 G; 168 T; 4 other; tgaaggagtk aaggatatgc caccccaaaa tatgccagat tggtatattg attatttcga 60 gctgaaagca ctggagaaac tgtagtttca gaaagggcta gctgacctgt ctcttcctgc 120 atgcagcaag ccataaagat tcctctggga ggggtgccct ccccgtacca gggcgagaaa 180 atagccctta tcaccagaga ctgggaattg gngctgcaat ggacctgaat aaacanactt 240 actgaagtaa cccttatctt ccactagttt tacacccctc cccatatatc tcctagtgac 300 tcccctagaa atttactgcc cctagccaga tcccctttgt cctgtcattt cttcncaaat 360 ttatcgttct ttgtctaaaa agtataaaag catcttgctt tggccacttc tttgggtctt 420 cactctcttg tgaagatccc catgtacatg taaaactaat aaaatttgta tgcttttctc 480 ttgttaatct gcctggtgtc aatttggttt ctagatccag ccgaagagcc cacataagag 540 ctaaaagggg ggttggaggt gatctctggc tcccctaca 579 // ID MIR3 repbase; DNA; HUM; 224 BP. XX AC . XX DT 07-FEB-2000 (Rel. 5.01, Created) DT 14-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE MIR3 SINE element associated with L3. XX KW SINE; Non-LTR Retrotransposon; Transposable Element; L3; MIR; KW MIR3; tRNA-related. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-224 RA Jurka J.; RT "MIR3."; RL Direct Submission to Repbase Update (JAN-2000). XX DR [1] (Consensus) XX CC This is a SINE element associated with L3 (LINE3) element. CC It shows partial 5' similarity to MIR element, probably due CC to the origin from tRNA. Some elements classified as MIR CC are indeed members of the MIR3 family. MIR3 shows 3' similarity CC to L3 which strongly suggests that L3-like LINE elements were CC involved in their dissemination. Like L3, MIR3 belongs to an CC extinct CC family of repetitive elements. Average similarity to consensus CC MIR3 is ~72%. It is present in non-mammalian vertebrates. XX SQ Sequence 224 BP; 58 A; 49 C; 51 G; 65 T; 1 other; ttctggaagc agtatggtat agtggaaaga acaactggac taggagtcag gagacctggg 60 ttctagtcct agctctgcca ctaactagct gtgtgacctt gggcaagtca cttcacctct 120 ctgggcctca gttttcctca tctgtaaaat gagngggttg gactagatga tctctaaggt 180 cccttccagc tctaacattc tatgattcta tgattctaaa aaaa 224 // ID MER35 repbase; DNA; HUM; 290 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human medium reiteration frequency MER35 repetitive sequence - a DE consensus. XX KW MER35; Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Iris F., Bougueleret L., Prieur S., Caterina D., Primas G., RA Perrot V., Jurka J., Rodriguez-Tome P., Claverie J. et al.; RT "Dense Alu clustering and a potential new member of the NFkappaB RT family within a 90 kilobase HLA class III segment."; RL Nature Genet 3, 137-145 (1993). XX RN [2] RP 1-290 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX DR [2] (Consensus) XX SQ Sequence 290 BP; 98 A; 47 C; 90 G; 55 T; 0 other; gatgtggcgt ttgagtggac acgggggaag aaacaagtaa tatgaataac atggtgagac 60 agaaagagtt gtggacagag ctgtgggaaa tatgagagat aaggagagag atactgaaaa 120 gagcgttaag agagatgaag atagggtgtc tggcccatga aggccctcgt gaagagcaat 180 gctgaataga tgaatgaacc tcaatgccca gcagtggtgg gatgaaaagg ggatcctgtg 240 cagaaaccac actacccatc agagaagcaa ctctgctcgt ttccccttga 290 // ID MER65B repbase; DNA; HUM; 531 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Long terminal repeat of endogenous retroelement; internal DE sequence MER65I belongs to the MER4I-group; subfamily MER65B. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR of retrovirus-like element; MER4I-group family; MER65B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-531 RA Lee I., Westaway D., Smit A.F., Cooper C., Yao H., Prusiner B.S. RA and Hood L.; RT "Complete Structure and Organization of Three Mammalian Prion RT Chromosomal Regions."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX SQ Sequence 531 BP; 169 A; 133 C; 81 G; 142 T; 6 other; tgtgaaagtt gtcagaatca aaatggagtc acttatgtta aaaaccctaa caaayagagc 60 cggggaaggc catgaagaga gggttctcac gcwcatatgc ctgataacaa gaactatcac 120 aaaagactgc aaaaaccaca accttgcaca aaggccatca caaccttaca canaaaaata 180 cttctacaag gacatttgcc tgacaactgt ctcacraacc tagctactgc aagagcctac 240 tgtaactcta agattacaaa tcctacctag caactgccga cactcgccaa tcagagctcg 300 ccagctctts taagacgctg ctagcgccaa tgaactttct ttcaaaacaa yttgtgtaac 360 cttctctttc cttaataaaa ccctaacatt tttctttgtt ctctggacat accgaaggcc 420 acctggtctg tgtgtatgcc ccaaattgca attctgttct tcacatgtta ttcccaaata 480 aaacgtttta aatttaggga ttcgtctcta cattttattt tgacttcgac a 531 // ID LTR27E repbase; DNA; HUM; 1077 BP. XX AC . XX DT 11-AUG-2008 (Rel. 13.09, Created) DT 12-SEP-2008 (Rel. 13.09, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR27; LTR28; KW LTR27B; LTR27E. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1077 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(9), 942-942 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 1077 BP; 224 A; 349 C; 310 G; 189 T; 5 other; tgatagcgrc aggagacaga caaattccta ggcagacagg gacgggtccc caggtgaaac 60 ccgaccttca agccaaagac agtttaaagc ctgaaaactg agctgccagt tccgggtaga 120 gtccacgacc ggagtgagaa cttcctcgat gccttttagc caatcgaatg gtgctttttc 180 caggcccgcc catggaccaa tcagcacgca ctcccccatt ctgagcccat aaaaatcccc 240 ggactcagcc acacakaggg ctacccgctt tcgggccccc tctcacacag agggctaccc 300 actctcgggt cccctctcgt tgtcgagagc tttccttctg tcgctcaata aaattcttct 360 tctgccttgc tcactctccg gtgtccgcgt aacctcattc ctcttggtcg ygggacaaga 420 acccggaacc cgccgaacgg cgggtgcgaa agctgttaac actgtaaccc tccctcccgc 480 tcactgagca atgggggaga aaaagcctct gggtaccaca tgctcccgtt cgccgagctg 540 tgggagtgaa aagctgtgac ccttctgtgg gcccagacct ggagactctc cgagtcagag 600 ctgtaacacg cccctattca ccgagctgcg ggcggtggga acaaacatga gctgtaacac 660 aaatgagctg taacatgccc cccaccgttt gccgagctgc gggtggcggg aacgagagag 720 agctgtaaca tttcttgggg gctcagacct cgggactccc cgggcaagag ccgtaacacc 780 ccttggggct ccgcggttgc tggcatctcc gagttttcgg gcgccaccgc gttcccctca 840 tccagacgcc ggcgcccaag gcggaagccg gtcgcggcac gcccggtcca gccgcgggct 900 acatgccata ctgrgcgcgg gatccgggcc ggtagcatga gccgagcgca gcccgccggg 960 ccgagtgggc ggagcgagcc cagtggcaag cccagagccg agcgaggccc aggcagaggt 1020 sccgccggcc gcggagattt ccggctggcg aagtggcacc gaaagaatcc tgtgtca 1077 // ID MER107 repbase; DNA; HUM; 197 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 13-AUG-2010 (Rel. 15.09, Last updated, Version 2) XX DE Non-autonomous DNA transposon - a consensus. XX KW hAT; DNA transposon; Transposable Element; MER30; MER107. XX NM MER107. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-197 RA Naik A. and Jurka J.; RT "MER107."; RL Direct Submission to Repbase Update (31-JUL-1998). XX DR [1] (Consensus) XX CC Terminal inverted repeats identical to those of MER30. XX SQ Sequence 197 BP; 65 A; 44 C; 42 G; 46 T; 0 other; caggggtgtc caagggagag aatacagtca tgggttctta gtttctgttt ctggttgggc 60 cagtaaagcc ccttcctcat ccctcttttc tacttatcac tagagacaga aactaaaaac 120 catggcttca ggctgctaaa agcctaaaac aaaacaaaac agaacaacaa caaaataagg 180 cgggttggac aagcttg 197 // ID LTR33C repbase; DNA; HUM; 629 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; ERVL; KW LTR33C. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-629 RA Smit A.F.; RT "LTR33C - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 25% subst in dog-human. Closest similarity to LTR33A & B over CC pos 42-180 & 589-641 (end). XX SQ Sequence 629 BP; 118 A; 200 C; 152 G; 156 T; 3 other; tgtggtggwt ttgtnctgtg tcaacttggc taagctggga actacgtttc ccagaatccc 60 cttccctgta tggttccggg ttagagttgg ccaaaagagg aatttgcgcg agatttggaa 120 ggcggaagtg aagcagcagc cattactctc tgaaggtcgt cgtggttaga tgcggtgana 180 gacagacgca gaggtgccgg cgggttccag cttgtcctcg ctctcctccg ctccgcgtcc 240 agctcttctt cccgactgct ggccctgctg accaacagcg gccccaggcc caccaccaga 300 tgcttggctg cggacccaca gaggcggtag ctacgcagag gcaacagcct tccatagact 360 tctccaccag ctcccccttc gcggtcccac tccggcagct ggacgtgcct ggcttctcag 420 atttccctgc aagctccgac ttgtccaccc gcgccagtgc ttcaggaggg ctggttagtg 480 acttttctct gatcctccaa ctcccccttc cggaccttca cttccccagc tcctcccaca 540 attgtgtaag gtctaattcc tataataaat cccttattcc ataatactca tagtggttct 600 gcttccctga ctgaaccctg actgataca 629 // ID ALRa repbase; DNA; HUM; 172 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE SAT Satellite from primates. XX KW SAT; Satellite; Simple Repeat; ALR2; ALRa. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-172 RA Smit A.F.; RT "ALRa - SAT Satellite from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX SQ Sequence 172 BP; 53 A; 29 C; 39 G; 51 T; 0 other; ctatctgaga aactgctttg tgatgtgtgc attcatctca cagagttaaa cctttctttt 60 gattcagcag tttggaaaca ctgtttttgt agaatctgcg aagggacatt tgggagctca 120 ttgaggccta tggtgaaaaa gcgaatatcc ccagataaaa actagaaaga ag 172 // ID L1PB2c repbase; DNA; HUM; 6582 BP. XX AC . XX DT 12-AUG-2009 (Rel. 14.07, Created) DT 12-AUG-2009 (Rel. 14.07, Last updated, Version 3) XX DE L1 non-LTR retrotransposon: consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1PB2c. XX NM L1A_Mim; LTR6_MD; LTR86_MD. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6582 RA Smit A.F.A.; RT "L1PB_orf2."; RL Direct Submission to Repbase Update (12-AUG-2009). XX RN [2] RP 1-6582 RA Jurka J.; RT "Human L1PB-type: a complete consensus."; RL Repbase Reports 9(7), 1393-1393 (2009). XX DR [2] (Consensus) XX CC ~92% identical to consensus. A complete variant of L1PB2. CC Includes L1PB_orf2 reconstructed by Arian Smit. XX FH Key Location/Qualifiers FT CDS 1423..2439 FT /product="L1PB2c_1p" FT /translation="MRRNQKTNSGNMTKQGSLTPPKNHTSSPAMDPNQEEI FT PDLPEKEFRRLVIKLIREAPEKGEAQRKEIQKMIQEVKGEIFKEIDSIKKK FT QSKLQETLDTLIEMQNALESLSNRIEQVEERNSELEDKVFELTQSNKDKEK FT RIRKYEQSLQEVWDYVKRPNLRIIGVPEEEEKSKSLENIFGGIIEENFPGL FT ARDLDIQIQEAQRTPGKFIAKRSSPRHIVIRLSKVKTKERILRAVRQKHQV FT TYKGKPIRLTADFSAETLQARRDWGPIFSLLKQNNYQPRILYPAKLSIIYE FT GKIQSFSDKQMLREFATTKPPLQELLKGALNLETNPGNTSKQNLFKA" FT CDS 2535..6383 FT /product="L1PB2c_2p" FT /translation="MNGIVPHISILTLNVNGLNAPLKRYRXAEWIRIHQPT FT ICCLQETHLTHKDSHKLKVKGWKKTFHANGHQKRAGVAILISDKTNFKATA FT VKKDKEGHYIMIKGLVQQENITILNIYAPNTGAPKFIKQLLXDLRNEIDSN FT TIIVGDFNTPLTALDRSSRQKVNKETMDLNYTLEQMDLTDXYRTFHPTTAE FT YTFYSXAHGTFSKIDHMIGHKTSLNKFKKIEIISSTLSDHSGIKLEINSKR FT NLQNHANTWKLNNLLLNDHWVXNEIKMEIKKFFELNDNSDTTYQNLWDTAK FT AVLRGKFIALNAYIKKSERAQTDNLRSHLKELEKQEQTKPKPSRRKEITKI FT RAELNEIETNKKIQKINETKSWFFEKINKIDRPLARLTKKRREKIQISSIR FT NETGDITTDTTEIQKIIQGYYEHLYAHKLENLEEMDKFLEXYNPPSLNQEE FT XXTLNRPITSSEIEMVIXKLPTKKSPGPDGFTAEFYQTFKEELVPILLTLF FT HKIEKEGTLPKSFYEASITLIPKPGKDITKKENYRPISLMNIDAKILNKIL FT ANRIQQHIKKIIHHDQVGFIPGMQGWFNIRKSINVIHHINRIKNKNHMIIS FT IDAEKAFDKIQHPFMIKTLSKIGIXGTYLNVIKAIYDKPTANXILNGEKLK FT AFPLRTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGIQIGKEEVKLSLF FT ADDMIVYLENPKDSSRKLLELIXEFSKVSGYKINVHKSVALLYTNSDQAEN FT QIKNSTPFTIAAKKIKYLGIYLTKEVKDLYKENYKTLLKEIIDDTNKWKHI FT PCSWMGRINIVKMTILPKAIYKFNAIPIKIPPSFFTELEKTILKFIWNQKR FT ARIAKARLSKKNKSGGITLPDFKLYYKAIVTKTAWYWYKNRHIDQWNRIEN FT PEINPNTYSQLIFDKANKNIKWGKDTLFNKWCWDNWXATCRRMKLDPHLSP FT YTKINSRWIKDLNLRPETIKILEDNIGKTLLDIGLGKDFMTKNPKANATKT FT KINXWDLIKLKSFCTAKGTVSRVNRQPTEWEKIFTIYTSDKGLISRIYXEL FT KQISKKKTNNPIKKWAKDMNRQFSKEDIQMANKHMKKCSTSLMIREMQIKT FT TMRYHLTPARMAIIKKSKNSRCWRGCGDQGTLLHCWWECKLVQPLWKTVWR FT FLKELKVELPFDPAIPLLGIYPEEKKSLYEKDTCTRMFIAAQFAIAKSWNQ FT PKCPSINEWIKKLWYIYTMEYYSAIKRNELTAFAATWMRLETIILSEVTQE FT WKNQTSYVLTDMWELSYEDAKA" XX SQ Sequence 6582 BP; 2576 A; 1485 C; 1293 G; 1205 T; 23 other; ggggatcatg gcggacggga ggcaggacta gattgcagct ccgactcgga cggacagagc 60 agcgtgcgga ggctcgcatc gtgaatttta gctccagaac gactgcaaga acaaaccagg 120 aatcccgaga ggacccacag accctctgaa ggaagcggac tgctcctgca ggacccggga 180 gacaccccaa atactgtgag tgcccaaact gcggaagtgg gaaagggaga tcctccgctc 240 ccgaacacac acccccactg gggaaactga aggtctagtt tgcgggagaa gtttccgacc 300 ttacctggag ctgagtcaat ttagagagcc gagcgaaata caggggtaga ggaagcagcg 360 aggaaaggcc ctgggagctc gctgggtccc caagcaggcc attcctgcct ggcaccacag 420 ggatccttcg ggagggcggc cagaggagcg gggggtaaaa cgccacaggg agaaggaagt 480 ctccagctga actttgtaac aatttgaacc gggcgagaag cctcctggcc agaactcggg 540 ggagggcgcg aatccggcgt gcagactcca caggcggggg aagaaccaaa gcccttttct 600 ttcgcagctg ggaggcgggt agcctggggc aagttctcaa gccctgctcg cccactgcct 660 ggaaacagac tcggggctgt tagggggggg cacggtggga gtgagaccgg cccttcggat 720 tgcgtgggag ctgggtgagg cctgtgactg ccggctttcc cccacttccc tgacaacctg 780 catgactcag cagaggcagc cataatcctc ctaggtacac aactccattg acctgggaac 840 ctcaccccca tcccccacag cagccgcagc aagacccgcc caaggagagt ctgagctcag 900 acacgcctag ccctgccccc acctgatggt ccttccctac ccaccctggt agctgaagac 960 aaagggcata tactcttggg agttctaggg ccccgcccac cgccggttcc tctccatact 1020 accacagctg atgctctctg gaaagcgcca cctcccggca ggaggccaac cagcacaaaa 1080 atagagcatt aaaccaccaa agctaagaac cctcacagag tccatttcac ccccctgcca 1140 cctccaccgg aacaggcgct ggtatccacg gctgagagac ccatagacgg ttcacatcac 1200 aggactctgt gcagacaacc cccagtacca gcccggagcc tggtagactt gctgggtggc 1260 tagacccaga agagagataa caatcactgc agctcggctc acaggaagcc acatccatag 1320 gaaaaggggg agagtactac atcaagggaa caccccgtgg gacaaaagaa tctgaacaac 1380 agccttcagc cctagacctt ccctctgaca gagcctaccc aaatgagaag gaaccagaaa 1440 accaactctg gtaatatgac aaaacaaggc tctttaacac ccccaaaaaa tcacactagc 1500 tcaccagcaa tggatccaaa ccaagaagaa atccctgatt tacctgaaaa agaattcagg 1560 aggttagtta ttaagctaat cagggaggca ccagagaaag gcgaagccca acgcaaggaa 1620 atccaaaaaa tgatacaaga agtgaaggga gaaatattca aggaaataga tagcataaag 1680 aaaaaacaat caaaacttca ggaaacattg gacacactta tagaaatgca aaatgctctg 1740 gaaagtctca gcaatagaat tgaacaagta gaagaaagaa attcagagct cgaagacaag 1800 gtcttcgaat taacccaatc caacaaagac aaagaaaaaa gaataagaaa atatgaacaa 1860 agcctccaag aagtctggga ttatgttaaa cgaccaaacc taagaataat cggtgttcct 1920 gaggaagaag agaaatctaa aagtttggaa aacatatttg ggggaataat cgaggaaaac 1980 ttccccggcc ttgctagaga cctagacatc caaatacaag aagcacaaag aacacctggg 2040 aaattcatcg caaaaagatc atcgcctagg cacattgtca tcaggttatc taaagttaag 2100 acgaaggaaa gaatcttaag agctgtgaga caaaagcacc aggtaaccta taaaggaaaa 2160 cctatcagat taacagcaga tttctcagca gaaaccctac aagctagaag ggattggggc 2220 cctatcttca gcctcctcaa acaaaacaat tatcagccaa gaattttgta tccagcgaaa 2280 ctaagcatca tatatgaagg aaagatacag tctttttcag acaaacaaat gctgagagaa 2340 ttcgccacta ccaagccacc actacaagaa ctgctaaaag gagctctaaa tcttgaaaca 2400 aatcctggaa acacatcaaa acagaacctc tttaaagcat aaatcacaca ggacctataa 2460 aacaaaaata caatttaaaa agcaaaaaca aaaaacaaac aaaaaaccaa ggtacacagg 2520 caacaaatag cacgatgaat ggaatagtac ctcacatctc aatactaaca ttgaatgtaa 2580 atggcctaaa tgctccactt aaaagataca gaatngcaga atggataaga attcaccaac 2640 caactatctg ctgccttcag gagactcacc taacacataa ggactcacat aaacttaagg 2700 taaaggggtg gaaaaagaca ttccatgcaa atggacacca aaagcgagca ggagtagcta 2760 ttcttatatc agacaaaaca aactttaaag caacagcagt taaaaaagac aaagagggac 2820 attatataat gataaaaggc cttgtccaac aggaaaatat cacaatccta aatatatatg 2880 cacctaacac tggagctccc aaatttataa aacaattact antagaccta agaaatgaga 2940 tagacagcaa cacaataata gtgggggact tcaatactcc actgacagca ctagacaggt 3000 catcaagaca gaaagtcaac aaagaaacaa tggatttaaa ctataccctg gaacaaatgg 3060 acttaacaga tatntacaga acattccacc caacaactgc agaatacaca ttctattcan 3120 cagcacatgg aacnttctcc aagatagacc atatgatagg ccacaaaacg agcctcaata 3180 aatttaagaa aattgaaatt atatcaagca ctctctcaga ccacagtgga ataaaactgg 3240 aaatcaactc caaaaggaac cttcaaaacc atgcaaatac atggaaatta aataacctgc 3300 tcctgaatga tcattgggtc aanaatgaaa tcaagatgga aattaaaaaa ttcttcgaac 3360 tgaacgacaa tagtgacaca acctatcaaa acctctggga tacagcaaag gcggtgctaa 3420 gaggaaagtt catagcccta aatgcctaca tcaaaaagtc tgaaagagca caaacagaca 3480 atctaaggtc acacctcaag gaactagaga aacaagaaca aaccaaaccc aaacccagca 3540 gaagaaagga aataaccaag atcagagcag aactaaatga aattgaaaca aacaaaaaaa 3600 tacaaaagat aaatgaaaca aaaagctggt tctttgaaaa gataaataaa attgatagac 3660 cattagcaag attaaccaag aaaagaagag agaaaatcca aataagctca attagaaacg 3720 aaacgggaga tattacaact gacaccacag aaatacaaaa gatcattcaa ggctactatg 3780 aacaccttta cgcgcataaa ctagaaaacc tagaggagat ggataaattc ctggaaanat 3840 acaaccctcc tagcttaaat caggaagaan taganaccct gaacagacca ataacaagca 3900 gcgagattga aatggtaatt naaaaattac caacaaaaaa aagtccagga ccagacggat 3960 tcacagcnga attctaccag acattcaaag aagaattggt accaatccta ttgacactat 4020 tccacaagat agagaaagag ggaaccctcc ctaaatcatt ctatgaagcc agtatcaccc 4080 taataccaaa accaggaaag gacataacna aaaaagaaaa ctacagacca atatccctga 4140 tgaacataga tgcnaaaatc cttaacaaaa tactagctaa ccgaatccaa cagcatatca 4200 aaaagataat ccaccatgat caagtgggtt tcataccagg gatgcaggga tggtttaaca 4260 tacgcaagtc aataaatgtg atacaccaca taaacagaat taaaaacaaa aatcacatga 4320 tcatctcaat agatgcagaa aaagcatttg acaaaatcca gcatcccttt atgattaaaa 4380 ccctcagcaa aatcggcata naagggacat accttaatgt aataaaagcc atctatgaca 4440 aacccacagc caacatnata ctgaatgggg aaaagttgaa agcattccct ctgagaactg 4500 gaacaagaca aggatgccca ctctcaccac tcctnttcaa catagtactg gaagtcctag 4560 ccagagcaat cagacaagag aaagaaataa agggcatcca aatcggtaaa gaggaagtca 4620 aactgtcgct gtttgctgat gatatgatcg tntacctaga aaaccctaaa gactcctcca 4680 gaaagctcct agaactgata aangaattca gcaaagtttc nggatacaaa attaatgtac 4740 acaaatcagt agctctncta tacaccaaca gcgaccaagc tgagaatcaa atcaagaact 4800 caaccccttt tacaatagct gcaaaaaaaa taaaatactt aggaatatac ctaaccaagg 4860 aggtgaaaga cctctacaag gaaaactaca aaacactgct gaaagaaatc atagatgaca 4920 caaacaaatg gaaacacatc ccatgctcat ggatgggtag aatcaatatt gtgaaaatga 4980 ccatactgcc aaaagcaatc tacaaattca atgcaattcc catcaaaata ccaccatcat 5040 tcttcacaga actagaaaaa acaatcctaa aattcatatg gaaccaaaaa agagcccgca 5100 tagccaaagc aagactaagc aaaaagaaca aatctggagg catcacatta cctgatttca 5160 aactatacta taaggccata gtcaccaaaa cagcatggta ctggtataaa aataggcaca 5220 tagaccaatg gaacagaata gagaacccag aaataaaccc aaatacttac agccaactga 5280 tcttcgacaa agcaaacaaa aacataaagt ggggaaagga caccctattc aacaaatggt 5340 gctgggataa ttggcnagcc acatgtagga gaatgaaact ggatcctcat ctctcacctt 5400 atacaaaaat caactcaaga tggatcaagg acttaaatct aagacctgaa actataaaaa 5460 ttctagaaga taacattgga aaaacccttc tagacattgg cttaggcaag gatttcatga 5520 ccaagaaccc aaaagcaaat gcaacaaaaa caaagataaa tagntgggac ttaattaaac 5580 taaagagctt ctgcacggca aaaggaacag tcagcagagt aaacagacaa cccacagagt 5640 gggagaaaat cttcacaatc tatacatctg acaaaggact aatatccaga atctacaang 5700 aactcaaaca aatcagcaag aaaaaaacaa acaatcccat caaaaagtgg gctaaggaca 5760 tgaatagaca attctcaaaa gaagatatac aaatggccaa caaacatatg aaaaaatgct 5820 caacatcact aatgatcagg gaaatgcaaa tcaaaaccac aatgcgatac caccttactc 5880 ctgcaagaat ggccataatc aaaaaatcaa aaaacagtag atgttggcgt ggatgcggtg 5940 atcagggaac acttctacac tgctggtggg aatgtaaact agtacagcca ctatggaaaa 6000 cagtgtggag attccttaaa gaactaaaag tagaactacc atttgatcca gcaatcccac 6060 tactgggtat ctacccagag gaaaagaagt cattatacga aaaagatact tgcacacgca 6120 tgtttatagc agcacaattc gcaattgcaa aatcgtggaa ccaacccaaa tgcccatcaa 6180 tcaacgagtg gataaagaaa ctgtggtata tatatacgat ggaatactac tcagccataa 6240 aaaggaatga attaacggca ttcgcagcga cctggatgag attggagact attattctaa 6300 gtgaagtaac tcaggaatgg aaaaaccaaa catcgtatgt tctcactgat atgtgggagc 6360 taagctatga ggacgcaaag gcataagaat gatacaatgg actttgggga cttgggggga 6420 agggtgggag gggggcgagg gataaaagac tacaaatagg gtgcagtgta tactgctcgg 6480 gtgatgggtg caccaaaatc tcacaaatca ccactaaaga acttactcat gtaaccaaat 6540 accacctgta ccccaataac ttatggaaaa atattaaaaa aa 6582 // ID L1MA4A repbase; DNA; HUM; 1050 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MA4A) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M1; L1MA4A; L1MA4A subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1050 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1050 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 13.5%. XX SQ Sequence 1050 BP; 427 A; 168 C; 211 G; 243 T; 1 other; ctaatatcca gaatatacaa ggaactcaaa caactcaaca gcaaaaaaac aaataatccc 60 attaaaaagt gggcaaagga catgaataga catttctcaa aagaagacat acaaatggcc 120 aacaggtata tgaaaaaatg ctcaacatca ctaatcatca gggaaatgca aatcaaaacc 180 acaatgagat atcatcttac cccagttaga atggctatta ttaaaaagac aaaaaataac 240 agatgctggc gaggatgcgg agaaaaggga actcttatac actgttggtg ggaatgtaaa 300 ttagtacagc cactatggaa aacagtatgg agatttctca aaaaactaaa aatagaacta 360 ccatacgatc cagcaatccc actactgggt atttatccaa aggaaaggaa atcagtatat 420 caaagggata cctgcacccc catgtttatt gcagcactat tcacaatagc aaagatatgg 480 aatcaaccta agtgtccatc aacggatgaa tggataaaga aaatgtggta tatatacaca 540 atggaatact attcggccat aaaaaagaat gaaatcmtgt catttgcagc aacatggatg 600 gaactggagg tcattatgtt aagtgaaata agccaggcac agaaagacaa atatcgcatg 660 ttctcactca tatgtgggag ctaaaaaagt tgatctcatg gaggtagaga gtagaatgat 720 agataccaga ggctgggaag ggtgtgtggg tgggaggggg gatgaagaga ggttggttaa 780 tgggtacaaa catacagtta gatagaagga ataagttcta atgttcgata gcagagtagg 840 gtgactatag ttaacaacaa tgtattgtat atttcaaaat agctagaaga gaggacttga 900 aatgttccca acacatagaa atgataaata ctcgaggtga tggataccct aaataccctg 960 acttgatcat tacacattct atgcatgtaa caaaatatca catgtacccc ataaatatgt 1020 acaaatatta tgtatcaata aaaaaaaaaa 1050 // ID LTR14A repbase; DNA; HUM; 344 BP. XX AC . XX DT 02-DEC-1997 (Rel. 2.11, Created) DT 02-DEC-1997 (Rel. 2.11, Last updated, Version 1) XX DE LTR of human endogenous retrovirus. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW LTR of endogenous retrovirus related to HERVK(C4); LTR14A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-344 RA Kapitonov V.V. and Jurka J.; RT "LTR14A."; RL Direct Submission to Repbase Update (NOV-1997). XX DR [1] (Consensus) XX CC LTR14A sequences are ~94% similar to their consensus sequence. CC LTR14A consensus sequence is 89% similar to LTR14B consensus CC sequence CC with three deletions (positions 52-236, 269-307 and 325-366 in CC LTR14B). CC Bases 56-344 are 66% similar to bases 198-548 of LTR14. CC Internal retroviral sequence has been found [1] in GenBank CC sequence CC AC003072 (position 23535 <- 27344). XX SQ Sequence 344 BP; 64 A; 110 C; 71 G; 99 T; 0 other; tgggagaaaa gctgagtgtt gggagagaag ctgaggcagg gcttgcatgt ctgctagact 60 tgctggctcc ttgcttctag cactcccatt atctcaagca gccatatgtt tctcattcac 120 ttgatacact gtttcctttc aacccccaca tcctcaccac ctgtttcttt gtttgagcac 180 caataaatag cgtgggctcc cagagctcag ggccttcgca gcctccacac tcgcgatggc 240 cccctggtcc cactttctct ctcaaactgt ctttttctca ttcctttgac tccgccggac 300 tttgtcgccc ccacgacctg gtgttgggtc tgatcacccc aaca 344 // ID LTR4 repbase; DNA; HUM; 596 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE LTR from human endogenous retrovirus ERV3 - a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ENV gene; LTR4; KW pol gene; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Cohen M., Powers M., O'Connell C. and Kato N.; RT "The nucleotide sequence of the env gene from the human provirus RT ERV3 and isolation and characterization of an ERV3-specific RT cDNA."; RL Virology 147, 449-458 (1985). XX RN [2] RP 1-596 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of HERV3 (class I). 4 bp target site duplications. CC A few hundred copies are on average 13% diverged from the CC consensus. XX SQ Sequence 596 BP; 140 A; 157 C; 127 G; 171 T; 1 other; tgaagcagga gatataaaaa aaaagaaaga gagaaaaaca agttttctgt actgggctga 60 ctcactccaa ggcccagcga taggcagggc tctgncaggg ctttgatagc actatctgca 120 gagccggggc ccagaaggaa tgggctccag agcctctccc tgccgtccta gagcagggat 180 gagaaaaaca agttcttctt atcagtttcc ccctttgaaa ttctttcccc ataccattat 240 tcctttgttc tgctctcata actatttttg taactatttc tgcaagtttg caaggatttt 300 gtaagttcct gttttcccat ctgtgcagta tggcgaaggt cacaagacat gcctgagttg 360 caaaacctgt cactgtttga taaactgcct ttgttctgct tctgtaagct tgcttgcccg 420 ccctacaggt ttcacgccac taactggcca ccccctttcg gatgcatgta taaaagtcaa 480 gccctgtctt tgttcggggc tcagcctttg gatgttaatc cgctgggccg gtggccacct 540 aataaaatcc tcctgtccca cccattggtc tctcctgtcc cttgattcct gcaaca 596 // ID LTR47A repbase; DNA; HUM; 452 BP. XX AC . XX DT 17-JUL-1998 (Rel. 3.06, Created) DT 28-MAR-2009 (Rel. 14.04, Last updated, Version 2) XX DE LTR from human endogenous retrovirus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; subfamily LTR47A; LTR47A. XX NM LTR47A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-452 RA Kapitonov V.V. and Jurka J.; RT "LTR47A."; RL Direct Submission to Repbase Update (30-JUN-1998). XX DR [1] (Consensus) XX CC LTR47A is a consensus sequence of a subfamily of long terminal CC repeats LTR47. It is 84% identical to the LTR47B, the consensus CC sequence of the second subfamily. LTR47A sequences are ~85% CC identical to their consensus sequence. Solo LTR47A elements are CC flanked by 5 bp target site duplications. LTR47A sequences belong CC presumably to the endogenous retrovirus HERV47 related to the CC mouse retrovirus MERVL and human retroviruses HERVL and HERV17. CC 3' portion of LTR47A (position 304-397) is 68% identical to the CC 3' portion of LTR32 (position 331-423). Pol protein shows CC significant similarity to the Pol proteins encoded by MERVL and CC foamy viruses. Examples of HERV47 retrovirus is present in the CC GenBank sequences AL022164 (position 96500-100879) and Z98304 CC (position 34430-26682). XX SQ Sequence 452 BP; 98 A; 119 C; 95 G; 140 T; 0 other; tgtggaggct aaagcaactc catcttggat gctaatccac catgttgact tctgattaac 60 cccagttccg ggaatgcctc taagatttcc agtttatcta ttgttccttg tgtaagagca 120 ggtacttact gtaaatcctg cccttaggtc aaaacaacct tgatgttatc atacttacca 180 taaatcctgc ccttagcaat tgtcctacac attccttctg aagcacgtat accctttccc 240 tgtggtatat aagccctggg tctggggggt aacggcgcgg ggatccacca tcttgtctcg 300 ccgccgccca agacacagac gtggcttctg tttgtaagtc cctattaaat gtttctttct 360 gagaaactgg atttgtcagc ctctttcttc ggcctctcag cttccttgga cttttggggg 420 taggtttgca tagacctgct caccgcggaa ca 452 // ID L1ME3C_3end repbase; DNA; HUM; 870 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from placental mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1ME3C_3end. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-870 RA Smit A.F.; RT "L1ME3C_3end - L1 Non-LTR Retrotransposon from placental RT mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 94% identical to L1ME3B. XX SQ Sequence 870 BP; 347 A; 145 C; 175 G; 201 T; 2 other; ttagtatcca gaatatataa agaactccta caaatcaata agaaaacaga caacccaata 60 gaaaaatggg caaaagatat gaacaggcaa ttcacagaag aggaaacncg aatggccaat 120 aaacatatga aaagatgctc aacctcacta gtaatcaggg aaatgcaaat taaaacgaca 180 atgagatacc atttcacacc catcagattg gcaaaaattt aaaagtctga caataccaag 240 tgttggcgag gatgtggagc aacgggaact ctcatacact gctggtggga gtgtaaattg 300 gtacaaccac tttggagagc aatttggcaa tatctagtaa agttgaagat gcgcataccc 360 tacgacccag caattccact cctaggtata taccctagag aaactctcgc acgtgtgcac 420 aaggagacat gtacaagaat gttcattgca gcattgtttg taatagcgaa aaattggaaa 480 caacctaaat gtccatcaac aggagaatgg ataaataaat tgtggtatat tcatacaatg 540 gaatactata cagcagttaa aatgaatgaa ctagagctac acgtatcaac atggataaat 600 ctcaaaaaca taatgttgag cgaaaaaagc aagttgcaga agaatacgta cagtatgata 660 ccatttatat aaagtttaaa aacacgcaaa acaatactat attgtttacg gatacataca 720 tatgtagtaa aantataaaa acatgcatgg gaatgataaa caccaaattc aggatagtgg 780 ttacctctgg ggagggaggg aagggaatgg gatcggggag gagtacacag gggacttcaa 840 ctgtatctgt aatgttttat ttcttaaaaa 870 // ID MLT1A1 repbase; DNA; HUM; 410 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Mammalian long terminal repeat (MLT1A1 subfamily) - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1A; KW MLT1A1; MaLR family; retrovirus-like MaLR element. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-410 RA Jurka J.; RT "MLT1A1."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC 81% similar to MLT1A and ~79% to individual repeats. CC Also similar to the following repeats in the descending order: CC MSTD, CC MSTC, MSTA2, MSTB1, MSTA1, MLT1B, MSTB, MLT1C, MSTA, THE1C, CC MLT1C1, CC THE1B, MLT1D, MLT1E2. All are non-viral LTRs which apparently CC had the same tendency of intermixing similarly to viral LTRs. XX SQ Sequence 410 BP; 101 A; 93 C; 89 G; 119 T; 8 other; tgctatggtt tgaatgtttt tgtcccctcc aaaattcatg tgttgaaact taatkgccaa 60 tgtracagta ttaagaggtg gggcctttta rgaggtgatt aggtcatgag ggctcctccc 120 tcatgaatgg gattaatgcc cttataaaaa gggcttgatg gagtgggttc tctctctctc 180 tctcttctgc tcttctgcca tgtgaggaca cagygttcct cccctctaga ggatgcagca 240 twcaaggygc catcttggaa gcagagasca ggccctcacc agacaccaaa cctgctggna 300 ccttgatctt ggacttccca gcctccagaa ctgtgagaaa taaatttctg ttctttataa 360 attacccagt ctcaggtatt ttgttatagc agcacaaatg gactaagaca 410 // ID PRIMA4_I repbase; DNA; HUM; 8270 BP. XX AC . XX DT 29-JAN-2001 (Rel. 6, Created) DT 29-JAN-2001 (Rel. 6, Last updated, Version 1) XX DE Internal part of the PRIMA4 endogenous retrovirus - a consensus. XX KW Endogenous Retrovirus; Transposable Element; Class I; MER4I-group; KW PRIMA4; PRIMA4_I; PRIMA4_LTR; RNaseH; gag; leukemia retrovirus; KW protease; reverse transcriptase. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-8270 RA Kapitonov V.V. and Jurka J.; RT "PRIMA4_I."; RL Direct Submission to Repbase Update (JAN-2001). XX DR [1] (Consensus) XX CC PRIMA4_I is an internal part of the PRIMA4 endogenous retrovirus. CC PRIMA4 is related to the Class I retroviruses, including leukemia CC viruses. The PRIMA4_I consensus sequence has been built based on CC 12 copies of the provirus. PRIMA4_I copies are ~8% divergent from CC the consensus sequence. The consensus sequence encodes gag, CC pol and env proteins. Pol is composed of protease, reverse CC transcriptase, RNAseH and integrase. CC GAG: CC MENAGTKTKQPEWESYFQWYLESSKRGEDRLISLQEANKQLRNANQELSNLLSLLKKSSESLTSPLAPPP CC PPPTPPLYPDLSELPGPDLFPPSPACSNLPSSPPCLPLAQQKAVGSLTSKTPPPDDSLTAPMAASHLEDV CC EKGDPAGTSLMIAPFREQPVTGRGTPAIVYQPWSKAELRGIVKEFPDPHKDPIGFAREFELIIRTYDPGH CC SDLYQLVHMLVSEAKAKEWLEKAQWSDPIADLTPEGPIEPQQPAPTNPEDRHKDARERATALLNIIPSVF CC QRVVDWNKIQQCRQNPNESVLDYFTRFDKTLRQYCGMSADCFENNKNDTLLNANFLNGLDDDLATLVKRH CC MTNWATARTNELVNLADQLSRTMIKKEKQKIARVMHLQLKQLTSQTSQPQKDFKLPRSENSSLPVCYYCK CC RPGHLKRDCLRLKQKKRQENATQED CC POL: CC GCSEEVQGFHLSKYSTLTNKLGEINIIINHELTTALIDTGATISLINPTLFRNPIPRSNERINMVGVSNK CC TISCFKSKPVPYHFIRFSPPAAGSKCDTLSRSHMFLICPGAPVNLLGRDLLNIHNAHISFSSKGELFLEL CC EPGDQKYQIKKCPDNVPQFSTSNVKTSSCDQENKMETEKEILGEKREHWNKEQETVKLLLASPVFLLTPE CC AEHLLKDVPSHLWSQSNTDIGKIFSATPIKVEINPKKPLPNLKQYPLRQEAIDGIAPIIQDYLKKGLIIP CC CTSPCNSPIFPVKKPSGRGWRFVQDLRAINNIVIPRHPVVPNPHTLLSAIPTTSQYFSVVDLCSAFFSIP CC VDPDSQYLFAFTWKEWQYTWTVMPQGYTESPTYFSQILKADLEDLIFPQGSTLIQYVDDLLLCSDTLSSS CC QEDSLYLLKQLATKGHKVSKDKLQLCLPQVKYLGHIISVKGLSINPDRVRGILAFPMPVTKKQLRGFLGL CC AGYCRNWIPNFSLMAQPLYAYLKNEQPDPIMWTPEGQSAVQQIKEILTNAPALGHPNYKLPFSLFVHEIG CC GTASGVLTQKHGDHQRPIGYYSQQLDPVARGLPPCVRAIAATALLYKSVEEIIMGSPLTIFVPHSLETLL CC NSHHTQHLSVNWLASYEILLLSSPNITISRCNNLNPATLLPGPSDKTPHDCVLMTDRLLTPRTDLQEMPL CC DNAEIEWYTDGSYLRGEDGNFRAGYAVVSLLEVIEASPLPQARSAQAAKLIALTRACQLAKDKAANIYTD CC SRYAFGVAHDFGMLWKERGYLTSSGQPIKNGQQVSELLEAILKPKRLAIIKIPGHSKLDTTESQGNQLAD CC ATAKRAAFEPPAPIREMAIKPETLKNMLKETQSIAPTKEKSTWKQAGGYLSPETEIWCGPNNKPIIPMGC CC QVPLMEYVHNLTHWNPDKMISWCKQYYWKPSFTVAQKVYSRCVICPKYNPGKPLHGAQGHFPLPAGPFEV CC WQLDFIQLPSSQGYKYVLVMVCMFSHWVEAFPCRQATAMAVGKILLEKIIPLWGVPCELHSDRGTHFTGQ CC VIQNICKIWPIFQHFHCAYHPQSSGLVERTNGIIKTQLAKFTEAFHLPWPKALPLVLLTLRSTPFGKHQL CC SPYEIITGRPMCMGTKITNPTFLKGDILQYCEGLIYHLKKSQDLVKNSFHSALPEDKVPGHDLQPGDFVY CC WKRHLIKDSLQPRWKGPYQVLLTNPCAAKLEGIDSWIHISHLKKAQPPEWTVTPTKDLRLQFTKHRPSTQ CC D CC ENV: CC MNFTTLLLLILYPYTFLPLPPTDAHETNLFLQWAQDYADRLQKDACWICGLMPLSSGSGLPWWVSPFQGQ CC DWIEYQKFITSQKWSGILSAGITKDNIYNWPIKNTLKNKGHGKRFSMERTSSLALTLASPQLKQKVVTTP CC QTTAHFQNGIMQIWDGFIWLTPSFGQLSQNAPLCWEQRNHTKDLWPNSTRDMGWIPGERCDHIIILQDTD CC WHATDWVQRPGIYWLAPNGTYWLCGTNLWPRLPPGWLGRCSLGYAWAQGRVIQTLPKPANLFHLQSRWTR CC SVFQWYDHLASIFVPQIGIEDVIWHIEALTNYTQKALNDSRMSISLLNNEVMLMRKAVLQNRMALDILMA CC AQGGTCAIIKTECCVYIPDESKNITRLMTDMKTQITNLSDPKPSLIDWLSGWFGSWGTWWQKLLLIIGII CC IIICVLSCFCLQCCYGMCLQISQRATERARVMIAQRIALIEEAVI CC PRIMA4 proviruses are flanked by 4-bp target site duplications. CC Long terminal repeats of PRIMA4 are deposited in Repbase Update CC as PRIMA4_LTR. They are 75% identical with MER4A and MER4C. CC PRIMA4 is an ancient autonomous endogenous retroviruses, CC one of the key-factors of the MER4I-group evolution. CC MER4I is a non-autonomous derivative of PRIMA4 (analogous to CC a relation between MER41I and PRIMA41). XX SQ Sequence 8270 BP; 2457 A; 1986 C; 1678 G; 2149 T; 0 other; tctggtaacc acggagggat cctgagtgaa agtgacccgg cctgcagcag ctcgcctctc 60 ggtgcttggt accggcttgg gcaccttata gcccaaaccg acaggacgat ttgctgaagt 120 ccgggacctc tttcctccag ggatccctga tcttccaaca tttttcagtt gggggtctga 180 ggtttatttg ctgttaaaaa aaaaacaaac aacaaaaaca acaaaaattc ctttttttgt 240 gggagttttt ccactcgctt ccatcaagga aggcgagctc gtctgcttct gcatcggcgg 300 agagcggtct tcagcttggg ccccatcact aggtaagaaa ctggtttggg attctgtctt 360 gcaaattctt ttaaatgact aaaattagca ttaacaacca gctggtgtta atttcctgct 420 tacacttaga gcgctcagaa atcatataat ttgtgtgatc attgttagtt ttgcttaact 480 gttttgttgt ttgtttctgt gtttgtgtgt gtgtatattt tgtgtgtgtg tgtgtgtgtg 540 tgtgtgtgtg tgtgtatgtg tgtgtttcgg tcctttcccc tatcggattt gaccaactcc 600 gaaccctcta gctcatgagt gtggaatctt ccactccgaa gaaataagag caccttgctc 660 ccctcagcct tttggggcat tctcaggcga ctgagaatca cgtgagggtg tctgggagaa 720 acgctcccta agacgtgcag cggctctaaa taggtttccc cctcagaaga acatacttag 780 ggtctaatct cagccggcag gtgcatataa ggagctgacc cctcccgcac cttgagcccc 840 tgacacattg tgccaggtag ccgcgacacg ggtggaccga accggttcag ggggtaacgg 900 ccctgaaaag ctaggtctgc aagcagcaca ttttgggtcc gacacacgtc ccgacttggt 960 caaatccgaa gaggaactct aaattatggg gaacgaggcc tctaagttgg ctaaaacccc 1020 agcagctgcg gaacataaag ttcccccttt agaaactctg gccgggtata tgcaaaatac 1080 ttatggtgaa tcgtcatgca aatatttaac caagtggacc actataacta aagcagattc 1140 taagttacaa tggcctaaat ggggatcttt tgagatgccc aaattagtgt acctgtgaac 1200 caggatggaa aacgcaggca caaaaactaa acaaccagaa tgggagagct actttcagtg 1260 gtatctggag agtagcaaaa ggggggaaga ccgcctcatc tccctacagg aggccaacaa 1320 acaacttaga aatgctaatc aagaactctc taatctttta tctctcttaa agaaatcctc 1380 ggaatccctt acttccccct tggcacctcc cccacctcca cctacacccc cactctaccc 1440 tgacctctct gaacttcccg gaccagatct gttccctcct tctcctgcat gttcaaatct 1500 accatcttct cctccttgtc taccactcgc tcaacagaag gcagttggga gtctgacttc 1560 aaagacccca ccccctgacg attccctgac agccccaatg gcagcctctc atctggaaga 1620 tgtggaaaag ggggaccctg cagggacatc tctcatgatc gccccatttc gggaacaacc 1680 agtaacaggt aggggaaccc cggcgattgt ctaccaaccc tggtcaaagg ctgaattacg 1740 aggcatagtt aaagaatttc ctgaccccca taaagatcca attgggtttg cccgagaatt 1800 tgagctcatt atcagaacct atgacccagg tcattcagac ctttatcagc tagtccacat 1860 gttggtctca gaagctaaag ctaaggaatg gctggaaaaa gcacaatggt cagaccctat 1920 agcagatttg acccctgaag gcccaataga gccacaacaa ccagccccca caaatccaga 1980 agacaggcac aaagatgcgc gggaacgagc gaccgctctg ttaaatatca ttccttcagt 2040 gttccaaagg gttgtggatt ggaataaaat ccaacaatgc cgccagaacc caaatgaatc 2100 agttttagat tatttcacac gttttgataa aactttaaga caatattgcg ggatgtcagc 2160 tgattgcttt gaaaacaata aaaatgatac attattaaat gcaaatttct taaacggact 2220 agatgatgat ttagccaccc ttgtaaaacg ccacatgaca aattgggcca cagccagaac 2280 taatgaacta gttaacttag ctgaccaatt atcccgcact atgataaaaa aggaaaaaca 2340 gaagattgcc cgagttatgc atttacagct aaagcaatta acttctcaaa cctctcagcc 2400 ccagaaagat tttaagctcc ctcggtctga gaactcttcc ctcccagtct gttactactg 2460 taaaagaccg ggacacctta agagggattg ccttaggctg aaacaaaaga aaaggcagga 2520 gaatgcaact caggaagact agggatgctc cgaggaagta caggggtttc acctctccaa 2580 atattctacc ctgacaaaca aattgggaga gattaatata ataataaacc atgagcttac 2640 aactgcctta attgacacag gcgcgactat atctctgata aatcccacct tatttagaaa 2700 ccccattcct cggagtaatg aaagaattaa catggtgggt gtgtctaata aaacaatctc 2760 atgttttaag tccaaacctg taccttacca tttcatcagg ttcagccccc ccgccgcagg 2820 ctctaagtgt gacacgctca gtaggtccca tatgtttctt atatgccctg gggcccctgt 2880 caatcttttg ggccgtgatc tcctcaacat ccataatgcc catatctctt tttcatcaaa 2940 aggtgaactt tttttagaat tggagccagg ggaccaaaaa taccaaatta aaaaatgtcc 3000 tgacaatgta ccacaattta gtactagtaa tgttaaaaca tcatcttgtg accaggaaaa 3060 taaaatggag acagagaagg aaatattagg ggagaagaga gaacattgga ataaagagca 3120 ggaaacagta aaactccttt tagcttcccc agtcttcctg ttaacaccag aagcggaaca 3180 cttgctcaag gatgtcccct cccacttatg gtctcagtca aatacagata tagggaaaat 3240 attctcagcc actccaataa aggtagagat aaacccaaag aaacccctac ccaaccttaa 3300 acaatatcct ctacgacagg aagccataga tggaattgcc cctatcatac aagattatct 3360 gaaaaagggg ctcattattc cctgcacaag cccctgcaac agccctatat tccctgtaaa 3420 gaaaccaagc gggagaggat ggagatttgt gcaggacttg agggcaataa acaatatcgt 3480 aatacccagg cacccagtag tccccaaccc acataccctt ctatcagcta tacccactac 3540 cagccagtat ttctcagttg tggatctctg cagtgccttc tttagtattc ctgtagatcc 3600 agacagccag tatttgtttg cctttacttg gaaagaatgg caatatacgt ggactgtaat 3660 gccccaaggg tatacagaaa gtcccactta cttttcccaa atattaaaag ctgatttaga 3720 ggatttaatt tttccccagg gctcaacact catccagtac gtggatgacc ttctcctttg 3780 ttcagacaca ctatcttcct ctcaggaaga tagtctatat ttactcaaac agttagccac 3840 caagggacac aaagtgtcca aagacaaact tcagctatgc ttaccgcaag ttaagtattt 3900 ggggcatatt atctcggtca aaggactgag tattaaccct gacagagtga gaggaatttt 3960 agctttccca atgcccgtca ctaagaaaca acttagagga tttttgggcc tggcaggcta 4020 ttgtagaaac tggataccaa atttctccct tatggctcaa cctctgtatg catacctaaa 4080 aaatgaacaa cctgatccca tcatgtggac tccagaggga caatcagctg tacaacaaat 4140 aaaggaaatt ctaactaatg ccccagcctt agggcaccca aactacaaat tgcctttctc 4200 ccttttcgta cacgaaattg gaggtactgc atccggggta ctgacccaga aacatggtga 4260 tcatcagaga cctataggct attatagcca acagctggac cctgtggctc gagggctgcc 4320 tccttgtgtg agagcaatag cagccacggc ccttctgtac aagtctgttg aagaaataat 4380 tatgggttcc ccccttacca tttttgtgcc acattctctt gagacccttc taaactctca 4440 tcatactcaa catctgtctg tcaactggtt agcctcttat gaaattttgc ttttatcatc 4500 tcccaatatt actatttccc gctgtaataa tcttaatccg gccactctct tgccgggccc 4560 ttccgacaaa acccctcatg actgtgttct gatgactgac cgacttctca cccccaggac 4620 agacctacaa gagatgccac tggataatgc tgagatagaa tggtatacag atgggtctta 4680 tttaagagga gaggatggaa attttagagc aggatatgct gtggtttcct tactagaggt 4740 aattgaagcc agtcctcttc cccaagccag atcagctcaa gcggccaaat tgattgccct 4800 gacccgagct tgtcaactgg caaaagacaa ggctgcaaac atttacactg acagccgcta 4860 tgcttttggg gttgctcatg actttgggat gctatggaaa gagagaggat atttaacctc 4920 ctcagggcaa cccataaaaa atggacaaca agtatcagag ctgttagaag ctattctaaa 4980 accaaaacgt ttggcaatta taaaaatccc aggtcactca aaattagaca ccacagaaag 5040 tcagggtaac caattggctg atgccacagc taaaagagca gcattcgagc caccagcccc 5100 aatccgggaa atggccataa aacccgaaac acttaaaaac atgttgaaag aaacccagag 5160 catagctcct acaaaagaga aatctacttg gaaacaggca gggggatact tgtctcccga 5220 aactgaaata tggtgtggac ctaataataa acccattatt ccaatgggat gtcaggtgcc 5280 ccttatggaa tatgttcata atctaaccca ttggaatcca gataaaatga tatcctggtg 5340 taaacaatat tactggaaac catccttcac agtggcacaa aaagtttact ctcgatgtgt 5400 tatttgtccc aaatataacc caggaaagcc cctccatggg gcccagggtc attttcccct 5460 tccggctgga ccttttgagg tatggcagct tgattttatc cagctgccat catctcaagg 5520 ttacaagtat gttttagtaa tggtctgcat gttttcccat tgggttgaag cttttccctg 5580 caggcaagca acagccatgg cagttggaaa aatcctacta gaaaaaatta tcccactgtg 5640 gggagtcccc tgtgaacttc acagtgacag gggaactcac tttactggcc aggttattca 5700 aaatatttgt aaaatttggc ccatatttca acatttccat tgtgcctacc atccccagtc 5760 ctcaggcctg gtggagagga ccaatggaat aattaaaaca caattggcta agttcacaga 5820 ggcatttcac ctcccctggc ccaaagcact ccccctagtg ctgcttacac tccgatccac 5880 cccttttgga aaacatcaac tgtcccctta tgaaattata acaggaaggc ccatgtgtat 5940 gggaacgaaa ataaccaatc caacttttct caagggagat atattgcaat attgtgaggg 6000 actcatttat caccttaaaa aaagccaaga tttggtaaag aattcctttc acagtgcgct 6060 ccctgaagat aaggtgcctg gtcacgatct gcaacccgga gattttgtct attggaaaag 6120 acatctaata aaggattccc ttcaaccccg atggaagggc ccataccagg tactattgac 6180 taatccatgt gccgcaaaat tagagggtat agactcatgg attcacatct ctcatcttaa 6240 aaaggcacaa cctcctgagt ggactgtaac tcccaccaaa gaccttcgcc tccagttcac 6300 taaacatcga ccttcaaccc aggattagaa gcagacgaca gctgttgtgg actgcttaaa 6360 cccaagacac aggaccaggc ctgtatacaa aggaacgcct atgtttattg tacaataacc 6420 attacaatta ttgtcctaga gatactggca actgctgtct tataaagaac agggcacttg 6480 ccttgtctga tttaacgtcc tttagtagct aaaatgaatt tcacaacctt gctattatta 6540 atcctatatc cctacacctt cttgccactg ccacccactg atgcccatga aacaaacctg 6600 tttctacaat gggctcagga ttatgcagac agattacaaa aggacgcctg ctggatatgc 6660 ggactcatgc ctctttccag tggctccggc ctgccatggt gggtatcccc cttccaaggt 6720 caggactgga tagaatacca aaaatttatt acatcacaga aatggtctgg tattcttagt 6780 gctggcataa caaaagacaa tatatataat tggcccatta aaaacactct taagaacaag 6840 ggacatggga aaagattttc aatggaaagg accagctcat tagctctcac tttagcatcc 6900 ccccaactaa aacagaaggt ggtaaccacg ccccaaacaa cggcccattt tcaaaatgga 6960 ataatgcaaa tttgggatgg atttatctgg ctcacccctt catttggcca actcagccaa 7020 aatgctcctt tgtgctggga gcaaagaaac cacaccaagg acctatggcc aaacagtacg 7080 agagatatgg ggtggatacc tggagaacgc tgtgaccaca ttatcatatt acaagacact 7140 gactggcatg ccaccgattg ggtgcagcga ccaggtattt attggctagc tccaaatggg 7200 acatattggc tatgtggcac taacttatgg ccgcggttac ctccagggtg gttaggacga 7260 tgttccctag gttatgcttg ggcacaagga cgagtaattc agaccctgcc aaaaccagca 7320 aacctttttc atttacaatc tcgttggaca cgttcggtat tccaatggta tgatcactta 7380 gcttcaatct ttgtaccaca gataggtatt gaagatgtta tatggcatat agaggcctta 7440 acgaattaca cccaaaaggc cctgaatgat agccgcatga gtatctcctt gctaaacaat 7500 gaggtcatgc ttatgaggaa agctgtgctg caaaaccgta tggctttaga tatactcatg 7560 gcagcacaag gggggacctg cgccatcata aaaactgaat gttgtgtgta tattccagat 7620 gaatcaaaga acataacccg acttatgact gatatgaaaa cccagataac caacctgtca 7680 gatccaaaac cctcactaat cgattggttg agtggttggt ttggatcctg gggaacttgg 7740 tggcagaagc tattgcttat aataggaata ataataataa tttgtgttct gtcctgtttt 7800 tgcttacaat gttgttatgg tatgtgcttg caaataagtc aacgcgcaac tgaaagggct 7860 agggtaatga ttgcccagag aattgctcta attgaggagg cagtaatata gcctgaccca 7920 gcttccaggt ttgctttcct tttgttgcta taaatctggc ctaggtccct atatatatat 7980 ttttctctct ttcttttttc ctttcctttt tccttctttc ctctcccttt tttttttata 8040 tattcatggg acaagatttc ctaggaatga gccttcctag cgacaatgga cgtgacctcc 8100 taggaatgag ccttcctagt gatgtgggac ctaaacttct aggaataaac catcctagca 8160 acgagaaacc agctcaaaaa aaggagagaa aaaacaacct gaggccaaga acccatattc 8220 cttttaaaat gcttttctcc aaaagatttt aaagaaaaaa aggggggaaa 8270 // ID ORSL-2a repbase; DNA; HUM; 342 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; ORSL-2a; Tip100. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-342 RA Smit A.F.; RT "ORSL-2a - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC rnd-4_family-1326 20/24% 8 bp TSDs; pos 1-187 & 229-341 (end) CC match pos 1-187 & 396-508 of ORSL-2b. XX SQ Sequence 342 BP; 117 A; 60 C; 70 G; 95 T; 0 other; cagggccgtt ttatccatta ggcactatag gcacagtgcc tagggcctac gagcttttca 60 agggcctacg aaaatgtttg agacctgaaa aaaaaattat tggctccaaa atacgaaaag 120 aaaactgcaa aatcgaaatt aataaatgtt taattaaatg tctacaaaac gtaacattat 180 gtcaactagt caactgcaac tcaactcaac tcttacatag ttatatataa attatattta 240 atgtgggatg tgggtgcatt ttaatatgtt tgatatgatg tggggtgggg cctccaaaag 300 taagagtgcc tagggcctac gaaggtctta aaacggccct gc 342 // ID HERVIP10FH repbase; DNA; HUM; 5102 BP. XX AC . XX DT 28-MAR-2001 (Rel. 6.02, Created) DT 28-MAR-2001 (Rel. 6.02, Last updated, Version 1) XX DE Internal portion of HERVIP10FH, an endogenous retrovirus flanked DE by LTR10F - a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; Nonautonomous; KW C type; HERVIP10F; HERVIP10FH; LTR10F; KW Nonautonomous endogenous retrovirus; env; tRNA Ile/Pro. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5102 RA Kapitonov V.V. and Jurka J.; RT "HERVIP10FH."; RL Direct Submission to Repbase Update (MAR-2001). XX DR [1] (Consensus) XX CC HERVIP10FH is an internal portion of the HERVIP10FH CC non-autonomous endogenous retrovirus. CC Average similarity between HERVIP10FH copies and the consensus CC sequence CC is 95%. Proviral copies and solo-LTRs are flanked by 4-bp target CC site duplications. LTR is deposited in Repbase Update as LTR10F. CC HERVIP10FH has been multiplied ~30 Myr ago. The consensus CC sequence CC was reconstructed based on multiple alignment of 5 copies. CC Overall, CC there are about 10 copies of the HERVIP10FH internal sequence CC present in the human genome. CC Main portion of HERVIP10FH (position 757-4550) is 95% identical CC to the HARLEQUIN retrovirus (position 842-4155). CC Terminal portions of HERVIP10FH (positions 1-278 and 2724-5102) CC are 95% identical with corresponding portions of HERVIP10F. CC HERVIP10FH has encoded the env protein only. Presumably, CC intragenomic proliferation of HERVIP1OFH was a result of CC its interactions with the autonomous HERVIP1F retrovirus. CC HERVIP10FH has not coded for the functional gag and pol proteins. XX SQ Sequence 5102 BP; 1671 A; 1038 C; 1149 G; 1244 T; 0 other; atttgggggc tcgcctgtga ttacattccc ctccgggggc ggtctctggt tctctctcgt 60 gaggaggtgc gccccgcccc cttgtggcag cctcaggggt gagaaatcag gacccaccca 120 gtgcgaggaa taacccgagc tctcagcaac gcggaaagaa actggccagc aacctagctt 180 aaaggatcct cacatactgt ggcgacgact ctgtgcacag accaaggaag gagaagccgc 240 gggagcgggt aaagtatttc cttggtggtc gggactaagg aaaaagccgc ggggcggtaa 300 agcattcctt ggttaggaca taccaaggag agagaaaccg caggggcggt aaagcattcc 360 ttagtcggga ctagggaaag aaagccgcag ggggtggtga agtattcctt agtcgggatg 420 tcttggaggt taaaaagagg tgagaaatcc ccattgaggg gagctgaatc tcaaaaagag 480 gtgagaaatc cccatggggg ggggttgaac ctcagaaaga ggtgagaaat ccccatgggg 540 ggcggggagt tgaacctcaa aaagaggtga gaaatcccca tggggggggt tgaacctcaa 600 aaagaggtga gaaatcccca tggagggggt tgaacctcac acaaacctcc ggtagtaaga 660 aaaatattca gaactcccct ttcctttctt ctcaggggaa gaaagagtag ctccactccc 720 gccggtccct cccctagggg aaggggaagg agaggggaga acagcagcat aagcggctgg 780 cagaggcagg gaaagaccag cagagaggaa agagagaaga gagagagaga gagagaggaa 840 gagagagaga gagaaagaga gagagaggga gagagagaga caaagatgga gtcgaagaga 900 gagagaggca gagagaggaa gagacagaga gacaaagagg gagtcaaaga gagagagaga 960 gacagaaagt caaagagaga aagaaagaga gagatagaag tagtaaagag aaaacagtgt 1020 accctattcc tttaaaagcc agggtaaatt taaaacctat aattgataat tgaaggtctt 1080 ctccatgacc ctataacact ccaataccac cttgttgtca gtgtaaacaa gggcgtagcc 1140 cgaaagcact gaggccactg acaacccata gccttcctat caaaaatcct taacccagta 1200 acccgcggat ggcccaaatg cattcaatct gtagcggcaa ctgctttgct aacagaagaa 1260 agtagaaaaa caacttttag aggaaacctc attgtgagca cacctcatca ggtcagaact 1320 atcctaagtc caaaaaaaaa aaaaaaaaag caaaaaggta gcttactgac tcaagaacct 1380 taaagtataa ggctattctg ttagaaaaag atgatttaac attaaccact gaaaattccc 1440 ttaacccagc aggtttccta acaggggatc taaatcttaa ttaccgtaca aaggtccgac 1500 cagacctagg aggaactccc ttcaggacag gacgatagat ggttcctccc gggtgattga 1560 gggaaaaaga cacaatgggt attcagtaag tgataaggaa actcttgtag aagcagagtt 1620 aggaaaattg cctaataatt ggtctgctca aacgtgcgag ctgtttgcac tcagccaagc 1680 cttaaagtac ttacagaatc aggaaagagc catctatacc aattctaagt taatatggac 1740 tgaacaaggt cttattaata gcaaagaata attgaaatcc caaacttaca aggttttcaa 1800 caaaagtaaa gtttgctaaa agttaacagt gtaacatgta ttatcctaac ttctaatctt 1860 gtggccttag acagtctagt ccacagacat gaaggaagtt cactttggaa aagaatggtt 1920 atcatctttg agaaaaaaaa aggagggggg gggagaattt atgtaaaaag gaatgttata 1980 tggtaaattc ttgtcctaaa ataaattaac tggttgttta aagaaaggga tgtttgcaac 2040 aagtcagaaa gttgaggcat gtcaaagaat tgtctgtaaa agtcgtgaaa aaaaagttat 2100 aaaagggaat ttatgcaaga aatgttgtat aatttaaaag taattaggcc tcctgaatgt 2160 aaaactattg aagaaacagt ttatgtgcaa ggtgtataag gaaagtaaaa tatacctttg 2220 gtaaaaggat tataaggagg cataagaatg tggattttta cctacattaa aaggttaaaa 2280 aattttttgt tttaaaggtt taagcaagtt ttgaaacgtt aattgtaaag gaaattctgt 2340 gtgtaaacat attggctaaa gttaaagggg tatcatccag tttttctgtg aactggacat 2400 taaaataaaa gcacaacagg tttttcttaa agcactaacc tgctctttaa caaaaattat 2460 aaaaggttaa aaagagtcta taaaaatctt accttatggt cagacattaa aattggataa 2520 atatgtctac aaggttttat taaaattgag tttaacatta ataacacact aatataaagg 2580 tgaaatttag cttatctggt ataaaaatca tacaggaagc attgtcaaat ataaaatggt 2640 gtttggcttt ctttggtcta aaaactaata aaaataggtg ctaaaggaaa tttctcagta 2700 agaaggcacc aaggactata aagtccactg ctgatgtccc cacatttaaa acaaaagatc 2760 agtttcttag aaattatata cttggtttat cttccacttt cctttccctc aaaactaaaa 2820 gtcttttagc acaggtacca cccctagaat ttctggtaaa ccagcaccag cctgaggatc 2880 acgttctcat caaagggtgg aaagaaggaa aactcgagcc agcctgggaa ggaccctacc 2940 ttgtgctgct aaccaccgag actgctgttc ctacagtgga aaggggatgg actcatcaca 3000 cccgagtcaa gaaagcgccg ccccctccag agtcgtgggc catagtccca ggggaaaacc 3060 ctaccaaact aaagctaaga aaaatttaac tctctttcat ctattctatt actctttctt 3120 ctttcctcgc tctattgctg accatctagt tattaacata accaagtcaa ttttgcctca 3180 aactattgca tttaatgctt gccttgttat accctgtggg gacttgccaa gtcaaagaca 3240 gctctctact tcagaaaagt acctctgtcc ctcctgactc tcctcagact gggcattagt 3300 gaattgggac catttaatcc ggggagattt tggtaaagac cccagtgtca accaggagtc 3360 ttgctcccca atgtagagct tttatgctgt agttggtcca acgttctgtg gaccactaaa 3420 gagcaaggat ggactgcccc aactggtttt tgtaatttcc taaaaccata cattcatttt 3480 actagaggga cagccatccc ccaactgtca gctaaaccag tgcaatccta tacaggttat 3540 tatctcaaac cctcaaagtt cttccccttt tctaagccgg ttcccttctt taagccggtt 3600 ttatggtatg ggggctgagg tttcagggac agaccctatt ggattctttg aaatgcgttt 3660 ctttgatccc ccaccgcctg caccttcctc taagccttct tccaaaacct ctcacaacgg 3720 aacaattgct cctcctccat ctaacgacaa gaccaagata gctatcgtag aagttaaaga 3780 cttaaaacaa actttggcaa ttaagacagg ataccaagat gcaaatgcct ggttggaatg 3840 gatcaaatat tccatccgca cgttaaacaa aagcaattgt tatgcttgtg cgcacagcag 3900 gccagaggcc cagattgtcc cctttccact agggtggtcc tccagtcgac cgggcatggg 3960 ctgcatggta gctcttttcc aggattctac agcctggagt aacaagtcat gccacgctct 4020 ctctctgcta tatcccaaag tccggcaccc tgcgggtcag cccccaaggg ccatccagct 4080 tccatctccc aacactaagt tcacttcgtg tctctcacga cagggaggaa acttagcatt 4140 ccttggagac ctgaagggat gcagtgagct taagaatttt caagagctta tcaatcagtc 4200 agcccttgtt catccccaag cggatgtgtg gtggtattgt ggtggacctt tactggacac 4260 tctgccaaat aactggagtg gcacttatgc tttagtccaa ttggctatcc cttttaccct 4320 ggcatttcat caaccagaaa aagaaaaaat aagacatcat aaagcgagag aagcccctta 4380 tgggtctttc gactctcacg tctatttaaa cgcaattgga gtcccacggg gaataccaga 4440 tcaatttaaa gcccaaaatc aaatagctgc aggatttgag tcaatatttt ggtgggtgac 4500 aattaataaa aatgtagatt ggataaacta catctattac aaccaacagc gatttattaa 4560 ctacactaga gatgttgtta aaggaatagc tgagcaatta ggggctacta gccagatggc 4620 ttgggaaaat aggatagcct tagacatgat attagcaaaa agaggaggag tttgtatcat 4680 gattaaaact caatgttgta ccttcatccc aaacaacacc gcccctgatg gaagtataac 4740 aaaggcattg caaggtctga ctgctctgtc caatgagtta gccaacaact caggggtaaa 4800 tgaccccttt acagaatggc tagaaaagtg gttcggtaaa tggaaaagaa taatagcctc 4860 aattcttact tccctcgcag ccgtaatggg tgtacttatt cttgtcaggt gctgtgtcac 4920 accatgcatc cgtgggttgg tgcagaggct cataaaaacg gcacttacta aaacctccct 4980 taactatcct ccaccttatc cagagaagct tcttcttttg gaaaatcaag cagaacaact 5040 aagccaagac atgttaaaaa gtttgaaaag aaagagctgt aaggaaatgc aagaggaggg 5100 gt 5102 // ID MER72B repbase; DNA; HUM; 768 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Putative long terminal repeat of endogenous retrovirus; DE MER4I-group. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER4I-group; KW MER72; MER72B; Repetitive element; putative LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-768 RA Jurka J.; RT "MER72B."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC Similar to MER4, MER49, LTR59, LTR51, LTR31, LOR1I and MER66I. CC ~82% similar to individual sequences. XX SQ Sequence 768 BP; 206 A; 212 C; 131 G; 209 T; 10 other; tgagaaataa aaataaaatc ctaagccccc caactgactg aatagacccc ctcttgggcc 60 aaggggaccc cagagaaacc ttaaaaactg agttktccyg gccatgatgg gatgggaggt 120 cagacatgcc tcagtatgcc ccttccttat taacctttaa ccagaattct ttcctaagga 180 gtaagcagaa accagctctg gaaaacaaga aatggatgac tcattccttt atcgccttta 240 gccaatcatc tgaggccacg accagactcc ccctccctct ttgcagtttc gacatgacag 300 ctcaccagtt tcacaatgca tcccttccta aaaactgacc accatctctg gactggtttt 360 ggcygactta nrgaggatgc acagtgaggg ttttcrtgtc cycctctgct tcaccttttg 420 acatcagagg gccaaaaact ccaccctyag atcatgctaa taccnccatt ttttgaacat 480 gtgacccatg aagaggcatg aagctcaatt gcacatgtgc atgtttctcc tttcataaat 540 attcatgact cctcctatag cttattaaat atgtatattt agccamccca ttcagcataa 600 attcctgttc cttttacccc tccctcaaag tgctttgctc tcagcttctg ccagaggcta 660 tgcttcccag cctgtgggat ggccagcctg caggctgcaa ccctttatga gaaataaagc 720 tctcctttcc aaatttataa acctcatgat tcttcagttg acatacca 768 // ID FORDPREFECT_A repbase; DNA; HUM; 508 BP. XX AC . XX DT 27-DEC-2001 (Rel. 6.11, Created) DT 27-DEC-2001 (Rel. 6.11, Last updated, Version 1) XX DE Primate FORDPREFECT_A repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; AcHobo family; KW DNA transposon fossil; FORDPREFECT_A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-508 RA Smit A.F. and Hubley M.R.; RT "A few more common, ancient interspersed repeats in the human RT genome."; RL Repbase Reports 1(4), 21-21 (2001). XX DR [1] (Consensus) XX CC FORDPREFECT_A is an internal deletion product of FORDPREFECT. CC It had (at least) 41 CpG dimers, basically representing a mobile CC CpG island. CC Average divergence level of copies to consensus is 27% (22% CC outside CGs, ~25% substitution level). XX SQ Sequence 508 BP; 92 A; 168 C; 178 G; 69 T; 1 other; cagggccgcc cctagggtgt gcggggccct gggcaaatat tttttgcggg gcccctgtct 60 atataaacaa tttgagtcac ccnaaatcag catgtcagca ccattctggc ggcccaatct 120 catgcgatcc cgcgaaagaa ataccgcgcc ggccagcggg agcgatctgc tcgccaggcc 180 gccctcctgg aaccggggcc cggccacggg gccccgggac gaccccatag gcatgagtcc 240 cggagctcct cggggcatct ggtcgacccc acacatgggg tagagggtcg gagagtaccc 300 cgaaggggag aaacggggac cagggcccac gcgggtcccg gtccgggctc ggggcgccct 360 gcccggatgg cactgccggc cccggccggt cccaggcacc ggagggggac ttagaaaatt 420 tcgaggaagg cactccaaag cacggggtcc cctgaggcac ggggcccggg gcaggggccc 480 cgcttgcccg ggtctaaggg cggtactg 508 // ID MLT1E1A repbase; DNA; HUM; 698 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE LTR from retrotransposable MaLR element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; MLT1E; KW MLT1E1; MLT1E1A; MLT1E2; MaLR family. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-698 RA Jurka J.; RT "MLT1E1A."; RL Direct Submission to Repbase Update (JAN-2001). XX DR [1] (Consensus) XX CC This subfamily is 89% similar MLT1E1. Most differences CC are in the internal section. Keywords indicate other CC closely related MLT1E subfamilies. XX SQ Sequence 698 BP; 201 A; 146 C; 172 G; 172 T; 7 other; tgggcagaat tctaagatgg cccccaagat tcccacctcc tggtrttcat gccttgtata 60 atcccctccc cttgagtgtg ggtaggacct gtgaatatga tggatatcac tcttgtgact 120 atgttatagt atatggcatg aagggatttt gcagatgtaa ttaattttgc agatgtaata 180 ggtccctaat cagttgactt tgagttaatc aaaagggaga ttatcctggg tgggcctgac 240 ctaatcaggt gagcccttaa aaaagncntc taaatccgtc tngaaagaga agaactaaga 300 gagattctcc tgctggcctt gaagaagtaa gctgccatgt tgtgangagg gtctgtgaag 360 agggccacgt ggcaaggacc tgagggtggc ctctaggagc tgagagcaat ccctggccag 420 ccaacagcca gcaagaaaat agggacctca gtcmtacagc tgcaaggaam tgaattctgc 480 caacaacctg aatgagcttg gaagaggatt ctaagcctca gatgagaaca cagccctagc 540 caacaccttg atttcagcct tgtgagaccc tgagcagagg acccagctaa gctgtgccca 600 gactcctgac ccacagaaac tgtgagataa taaatgtgtg ttgttttaag ccactaagtt 660 tgtggtaatt tgttatgcag caatagaaaa ctaataca 698 // ID LTR77 repbase; DNA; HUM; 622 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR19; KW LTR20; LTR25; LTR27; LTR28; LTR77; MER4I-group; MER52; MER61. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-622 RA Jurka J.; RT "LTR77."; RL Direct Submission to Repbase Update (OCT-2000). XX DR [1] (Consensus) XX CC Partially similar in the descending order to: CC LTR20,MER61C,MER61B, CC LTR27B,MER52A,LTR25,LTR20B,LTR27,MER52B,LTR19C,MER52C,MER61,LTR28, CC LTR1C,LTR1D. 81% similar to individual sequences. XX SQ Sequence 622 BP; 168 A; 152 C; 139 G; 157 T; 6 other; tgagagagga ggcagttaga ggctggctag gcagatagag agggagggtc ttgggagaaa 60 aacaatgttc acaggaacac ccatgggacn gcacctgcac tgcctctgca gctagcagga 120 agaaatgtgg ttaagaactt cctcttatgc caggatgttt gctcagaagg gactgtccca 180 acttaggygc aggtgcaata aatcaaccta aatgtcctta acttgaccca gctcattata 240 tcattaacat gacattagca ttgtggtttt agcccccatg ggttttgctt aggcactcat 300 gggtaataac caagatggag tcactatggc caacccyagg catgcgcaga tgcaacaccc 360 ctaggaggga actttacccc tcccatttag gcaraaccca cagaagactt ccttgttttt 420 gccacataaa agatayaccc agaactcagc cccatttctg gcaacctgct ttcaggtccc 480 ctctctttgc tgagagcttt nctgttgctt aataaattct actctgcctt actcactctc 540 tggtgtccac gtgccttatt cttcttggtt gtgggacaag aactcagacc ttgctaaact 600 aaggagtaag aagactgcaa ca 622 // ID L1MB4_5 repbase; DNA; HUM; 1795 BP. XX AC . XX DT 23-APR-2001 (Rel. 6.03, Created) DT 23-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE 5' end of L1MB4_5/6 subfamily: a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1MB3_5; L1MB4_5; L1MB6_5. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1795 RA Jurka J.; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC 82% similar to L1MB3_5. XX SQ Sequence 1795 BP; 695 A; 327 C; 338 G; 391 T; 44 other; aaaggtagtg atatcagcaa aaatggtaga gtaggcagct ccaagctccy atccctccac 60 agaaacatta aaaaaaaaaa gcagaaactg tcagaaccaa ctttgtcaga actctggaaa 120 acagtcaaag gtttacagca accaagtaaa tgctgaatca agaaaaaggc aacttcaaaa 180 tggtaggaaa gttttgtggc atttttactt gcccttgccc cacccccttc cccagcttgg 240 tggcagtctt gaagatagag cagcagatag cagcccatat tcccagtgtg ggagcccctg 300 gtccctggtt ctagagggag cagagcagac cttattcaca aattattgtg tttgtctgtt 360 ctaacctgtc tgggggctac ctgaaggact gatgcaaggc acttgtctnt gtttcaccta 420 actcagaact cactcagggt ggaaaagcag taggcattgc tcaaaaacat tgtaaggcaa 480 ayaaaaaacc tacagacacc tggggcaaaa gattattagt tgagacatac aataaagacc 540 acctaaagcc tgggaggaaa agctggggag agagtttctt tgggaaatta ggacattcaa 600 aagcacccca tgtatactgg ggaatttaga aagccatgca catgcccagg gcaagatgca 660 tgctcagaaa agacctgaga agaccctaag ctttcacctc tggctgatct cttaggctca 720 gtgcaagcct ggctaagtgt tgaaggggag tgccccagca cagagccaat ctgcaaagac 780 tgggagagrt gttttttttt gttttttttt gtttgtttag ctnctggcat tcaaggaaat 840 ctctgtcana ncactancat gcttatctca ttgtctcttg ccnngccttt gttcntgngt 900 natgcctttt ctcctggcat tcaagvaaat aaagaaatct catgtcaaaa aaacactagc 960 tgaacacaag ctaaggaaca gagacttcag tgaccacaca tgacaaggaa tacagtcttt 1020 acaaaaatag tttggaaaag tcactaaaca aatagactac anaaataaag ccttcaacaa 1080 tcaaaaaaaa caaaccctgg ggaaannngg argaraatct gatttccaga gttaccacca 1140 ttataatatt caaatgtcca gttttcaaca aaaacaacaa naaaaatccc acaaggcata 1200 caaagaaaca ggaaagtatg gcccattcaa aggaacaaaa taaattgaca gaaactgtcc 1260 ctnaggaagt ctagacattg gacttantag acaaagactt taaaaccaac tgtattaaat 1320 atgctcaaag agctaaagga aaacatagac aaagaactaa aggaaatcag gaaaanaata 1380 tatgaacaaa ataaagagag aaattataaa aaggaaccaa acagaaattc tggagctgaa 1440 aagtacaata actaaaataa aaaatnaact agaagakatc aaaagcagat tttaacaggc 1500 agaagaaaga attancnaac ttgaagatag nacaattgaa attayykagt ctraagagna 1560 gaaagaaaaa agaataaana aaaaatgaac agagcctaag rgacctgtgn gacatcatcg 1620 agtatancaa catatacatt atgggaatac aaggagaaaa gagagnaaaa gaaagaatat 1680 ttaaataaat aatggccaaa aattcctaaa tttgatgaaa gacatgatnt atanatcnaa 1740 agccaatvaa ttccaagtag aataaactca aagagatcca cattgavaca catta 1795 // ID PABL_A repbase; DNA; HUM; 660 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; subfamily PABL_A. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; PAB; KW PABL_A; PABL_B; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Fukagawa T., Sugaya K., Matsumoto K., Okumura K., Ando A., RA Inoko H. and Ikemura T.; RT "A boundary of long-range G + C% mosaic domains in the human MHC RT locus: pseudoautosomal boundary-like sequence exists near the RT boundary."; RL Genomics 25(1), 184-191 (1995). XX RN [2] RP 1-660 RA Smit A.F.; RT "PABL_A."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX SQ Sequence 660 BP; 200 A; 148 C; 142 G; 169 T; 1 other; tgtggcaggc caggtctcac taacacaggc ctccataaca actgtttcag cactgactga 60 gtggttaagt taaatattaa aagctganag agccagtgcc cttatacaaa ggctggaatg 120 taacaaaagc ccaccaagag ttttgcctag gcctttcctg ggccttgaag catgacaaaa 180 taacgaagga attcttaaca ggacccgttt aggattaaac aagttttact gggggtctga 240 agaaactccc caggcctcca caaacaagtt tattgggggt ctgaaggaac tccccaaacc 300 tccgtgattt agcaggagac aagataaggg taatcacccc agcacctgga cccatttaga 360 ttaagtaaat ttactgaggc tccagaggaa ggtcttcagg actcagacct tagttataga 420 ttagaagaag ttaatcactt atgtctttag atgaatgcac acttacacgt agacatatag 480 cttagaaggt atataagctc tggaaaactt tgtaattttg agttggtctg gtgataattt 540 ccaggccttc tccctgtaac cggttacaga aataaaaact ctcttcctcc ccagttcatc 600 tgcatctcgt tattgggcca cgagaaatag cagcccgacc ctcagtttgg tccgggaaca 660 // ID THE1_I repbase; DNA; HUM; 1580 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 07-AUG-2009 (Rel. 5.06, Last updated, Version 5) XX DE THE-1B Mammalian LTR retrotransposon internal sequence - a DE consensus. XX KW LTR Retrotransposon; Transposable Element; gag; THR; KW THE1-internal; THE1BR; THE1_I. XX NM THE1BR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Paulson E.K., Deka N., Schmid W.C., Misra R., Schindler W.C., RA Rush G.M., Kadyk L. and Leinwand L.; RT "A transposon-like element in human DNA."; RL Nature 316(6026), 359-361 (0001). XX RN [2] RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL PhD dissertation, Univ Southern California, 1995. XX DR [2] (Consensus) XX CC Internal sequence consensus for THE1B retrovirus-like element CC (MaLR). The ORF from bp 49-1401 encoded a protein derived from an CC ERVL-like GAG protein (see MLT1CR). On average 9% diverged from CC consensus. XX SQ Sequence 1580 BP; 407 A; 335 C; 485 G; 353 T; 0 other; gtaaattggt accagtagag tggggcgctg ctgaaaagat acccgaaaat gtggaagcga 60 ctttggaact gggtaacagg cagaggttgg aacagtttgg agggctcaga agaagacagg 120 aaaatgtggg aaagtttgga acttcctaga gacttgttga atggctttga ccaaaatgct 180 gatagtgata tggacaataa agtccaggct gaggtggtct cagatggaga tgaggaactt 240 gttgggaact ggagcaaagg tgactcttgt tatgttttag caaagagact ggcggcattt 300 tgcccctgcc ctagagattt gtggaacttt gaacttgaga gagatgattt agggtatctg 360 gcggaagaaa tttctaagca gcaaagcgtt caagaggtga cttgggtgct gttaaaggca 420 ttcagtttta aaagggaagc agagcataaa agttcggaaa atttgcagcc tgacaatgcg 480 atagaaaaga aaatcccatt ttctgaggag aaattcaagc cggctgcaga aatttgcata 540 agtaacgagg agccgaatgt taatccccaa gacaatgggg aaaatgtctc cagggcatgt 600 cagagatctt cgcggcagcc cctcccatca caggcccgga ggcctaggag gaaaaaatgg 660 tttcgtgggc caggcccagg gtccccgtgc tgtgtgcagc ctagggactt ggtgccctgc 720 gtcccagccg ctccagccat ggctaaaagg ggccaacgta cagctcgggc cgtggcttca 780 gagggtgcaa gccccaagcc ttggcagctt ccacgtggtg ttgagcctgc gggtgcacag 840 aagtcaagaa ttgaggtttg ggaacctccg cctagatttc agaggatgta tggaaacgcc 900 tggatgtcca ggcagaagtt tgctgcaggg gcggggccct catggagaac ctctgctagg 960 gcagtgcgga agggaaatgt ggggtcggag cccccacaca gagtccctac tggggcactg 1020 cctagtggag ctgtgagaag agggccaccg tcctccagac cccagaatgg tagatccacc 1080 gacagcttgc accgtgcgcc tggaaaagcc gcagacactc aacgccagcc cgtgaaagca 1140 gccaggaggg aggctgtacc ctgcaaagcc acaggggcgg agctgcccaa gaccatggga 1200 acccacctct tgcatcagcg tgacctggat gtgagacatg gagtcaaagg agatcatttt 1260 ggagctttaa gatttgactg ccccgctgga tttcggactt gcatggggcc tgtagcccct 1320 ttgttttggc caatttctcc catttggaat ggctgtattt acccaatgcc tgtaccccca 1380 ttgtatctag gaagtaacta acttgctttt gattttacag gctcataggc ggaagggact 1440 tgccttgtct cagatgagac tttggactgt ggacttttga gttaatgctg aaatgagtta 1500 agactttggg ggactgttgg gaaggcatga ttggttttga aatgtgagga catgagattt 1560 gggaggggcc aggggcggaa 1580 // ID MARINER1_EC repbase; DNA; HUM; 721 BP. XX AC . XX DT 27-MAY-2008 (Rel. 13.05, Created) DT 27-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Mariner-type DNA transposon from horse: consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW Autonomous DNA transposon; MER44; TIGGER7; MARINER1_EC. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-721 RA Jurka J.; RT "Mariner-type fossil transposon from horse."; RL Repbase Reports 8(5), 599-599 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 721 BP; 214 A; 119 C; 155 G; 233 T; 0 other; cagtctgttc tgctacaaca tgtgtttctt taatgcaaat tagctcatat gtgattggta 60 aaatagggga atgatgatca gtataatgca gaagttgtgt tggttcatac acaatttttc 120 ccagcatgtt aatgttttga agcaatcagg ggcaagcttt ctcacaatta aagagaaagc 180 cttagcaata tatgaagacc ttaagaaaaa gctgaaaatc tacagaagtg ccttccttta 240 gtgcaagtag ttgctattac ttcaagaact gctatacttt ccactatgtt aagctatctg 300 gtgaagctgc gagtgcagat gaagaagctg caaagacatt tcccctgtat taaaaaaatg 360 gattaatgaa gaaggctaca ccctggatca gatttttaat tttgatgaaa ctggtctcta 420 ttagaagcaa atgccctcaa ggacctacat ctcaaaggag gaagcatgag ccccagggtt 480 taaggctgca aaggattgac tgactgatgc tgggtgcaaa tgccagtgga gatttaactg 540 tgctagtatt tatttttatt aggattgtta tttgtttttg ttagtgctct ggttacaaag 600 ttccataggt tttgagtggt ctgccccaac cctatttttc ccataagccc tgttattttt 660 agtgtgtaat tttgcagaat gtgaggtttt tcaggaatac atgttatagc agaaatgcct 720 g 721 // ID Charlie25 repbase; DNA; HUM; 2524 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE hAT DNA transposon from mammals. XX KW hAT; DNA transposon; Transposable Element; DNA; hAT-Charlie; KW Charlie25. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-2524 RA Smit A.F.; RT "Charlie25 - hAT DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC 14 bp TIR. 29% subst level in borEut13. Complete ORF 384-2366 CC encodes a transposase closest to that of Charlie3 (44% CC identical, 62% similar). Pos. 7-43 are almost identical to the CC same pos of Charlie1a. XX SQ Sequence 2524 BP; 766 A; 486 C; 556 G; 715 T; 1 other; cagtgtttct caaagtgtgg tccgcggacc actggcggtc ccccgcggtt ctatcaagtg 60 gtccgcaggc ggtttggcgg tttcagagga aaaagcgatg aaacaatttt gttcacatac 120 atttcacaaa tttgaaatgt aagattaatt atgattttca cagaaatccc gttacgttct 180 taataatcgt tacgttctta aaggttgcgc atgtgctaca aggactgcgt tggtcagttc 240 gtctcggcta acattcagtt aacagggtgc agttcgtctc ggctaacgta ttttcacgtc 300 atttgcatgt tattgtttac gtttgttaaa tttgcatttt tcgttgttac tattgtgttg 360 tattatatcc ccaattcaca aaaatggatc aatggctcaa aagtggttca ttgaagcgta 420 aaagtagtga tgaaaatagt aacgtaaata ctacaactca gaataacgtc ataaacgtaa 480 atagtgaaca ggactccagt gcgaatatag aatgtgaatc tgtatgtgct gggacaagtg 540 aatctgcgag tgtgatgatt tcgcacaagc agccgaaaaa gaaaagtgcg aataggaagt 600 acgacgatga atatctgaaa attggatttt attggaccgg cgatccattt gcccctagtc 660 cccagtgcgt tgtctgttat gaaactttgt caaatagtgg catgaagcca tcgaagcttt 720 cgcgtcattt tcaaacaaag cacagtgacc tctctggtaa accaatcgag tttttccaga 780 acaagcgcaa aataatgctt tccagtacga aattgatgaa ttttgtcgct aaaggcagag 840 aagagaccaa aactacagag gcatcattca aagttgcact ccttatagca aaaacaggta 900 caagtcacgc tattgccgag aagcttgtaa aaccagccgc aaagttaatg acaaatatta 960 tgctcggaga gaaagcagaa cgagctattg gcaaaattcc tttatcaaat gacactgttg 1020 gacgtcgcat aatatcaatg gcatacaatg tggaagagca attactatca cgtgtgcgtg 1080 ctagcagata tttcgcttta cagttggacg aaaccactga tgtgcagagt atgaatcagc 1140 tcttggcata tgtgcggtac atatatgagg gagaagtgct cgacgacttt ttgttctgtt 1200 tatcactgaa aacccatgct acaggagaag atttttttta tttagttaac gattattttg 1260 tgagccgtga tgtagactgg aaaaggtgcg ttgggatcag tactgacgga gcaccagcta 1320 tgtgtgcagc aaggaagggc gttgctacgc gaataaaaga ggttgcacct gaatgccaat 1380 ccacacactg ctttattcac agagaacagt tggcggtcaa caatatgcct cctgatcttg 1440 attcagtgtt gaaggaaata gtgaaaattg tgaatacgat caaatcgcgg ccactgagtg 1500 tacgtctttt cagcgtgctg tgcgaagaaa tgggcagcga gtacaagact ctgcttttcc 1560 acactgaagt acgctggctg tcgaggggaa aggtgctcac acgagttttt gaaatgaggg 1620 atgagataaa aacatttctt catgacactg ataatgccag taaagaccat ttctacgatt 1680 tcaagtggct tgctcaagtg gtatatctca gcgatatatt cagtatcttg aatagcctga 1740 acctatcact tcagggccga aatatcacga tttttaatgt tgaggataag atatcaggat 1800 ttcttaagaa gaccgaactg tggtgcaaac ggctcgatcg ccgagagttt gactctttcc 1860 caacacttga tgattttctt cactcgtcgg agaaagaaat cgatgacgta ttattgggca 1920 tatttaaaaa ccacatccaa atgctgcaac agaacatgaa gaaatacttt ccagagccga 1980 atgcaaccaa agagtggatt aggaatccat tcgccgctat ctcccaagtt gaaacattca 2040 accttccagc ttttgagtgt gatgtgctcg tcgacttagc gtccgacgga gcgctgaaag 2100 tagtcttcag tgagaaatct ctccataatt tctgggtcca tgttcgatcc gaatatccag 2160 aactatctga cagagccacc aaacacttgc tgccattccc gacgacctat aattgtgagt 2220 taggattttc taatttagta gaaataaaga gtaagaaaag aaaccgaccg gatgtggaac 2280 ctgacctacg gctcaagcta tccgtcatcg agccggatat agataccttg gtgaaagatt 2340 gcaaacaata tcatccctct cactgatatg aaacaattat tattattatt attattttta 2400 taatttanat tttattttta aaattgtgat gaatattttt aaaatttacc taaaattggt 2460 ggtctgcgtg tgcgccgaac gcccattaag tggtctgcgg atgccgaaag tttgagaaac 2520 actg 2524 // ID HERVFH19I repbase; DNA; HUM; 7719 BP. XX AC . XX DT 31-AUG-2000 (Rel. 5.07, Created) DT 15-MAR-2001 (Rel. 6.02, Last updated, Version 2) XX DE HERVFH19I is an internal portion of endogenous retrovirus DE HERVFH19 flanked by LTR19 - a consensus sequence. XX KW Endogenous Retrovirus; Transposable Element; HERV.F; HERV19I; KW HERVFH19I; LTR19; Phe-tRNA; RT; env; gag; integrase; KW internal sequence; protease; Retrovirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Tristem M.; RT "Identification and characterization of novel human endogenous RT retrovirus families by phylogenetic screening of the human genome RT mapping project database."; RL J. Virology 74, 3715-3730 (2000). XX RN [2] RP 1-7719 RA Kapitonov V.V. and Jurka J.; RT "HERVFH19I."; RL Direct Submission to Repbase Update (AUG-2000). XX DR [2] (Consensus) XX CC HERVFH19I is an internal part of the HERVFH19 endogenous CC retrovirus CC flanked by LTR19. CC HERVFH19I copies are ~94% identical to the consensus sequence. CC Internal portions of endogenous retroviruses HERV46, HERVFH21, CC HERVH48 and MER50 are distantly related to HERVFH19I: CC ---------------------------------------------------------------- CC start end start end identity CC ---------------------------------------------------------------- CC HERVFH19I 1 142 HERV46I 1 160 d 0.69 CC HERVFH19I 664 831 HERVH48I 439 609 d 0.65 CC HERVFH19I 832 941 HERVFH21 577 685 d 0.70 CC HERVFH19I 1240 1631 HERV46I 1060 1451 d 0.61 CC HERVFH19I 1677 1934 HERV46I 1452 1698 d 0.67 CC HERVFH19I 1993 2120 HERVH48I 2001 2113 d 0.68 CC HERVFH19I 2254 2903 HERV46I 1959 2604 d 0.62 CC HERVFH19I 2911 3363 HERVFH21 2607 3059 d 0.67 CC HERVFH19I 3471 4058 HERVFH21 3176 3780 d 0.61 CC HERVFH19I 4301 4543 HERV46I 3973 4215 d 0.68 CC HERVFH19I 4577 5369 HERV46I 4216 5026 d 0.63 CC HERVFH19I 5580 5855 HERV46I 5238 5491 d 0.68 CC HERVFH19I 5891 6255 HERV46I 5526 5865 d 0.62 CC HERVFH19I 6922 7371 MER50I 6227 6685 d 0.60 CC --------------------------------------------------------------- CC A recombination between HERVFH19 and MER4I-related retroviruses CC has formed HERV19, a chimeric non-autonomous retrovirus [2]. CC Transposition of HERV19 was governed by HERVFH19-like CC autonomous retroviruses [2]. XX SQ Sequence 7719 BP; 2096 A; 2404 C; 1236 G; 1982 T; 1 other; tttggtgcca aaacccggga cgggtgctgg gggcagaggc tctcttgcaa cccaggaagc 60 agtgggcaac ggcagctcat ctcgagttaa ctcctggatc ctgagagtct ctggccaccc 120 gccccgtctt ttctctcact tcacttttcg agcgatttgc atgaggaaga caactaacct 180 gaaggggact gcgaggctct ggccggggct actccccagt gggctctcaa aaccctcagg 240 tctcgggaat ccacctccaa ccacccgcaa tgggtatttc cctctctatc cctctctccc 300 tcttcctccc ttctctctct ctctctctct ctctctctca attcctcatg cggctccagt 360 ccaggaggcc ctttgccaat tccaactgga acatccaaca tcggacacta atccagccaa 420 ctggtaagat ctgccctcct ctggctttct cacggtaccc gggaaagtca ggtctgccgt 480 cctggtcctc ggaggaccag cgggactaag ctacaagaaa tcttggggat acccagtttc 540 ttctcagctt gaccatcctc tttagaaaga ggactctggg tctctgtctt tcgtctgggg 600 atgcctagaa caaaaacaga caccctcggc ttcttctcac cagtccacat gggtgccaaa 660 caatcccaca ttcctacatc ctctccactg ggctgtctcc ttcacaacct cgccaaactt 720 ggcttatcgg gaagcataaa gccaaagcat ttagtctttt attgcaacac ggcctggccc 780 caatacaaat tagataatga cagccgatgg cctgaaaatg gcacctttga ctttcaaatt 840 ctcagggacc tcgacaactt tataaccagg aatggcaaat ggcaagaggt tctctatatt 900 caggctttct tctaccttag atcccgaccc tccctatgtc aagcttgcac ccctcatgaa 960 atccttcttc ttaatgaaaa tcctctctgg gtctctcctt cctctggaac cccttcctcc 1020 aaaacccttt ccctcaaaac cccttcctcc gaaacccctt ttgaccctgc agatgaaccc 1080 cctccgtatt ctcatccccc tgcatccgct cctcacccgt ccgaaccctc cgccccagtg 1140 gcccctcctg cccccaagcc tttagcccca aaccccgctc ctcttccttc tccacctgtt 1200 acccgttcaa aagctaccag tcaaaccacc ccggccattc tccctctctg ggaagtggct 1260 ggggttgaag gcattgctcg cgttcacgtc cctttctcca tgtctgattt gtcgcaaatc 1320 aaacagcatc taggatcttt ctctgaaaat ccctctcact atcgcaggga attcctgcac 1380 gtaacccaat cctttaattt aacttggcat gatatttata taattctaac ctccaccctc 1440 actcctgatg aaaaagagcg catctggtgt tcagctgaaa cccacgcaga tgaactccat 1500 aaccaagccc ctatacaaaa tccagtggcc aatgatgcag tcccccatag agacccagac 1560 tggacttacc aacagggaga caatggcatc aggcgaaggg accacacgat tacctgtctc 1620 ctcgcgggca tggacaaaaa tgcccataag gcagttaatt atgaaaaact cagagaaatt 1680 acacaggagc cccaggagaa tcctgccctt ttcttatcac gcctcactga agctatgcta 1740 aaatatacca atctggaccc agaatctaga gaagggcaaa cttttctcca cctccaattt 1800 atttcccaat ctgccccaga tatccggaaa aaattacaaa aattagagga gggtctgcaa 1860 acatctcagc aggacctcct aaatgcagcc tgccgtgtct ttaacaacag agacgaggaa 1920 caaaaaattc aaaaagacaa acatctccgt ttaaaatacc agatgctcgc ctctgctgtc 1980 caaaagtcag ttacacaaaa gcctcccaac aacccaaaag gaaactcccc cacctctctg 2040 ggagtctgtt tccgatgtgg caaccctgga cactgggcaa aggcttgtcc taacccccgg 2100 ccccccacca aaccgtgccc aacttgtggt ctttggggac actggaaaat ggactgcccc 2160 caacggggac accctccccg ttcgagtgca gctcataatg aggccccccg accatcacag 2220 gaggaaatct cttcactgct ggcactgaca acggaagacc gagggtgccc gggatccttc 2280 gcccccacat ccagtgagtc cacggaaccc agggtaattg ggacggtatc cagtaagatt 2340 atttcctttc ttttggatac tggggcgagt ctatcagtat taactgaata tcaaggccca 2400 ttagaacgtt catccgtttc tgttgttggc atgaagggca tacaagaaac cccatacaaa 2460 acaccgcctc tatactgctc atttcaggga gtcaccctca ctcactcttt cttggtcatt 2520 cctcattgtc ccactccttt actaggaagg gacatcctac acaaactagg gggaatcatt 2580 catttatcgg ccctacatca aagccaccct tacttattat tatgtcaaga acaaaacccc 2640 tcctcagaca ctccacatca aacagactta aatcccaaat tcctcagcca ggtaaatccc 2700 atagtatgga acactgactc ccccataata gctacccacc attctccaat tcaaatttca 2760 ctgaaggatc ctaagcgcta tatagtggtc ccacaatatc ccctcaaccc taatggatta 2820 cggggactca agcccatcat ctcccgactt ttggctgcca atattttaat ccccacccat 2880 tctccccaca atactcctat tctcccaatc aaaaaaccag atggctccta tagactggtt 2940 caggatttgc gacaaatcaa ctccgctatt gttcctgttt atcctgttgt cccaaacccc 3000 tacaccctcc tatcgcgaat tcctcccaac actagctatt tctctgtatt ggacctcaaa 3060 gatgcctttt ttactattcc tctacattcc tcctctcaaa acctttttgc tttcacttgg 3120 accgaccctg acacaggcta ctcccaacaa ctcacctgga ctgtcctccc ccaggggttt 3180 agagacagcc ctcactattt cggtcaggca cttcaattgg acctttccca actacctcta 3240 caacccagca ttttgcttca atacgtggac gatttacttc tttgcagccc ctctctagaa 3300 cattgtattc aacacaccac caggctttta aattttttgg ctgaatgcgg gtaccgggtg 3360 tccaaaagga aggcccaatt aacctctcca aaagtttcat acctaggatt aatcataact 3420 ccaaatactc gagaaattcc gccggcatga aagcaaggcg ttcaacaaat cccttttcct 3480 aaaacaaaaa gggacttact ttctttcctt ggattagtgg gatatttccg attatggata 3540 gcaaattttg ccattatcgc taaacccctt tatgaacaca caaaaggaaa tcttgaccaa 3600 ccactcactc ccactccaga cctttatcat gctttctctc acctaaaaca tgccttatta 3660 caggcccccg ctttaggcct tccaaacccc ctgagaccct ttcatctata tttacacagt 3720 tctcataatc aggcccttgg actattagcc caacccatgg gagattccct ccaaccagtg 3780 gcatattttt caaaacaact agaccccatt tacaaaggct ggcccctttg cttaaaaatt 3840 ttggccacag cctctctaat tatccctgag gcacaaaaac tcacgttcta cgaacccctt 3900 caggtatttt cttctcacag tctacaagat atgctcagcc ataaggcgct cacctccatc 3960 tcatcctctc gcatgcaagc cttacattca cctctccttc aaccctctat ctctcttcat 4020 agatgctccc cccctaatcc cgccactctt ttgccttcaa caccaatttt ggaccccgac 4080 caacactcat gctctgatct aattgaaagt tctctcacca tgtttcacca ccttacttcc 4140 actcacataa agggagcccc agattggttt atagatggca gcgcatcaaa aaaccctccc 4200 ctccaagcag gatatgccat cattgaggga tatcattatg atacccactc tctcccacct 4260 agaagagtcg tagaggctgc ccccttgcct ttgggcacat cctcccaaca agcagaatta 4320 gttgccctaa taagagcact aaccctagca aaaaacacac aagttaatat atacaccgat 4380 tctaaatatg cctataacat catccattcc aatgcccaaa tttggagcga gcggggctat 4440 ctcacggcta agggaactcc tatcattaat ggaaaactaa tccatcatct actaaaggca 4500 gctttacttc cagaaaaggt tgcagttatc cattgcaaag gacatcaatc agataaaagc 4560 cacatttctt tagggaaccg tgaggctgac tattgggcaa aacacgcctc aaccaatcat 4620 ccaattcccc aatacctatt tcccctcata caacatatcc cctcctttta tccagaacac 4680 caaatacaac aactagtcac agcgggggca caattcaaac ccccatactg gttcatacaa 4740 aacaaattag tcctacctga ccctgaaaaa acaactcttt tacgggacat tcacaacctc 4800 ttccacacta gccattcccc tctacaacat ttcttaagyt cccatataca cataacccca 4860 gatataaagg aacagttaaa agccatttcc catcaatgct ctatttgcca aaaagcttca 4920 ccccactcca acactagacc cccttctttc ccaacccatc aagccagggg acaccttcca 4980 ggacaggact ggcaaattga ttttacccat atgcccccag taaaaaaggt tcgatttctt 5040 ttagttctgg ttgatacctt ttcgggatgg gtcgaggctt ttcccacaac caacaaatgg 5100 gcttctactg tcacctccaa attaataaca gaaatcatcc ccaggttcgg ggtgcctctt 5160 tcttttcaat ctgacaatgg ccctgaattc atctctcaaa ttactcaaac acttgcacaa 5220 gccctacaaa tcacctggaa gctacacatc ccctatcgac ctcaatcttc aggaaaggtt 5280 gaaaaaatga atggcattct aaaaaacacc ctcaccaggt actcactcca aacacataaa 5340 gactgggtta cacttttgcc tttggccctt ctaaaaattc gggcgctccc acgtaaacct 5400 ttaatgctca gcccctttga actcatgtac gggagaccac ttgccccttt tgttccacct 5460 cagggtcaag ccccacctct accaacccct ctcgtttccc ctcttctaca taccatctgc 5520 catttcattt gggaatatgc tgacaaatac ctgccacaac ccgtcaccga ctcctctaat 5580 cccttcctac agccaggaga ctgggttctg gtaaaagatc ccagtcctac ccccaattcc 5640 cccctcacac ctaaatggaa gggaccttac cagatcatcc ttactacacc cacggcagca 5700 aaactccagg gactccccaa ctggtttcat tatacttctc tcaagaaaac agacttccct 5760 tcaccacata cccaaacaac caaatctaaa accccttcag ccttctcttg tgtctccaca 5820 ggacccactt cccttcgcct cacccgaatc ccggaggaaa agggagagaa atccacataa 5880 gccgcttatg tctctttctc tcccaaactt tcatcgcttc ctaaccaacc ttgttacaga 5940 ccttcagtgg tacccttacg aaactcccat tatacatcct gatcagctcc ttactgttct 6000 atgggaccta tggcttcaag gaactttcca ggactttact cctacccaaa taaccttttt 6060 ctctttttgc ttgtttcttt caatataaat tccctaatca catcaacctc accaatacaa 6120 ccactcctca ctgctctcaa actggaacgc tctataaacc ttacacaatc cctcttgctg 6180 caagctaact cttcctttgc tccggaatgc tggatgtgct tatcgctgtc ttcctcagct 6240 tacacagccc ttcctacacc ccttcatgac cttttaacag gaaacataac cctaatttat 6300 aaactccaaa aaggagcttc cttttttgaa agagctgaca ccctggtcgg cgattatccc 6360 acttccaggg ccaatcaggc caacaaatta tttcaaacct attacaactc cctacaacgc 6420 ctcaagcccc aaggccctcc cattgaaggg cccataacta aacacacccc ccttttacaa 6480 caagcctcac tttgcttttc agcctctgag ggaaatttcc ctgtagggtc cttaacacct 6540 aaccaatgca accgcactat cattattaaa cacccctctg accatcaaac taaccaagtt 6600 gactaccaag tatcacctga agcaaacgga gcatttctgc aactggctcg ttttacagcc 6660 tctccctcaa ccaatgcctc tggcctaact tgtgctgtcc ctggtgccca cctttttcca 6720 tggctcaata tcaatggtgc aacatccgat cgcattaaat gtgtaaaaaa taactcttcc 6780 tatatctcta ctatagtggg tgtctccctg gcctcctcct tgtccatctg gagtaatgaa 6840 ccacaggaaa gaaaaaacac cccatcttta attcacttat tttctttcca tatctctgcc 6900 tgtatttacg acaaaggctt gttctttttg tgtggcacca acacatatct ttgtctcccc 6960 accaaccgga ccggaacctg taccctagtt tatctttctc cctccattgg actagttcct 7020 cctaatcaac ctttgcccgt tccatccgtc caatatgtta ggaaaaggag ggccatccac 7080 gtcattcctt taatggccgc cttgggtata acctccggac ttggattggg agcaggcaga 7140 ttggccacct ccttaacata ctttaaagct ctttcaacag aactacaggg ttctttagaa 7200 gatatagccc gaagccttat aagagtccaa gaccaactag actccttggc tggagcagtc 7260 ctccaaaata gacggggatt agatcttata acggctgaaa aagggggcct ctgcctctca 7320 ttgggtgagg aatgttgctt ctatctcaac caatcgggcc tagtaagaga cgctgctgaa 7380 aaacttaaag aaagggctaa aaagctaagg gaataccaaa acaaccaaat agattcttgg 7440 tttggaaaca aaatcatagc atgggtcatc ccattcctgg gccctctcct aataatatgc 7500 ctaggactaa tgttcttacc ctgcctaatt aacctttttc aaagattttt aactgacagg 7560 atcatggcca tttcacagac aactacccaa aaacatctac agacggcgtt actcctacag 7620 tcaatccgag accaaagaac tctccgtccc cccctcagca ggaagtagcc agaaagaaca 7680 cgccgcccct cgtccttttt ataactatag ggtctggat 7719 // ID MER90 repbase; DNA; HUM; 615 BP. XX AC . XX DT 13-JAN-2000 (Rel. 5, Created) DT 13-JAN-2000 (Rel. 5, Last updated, Version 1) XX DE Long terminal repeat from endogenous retrovirus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER90; KW retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-615 RA Smit A.F.; RT "MER90."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative LTR of retrovirus-like element. 4 bp duplication site. CC In some elements the 40 bp tandem repeat from 29-109 occurs only CC once. XX SQ Sequence 615 BP; 170 A; 181 C; 114 G; 147 T; 3 other; tgagaaagag aaaagcagcc cctgacatct gagagctggc ctggtaccnw cagctaggcc 60 ttggtgttgc tgggagctgg cctggcactc acagctaggc cttggtgttc tcctgttgaa 120 cataaacaat ttcacagaat atcaacatca gacaaggcca ctctgtgacc atgatggatc 180 gagacaaaaa caagaccact ccgtaatcat gtctgaacac agacaaaaac atgaacattg 240 tccaagccac aaaaatgacc aagcatcccc ctctcccggc taatatgagt gactgctgct 300 tctttaccaa ttacagcttt agcctcgctc tagtcttccc tccttctaga taagatttat 360 taagataccc aatcacagaa ttactcccgc ttcctgacag catccaatcc agagcaaagc 420 ttcgcttcct taaaccctcc cccaaatcac ctaacacaag cccaaatcct ataataagtc 480 ctttctaaca tcctcttact gagacgcccc gtggttcccc atggtgtgcg ttctccctcg 540 ctgcarcgag caataaaccc aacttgttca accacaggtg tgttcctggt ggtctttggc 600 tggagggcac tgaca 615 // ID MER76-int repbase; DNA; HUM; 6189 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from placental mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW MER76-int. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-6189 RA Smit A.F.; RT "MER76-int - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX SQ Sequence 6189 BP; 1474 A; 1566 C; 1505 G; 1442 T; 202 other; aantggngcg gcaagctgng tagtcgatta agcacaatgt cgtttcgaaa aacaaaaagc 60 ctgaaaatcc cgcggggcat tcgccaatgg gggtgctagc ggacccgcgg ggcactcccg 120 gagggtgcta gtggatnatt tgcaagagtc tgaggatccg ggggtctgcc agtgggtcct 180 gggaagtgct agcagtncca caggacactt tgccagccat gccancgggt ctcgggaant 240 gctagcggaa gccacggggn atncttggag gntgctagtg aattgtttac agaagctttt 300 ggttcgaggg gnaccattgg tcctcctgtn catcccnanc ncctcngctg ggntnaccta 360 gtgggtcana tnngagntcc agcagagggg ctctaagaag tccacggaag caattccctg 420 gncaccgttt attgttctcc gatgatgggg ccagaagtcg tcggagaccc tgtnaggtga 480 gctgcacccn angactattg ctagntctaa gcagntccct ggcgntgacg ganagcntgc 540 nangcagcgn gttactgaga ctcgtgcttt taatgaaaaa acgtagagcc ttaggatcac 600 ttcgcccagc ganctgaaga gacctnagag acttggttag tttgcttcca taatgaaana 660 ggtaatcttg ttaaacttag tgaaggagan tggctccttg cggggtacat cactacggac 720 ccctcctcca gagtgccttg atantggnca ctttgcctaa ggaggaggag caaggtgggg 780 agaatgagan gtacgnatac ctaagaccnt ctccttcctc agctgggtac tacttcggnt 840 ctggcaggtt tggtncactc gtgacaagtt ccttgccact gaaaaacata tctgaaccac 900 cttcgcagag gctatagata gccctgcagc caccctggtg gtcccttggg tctacaatga 960 gggagtggga anagtagatg ataagattgt taaccagact cagatttcca ggtttgttca 1020 tgccactcct gctggttatc gagcccaant aaactncctc atgaggtcag gtcaatcggt 1080 ccgcgacaca atccgaatct taactgacaa attctcaggc atggaaaaag cggctactgn 1140 caaaatagca aatatgaacc aacagagagg cataaaaatg gtaatcgggc gccctctcct 1200 ggacnatctg ggcaagggcc ttcccgaaaa gatctctgng tctggttact caataacggg 1260 gtctcaaaag aggagctgan gggctcccca ccaaagaact catggccagg taccgggcca 1320 cggggggctc aacaggcggc cccgttaggg tctgcacagt gattggtggc ggtccctatg 1380 atgacattgt gctgtttgac cctcctngtg gatctggaga tgaattggag gncctcgagc 1440 ctctgcccng acgtctagtn ttcanaaata aacaagacta ggggttagac tgaggtccct 1500 ctgtctccaa ggaggacnag aggccctacg ccaaggtcag agttcaatgg ggaggtggga 1560 ggaattgtac ttcttgggcc ttttggatac cagtacacag atgacttatg atccccacaa 1620 cccctggcac caagatgagg ggaaacagat natgttctct ggtttngggt ttgaggccac 1680 caccactgcg tctcaactgg atgagnactt cgggccccta caagcctcca ttgttatggc 1740 ccccactact gaatgcatta ttggtanaga tgtattgtcc atatgcaccc ctactngcct 1800 tcgcccncag ccctgacggg aattgctgta gttagggcca tcttagtggg acatatggaa 1860 gaccgtgaac ctacccgatt accgacgcct agtgctgttg ttccccccaa tgcctaggga 1920 ggaaaaaaat aactgccntc attgctgagc ttaaggaagc caaagttctc gatgagactg 1980 tttctccatt cagtagccct atctggcctg tgcacaaggc ctcgggtncc tggagactca 2040 ccgttgatta caggcggctc aatgctgtnn taccactctt ggcatcggcg gtacctgaca 2100 ttgtgactgt tacagaggct actgccaagc gaagtgaact tggtatgcag caattgatat 2160 tgcaaatggc ctttttcagc atcctcctnc atcggatnat caggatcaat ttgcctttat 2220 gtggaatggg ttccaataca cctntaatgt ccttccanaa ngctacctaa attntccggc 2280 tatctgncat caacggatag gtcatgactc tgaaaagtgt cgcttgcctg gaggaaacac 2340 tagccttcca ctntattgat gacatcctcc tggtgggcct agacaaggac atcgcccaat 2400 aaggactnga tgctttcttg actcacacgc gacaacacgg ctagnccatt aacagacagt 2460 acaaggaccg actaagtaaa atttcctggn tataatccgg gaaagtgcac aacattctag 2520 aggagacgat tgccaagcat tttgactntc tctacccgag caaataaaaa ggacccagtg 2580 attngtgggg ctattganct actgnngctg tcacattcag cccntgcggg gatcttgatg 2640 ggacccannt acggggctac tggaaaaggc tgctatcttt caacggggcc cactcaacag 2700 gctaccaagc ctccaggtac cctgaccctt ccgctggncc ccacgnatnc acatttgccg 2760 tttgagttac aggtctcanc aacctttcag ttcacatcga ccnatggcag aagaatactg 2820 ccacaggtta gaggcacttg ttgggccttt gacttataag ntcctcgagt cagctnaaag 2880 ggggcacgta cgctttaaga gataattatt ggcccgttat tgggccttgg tagntactga 2940 gtacatgact catggccgtg aagtaatctt atgactagag atcccagtca cgtcatgggt 3000 cgaacanagg cctcaaattg ccaagtggag nnagctcaag aagttattct ctagtgaaat 3060 gaaantggtc cacagagaag cgggtaaaat ccggccagga tgtgttagca atgaagagct 3120 tcaaccatgg naanagctca ggagtgctcn cctaccccca ggcatntcgn ccaangagcc 3180 actgcctcca ctggcccaat gggaacncag atatanagac ctcctggacc acacataggc 3240 ctggttcact gacggctctc tcggttaact tntactaggc tggaatgggg tgtagctgcc 3300 atccgacctg agagagatct gtcccttact agcgcggtga gggatgctca gcataatggg 3360 cagagcttca tgnagtgtgg ttggctatcc aggccacccc agcagangag ccntgctgta 3420 ttttcactga ctcatgggct gtagctaatg gcctggncat ttgatcgggc cactggcagg 3480 cctgaactgn catataaaac aagcccccct gtggggatga gacntttgga taaaaatcaa 3540 ttctactcct aataagctct ttgttaccca tgtggatgtt caccagaaag gcccctatgc 3600 tgacaaaggg aannataacc aatgagcaga ccgcgcttgt cagctaaacg tggagactga 3660 attgtcctct accccagagc aagcagatgt gcgaccgatt gcctcctgga tccatgagag 3720 gaggcccatg ggaattcaga caccatccta gactgggcct acatgcatgg actgccactg 3780 ttgtcagaag atgccgaaac agcatggaaa agctgtcccn cctgccagac cctggccaag 3840 gctaaaaatc actgctcagg gacagaatct ctcgagccaa aaggccagga tgttcttagc 3900 aggtagatca cattgggcct ctcgtcccat ccagagggtt ctactggatc ctgactgcag 3960 ttgacanttt ctctgggttt ggcctagcca tccctgtgcg ttccgctgac tcaggccaca 4020 ctatccaggc cctataagac catatttgtt ttctgttcng gtttcctgag cacattncat 4080 ctgataacgg ccccanattt gtggcccaag ctacacatca gtgggcccaa tcatggggca 4140 taaaatggac tctctatgct ccgtatcact cncaagncac agcgatgatt gagcatttta 4200 acggacaatt aagggacagg cttaagcggc tgatggaaag ggacaagata atcccagcct 4260 ggctacacat ctcaggtaag cagtctggag tctcantgca gcaattcccc gaaagggtac 4320 ttctcatttg cgccntatgt ttgatcggtc tgcccccttc cttcaattgt acacccttct 4380 tttacaatta ttgacanttc agtctccatg ggggaccctg caagngcctt ctatcccctt 4440 tgaccccttc ctgaaaactc aaaattantt gggagatcag aanggctatt aaacagcgag 4500 gagtgggaga cggtaacctc ctctatttac cccctgggtg canagcntga attttgccca 4560 caaggacttc aaagataatg ancatcaatt cgagntctct agttcaacat tttccttaag 4620 gtggccctgc tgctttnccc cgtgtagccc catgggatga tatcaaatat cagatanaaa 4680 cttttattga accacaggag aagccaagcc agaanatttn gattcaccat nctaggaatg 4740 gattaagagt nctatccttg ctcatggtac aggacagact gcccacgtng cagtcaatga 4800 ggaagagtct cctnaactga tagnacgtga gcaccttcgg acctaaganc cagatacggg 4860 gcaggaagga gggatctaac ctctctccct ctctctcacg nagtagncct tgtgactttc 4920 gccttaccaa attcattggt angcctnccc aggcagttgc catcaccctg aatttgacga 4980 gctgttggat atgccaccca ccctgacccc gcagataaat atctgantgc cgtgccgccg 5040 aatancacga gtggacgttt ctccaancat ggagcnttct ggcacctcan gtgccctaac 5100 tttattacac ccggacccga cgngttgcct gacatgtnga ccctggtacc gcaggaagga 5160 aatgacctcc tggnatgtca gctcantgct gtcccacatg ggagcaattg aattatctgg 5220 gaagaggggc ntgtggtctg ccactggagc cattttggcc tcgatggtgg tggcaactta 5280 ctcctctnct ccacttgccc ccnccttgca cagactcttc agttccactc aggnactctg 5340 cccactgcct accaggaggg acttctgggn ggttganccc catggtagcc aatgactctt 5400 acactcccag anccgatgtg cactcttctt ggggtattnt ttcttttnta aanaccaggc 5460 cttcancatt cctttttgat agcnntgtaa cntgcacgaa tggggcattg ataagagntn 5520 ctcaaatatt cnaagcagcc cctcccanng agcatgtngc accacgcnga gcaaggcgng 5580 agctccagaa ccaggcnnac cccggttact cggggggntt gccgggtgag aagcactgcc 5640 gaccgtcttt gctcatgngn atgctccggg cggcttttcc cactgctgag cgtcgctcag 5700 tnagaaaagg ttgtccgcaa cctgtctctn accntcgctg aggtcattaa cgacactacc 5760 tcagctttgg agacanaaca gaccagcctc agctccttgg cccgcatagt gtttgagcta 5820 gccgcatagc cctnggctnc cngctggcca gccgnggggg gtctgtggna ctgccagcac 5880 ctcgtgntgc acctggatca atgaanactg gcaaagtgga agantccggc atctctaaag 5940 tagaccctan tggctntgag acatcttttc ctggcttggc aattgttggg ggctcatggt 6000 tatattcaat cctccaagca ggcctgccat catcctgttt agaanaattt cgatcatgan 6060 catggtctac tgtggcctca gactaattac ccggttnttg acanagcccc tcaagtccga 6120 cccattcagg tccatgatag ggtagnctat gtttcttact cgggtcctga aaaatcaagg 6180 gtatggagt 6189 // ID MER50I repbase; DNA; HUM; 7205 BP. XX AC . XX DT 20-AUG-1998 (Rel. 3.07, Created) DT 20-APR-2006 (Rel. 5.05, Last updated, Version 3) XX DE Primate MER50I repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; MER4I-group; KW MER50; LTR retroelement; MER50I. XX NM MER50I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1382 RA Kapitonov V.V. and Jurka J.; RT "MER50I."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-7205 RA Smit A.F.; RT "MER50I."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC MER50I is a class I retrovirus-like element flanked by MER50 CC LTRs. CC It is closely related to other MER4I-group members [1]. CC A full-length coding regions is present for gag (pos 1732-3083), CC matching the HUERS-P3 gag the best (61% similarity). There are CC also CC partial matches to pol (pos ~3089-3645) and env (pos 6221-6927). CC Individual sequences are on average 12% diverged from the CC consensus. XX SQ Sequence 7205 BP; 1968 A; 1691 C; 1537 G; 1892 T; 117 other; tactttggtg ccgcgtgact cggatacgtt ccctagtggt aaganacctc tatgcctcgc 60 cttctttggc tggaggcgtt caacccccgt atgcagtttt cttctcccct ttcactctcc 120 tgcttactaa ccaaccccca gaacgattcc tctcggccac agtggctctg ctccccctgg 180 ctgatctctc agctcaccct gacgggtggc tcgcgggggt gggaaggacc ttggggtccg 240 caccgagtag acctgagaca ctaatggccc tcctggacag gaggctcatg agagtggtag 300 ggctaaagcc taaaaccgtg caatgtctgg ggtttcctct gctttttcaa ctaaaatcgg 360 ctctttccca aaaacccaca ccacctattc tcctgttttc tctgtgtgtg ttctgaaatg 420 gccttgcgca cccgccagac tgtccgcctc gggggcaagt ctgccttttc tctgctttca 480 ctttgcatgc cacgcgactt cttaaacaca cactccctgt tattcgtgcg cccacggctc 540 ttgctgcatt tgcntggcag caaagacacg ggctcccttg tggatatccc ctgagattta 600 tacttgtttt taccctacca gctcagatga cctccaaccc ttcccctgtc tgttggcnca 660 ttgccaggac agacactaat tggaaccccg gctctgccag ctccttatga cttaccatat 720 gcttttcgtt cctgttatgc cccagggcca agttttccgg tggcttttga agcagtttgt 780 ccgcctgcat agggcctcac tctgtggccc tttaaggacc ccacctactt gctttttttg 840 agttagcacc cctttgggag gaggggaaat tcttcctttg ccatttgcga gctcttaccc 900 caagccccaa gtcctccaga ggttcctcct ttatgtcaag agggcaaata aacgttgccc 960 tctcgaatcc aagggctgct gtttttgcga gcatatgaag gctttccatg agtattcctc 1020 ttgcttcctc ccacttcctc ctgtagcaga gggattgtcc tgtctgctta agcattcgtt 1080 ctgcatgtta ccccaggagg acaaggaacc ccaaatacaa aatttcctcc attcctctaa 1140 tcacttccat gcccttctca atatgcatca agaccttcaa ggtcatattc gaagggaggg 1200 aagtccagcc cccttgcggc agttagctga aaaacaggct tctcatctac ttaaagaaca 1260 tgggaaatgg gaatctgaga aaagagataa tcattttgtt gctagaatgc tccgagtgag 1320 agtcactata aggtcatgga gacaaggata taggctggcc caaggccgca gacgaaagag 1380 acccatagga cagagatgaa ggctggtccc aggctaacag attaccatta gaacagagat 1440 gaaggcaggt taggggtaca cggtaagacc ggttcattcc ggaaccccaa ggatgaagag 1500 ggggcccctg ttcactccgg tatctcctct gttctcaagt gggtaattgt gatgagatgg 1560 gaccaaggtt aagggtacac agtaagaccg gttcattctg gaaccctaag gacgaatggg 1620 ggatgccctg ttcaggaaag gataatagga aaataagagg ggacgccttc tttttctttt 1680 tcctcctctg ttctctcttc acagatgggt aatcgcgtct ccgtacnaca ggacacgccc 1740 ctcggatgca tcctcaaaaa actgggaaaa gtttgatccc ccaaacccta aaanagaaaa 1800 ggctaatntt cctctgtaat acngcctggc ttaaanacaa gctcngggag caggaatctt 1860 ggccggaaaa tggaacataa attttaattt taatacgntc tatcgactag atttgttttg 1920 ccgccagcag ggaaaataga cagaaatccc ctatgtacag gccctaagaa acaacccwga 1980 cctttgtcgg gcttgtaaaa tkgatccagc gatgatagca gccacagtca kgcwgccccm 2040 tctggttggt tcgggagacc mctattgkgt ttacccaggg ctcaagcccc ggaggaacca 2100 agggcggagc ttagctcaaa ccccccttck gccccattat atccaagtct cccggccctg 2160 gnncnttccc ttccctamcc agggccatcc tctggacacc accccctcaa gttatgccsc 2220 ttcaagaggt tagtwgascc actagggtcc agactccatt camtatgcaa kacctgagcc 2280 aaattaaaac ggaactaggk aagtttatgg aggaccctga caaatgcatm aaagggttcc 2340 acaaggtggg cttaacattt gaactcacct ggagggacct ctcagtcata ctggggcaaa 2400 ccctgtctaa gggagaacgt gactccatta wggaggcgsc ccaawaattt gcaaatgcaa 2460 tgcacatgac tgaccctggt gsctaccctg takgggscac macagttcmc cgggtsggcc 2520 ccwwttggga ttacaatacc cakkggggca tgtgggcaag gaaccgcatg ttcctmtgtc 2580 tsgtagaagg aatgaaagct agmagagcma agcctgtgaa ctacaataaa ttggccttaa 2640 tagatcaagg mcctcttgga anccccwccg ctttcctagg gaggctacaa gaggccctgg 2700 tgagacacac taacctagac ccagagacac casaagggca actggtcctg aaggaccatt 2760 tcctaactca ggcagcccca satatttgga ggaaactnca aaagccagcn ctgganccca 2820 gtacccctat gcngganatc ctcaaattag cctcctcagt cttttataac caggaccagg 2880 agaaggagga aagggctcag ggaaagaaga ggtaaaagga aaagcagsag ctccaactat 2940 tggctgccct amgggtccac cagccccctc caggttgccc tcagannact ctcccagtta 3000 actgccatcg gtgtgggaag ccaggccact ggaagncaaa ctgccccagt gggacagatg 3060 ggaaaaatcc ctgcacggct tgcccctctg ccacaagctc agccactgga actgggactt 3120 ccctgagggc cgaagggccc ctaggacaga atcccaactc ctgacgncct tgagctgaag 3180 gggccctccg ctccggccag ctcccggatc gaacattact atcganggga cgaagctaag 3240 ggctgctttg gacgtggcag gtangactat aagttttctt ttgggcaaaa gctgcctnct 3300 cggtgcttat gtcttctctg ggcaattatc ctccaaatcc tgtcaggtaa tgggggcaaa 3360 tggcatcccc tccctncaaa anaaaagatt cacacccttt tggggcaaaa acttactttc 3420 aaagatgggt gcccaacctg tgaattcatc tgtctaatag ccccatttct cttcagaaag 3480 ctacctaaat ctttaaccaa taacttcanc tgganagtnc ttccgcaagg tttcagagat 3540 agtccccatt tgtttgggca agccttggct agaaatctgc nngagcagtc ttttgagggg 3600 gnataactcc tacagtacgt agataacctc ctaatctgct cccccttcac aggactcaca 3660 cagcaacatg tagtacaaac catnacttcc taatagaagg aaaatgactn ttgtctaatt 3720 caaaggttat aaaggtaaag aggtattttt ggtaaggaag gttanaaaga aaananattt 3780 tatatgagaa aggatcttgt atggtaaact gttgtcctaa agtaaaatga ctggttgtnt 3840 aaaaagaggg atgttcaggn caagtgagag agtccaagna tgntgtagat ggtctgtgta 3900 agttgtaaaa aaaaaaaaag ttagtaaaag ggaatttata aagaaatgtt atataattgt 3960 aaaggttatt aagcccacta aatgcttcct aaacttctac tatgactctt aactggacaa 4020 cttgtctgct ttaaagctac ataaggcctg aagacacaca gagttagcca tgccccctag 4080 ctatgctgga aagagtcaga ccttatctac acttctgtct ggtgtcctag gctccacacc 4140 tagtacataa ttagaatttc ttacttacca ggttttcatc caaagtaaaa gctgctaaga 4200 gttaaccatg taacatgtac ttgagactac tgaaaaaaag agttttacat gtaaaacatg 4260 taagtaaagt aaaatgtact tttggtaaaa tatcataaga aggcatggga atatagattt 4320 ttttggccta gtttagggag ttaaagaatt attttaagtt agataggata aagctaaagg 4380 tttgagcaag tcgtggcaga tgtgtgaaat attaatcttg taaaagaaat cctgtgtgaa 4440 cacgttagct aacattaaag gggtactatt cagactattc ataaattaaa cattggaata 4500 aaagcataac acagttttct tagagcattc ttctggtctt tgacagaaaa attgtaaagg 4560 gttataaaag ntctatgaga atcctacnnn atgaggncaa actgattaag attgnataga 4620 tttgtctata aggttttatt aagaactggg tttgacatca atagtacacc aacgcaaagg 4680 tgaaatccgg ctttctttgg gctgtatttg tgtaagtgtg ttattggtat gggttccaga 4740 gttatgcgaa nctcctgcaa ttctgatatg actnggcata cattatcagt aataattata 4800 attgttgngt taaattattg cgtgccacag aggctaacan atttcctttt caattntgtc 4860 tttggctgtc gctgccctaa gactttttgt catccacaga caattgttgc cttgttttaa 4920 tcctcttnaa aangtggttt tataatcagc gataggactt taacggttgc tctcaaangc 4980 aggtttctga taactttgga gattgtgaca ttaggataga ggaaaangcc tttcaggact 5040 ctcatggaga gctgaaacgt tcatgaatat caagcagaac aggagttaac tgcatggact 5100 gaactaatag aagactgaaa taatcctttn atgacttttt gcttaaaacg ttgctgatcc 5160 tttgtttttc agngccaaga aaacatttct tttgagctat ttagagcttt taacaattga 5220 gtactaatga gtaaagtata ctcctataaa caaaatttgg agcatattgg ttcctctcta 5280 ccnggtttct gcagtaattt ggaaactgct tgtgagtatt cttaactnat ggcaatacag 5340 ttatttncat aagtgcaata aaaatctgtt ttcttttgca acgggacana attggagnna 5400 ctggtnattt taccaagnct ttgactggaa cggcatgctt tcctttaagg aatcaaantt 5460 gacttataga gccaanaaaa gccccttgng aaaactggcc tcataccttg tctacacagt 5520 ccctgtacag ggttcctgac ctgtggtaag taaagaatgt cactttctga caggcccagg 5580 agccccaagt tatcttggga cctcaagagg agaggaattt acccaactca tacggtattt 5640 gatggcacca acccatggct gggcttaagg ttttaaaaag tcttatctga gattccttat 5700 ggaacgaagt tccatcaaag ccaattttaa aaggagccta tatggcaaat aattattctt 5760 gctgtgcttt atgcaaataa tcaggccaag tataataaga ctaaagctta ttttgcaaaa 5820 caaatcagtc ctatcatgat ttgtttttaa taaaaatgag gactggagac gaaaaattat 5880 gtttcaagaa ctatggtaca cctgttatta gattctagtc tcatcagttg tttttgagtt 5940 tttgtctgca atttagacta accctgctta ttcctgtgaa ccaaccagtg atctctggct 6000 gcagctcaga agaaacaaaa gggatgggta atgtaaaaat ctggatcaat attctaattc 6060 tgggcacata ttggaatcgg ctagcaaccc catgcaccca agtcttagca ggcatgacta 6120 tagccaccag ctacctgggc gtgtcggcag cctcggaatt tttggagctg tcctcacccc 6180 cttattttgt tttgacatct ctncttatct taaaacccaa ggagccttct gtgtttgtgg 6240 ccagccagtt caccagtgcc tccccactaa ncggactgga acttgtacca taggctatgt 6300 atccctagac atctttatag tccctggcaa tctctctctt ccagcaccaa tccacgggaa 6360 ttccatcttt cccaggatga aaagggctat ccaattaatt ccccttctta cgggactcgg 6420 cattatagcc ggtacgggaa ccaaaattgc tngaatcaca aaagcctcct tgacccatag 6480 ccagctctca aaggaaatag ccaacaacat taatatcatg gctaaaacct taacnactgt 6540 gcaagaacaa attgactctt tagcagctgt agtcctccaa aattgtcaag gantagatat 6600 gttaacggca gcacagggag aaatttgttt agccttagat gaaaaatgtt gcttttgggt 6660 aaatcaatca ggaaaagtac aagacaacat cagacaactc ctaaatcgag cctccagntt 6720 acgggaacaa gcctctcagg gttggttaga ttgggaagga anctgaaaat ggcttccctg 6780 ggttcttccc tttttaggcc cacttgttag tctcctactt ttgctccttt tggtccatgt 6840 cttctaaatc taataacccg atttgtctcc tctcgccttc aggccatcaa gctccagatg 6900 atcctcagtg agggatacca tcctctcaat attcaagagt cacccttcta caggggaccc 6960 ctagactgcc catcagtggg acacgacaga ggcgaaatcc tgcccctgtc tcccttggac 7020 ctggctggat accgctttca ccaacccatg gagccaccct gccctgacag ctagcaagag 7080 gccaagaccc acagaacaac caccaccgcc cctctgtcag caggaagcag ttacagaaga 7140 ctgaccttcg tccattttcc ccaaagaatt ggggtcttgg actcttgagg ggggaaatgt 7200 tacag 7205 // ID BSRf repbase; DNA; HUM; 379 BP. XX AC . XX DT 06-SEP-2005 (Rel. 10.08, Created) DT 06-SEP-2005 (Rel. 10.08, Last updated, Version 1) XX DE Satellite from primates. XX KW Satellite; Simple Repeat; BSRf. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-379 RA Smit A.F.; RT "BSRf - Satellite from primates."; RL Direct Submission to Repbase Update (06-SEP-2005). XX DR [1] (Consensus) XX SQ Sequence 379 BP; 82 A; 98 C; 96 G; 98 T; 5 other; tgtgagattc agaacctcam cagtgggctn tgtccatgtg tgagggtgac aatcctaact 60 gtcggctggg tgtgcatacg agagtcacaa tctcacctgt gtgctgggcc ctgttatgac 120 actctctgta ccacccgagg gctttataca atatgcgtga gtgtcataat cctctgtgac 180 ctttntacaa gtaggagacc caggacctta cccgttgccc taagcctagc tatgagagtc 240 aamatctctc ctattggctg ggtccaggta tgagagtcat catcgtgcct gtgagctggg 300 tccagatatg wgtcaccatc ccacctgtgg gcagatccac gtatgacagt cacaattcca 360 actgtggact gcgtccgcg 379 // ID LTR19A repbase; DNA; HUM; 486 BP. XX AC . XX DT 08-MAY-1997 (Rel. 2.04, Created) DT 17-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE Putative long terminal repeat of endogenous retrovirus - a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; KW LTR19 subfamily; LTR19A. XX NM LTR19A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-486 RA Kapitonov V.V. and Jurka J.; RT "LTR19A."; RL Direct Submission to Repbase Update (30-NOV-1996). XX DR [1] (Consensus) XX CC LTR19 elements are flanked by 5 bp target site duplication. XX SQ Sequence 486 BP; 146 A; 157 C; 69 G; 109 T; 5 other; tgacagagca ggagcatcgc catcttggac aagcactgcc attttaaagt tccccttgat 60 caaaaaccgc ctaaatccaa cccaaagggc atcagcctaa tggctaakgt cagcatgacc 120 ataaaccaca aatgacatct ccgaccagaa acattccaac cctaagataa acccctcccy 180 raccagagac atgccagccc cgagataacc tcccctccgg ccagagagat gtcagcccca 240 asataacctc cccttcaacc agagacattc caaccccaca ataaacttct cccccacaca 300 gaaacattcc aagcctgtga taaagctctc tcaccctaaa acccttaaat actcttagtc 360 tgtaagagag agtgctcctg actgaaatcg gccagaagcc cctctcaggt ttattctcca 420 aaataaacct gtctttgact gttgagccgc ttttcrtgtt tctttcctct ttctttaact 480 cttaca 486 // ID MER66A repbase; DNA; HUM; 478 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 3) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I-group; subfamily MER66A. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; KW MER4I-group family; MER66A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-478 RA Smit A.F.; RT "MER66A."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC A retroposon LTR related to MER41, containing terminal TG...CA CC dinucleotides, a poly A signal and 4 bp duplication sites. XX SQ Sequence 478 BP; 116 A; 136 C; 113 G; 109 T; 4 other; tgagatagga ggtgggactc gactccggag gcggggcttg aactccagac cagattgaag 60 actagctgaa acagggccag ggcaaaagca cctctccata agacacaccc accggtgcca 120 wgtgagttta ccattgccat ggtaacagcc agaagttact gcccctttcc atggcaatga 180 cccggaagtt accacccctt ttctagaaat ttctgaataa cctgctcctt aatttgcatg 240 tagttaaaag tgggtataaa tatgactgca gaactgcctc tgagctgcta ctctgggcgc 300 actgcctatg gggcagccct gctctgcaag gagcagtrcc tctgctgctg ctgtrcacag 360 ccgcttcaat aaaagttgct gtctaatacc accarctcgc ccttgaattc tttcctgggc 420 gaagccaaga accctcccgg gctaagcccc aatttgaggg ctcgcctgtc ctgcatca 478 // ID L1P4a_5end repbase; DNA; HUM; 2596 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from primates. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1P4a_5end. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-2596 RA Smit A.F.; RT "L1P4a_5end - L1 Non-LTR Retrotransposon from primates."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC L1PA16. XX SQ Sequence 2596 BP; 787 A; 711 C; 669 G; 419 T; 10 other; gagagggaca agatggccga ctagacgcag ccaggaagcg ctgctcccac cgagagagac 60 caaantatcg agtaaaccaa cataatttga gcagatcttc ggagagaaaa cgccgagagt 120 ggatgagaga ggcgacgcng acgccgaggc tgaagaggga ggaagctggg aaccctgcgc 180 ggggtacccg aatgctaggg ctagttcccg gccctgaatg gctcctgggg aaggggtgag 240 tgaagggact gagggacagc ccactctcgc cgtggacctc tgggatccta gctacagggg 300 accccacgcc ccccatggac gtntgagctg gcagggggat ctccccgggg agtaggcaga 360 gacagggctt cagncggcat ggagcccggg agcttttgtg cacggggcag ctccggcgga 420 gcgcggccat aggcgcccat cccccagggc tccccatctc cctccgagag gctctggccc 480 cagctgaccg ccgggccagg agagagcggg gccagcttcc ccgcgggact ggggcacgtc 540 tgttctgcag gccctcctgc ccgccagccc ctcccagggc ccctgcctgg ccaccccgca 600 ggagcatgtg cacagcgcag cctccgctgc ccagcctggg tgctttgctc cacctgagta 660 cnttcccggc ggcctgggag cacttcggat cccccagcgc agccggaacc caaccccgag 720 ggtccagagg aggagccgcg gcaggtcccg gtgccccagg gctgcggcnc gcagctcggg 780 agtgccgagc cgagatctgt ggccggcact cgagcngggg aggagccccc actctcagag 840 cactgagagg ggtgagatgc gcgggttcnt gggccggngc gggagcgggg cgtgcctccc 900 tccacagggc cggtccagaa agggtgtggc ctatctccct gccgcagcct ctgcccgagg 960 gagccccgcg gcccggaaca cctaacaaaa gaaacgcggg cgcggtgcca gtgatcggag 1020 ggggctcccc caaggcccag gagcggacct ggtgaggggg tcatctctct ccccgccgca 1080 ccgcagagca cggctgcgaa cgcgaggaag tacaaaagag ccgcgcggct gagtaagagc 1140 ctatctaccg gccattactc ttaagcgcca tctactggat cgcagcccaa actacaacac 1200 caaaaatatt ctgctaatat acacccctgt gaaaccaagg gcaagaattc agccacaaat 1260 aaagatcctg tacagagcct tggccctctg aaagcatcca gaaatgaagc caactgacta 1320 tactcaactt acaccacagt taaaggaaca ccagccctcc cagatgagaa agaatcagcg 1380 caagaactct ggcaattcaa aaagccagag tgtcccctta cctccaaacg agcccactag 1440 ctccccagca atggttctta accagactga aatgactgaa atgacagaca tagaattcag 1500 aatctggatg gcaaggaagc tcatcgagat tcaggagaaa gttgaaaccc aatccaagga 1560 atccaagnaa tccagtaaaa tgatccaaga gctgaaagac gaaatagcca ttttaagaaa 1620 gaaccaaact gaacttctgg agctgaaaaa ttcactacaa gaatttcata atacaatcgg 1680 aagtattaac agcagaatag accaagctga ggaaagaatc tcagagctcg aagaccggtt 1740 cttcgaatca actcagtcag acaaaaataa agaaaaaaga attttaaaaa atgaacaaaa 1800 cctccgagaa atatgggatt atgtaaagag accaaatcta tgactcattg gcattcctga 1860 gagagaagga gagagaataa gcaacttgga aaatatattt gaggatatag tccatgaaaa 1920 tttccctaat ctcgctagag aggttgacat gcaaattcaa gaaatacaga gaaccccggc 1980 tagatactat acaagatgac catccccaag gcacatagtc atcagattca ccaaggtcaa 2040 cgcgaaagaa aaaatcttaa aggcagctag agagaagggt caggtcacat acagagggaa 2100 ccccatcagg ctagcagcag acctctcagc agaaacctta caagccagaa gagattgggg 2160 gcctattttc agcatcctta aagaaaagaa attccaacca agaatttcat atcctgccaa 2220 actaagcttc ataagtgaag gagaaataaa atccttctca gacaagcaaa tgctgaggga 2280 attcatttca actagaccag ccttacaaga ggtccttaag ggagtgctaa acatggaatc 2340 gaaagaatga cacctgctac cacaaaaaca cacttaagca catagcccac aggcactata 2400 aagcaactac acaatcaagt ctacataaca accagctaac aacacgatga caggatcaaa 2460 atctcacata tcaatactaa ccctgaatgt aaatgggcta aacgccccac ttaaaagaca 2520 cagagtggca agctggataa aaagacaaga cccaaccatc tgctgtcttc aagagaccca 2580 tctcacatgt aacgac 2596 // ID HERVL repbase; DNA; HUM; 5654 BP. XX AC . XX DT 19-FEB-1997 (Rel. 2.01, Created) DT 07-MAY-1999 (Rel. 4.04, Last updated, Version 3) XX DE Internal part of endogenous retroviral element HERV-L; a DE consensus sequence. XX KW ERV3; Endogenous Retrovirus; Transposable Element; HERVL; KW Internal part of endogenous retrovirus HERV-L; MLT2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-5654 RA Cordonnier A., Casella F.J. and Heidmann T.; RT "Isolation of novel human endogenous retrovirus-like elements RT with foamy virus-related pol sequence."; RL J. Virol 69(9), 5890-5897 (1995). XX RN [2] RP 1-5654 RA Heidmann T.; RT "Direct submission."; RL Direct Submission to EMBL/GenBank/DDBJ (26-JUN-1995). T. RL Heidmann, Inst. Gustave Roussy CNRS URA 147, 39 Rue Camille RL Desmoulins, F- 94805 Villejuif, FRANCE. XX RN [3] RP 1-5654 RA Kapitonov V.V. and Jurka J.; RT "HERVL."; RL Direct Submission to Repbase Update (SEP-1998). XX DR [3] (Consensus) XX CC LTRs of HERV-L are listed in REPBASE as MLT2 sequences. CC HERV-L has a potential leucine tRNA primer-binding site [1]. CC The HERV-L internal sequence shows some amino acid similarities CC to CC retroviral reverse transcriptase and integrase proteins. In CC addition, CC a region homologous to dUTPase proteins was found downstream from CC the integrase domain [1]. The amino acid sequence and CC phylogenetic CC analysis indicate [1] that the HERV-L pol gene is related to CC that of foamy retroviruses. HERV-L-related sequences are detected CC in CC several mammalian species. The consensus sequence has been CC derived [3] based on the eleven copies of HERV-L internal CC sequences CC flanked by MLT2A1 and MLT2A2 long terminal repeats. It represents CC the youngest subfamilies of HERV-L endogenous retroviruses that, CC presumably, were active in a common ancestor of apes and human CC (94% identity between individual copies and the consensus CC sequence) [3]. XX SQ Sequence 5654 BP; 1516 A; 1253 C; 1441 G; 1444 T; 0 other; gattttggta ccaggagtgg ttctagagga acagaatatt aaggatggag ttctttcgtt 60 ggttttgggg tttctggagt tggctgctta atatgattag acccaaaaat gctaaggact 120 ctacttctaa tagtatggag aacactgata gtccttggca tgaactgttt agagagttat 180 gcaaaataaa tgcatttgac actcctgatt caccgctcat gagaggcaag gagtttagtg 240 actctataca taataccttt gaccatatgt ggagaaccaa ggaacataat gaagctggtt 300 ggttgctcct aagttcagtg gacaaagtga tgaaagaaaa tgatgaactc agggattctg 360 tctcccggct tcagaagcag atactgagcc tcaaatctgc taagattgcc ctgagtgaga 420 gtcttatctc ctgtagagaa agagctgaaa ttgtggaaaa acagacacaa gctcttatca 480 tgcgagtggc tgacctgcaa tgaaaggtgc atgcacagcc tcgccaggtg tctactgtta 540 aagtgagggc attgattgga aaagaatggg accctgcaac ttggaatggg gacgtgtggg 600 aggaccctga tgaagctggg gacactgagt ttgtaaactc tgatgaacct tttttgccag 660 aagaaacagc ttccccatcc ccagtagtgg caacatcccc tccccgaccc atgctgccat 720 cagcctttcc acctttgtct gaggagataa accctgcgct gcctgaggca acagtgatgg 780 cctcccctga ggcagttgcc aggcaagata atgttgattc tcctcaggag ccacccccaa 840 cacccctgtt tgcttctaga cctataacta gactaaagtc ccggcgggcc cctagaggtg 900 aggttgagag tgtgacccat gaggaggtgc gctacactcg aaaagaactg tttgagtttt 960 ctaatttata taaacagaaa tctggagaac aggcatggga atggatatta agggtgtggg 1020 ataatggtgg aaggaacata gagttggatc aggctgaatt tattgatttg ggcccactaa 1080 gtagggactc tgcatttaat gttgcagctc agggagttaa aaaaggttct aatagtttat 1140 ttgcttggtt agctgaaata tggattaaaa gatggcccac tgtgagcgag ctggaaatgc 1200 ctgatctccc ttggtttaat gtagaggaag ggatccaaag gcttagggag attgggatgg 1260 tggagtggat tagtcacttt agacctactc atcccagctg ggagggtcca gaagatatac 1320 ccttgaccaa tgccttgcga aatagatttg tgagggcagc acctgcatct ttgaagagcc 1380 ctgtaattgc tcttctctgt atgtcagatc taacggtggg aaccgcagtc actcaactac 1440 aaaatttaaa tacaatggga ataattggat cccgaggtgg caggggccaa gtggcagcac 1500 tcaaccgtca aaggcaaggt gggcatagct accgtaatgg acagcagagg caaagcggca 1560 atcagaatag tctgactcgt gtagagctct ggcattggct aattaatcac ggtgttccta 1620 gaagtgaaat tgataggaag cctactgcat tcctacttaa tttatacaag cagaaaactt 1680 ctaggtcgaa tggacaaaag actaatttga attataaaaa cagagaatca tggcccctca 1740 atcaatttcc agacttgagc cagtttacag acccagaacc ccttgaatga aggggaggcc 1800 gggtcccctt gaggaaggac cccactacat tactgacaat ttatgcagtg aatctttctc 1860 ccatccttcc ccaaggagac ctctggcctt ttaccagggt aactgtgcat tggggaaagg 1920 gaaatgatca gacattttgg ggactactgg acactggctc tgagctgacg ttgattccag 1980 gggacccaaa acgtcattgt ggtcctccag ttaaagtagg ggcttatgga ggtcaggtaa 2040 ttaatggagt tttagctcag gtccgactta cagtgggtcc agtgggtccc cggactcatc 2100 ctgtggtcat ttccccagtg ccagaatgca taattggcat agacatactt agcagctggc 2160 agaaccccca cattggctcc ctgactggta gggtgagggc tattatggtg ggaaaggcca 2220 aatggaagcc attagagctg cctctaccta gaaaaatagt aaatcaaaaa caatatcgca 2280 tccctggagg gattgcagag attagtgcca ccatcaagga cttgaaagac gcaggggtgg 2340 tgattcccac cacatccccg ttcaactctc ccatttggcc tgtgcagaag acagatggat 2400 cttggagaat gacagtggat tatcgtaagc ttaaccaagt ggtgactcca attgcagctg 2460 ctgtaccaga tgtggtttca ttgcttgagc aaattaacac atctcctggt acctggtatg 2520 cagccattga cttggcaaat gcctttttct ccattcctgt ccataaggcc caccagaagc 2580 aatttgcctt cagctggcaa ggccagcaat atacctttac tgtcctacct caggggtata 2640 tcaactctcc ggctttgtgt cataatctta ttcggagaga ccttgatcgc ttttcgcttc 2700 cgcaagatat cacactggtc cattacattg atgacattat gctgattgga tccagtgagc 2760 aagaagtagc aaacacactg gacttattgg tgagacattt gcgtgccaga ggatgggaaa 2820 taaatccgac taaaattcag ggaccttcta cctcagtaaa atttctaggg gtccagtggt 2880 gtggggcctg tcgagatatt ccttctaagg tgaaggataa gttgctgcat ttggcccctc 2940 ctacaaccaa gaaagaggca caacgcctag tgggcctatt tggattttgg aggcaacaca 3000 ttcctcattt gggtgtgtta ctccggccca tttatcgagt gacccgaaag gctgccagtt 3060 ttgagtgggg tccagaacag gagaaggctc tgcaacaggt ccaggctgct gtgcaagctg 3120 ctctgccact tgggccatat gacccagcag atccaatggt gcttgaggtg tcagtggcag 3180 atagggatgc tgtttggagc ctttggcagg cccccatagg tgaatcacag cggaggcctc 3240 taggattttg gagcaaggcc ctgccatctt ctgcagataa ctactctcct tttgagagac 3300 agctcttggc ctgttactgg gctttggtgg aaactgaacg tttgactatg ggtcatcaag 3360 tcaccatgcg acctgaactg cctatcatga actgggtgct ttctgaccca tctagccata 3420 aagtgggtca tgcacagcag cattccatca tcaaatggaa gtggtatata cgtgattggg 3480 ctcgagcagg tcctgaaggc acaagtaagt tacatgagga agtggctcaa atgcccatgg 3540 tctccactcc tgccaccctg ccttctctcc cccagcctgc accgatggcc tcatggggag 3600 ttccctatga tcagttgaca gaggaagaga agactagggc ctggttcaca gatggttctg 3660 cacgatatgc aggcaccacc cgaaagtgga cagctgcagc actacagccc ctttctagga 3720 catccctgaa ggacagtggt gaagggaaat cttcccagtg ggcagaactt cgagcagtgc 3780 acctggttgt gcactttgca tggaaggaga aatggccaga tgtgcgatta tatactgatt 3840 catgggctgt agccaatggt ttggctggat ggtcagggac ttggaagaag catgattgga 3900 aaattggtga caaagaaatt tggggaagag gtatgtggat ggacctctct gagtggtcaa 3960 aaactgtgaa gatatttgta tcccatgtga gtgctcacca acgggtgacc tcagcggagg 4020 aggattttaa taatcaagtg gataggatga cccattctgt ggacaccact cagcctcttt 4080 ccccagccac ccctgtcatc gcccaatggg cccatgaaca aagtggccat ggtggcaggg 4140 atggaggtta tgcatgggct cagcaacatg gacttccact caccaaggct gacctggcta 4200 tggccactgc tgagtgccca atttgccagc agcagagacc aacactgagc cctcgatatg 4260 gcaccattcc tcggggtgat cagccagcta cctggtggca ggttgattat attggacctc 4320 ttccatcatg gaaagggcag aggtttgtcc tcactggaat agacacttac tccggatatg 4380 ggtttgccta tcctgcacgc aatgcttctg ccaagactac catccgtgga ctcacggaat 4440 gccttatcca ccgtcacggt attccacaca gcattgcctc tgaccaaggc actcacttta 4500 cggctaaaga agtgtggcag tgggctcatg ctcatggaat tcactggtct taccatgttc 4560 cccatcatcc tgaagcagct ggattgatag aacggtggaa tggccttttg aagtcacaat 4620 tacaatgcca actaggtgac aatactttgc agggctgggg caaagttctc cagaaggccg 4680 tgtatgctct gaatcagcgt ccaatatatg gtactgtttc tcccatagcc aggattcacg 4740 ggtccaggaa tcaaggggtg gaagtggaag tggcaccact caccatcacc cctagtgatc 4800 cactagcaaa atttttgctt cctgttcccg cgacattacg ttctgctggc ctagaggtct 4860 tagttccaga gggaggaacg ctgccaccag gagacacaac aacgattcca ttaaactgga 4920 agttaagatt gccacctgga cactttgggc tcctcctacc tttaagtcaa caggctaaga 4980 agggagttac agtgttggct ggggtgattg acccagacta tcaagatgaa atcagtctac 5040 tactccacaa cggaggtaag gaagagtacg catggaatac aggagatcca ttagggcgtc 5100 tcttagtatt accatgccct gtgattaagg tcaatgggaa actacaacag cccaatccag 5160 gcaggactac aaatgaccca gacccttcag gaatgaaggt ttgggtcact ccaccaggaa 5220 aaaaaccacg acctgctgag gtgcttgctg aaggcaaagg gaatacagaa tgggtagtag 5280 aagaaggtag tcatcaatac cagctacgac cacgtgacca gctgcagaaa cgaggactgt 5340 aattgtcatg agtatttcct ccttcttttg ttaaaaacat gtttgtgcat gtatacactt 5400 gtactaagaa aatatcttca ttttatttcc ttttcctttt atcatgtgac ataagattta 5460 ttgacttcat atcagcattt aagtattgtt aactttatgt aatagtattt gggttgggga 5520 ttggtgcgtt tccggttgta cgaaggatag ttgtattatg ttaggcgtaa ttatgacctt 5580 attattgtct ttatttgaag attatgtatg atctcaggag atgtgtatgg gttcaagttg 5640 acaaggggtg gact 5654 // ID LTR38 repbase; DNA; HUM; 556 BP. XX AC . XX DT 01-APR-1998 (Rel. 3.03, Created) DT 01-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Long terminal repeat of LTR-retrotransposon related to the DE MER4I-group; a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR38; KW MER4I-group; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-556 RA Kapitonov V.V. and Jurka J.; RT "LTR38."; RL Direct Submission to Repbase Update (31-MAR-1998). XX DR [1] (Consensus) XX CC LTR38 is a long terminal repeat from LTR-retroposon related to CC the CC MER4I-group. 4 bp target site duplications. CC LTR38 individual copies are about 89% identical to the LTR38 CC consensus sequence. CC LTR38 is distantly related to the LTR36 (64% identity). CC Its 175 bp long 3' terminal portion is 63% identical to the MER87 CC 3' terminus. CC Internal sequence of the retrotransposon was found in GenBank CC sequence AL008583 (position 103133-108749). XX SQ Sequence 556 BP; 139 A; 162 C; 98 G; 157 T; 0 other; tgtaaccgag tatcccagcc tcaaaatgca ttttaaaact tttttctttt tcttttttgc 60 tttcagcctt gaaacatact ttgaaactct ttgtttctcc ctttcccacc aggcacttcc 120 gtgaacagtg ctcgcttatc taattatgtg cttgcttaga aattccaggg gccaattttg 180 aaacaaacca ggcagagaga cccagctgca gaatcctccc gcttaggggg agttatgaac 240 agttagccca ccactaccgg gctgaagtca ggatgatgca aaccagacct ccagacgggc 300 gattactcaa gatagccatc ggaacaagac atgcagacct ccaccctcct gcaccactcc 360 cacatatttc ccacaccttt tccttcttaa accccttcac tcagcccaaa agtctgaaat 420 gtcttctttg aggcatgagc ctggccatct cccatctgct agcatttgat taataaagct 480 gctttccttt caccacacct cgcttctcat gttttgagct tctgagcagc gagcagctgg 540 acttgagcca gttaca 556 // ID LTR19B repbase; DNA; HUM; 580 BP. XX AC . XX DT 08-MAY-1997 (Rel. 2.04, Created) DT 17-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE Putative long terminal repeat of endogenous retrovirus - a DE consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR; KW LTR19 subfamily; LTR19B. XX NM LTR19B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-580 RA Kapitonov V.V. and Jurka J.; RT "LTR19B."; RL Direct Submission to Repbase Update (30-NOV-1996). XX DR [1] (Consensus) XX CC LTR19 elements are flanked by 5 bp target site duplication. XX SQ Sequence 580 BP; 165 A; 143 C; 116 G; 136 T; 20 other; tgacagagca ggagcaccat catctcggac aaacactgcc attttaagtt ccagctcctt 60 ttccagccty atgcatttca aggaaatcac tttycttcta actacaagca gccagaaaga 120 gcagacagta aaatacagat aagacagctc gggcacagag ggaggtggkr ggaaagtctc 180 ttgggtaact gccaaactty accctcatac aatgggcccc agtaaaayag kgggccttaa 240 taagcacatt cctttycctt cgggtwcact aagatargga agctaaaagc agactcaggg 300 aggcggcggg gggtatgcct gcagctgcak raagatrtat gggarcagac ayacaaytst 360 ccctcccaga taagcacaac aaagagacac agaagcagtc caagcctctr ataaactctc 420 tcaccctgaa tccttaaaaa ctcttagtct gtaagagagt gtgcctctga cctaactcgg 480 ccagaagccc ctctcaggtt cgttttctct aaaataaacc tgtctttgtt gactgkwgag 540 ccgcttttcg tgtttctttc ctctttcttt aattcttaca 580 // ID SUBTEL_sat repbase; DNA; HUM; 174 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 14-NOV-2005 (Rel. 10.11, Last updated, Version 1) XX DE Satellite from primates. XX KW Satellite; Simple Repeat; SUBTEL_sat; TAR1. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-174 RA Smit A.F.; RT "SUBTEL_sat - Satellite from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX SQ Sequence 174 BP; 0 A; 84 C; 54 G; 24 T; 12 other; gcgcctctct gcgcctgcgc cggcgcsscg cgcctctctg cgcctgcgcc ggcgcsscgc 60 gcctctctgc gcctgcgccg gcgcsscgcg cctctctgcg cctgcgccgg cgcsscgcgc 120 ctctctgcgc ctgcgccggc gcsscgcgcc tctctgcgcc tgcgccggcg cssc 174 // ID LTR61 repbase; DNA; HUM; 595 BP. XX AC . XX DT 11-JAN-1999 (Rel. 4, Created) DT 11-JAN-1999 (Rel. 4, Last updated, Version 1) XX DE LTR from human endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR15; LTR4; KW LTR61; Long terminal repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-595 RA Kapitonov V.V. and Jurka J.; RT "LTR61."; RL Direct Submission to Repbase Update (JAN-1999). XX DR [1] (Consensus) XX CC LTR61 is distantly related to LTR4 and LTR15; it has 4 bp-long CC target-site duplications. Individual copies are about 90% CC identical CC to the consensus sequence. There are several hundreds copies of CC LTR61 CC in the human genome. XX SQ Sequence 595 BP; 183 A; 134 C; 107 G; 164 T; 7 other; tgaggcagaa atttaaaaat aataataagt actgcattca ttcactccaa gaaaagtaaa 60 agccaaggcc cagaatgtgg caaggcaagg gttaaaaaga aaaaaaaaar gaacaagttt 120 tcctctgcct agccaagctc acttcaagga cagttataag ataacgctgt ycgaraagcc 180 aaggccaaag gaatgggctc cagacacccc cccacctcca gagcaaggtt gaaggaaaaa 240 aagagaaaga caaattcctt tactgttact cctttccctg gcntcttaag catgactatg 300 ttttacaaat gtctgtattt agccagttct tgtttttctt tygacgcagc tacaaggcca 360 ccagctatgc aaggccacaa gttatgttat gctatagatt atgtgacctg tcactgtatg 420 attaactgcc tttgttttgc ttttgtaagc ctgcttataa aaaccccrct ctgtctttgt 480 tcaaggctca gctttttgga tgtgaatcca ctgagctggt gcgtacctta aaataaataa 540 caatcctcct gtattcaccc atattggtct ctctagtcct cagtttcccr caaca 595 // ID MER34B repbase; DNA; HUM; 599 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR34B; KW MER34B; MER4I-group; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Toth G. and Jurka J.; RT "Repetitive DNA in and around translocation breakpoints of the RT Philadelphia chromosome."; RL Gene 140(2), 285-288 (1994). XX RN [2] RP 546-1 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-546 RA Kapitonov V.V. and Jurka J.; RT "MER34B."; RL Direct Submission to Repbase Update (JUN-1998). XX RN [4] RP 1-599 RA Naik A. and Jurka J.; RT "MER34B."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [4] (Consensus) XX CC 70% similar to MER34 approximately over the entire length. XX SQ Sequence 599 BP; 174 A; 132 C; 104 G; 185 T; 4 other; tgtgggagac cagaatatgc caccccaaaa tatgcctctt tggcataagg aytgttgagc 60 tgaaggcaat taagaagaag cagatgcagg aaagctctct gccctccctc tatttgccta 120 aaagcaggac atagatttac aaagacaaaa ggtatcctgc ccccacccct tctaccaggg 180 agaacaaagg ttaaccactg aagacaactt tagaccctta ttggcctgga gatggtacca 240 gaggaatcta cattaacaag ccttactaac tagcctttat ctgccagtta tttgccttcc 300 cacaagttgc tgcccctaga gactcaaagt ccttttcctt tgtcttgtca cttctctaaa 360 aatttntttt actgttcttt gttgaagatg ctatataagc tggaattcaa agccacctct 420 ttgagaacta ctcattctct gggtgtctcc catgtatata tgaaatatac atgttnaaaa 480 ataaanttaa taaacttctg tctgtttttc tcttgttaat ctgtcttttg ttacaggggt 540 ctattccaac taagaactta tgagggttga ggagaaaaaa ttatttttct tcccctaca 599 // ID LTR33B repbase; DNA; HUM; 503 BP. XX AC . XX DT 06-OCT-2006 (Rel. 13.06, Created) DT 25-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; ERVL; LTR; KW LTR33B. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-503 RA Smit A.F.; RT "LTR33B - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (25-JUN-2008). XX DR [1] (Consensus) XX CC rnd-3_family-3071 24%/30% subst dog-human. XX SQ Sequence 503 BP; 93 A; 151 C; 128 G; 123 T; 8 other; tgtgccggat tgtctgttgn caactcagca ccatccccgc tcccttctan gctctcccct 60 gtatcgcagg ggctggaagc ctggaaacta catttcccag antcccttgc cagcagggtt 120 ccggnttaga ttctgccaat gagaggcact cgcgcgagat ttggaaggcg gaagagaagg 180 agaagccatt attctccngc ggcagcngcg ggcagacgcg tgggcttcgg cagacggcag 240 atgtgaggtt ttgccagcgg cttccgggca tcctcctgng aatcacccgc ttcggtgctg 300 caggcagctg agatcatcgg cggcggcttc cctgcgattc ctgcacttcc tgatttcctg 360 aaagctagca gcggtttccc tgaccttcgc tcccccagcc cttccaacgg ttntgtaagc 420 ctctaattcc ctgtattaaa tcccttcctg cttgaaatac ctagagtggt ttctgttttc 480 ctgaccaaac cctgactgat aca 503 // ID LTR57 repbase; DNA; HUM; 411 BP. XX AC . XX DT 18-AUG-1998 (Rel. 3.07, Created) DT 18-AUG-1998 (Rel. 3.07, Last updated, Version 1) XX DE LTR from human endogenous retrovirus - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR47A; LTR47B; KW LTR57; Long terminal repeat; subfamily LTR57. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-411 RA Naik A. and Jurka J.; RT "LTR57."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC ~70% similar to the 3'-end of LTR47A and LTR47B. CC Over 80% similarity between individual LTR57 and the consensus. XX SQ Sequence 411 BP; 105 A; 101 C; 102 G; 101 T; 2 other; tgtagtgtga caggtccccc aaccaggtta cttaagggtg tatgtccgct gcctgaaccc 60 tgaaggccag gtggtgagcc aaggccatgg tgcccagctg aggagcaggt gtccctgaga 120 acccaaacat cccrgagagt atctgagaac ctaccaagga aaacagtccc attacacaca 180 cacagtaggc aaagagccag aaaattagct taaaagcagc ttagagatgg gaggtggcac 240 ggatctctag agctgtcctg ctgccatcca ggagtgccct gtatgtaagt cctaataaac 300 tcatctactt atcaagctgg acttgtccga gtcattcttt ggtctctcrg ctccttccca 360 gtttgggggg aggtattttt ttatatacag tcccaggttt ttcttgtaac a 411 // ID MER66_I repbase; DNA; HUM; 6676 BP. XX AC . XX DT 31-MAR-1998 (Rel. 3.02, Created) DT 25-OCT-2008 (Rel. 13.11, Last updated, Version 3) XX DE Primate MER66_I repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Internal sequence of retroviral-like element; MER4 group; MER66I; KW MER66_I. XX NM MER66I. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-6676 RA Smit A.F.; RT "Type I endogenous retrovirus."; RL Direct Submission to Repbase Update (28-FEB-1998). XX DR [1] (Consensus) XX CC This sequence shows similarities to MER4I, MER65I, HERVH48, CC HERV17 and CC MER4D LTRs listed under MER66A and B. Subfamilies diverge CC considerably. XX SQ Sequence 6676 BP; 1795 A; 1508 C; 1463 G; 1830 T; 80 other; tctggtgacc acgaagggac gaagacggca agtgagagag agtgagagag ccgagatggc 60 aatcggtgga gagacaagat ggtgagacag tggcgatgac ggcaatcagt gatcagtgga 120 gaggcagcaa kcggcgagag atggtgagat ggtnatcaaa agctgcagag caataaccct 180 gaggctgtaa caananagag ctgctaacac cgcagagctg taacactaac caaaggctct 240 tttcagagcc atcatttttc ctggcgggca gcggagccga gcggacaggc aagtggccat 300 aatactgccg cctcgtgtgg gacccgctgc tctgaccggc aggccagtgg gttaccggtc 360 cccgcgcttg cccctcncgc tgtggcagct gagcccaccc aagctgaggg aacctgggga 420 agaccttcac ccgggtccca cgtggaagac cagtcagcac cattttggct cctgtggacg 480 ggtgagtgtc ccctctgatc ccmccccata atatcgggta aactagagaa taaaagcctt 540 tggctaggtg gtcagttaaa agtcccccat cgtttgggtg ccccgagaca catccttgtc 600 accccttccc ctggtccttt ctcttctgac tccattttat tgctccacta gccattttat 660 tttcagtcct aaaatgtatg ttttgtttgc agtcttattt ttgcttttga ctttctgttg 720 actgtttggg caattgttta aggcaggaca cttggttgtg agaggtcccc cattgtgttg 780 actctgggac gccagagtca cgttgttctg tgaccccaac taggcctttg gggttcactg 840 ttggccaccc cacagatgct ccggggtttt cggcatttgg ngaacccctg gawactctgg 900 ggtttctggc atttggtgtg gggaccctca ttggcttgat actcaggtac tccgggtttt 960 cagcattcgg tattgttggc cgccccctgg atgctccggg gttttcggca ttggcattcc 1020 tttcaggact gtgggttaga gtcccatcct aggggaatct tggtcttgcc ttttctcgtt 1080 ttctgcccta aagnttatna ttttctgtaa cagcattttc ttttcctatt gtcactttat 1140 ttacactttt ccttctacac tttgcttaat aaaaacmctt ttttgtcgta tttcattcac 1200 tggcaaatac tcataatccg cttttataat accttgctac ctatactttg acagaaagtg 1260 ggaatctaaa aggaaaaagt aacaaaggcc cagttgnttt tgctctcgct agacttagaa 1320 aaacttctgt gtccwgtaga gatccttact agacatgggg acaacgatga gcatcccaga 1380 ggactcgcca ctagggtgtc ttttaggcaa ttggagcaaa ttcaaattca gcttagagaa 1440 aaagaaactc attttctatt gcaacaccgt ttgggtccaa tacaaattgg aaaaccaaca 1500 gatttggcct aggcatggtt ctttacatta taatgmtatt ttacaattag atttattctg 1560 taaaaaggaa ggaaaatggg aagaagtccc ttatgtacag gcttttatgg ccctctacca 1620 ggatcctgac ctaagggmta gctgtagaat gtgtggctca tgwtacttcc aggcaccagg 1680 aagctacacc agatatgcct aaaggacccc ctcctagctg ctccccctag aacgcctacg 1740 ccctcccttc ggagcctcct cagtccccca gttctgagag gggtcctacc agttctctaa 1800 tacaggattc caccccaagg tcatcaggca cccctcctcc ttatccaaca agccccggcc 1860 tatacccccc gctgcccaag gaagtaagcc caaccagtac caccaggagt ggggccccgt 1920 atcagcccct aaaatcaaac ctgtgtccat tgcgggaggt agctgatgga aataggagaa 1980 cantcagagt atatgtgccw ttttccatgt scgatttggc tttatgcaag gaaaaatttg 2040 gccagttttc ggaggatcca gggaagttta tagaggagtt tgttaagttg accatgtcct 2100 ttgatttaac ttgkcatgac ttgcaaatat tattatccgc ttgctgtacc gtagaggaaa 2160 aacaaaggat tctaggtact gcccatgaac atgcagatgg agtggctgtg tgtaacccag 2220 gccatgccat ttactgtgtg ggaggagatg cagttccaga tctanacctt aagtgggatt 2280 accagagagg ttttcaagat cttgaatgca gaaatcatat actaacttgt ttagtagaag 2340 tggaagaaaa agtgtgtggt taagccagtt aattatgaca aggttagaga aataactcgg 2400 ggaaaagatg aaaatcccgc tctgtttcag ggccgtttgg ttgaggcact caggaaatat 2460 actaatacag acccagactc cccggaaggg cgagctctcc tgggtatgca ttttattact 2520 caatctgccc ctgacattag gaggaagcta caaaaagcag caatgggacc ccaaacccct 2580 gtaagccaac tcttaaacat ggcctttggg tttacaacaa tagggacagg gcagagaaga 2640 ggcgaaaaca aaagaaatag ccaaaaagcg caattgttag tggctgcttt aggccccctg 2700 ccgcctcagg gttacccacc tcgagaaaat gtcgtgagat cggcgtctag gatgcccaga 2760 naagagcccc ccactcncca gcccctgggc caaaatcagt gtgccttctg taagcaagag 2820 ggccactgga aawaggattt cctaaccgwc cccagtgagm tcggaaagcw tcgcgtcaat 2880 accagagcta acctccttcc gctagccccc agmgagctgc cttgcccaag taaatttact 2940 aagngtctgg gctcttgacc taatggacag cctcccamag cggcatacaa gtggccgctt 3000 naacattttt cttcagtgtc tccactgccg ggtaggttct ctggcgastc ggggcctccg 3060 aggtctcccc ttgagcaatg cwgttcaccc tgctcccttc cttatktgat gctatgkgat 3120 cwtcttccct gcctcttcct gtcttccata cctactggkg cwaacaaaat ttggccaggt 3180 aggtgggtcc caawtttgta aataacttgg atccagttgc ctwgtatakg tcattttact 3240 tkgtgtgttt aagtstmtgt amaggttwaa tgtgtgctgt ntttagcagg ctatcanatt 3300 ggctnagaaw taaaagagtg ctcgtgaatt aacacaagnc nagtctagac ttattcgttt 3360 gaaaaatgtt acgtcttcta aaatttaact ctaagatttt tanctaggta aatcactgat 3420 gtgcataggc tttaaaatgg ttaaaatggc camwggtcgt taaattcgca tgggaccttg 3480 gttcttggag gtggtctaaa catagctatt aaaagtaaaa atgttaaaca catgtgaatg 3540 gaatagatgc ttaaatagtg agcttnttgt acggtttaaa atcttaaaat tgtaaaatag 3600 ttctcatcta tagaatkcca atgtctggtg ggcagttcag gatttcttgc tccctagntt 3660 tatataaaat gtgccaaaga aatgtatttt ttattgggaa aaaangtttt cgtctaattt 3720 ggaagttatt aaaagggagg ttcaaaatat aaggaaacca ntgngtagaa aagagagata 3780 taaagaatgt tatggataga aaatgtattt tttgcaaaga atatataaaa aagagtaatt 3840 ttnnatnaag aggaatcttg tatagtaaat tcttgtccta aagtaaaatg accggttatt 3900 taagaaagag gtagtatagg acaagtaaga aankccaagc atgttgtaga tggtctgtgt 3960 nagtcatgat aaggttcatg aaggggaatt tataaaaaga atttttgtgt atgattaagc 4020 ttgctataat taaaagaaaa ttgtttacaa tagactttct aaagaatggt ctacgtttka 4080 aaaccgaatt ttcttaaggt attaatttgn taaattacca gaaattttgt ttttcaatnc 4140 tgtaakctag ttcttttgaa agcttctcag cganttcatg taactctmtc ctttagcttt 4200 ttcgtcagct cctgtgagtt ttttcctcta gttctgttgt tgtggcctga tgctaaagtg 4260 ttttgtctta gaggtctgtg ggagcagtgt tttcccccag tatagtttct attgatataa 4320 tcttattttt ggcttttagt ttttgactct tacattgctt agaagggttt taagggctaa 4380 tgagtgcctg cccacctcca ttcccgtctg gcctagaacg tttaattggc tataagtctt 4440 ttgactctaa gtcccttggs caaaggaaat tccaaagaaa cttaaaaact aactcaggcc 4500 atgacaggaa acagggggtt agacatacct cactatgccc cctttwmaat ttaggctagg 4560 ttcacaaggc ccttcaagaa tatggaaata aagtattgcc tctcacaaga cttagtctta 4620 ctaaaaactt aaaaagaagg atcccctgag gatcaattac aaccaaaatg gaagggccct 4680 atcgggtatt gttaagtacc cccactgctg ttaaacttca gggaataact agttgggtac 4740 amctgtccag gattaaacct gtttcttatg agtcacaggc acaaaaggag gacaccatga 4800 cctacatctg tgaacctttg gaagacttcc actacctatt taaaagaatc aacactcagc 4860 cagaagtggt aacgtgatgc tgtgggtggg aataggagca ttaatttttc tcttcttcct 4920 gattgtaata cttcttttct atcgctttag ccaaccacct tctcctggga aacacctctt 4980 ttgtccttgt tgggtgtaga ggccactcta aggcccaacc ggataccatg ctgtcactgt 5040 taatcctgtt tgctctccca attaccctga tccagtgtgg gtgggaacaa aactctatag 5100 taaatatttc aaaaattata gcatcaggga atcatcttca tggttgctgg atttgtcatc 5160 aacatcccca ggatagagag ttccatcttc tggcctatcc ggaaaatctc acagccatct 5220 ccccagacct cctaactaac catagcaatc ccgaagtacc caaaccccta cttgttaagt 5280 ggaactctcc cccacttaac ggattccacc tgaacntccc cmaccactat tacctggacc 5340 tgggaagttg ggtatctata tctccagtgc actaatgatt ctatcttttg cacccactgt 5400 tgtgttaatg acacaaaagc ggaagtttcc ctgcgatgct ctgatccaac tctagttgcc 5460 aagttcccaa ggccgcagca aggtaaatgg gattccactt gtaagcgagg agaccatata 5520 tggtgccttc tcctggatca gaacatacag gggaaaaaca actgcctaat ctgggaaggt 5580 gggagtaccg cccccttctg gaaaacaaag attgttcgac cacccccatt ggaacagggg 5640 aagaatatct ctatagaccc aacttggcag caaagaatag acatcacacc ccgtagggcc 5700 tccgtttgtg ccccaactgg gctcattttt gtttgtggcc atgaatggga agaagtcaca 5760 cnccgtaacc actcccgact ccccagggag ccacctgttc ttttaggagt agctttccct 5820 tgtatatcaa aaacttggaa cagaggtgaa tgtacgttgg ccacccttgc ccctccaggg 5880 gtcacagtct ataaccccat aagacccagg aacaccagaa gtaaacgagc aataggatta 5940 attctggcgg gaatcggggc agcaatagga ctagcagcac cctggggtgg ctttgcctac 6000 cacgagtcaa ccctaaagaa cttgactcaa accctagaat ccttagccac caacacaggt 6060 caggcactaa agagaattca agagtcccta gactctttgg caaatgtagt tctcgataac 6120 agactagcat tggattattt actagctgaa caaggtggag tctgtgcagt tattaataaa 6180 acctgctgca catatattaa caactctgga caggttgagg ttaacattca aaagatctat 6240 gagcaagcta cctggttaca tagatataac cagggcactg accccaacta tatctggtcg 6300 actatcaaaa gtgccttccc aagtctcacc tggtttttac ctctcctagg acctttgata 6360 gctgtcttgt tattactaat ttttggccct tgcttgttta acctcttagt aaagtttgtg 6420 tcttctagat tacaacagtt ccaggtaaag acaatgctgg cacaaggctt ccaacccatc 6480 ccgtctactg acccggagaa tgaaagcgtc ctgcctctgg gccccttaga tcaggtatcc 6540 agagattttt actcctccgg tgctaggcag ggcctatgcc cataaactca gcaggaagca 6600 gttacagaag atggacctcc gcccttctgc agccccctta agattaagga ggagtatcta 6660 atctctgagg ggggaa 6676 // ID ZOMBI repbase; DNA; HUM; 2806 BP. XX AC . XX DT 13-JAN-1998 (Rel. 3, Created) DT 02-OCT-2007 (Rel. 5.09, Last updated, Version 5) XX DE Autonomous DNA transposon; POGO superfamily. XX KW Mariner/Tc1; DNA transposon; Transposable Element; TIRs; KW TA target; MER46; TIGGER4; ZOMBI. XX NM ZOMBI. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 2806-2710 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 2806-2710 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247 (0001). XX RN [3] RP 1-2806 RA Kapitonov V.V. and Jurka J.; RT "ZOMBI."; RL Direct Submission to Repbase Update (31-DEC-1997). XX RN [4] RP 1-2806 RA Smit A.F.; RT "ZOMBI."; RL Direct Submission to Repbase Update (31-DEC-1997). XX RN [5] RP 1-2806 RA Jurka J. and Kapitonov V.V.; RT "Sectorial mutagenesis by transposable elements."; RL Genetica 107, 239-248 (2000). XX DR [3] (Consensus) XX CC 23 bp terminal inverted repeats and TA target site [1,2]. ZOMBI CC is an autonomous DNA transposon. Its non-autonomous elements have CC been identified as ZOMBI_A (MER46 [1,2]) and ZOMBI_B. Orientation CC of ZOMBI has been determined based on the reconstruction of its CC internal sequence encoding transposase [3]. It has been shown CC [3,5] that neurolepsy-related Jerky gene in human and mouse is a CC recruited transposase from ZOMBI. XX SQ Sequence 2806 BP; 912 A; 540 C; 600 G; 754 T; 0 other; caggttgagc atccctaatc caaaaatccg aaatctgaaa tgctccaaaa tctgaaactt 60 tttgagcgct gacatgacgc cacaagtgga aaattccaca cctgacctta tgtgacgggt 120 cacagtcaaa acgcaggtgc acaacacaca gtttattcgg cgtccccaag ggaaaaaaga 180 ccctcccagc ccccttcagc tgcggtatat cttttccgcg cacacccaga ttcccccatg 240 caagcacgcc cacaaagggt aataaaatgg cacgtgtgca ggctggacac accaacggca 300 ggttccccac aatgccccca catggggtca agacctacgt gcattactca ctgtgttttt 360 ttgcttattc tctgctctgt ggtgtaaaga tattgttgaa aatgtcaaaa aggcctgtag 420 atacccctgt gagtaacaat gataagaaaa aggaagcatt tatgtttatc tatagcacag 480 aaaagtcaag ctgttggaga aactggacag tggtgtaagt gtgaaacgtc ttacagaaga 540 gtatggtgtt ggaatgacca ccatatatga cctgaagaaa cagaaggata aactgttgaa 600 gttctatgct gaaagtgatg aacggaagtt aatgaaaaat aaaaaaacac tgcataaagc 660 taaaaatgaa gatctcgatc gtgtattgaa agagtggatc cgtcagcatc acagtgaaca 720 catgccactt aatggtacgc tgatcatgaa acaagcaaag atctgtcaca atgaactgaa 780 aattgaaggg aactgtgaat attcaacggg ctggttgcag aaatttaaga aaagacacgg 840 cattacattt ttaaagattt gtggtgataa agcatctgct gatcatgaag cagcggagaa 900 attcattgac gagtttgcca agatcatcgc tgatgaaaat ctgatgccag aacaagtcta 960 taatgctgat gaaacatcac cgttttggtg ttattgcccc agaaagacac tgactacagc 1020 tgatgagaca gcccctacag gaattaagga tgccaaggac agaataactg tgctgggatg 1080 tgctaatgca gcaggcacgc ataagtgtaa acttgctgtg ataggcaaaa gcttgcgtcc 1140 ttgctgtttt caaggagtga atttcttacc agtccattat tatgctaaca aaaaggcatg 1200 gatcaccagg gacatctttt ctgattggtt tcacaaacat tttgtaccag cggcttgtgc 1260 tcactgcagg gaagctggac tggatgatga ctgcaagatt ttgttattcc ttgacaactg 1320 ttctgctcat cctccagctg aaattctcat caaaaataat gtttatgcca tgtactttcc 1380 cccaaatgtg acttcattaa ttcagccatg tgaccagggt atctttagat caatgaagag 1440 taaatataaa aacactttct tgaacagcat gctagcagca gtgaacagag gcgtgggtgt 1500 ggaaggtttt caaaaggagt ttagcatgaa ggatgccgta tatgctgttg ccaacgcttg 1560 gaacacagtg actaaagaca cagttgtgca tgcctggcac aacctctggc ctgcgactgt 1620 gttcagtgat gatgatgaac caagtggtga ctttgaagga ttctgtatgt caagtgagaa 1680 aaaaatgatg tctgacctcc ttacatatgc aaaaaatata ccttcagagt ccgtcagtaa 1740 gctggaagaa gtggatatta aagacatttt taacatcgat aatgaggctc cagttgttca 1800 ttcattggaa gaagtggata tcaaagaagt cttccacatc gataaatgca ttaccagttg 1860 ttcaaccatc accggatggt ggaatagccg aaatggttct gaatcaaggt gattgtgatg 1920 atagtgatga tgaagatgat gacgttaaca ctgcagaaaa agcgcctata gatgacatgg 1980 tgaaaatgtg tgatgggctt attgaaggac tagagcagcg tgcattcata acagaacaag 2040 aaatcatgtc agtttataaa atcaaagaga gacttctaag acaaaaacca ttgttaatga 2100 ggcagatgac tccggaggaa acattttaaa aagccatcca gcagaatgcc tcctcatccc 2160 tagaggaccc acttcctggt ccctcaactg cttctgatgt ttcttctcac ttagaaaaca 2220 aaaaccaaaa agcaaaaaaa atacagtgta cagtaacctt ttaatcaaaa cacagcatcg 2280 tagatggaga ctgaaagcct gccattgttt gttgttgctg ttgtttaaca gctgatacag 2340 gtattctggt gatgctactg tgctgcttag ttaccctgaa cacatttttt tttcactgta 2400 ttaatggtat gtcatatttt ttactgttaa gtacttatgt gtgaataagt gtaagaaaat 2460 gattgcttat cggtagcata taaattcaga gtcaggaatg atggtgatgc caaacaacca 2520 cagattgtcc acatgggtgg ctgagatagt gacacctttg ctttctgatg gttcaatgta 2580 cacaaacttt gtttcatgca caaaattatt aaaaatattg tataaaatta ccttcaggct 2640 atgtgtataa ggtatatatg aaacataaat gaattttgtg tttagacttg ggtcccatcc 2700 ccaagatatc tcattatgta tatgcaaata ttccaaaatc tggaaaaaaa tccagaattc 2760 aaacacttct ggtcccaagc atttcggata agggatactc aacctg 2806 // ID LTR48 repbase; DNA; HUM; 787 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR48; KW putative MER4I-MER41I-MER57I-MER65I group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-787 RA Jurka J. and Naik A.; RT "LTR48."; RL Direct Submission to Repbase Update (22-JUL-1998). XX DR [1] (Consensus) XX CC Partially similar to LTR29, MER34 and MER39. CC Over 3000 copies in the human genome. XX SQ Sequence 787 BP; 205 A; 215 C; 126 G; 233 T; 8 other; tgttggggct cagaaaatac cccaaagtat ggtgctttgg catgctgagt actttgaact 60 aaaggaaatt ggaaggcctt agaagcagcc ntcagaacca aggtctntct ctgaccttct 120 cttgcctccc tgtctctctg cccctctttc tttccccaag cacagggagg gnctctctct 180 gaaatttcct tatctgacta aggaaacttc tttccaaaag aaatgcaatt gtcttgaatc 240 cccntcccta ggaatctcat caaataacca ggaaagatta accacatgag aagagaagag 300 actaaaagtc atcaaaccca saacaccaca cccagacaga cttttcatca tctattcttc 360 tgagggcagc tctaagagat tacctgagag actttttatc tgcataataa gacaaccttt 420 gttcacagtg cagttctgcc cctcaccttc ctataatttg ttctccacca cctccnccag 480 agcccagaga aactttgtcc caggccattg gtctgttctt tgggcccatt catttcccct 540 aaaaatcatt tactacccct ctaaaattgc ctacatcccc cccatttccc tctcccctat 600 gaagagggta tttaagcttc aaccatctgg cccttctttg agtctcatat anattttgta 660 tgactcccat gttcatatgc atgttaataa atttgtatgc cttttctcct gttaatctgt 720 ctattgtcag ttcatttcag caaaccttca gaggggacag aggggaagct ttcctttcnc 780 ccctaca 787 // ID HUERS-P3 repbase; DNA; HUM; 8919 BP. XX AC . XX DT 30-APR-1998 (Rel. 3.03, Created) DT 30-APR-1998 (Rel. 3.03, Last updated, Version 1) XX DE Primate HUERS-P3 repetitive element - a consensus. XX KW LTR Retrotransposon; Transposable Element; HUERS-P3; HuRRS-P; KW LTR retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-8919 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Genbank (APR-1998). XX DR [1] (Consensus) XX CC The consensus HUERS-P3 contains full-length ORFs encoding a GAG CC and POL CC protein most closely related to that of MuLV and BaEV, CC respectively. CC HUERS-P3 has LTR9 long terminal repeats. Bases 2062 to 6428 are CC 66% CC similar to regions in HERV17 and HERV9. Many apparently CC non-autonomous CC elements containing differing amounts of MER4I-type and CC HUERS-P3-like CC internal sequences exist (see e.g. HUERS-P3b), suggesting that CC HUERS-P3 CC was one of the engines for the distribution of the MER4-group CC elements. CC The first reported (partial) element, isolated (but not CC sequenced) by CC Kroger and Horak (J Virol 19876 1(7):2071-2075), is now present CC in the CC BAC sequence HSAC002069. XX SQ Sequence 8919 BP; 2495 A; 2218 C; 1944 G; 2162 T; 100 other; ttttggggsa ttggcnagga taccaaggta caacattcat tgraacggtg agtataggag 60 cgractccaa ctctgtcctt tcattccgag gctctcttgg cctccatttt aaaatcaaat 120 caaatcaata acgggtatcc gtcagccagt taaaaacgnt tagcgcggct gccgntctta 180 aagactcgga tgwcaggctt gctggggaga acatggagaa tcccccagca cccacgggtt 240 gttgggaatg ttggccatgt ttgaaccagc ttcctttcac ggagrrccta gccgtcacgt 300 ggggctggaa gaagtcctga ggcaactgag gatttctggc cggggctaca ccccggtgtt 360 atccaaaggc ttctggaccg accccagcct ccgacagccc attggggtgt tggcaacagg 420 atctccaanc ttccttttgc tatcgcaatt tcctcctttc ctntctcagt saccatgtct 480 cttatcctct ctgtgtatgc aatgtgcggg aatttttaca gttcagggaa gtaatcctgt 540 twgacaagat cagggaatgt cgtagtaacc agggatatag ctcaagggaa ggcgtctttg 600 tgattttcta ggaacagagg gcccccacat ccccagtgaa catctctctc tgcccttggt 660 ctggagagca catggmactt ccaggtctct ctctsccctt ggtctggaga gcacatggca 720 tntcaaggct actgcccttg gtctggacag cacatggcat ttcaaggtca acagcgccac 780 ctagtggaat aggaatcctc tccatgaggc acattgtcgg tccttcaccg aaacactcta 840 gcttcccaat tctcccctct ttttgcgcct ctctactaga aatcaggctt catgcynctt 900 ctgtgaacgg gaaaaytctg ctttcaacar ytaggagtaa aatatcctcc gwagccaaat 960 tttagtctcg atactgtccc atcagcagga aaacggccat tcggtcccta cgttctttta 1020 aggcacctat tctgtctcca attaraatgg tacttaatta gtaaggggat tttaagtycg 1080 gaagttaacc ggaaccattt ttctctaagg gtaaatgctt tagcatgggc cataatagca 1140 ggatatagag ctcaatctag cacgctccct ccgttaaagg ggncttgccc aaatgcaact 1200 gttacatagt ctctcccgag atccattttt tagggagcca cgcaggtcac acaagtctag 1260 gaggtcaaag ggaaatcaca ggcagaggac tagggctgct tgggtaagcg tgactaatcc 1320 caacacttag ttcctccggt tccatggctt ggagggtcac gcctgcaacc atgggcggca 1380 catttaacaa ggtgccggga cccaggaacc anggagggaa aacagcaggg gggacgcccc 1440 ctactgtctt cctctccacc ctgggtcaya ccaaaaggaa ggagactaaa ggaacgcttt 1500 twttctcact tctctttcta gatgggtaac agatcatctt cagcctgcac tcctctggag 1560 tgcattctga agcactggga ctccttcgac cctgagactt tgaagaaaaa gcggctcatt 1620 ttcttttgca caagggcatg gccttcttac catcttgggg acgaanargc ctggcccnnt 1680 gaggggagcc ttaattttaa tattatccaa caattagatc ttttctgcag acaggagggc 1740 aaatggtccg aggtccttat gtacaggctt tctttgccct gcgagacaac ccagaccttt 1800 gcaagcgttg camaatcgac ccagctcttt tagcaatcat atcaggcagg nccaaagaga 1860 atgattcccc aaaaytagaa aagcaacttc caggggaacc atctgaggca gctatcgaat 1920 gtcccagccc ttccagtccc ccttatctgg ggccacctcc aaccacgcca ccagctcctc 1980 casctccacc atctccaaaa tttcccactc ccccaccttc actcttaccc ctacaggaaa 2040 tgcccgatgg aggtgatgcc actagggttc aagttccctt ctcattacag gaccttaggc 2100 aaataaaggg agacttaggc cgattttctg atgaccctga taggtatata gaagctttcc 2160 aaaatttaac tcaggtattt gacctcwcat ggagggatgt tatgctgctc ctaagccaaa 2220 ccctaactgc ngctgaaaaa caggcagctc tgcaggcagc agagaatttc ggagatgagc 2280 aatatgtctc ctatagyagg ccaaaaggga aaagagaaaa tagggaaggc gaagaaatag 2340 gggaaacacc attcccaata ggaagagagg cagtacctct tgacaaccct aattggaacc 2400 ccaatgacgc agkagatgaa tggaaaagaa aacacttttt aatgtgcata ttagagggcc 2460 tatggagaac cagggccaaa cctcttaatt actctaaact gtctatgata gancaaaagc 2520 cagatgagaa tcccgcagcc tttatggaaa ggctgagaga ggcactaata aaacacacct 2580 ccttatcccc tgattcagtc gagggacagc taatcctgaa agacaagttt attacacagn 2640 cagctcccga tattagaagg aaactacaga aacaggctat aggaccagat agcaccttag 2700 aaaacctcct gagggtggcc acctcggtct tttataatag ggaccaggag gaggcccaag 2760 agaaggagag gaaacacaag wgaaggacag aggctctagt agccgctttg caggcttgca 2820 aagtccagga tccccgaggt gcatctgcta gttgctatca gtgtggcaag tcagggcact 2880 ttaaaaagga gtgcccaggc agcaagaaga agccacctcg accctgtcca gcctgtggcg 2940 gggaccactg gagatcggac tgcccccgga ggcggaggtc actgggttca gaaccagtct 3000 cacagatggt ccagcaggac tgatgggtcc cggggctcaa acccctggct ccagcggctc 3060 aaactgccat tacagcacag gagccccggg tgattctgga aattgaagga aggaaggtag 3120 acctccttct ggacactgaa gccagtctct ctcctctcct ctccaatcca ggcctcccct 3180 cttcccatag cacgaccatg aggggcgtct caggaaaaac tctaacccga tatttttctc 3240 aaccccttag ttgcagttgg ggggacctat gtttacacat gcctttttaa tcatgcctga 3300 aagtcccact cctttattag gtagagacat tctagcttgc atgggggcca gcatccttat 3360 ggccccagga caaactcttt gtctcccnct ggtggaagct aatattaatc cggaagtgtg 3420 ggcaactcaa ggaagaatwg gtcgagctat aaccactagg ccagtccaga tccatcttaa 3480 ggatcccact tcttttccta accagagaca atattcccta aagccagagg ctaggaaagg 3540 gctagaagcc attattaata acctgaagat gcagggcctc ctcaaaccct gtagcagccc 3600 ctgcaacacc ccaatattag gagtgcaaaa acccaatggg gaatggagac tagttcagga 3660 cctctgcctc attaatgagg ccgtagttcc aatccatcca gtggttccta atccctatac 3720 cttgctgact caaatacctg agggaactaa atggttcaca gtcctagatc taaaggatgc 3780 ctttttctgt ataccattac atcctgactc tcaatacccg tttgccttca aagatccctc 3840 cggccaaacc gcccagttaa catggacggt gctgcctcag ggattttgag atagccctca 3900 cctgtttgga caggcactgt caaaagacct ctctgagttc tcccatcctc aggtcaaggt 3960 tttgcaatat gtagatgaca ttctgctctg tgccccaact gaggaagctt ctcaggaagg 4020 cactgaagct cttcttaatt tcttagctga cagaggatat aaggtttcaa aatccaaggc 4080 ccagctctgc maaacctcag tgaagtacct gggtttagtg ctgtctgaag ggaccagagc 4140 attaggggag gagaggatta agcmcatttc ctccttcccc ctccccaaaa ccctcaagca 4200 actgagagga ttttggggca ttacaggatt ttgcaggcta tggatacccg ggtatggtga 4260 gatagsttgc cctttatatc acctcataaa agaaactcaa gcggctaaaa ctcatctcct 4320 aacctgggaa cctgaagctc aaaaggcctt taaccagcta aagcaagcct tgcttaaggc 4380 accagctctc agccttcctg tagggaaggc cttcaatctt tatgtatcag aaaggaaggg 4440 aatggccctg ggagttttaa ctcaggcccg aggaccagnt caacagccag tgggttactt 4500 gagtaaggaa cttgatttgg tggctaaagg atggccagca tgcctccgag ccgttgccnc 4560 agtggcccta ctggtcccag aagcctccaa attaaccctg ggaaatgact taactgttta 4620 taccccacat aatgtggcag gattactgtc ctctagggga agcctttggc taacagacag 4680 ccgnctcctt aaatatcagg ctttgctgtt agagggwtcc acmatccagt taaaaacttg 4740 ctctcaccta aacccagaca ctttcctccc ngaggaaact ggggaacctg aacatgactg 4800 tgaacaaatc gtagtacaga cctatgcagc cagggaagat ctcagggaaa ctcccctaga 4860 aaatccagac tggaccctct tcatggatgg gagctccttt gtagaacaag gaatccgtaa 4920 ggcgggatat gcagtagtca ctctaaataa cgttattgaa agtgcgccwc tctctccagg 4980 cacaagcgct caattagctg agctgatagc tcttacaaga gcacttgaat taagcaaagg 5040 aaaggtagct aacatttaca ctgactccaa gtatgctttc ctagttctcc atgctcatgc 5100 tgccatttgg aaggaaaggc actttcttac cactaatggg tctcctataa aataccatca 5160 ggaaattaac aggttattat cctcagtttt ccttccacga gaagtagcag tgatgcattg 5220 taggggacat cagaagggaa cagatgaaat agccaaagga aacaagttag ctgatcaggc 5280 agctaagtca gcggcaagga agcctcaagg catcaacaca cttcaagccc ctctaatctg 5340 ggaaggctcc ataagagaaa ttaagcctca gtattcccct acagaaatag aatgggccac 5400 ttctcgaggg tatactttcc agccctcaga atggctacag tcagaggatg gcaaactcca 5460 cttgccagcc tccagccaat ggaaagtcct taaaatcctt caccaagctt ttcacttggg 5520 aaaggataaa acttatcaat gtgcccaaag attgttttca ggagagaact tactaaaaac 5580 agtcaaacag gttgttaatg cttgtgaagt ctgtcttaaa aataatcccc tgaacagacg 5640 gctccttcct cctcaaaccc aaaggatgga aagctatcta ggggaggact ggcagataga 5700 cttcacccac atgccaaaga caaagggcat tcaatacctc ctgkwgtggg tanatacctt 5760 cactaactgg gtagaagcat ttccatgccg tacagaaaag gcctctgagg tagtaaaagt 5820 attagttaat gaaataactc cccgctttgg tctacctaag tacctccaaa gtgacaatgg 5880 cccctcattt aaggcagccg tcacacaggg ggtctcaaag gcactaggat acagtatcat 5940 ctccattggc ttggagaccc cagtcctcag gaaaggtaga gaagacaaac gatatcatca 6000 aaagacacct cagaaaactg tcccaagaaa ctcaccttcc ttgggtcact cttcttccca 6060 tggctttact acaggtaaga aatncccctt caaagttagg tctnagccct tttgaaatgc 6120 tgtatggacg gncttttctt accaatgatt ttctattaga ccaggagacc tctgaattgg 6180 ttaagcatgt aacctctctg gctcacttcc aacaggaatt aacacaacta gcagaagccc 6240 aaccccagga aataggacca cctttattca acccaggana tttggtattg gtaaagkmtc 6300 nacctwctct ctctccttct ctaagcccaa ncagggaggg cctcacaccg ttctccttcc 6360 aacgcccccg gcagtaaaag ttacaggaat cgactcctgg atacatcaca ctcaagtcaa 6420 agcctggaaa gctgagggag caacccccga cagcccagag gaacgtcctg aatatcaatg 6480 tgaagaaata ggagatctta agctgaaaat cataaaagat aagtaamtga gtgagggcta 6540 ctcatcctac tcagtcccac ccctacctna gcagatactt tckgtcattt ctacctttcc 6600 tctcgaggtk cgccaccaaa tattagaact tctttttgam wcatacttgc aggsagmttt 6660 tgattgtcat gggattgcat ttgtaacttc atagaccccc aaaggagaat tttacatctt 6720 ggcgagtaaa attttagatg gaaattattt actactccac acttgtggga actgctatmc 6780 tcactctact atttgcagta gggctataca ctgtagcacc ctcagagtgg aatattggac 6840 agagaatctc aattgctata gtattttgct taattattat ccttatagca gggataatag 6900 ttgmagaaaa gaagtgaaga tgaaagtttt actatcactg agtctgctag gactttttat 6960 tgggtttagt aatacgtcac accgtttagc tnctacaata tcagccatgg cccatttata 7020 cagtaagact aattgntggg tctgtcctga gcggtttgct cagttcagta acactaagga 7080 acctcttgat gacccggaac ttaccgtctt aggattccct ttgttagctt tacctttaac 7140 cattaaagac ttntcaggca taaatggaac atggtatggg aacactttca actgggtaac 7200 taactcctcc caggaaaaca ctcctncccc ggtgccagaa aacantctcc ccaaagataa 7260 gcttcacacc ctcaggctag gaaaagttga ccgagtaata gcaaatgcct ccctctgctt 7320 taaaagcagn ggaaaagaac catacttggg akatctcaaa cattgtaaca catcacactt 7380 gtaattgctg aaagctcaga ggtttggaga agaaaacgca anaaggatga tctaaaaggg 7440 aaaatggaag ccctacgcgg gggggctttc agaatctagc stctcctcct ggttggaagt 7500 cccgntggga atggcaggct ctaggtaacc gccttgacac atggcactat aatgtaaaaa 7560 anaacacata ggncttccca aacatgcccc ctcatggaat tccagaccct tgtatgatgc 7620 ttgctaatag tagcggcnta caaatctgtg ggcgaacagg agacatctgg actgacggcc 7680 cttgccacaa ggattatctg agatattggc cagggcatat tgtgtccctg atcttttaaa 7740 actccatttg tcaggtggac ccttctcatt tggcgtgtaa aattccaaat ggcatcgtga 7800 atgactatcc tgaatatggn tatccctatc ccaaagatgc tcctattata tgtaaaaaga 7860 ggaagcttct aagatatgag aaagatctgc ctgtgtctct cacaagccac aacttagaac 7920 cgtcccttca aggaacaggg ctatatttcc tttgtggctc ctggatacac ttaatcctcc 7980 ctaggcactg gaagggaacc tgnactatag tngcagtggt tcccgaccta ctatctttaa 8040 attccaccga natggcagca tcatctgggg acatccctaa cctagcntct tttctagaga 8100 ctgcgctatc tcggatacan cgaacaaaga gatctatcat ttccatgccc tcgtatggag 8160 atttaactga aagagaagac tggggaggac atgcacatga caatcctatc ttagaaaaan 8220 catggatagg ggattctata gccagaggcc tattctggtt tgctggtatt cctctccttg 8280 aaagatcagt acttaatatt tctattatga tgcaacgagg gtagaaggca acagtaggag 8340 ccatagaagc acaacmacaa ttcatagact ctttagcctc agtagtagcg caaaatagac 8400 aggccctaga tgtccttacg gccgaagtag ggggtacctg tgcactttta aatgaaacat 8460 gctgcttctg gatcaacacc tctagtmaag tagaggagaa tctacaggtg cttaaagatc 8520 aaatcagaat cattgacagg ctaagagaaa atgcgggctc cagtcccagg tggctacaat 8580 ccctctttaa tgaattccag tcttctttat ggaactggtt agctccttta ttaagctccc 8640 tcttgctcat gtgttttgta ttaatatttg gaccttgtat actcaatact ataactcgaa 8700 ttgtttcctc tcgcctagaa gcaatcaaac tccaaatggt gctgcagacc gaaccacaca 8760 tagacacgcc attcttccaa ggacccttag atcgacccca ggaggagccc tagctgctgt 8820 tccccacacg acgccccttt tcagcaggaa gtagccagaa agagtcgtcg tccaacaccc 8880 cctaacagca gttagggtta ccactccwga gggggggaa 8919 // ID MER3 repbase; DNA; HUM; 209 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 3) XX DE Nonautonomous DNA transposon. XX KW hAT; DNA transposon; Transposable Element; KW Interspersed repetitive sequence; MER3. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RA Jurka J.; RT "Novel families of interspersed repetitive elements from the RT human genome."; RL Nucleic Acids Res 18(1), 137-141 (1990). XX RN [2] RP 1-209 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX DR [2] (Consensus) XX CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. XX SQ Sequence 209 BP; 58 A; 36 C; 46 G; 67 T; 2 other; cagcgctgtc caatagaact ttctgtggtg atggaaatgt tctatatctg cgctgtccaa 60 tacggtagcc actagccaca tgtggctayt gagcacttga aatgtggyta gtgcgactga 120 ggaactgaat ttttaatttt atttaatttt aattaattta aatttaaata gccacatgtg 180 gctagtggct accatattgg acagcgcag 209 // ID MER92A repbase; DNA; HUM; 412 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Primate MER92A repetitive element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER92A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-412 RA Smit A.F.; RT "MER92A."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC Putative LTR of retroposon. Similarity with MER67 (bases 28-94 CC and CC 341-412) and therefore potential member of MER4-group. 4 bp CC target CC site duplications. XX SQ Sequence 412 BP; 80 A; 120 C; 72 G; 131 T; 9 other; tgaccaagtg ttcacagttg ttcgcttctt accctctnct tcgccttgac agaactttag 60 tcaggcttct ctccttccta caggcccctg aactttgctt gcccctaagc ctgagcaagc 120 actmaaatgc agaacgtgcc ccccttakca gcttgtcctg agaatcggct gaccacagcg 180 ggacacattt cctgtcaaac cccaccnatc atgttgtntg ctcgntcccc ctcgcttgcc 240 cactgtcycc tttctactgg ttctgcttay cyctccctat aaaagaaaag cctttttctg 300 tttgattttg agacgcttgc aagttcctga ggtcggagcg ttctccctat tgcaatagtc 360 tttttgaata aagtctctcc ttatctaagt ccggatttgt ttttatttga ca 412 // ID MERX repbase; DNA; HUM; 756 BP. XX AC . XX DT 24-JAN-2007 (Rel. 12.01, Created) DT 15-OCT-2008 (Rel. 13.06, Last updated, Version 4) XX DE Mammalian repeat, possible fragment of a LINE1 family, or SINE DE element. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; Tigger; KW MERX. XX NM MERX. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-224 RA Jurka J.; RT "Low-copy interspersed repeat from mammals."; RL Direct Submission to Repbase Update (24-JAN-2007). XX RN [2] RP 1-756 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (28-NOV-2007). XX DR [1] (Consensus) XX CC Present in >200 copies in the human genome. It is absent from CC opossum. Re-classified as Eutherian. [2] 22 bp TIRs that match CC those of other Tiggers. No coding matches, but final 65 bp are CC 75% similar to 3-end of Tigger8, which does have a coding match CC (hence the orientation shifted from original). Much extended from CC original MERX sequence, which matches pos 232-756. Not present in CC opossum or platypus, so introduced in (early) eutherian ancestor. XX SQ Sequence 756 BP; 192 A; 154 C; 167 G; 243 T; 0 other; caggtatccc tcgctatctg aactctcact atccgaatat tcgctataac gacttgcaaa 60 aatttttacc caaaattcac tatccgaatc gaaaacctgc tataatgaat ctgcatgtgc 120 gcgccagcga aaacgtttaa gttgcgcgcg agtccgggcg agaggatgta gagtgcgctg 180 cagtcgtatc tcagctgttc tcccgatagg atcgcgtctc gtgctcgcgt tgtttaaacg 240 tgttgtgcat tatcgctatc atcttcccca ccttttccct gagggtttag cccttcatgg 300 gtcccagtgt ttgcttctgc caggcgcctg ggggcactac caacccgggt ccaatttaga 360 tagtatcttt aacatattat ttcattgttt atttacatta cagtacatgt tcgttgcagt 420 gtagaaggaa aacgtaattc gtatccgata ctgtacagta tcgttgcgta ctgcacacaa 480 acatacccac taatgagttc attaagtgtt aaataattag gtaattggtg ttttaaatgc 540 tttatattat gcagaaatcc ttggtggatt gttatatagg tgtttaagag tgttttagtg 600 atatttgggg aaattggttg gggtttttgg atgggctggg aacgcattat tatttttccc 660 atttaaaata atggaatata ggctcccgct atccgaaaat tcgctatcca acacgttttc 720 aggaacggat tagattcgga taacgaggga tgcctg 756 // ID MER48 repbase; DNA; HUM; 398 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 19-JUL-2005 (Rel. 3, Last updated, Version 5) XX DE Long terminal repeat of HERVH-related endogenous retrovirus DE HERVH48I. XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERVH48I; LTR; KW MER48; retroelement; Retrovirus. XX NM MER48. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 398-1 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX RN [2] RP 1-398 RA Kapitonov V.V. and Jurka J.; RT "MER48."; RL Direct Submission to Repbase Update (18-APR-1997). XX DR [2] (Consensus) XX CC Orientation of the consensus sequence [1] has been changed since CC we found internal retroviral sequence HERVH48I [2]. XX SQ Sequence 398 BP; 94 A; 120 C; 103 G; 72 T; 9 other; tgwaagattc tccccrgggc ctgaaagctt raggggatga rtaacccctc ccttcctcag 60 gcccagtccc aaggcgcaag gtcacttgtg ccagcagtgt gcgccagcaa gatagcagaa 120 gcaggaagag agccggccgg aagacacgta cccccgaaga tcgagaaaga ggccatccgg 180 gtacaacgta gcagttacgt cagactggga cacttcctgt ttacaggaga ctataaaacc 240 yytgccccgt cctcacttgg ggctgacgcc attttaggcc tcagcccgcc tgcactcagg 300 cagcacccag gcgctcatta aaacagcgtg ttgctccaca cctcctcgtg ttgttgtgga 360 cgcgctctcg gggttsgaac cgayacaaga rccttaca 398 // ID L1M1_5 repbase; DNA; HUM; 3834 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE L1M1 LINE1 repetitive element 5' end - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1-43_5; L1M1_5; L1M3_5; MER43. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1706-1881 RA Rubin M.C., Leeflang P.E., Rinehart P.F. and Schmid W.C.; RT "Paucity of novel short interspersed repetitive element (SINE) RT families in human DNA and isolation of a novel MER repeat."; RL Genomics 18(2), 322-328 (1993). XX RN [2] RP 947-1070 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 1-2253 RA Kapitonov V.V. and Jurka J.; RT "L1M1_5."; RL Direct Submission to Repbase Update (1996). XX RN [4] RP 1-3834 RA Smit A.F.; RT "L1M1_5."; RL Direct Submission to Repbase Update (1996). XX RN [5] RP 1-3834 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [5] (Consensus) XX CC 5' end of L1M1 LINE1 elements associated with L1MA1 to L1MA3 CC subfamily CC 3' UTRs. ORF1 is from pos 2040-3023, ORF2 starts at 3529. XX SQ Sequence 3834 BP; 1286 A; 858 C; 951 G; 729 T; 10 other; aagtggtgat tagagggagg cggagcaaga tggccgaata gaagcctcca ccgatcgtcc 60 atcctccccg caggaacacc aaattgaaca actatccaca caaaaaagca ccttcataag 120 aaccaaaaat caggtgagcg atcacagtac ctggttttaa cttcatatca ctgaaagagg 180 cactgaagag ggtaggaaag acagtcttga atcgccgacg ccacccctcc cccatccccc 240 ggcagcggcc gtgtggcgcg gagagagaat ctgtgcactt gggggaggga gagcgcagcg 300 attgtgggac tttgcattgg aactcagtgc tgccctgtca cagcggaaag caacaccggg 360 cagaactcag ccggcgccca cggagggagc atttagacca gccctagcca gaggggaatc 420 acccatccca gcggtcggaa cctgagttcc ggcaagcctc gccaccgcgg gctaaagtgc 480 tctggggtcc taaataaact tgaaaggcag tctaggccac aaggactgca attcctgggc 540 aagtcctggt gctgtgctgg gctcagagcc agtggacttg gggggcacgc gacctagtga 600 gacaccagcc ggggcggcca agggagtgct tgcgccaccc ctcccccaac cccaggcagc 660 acagctcgca gctccgggag agactccttc cttccgcttg aggagaggag agggaagagt 720 aaagaggact ttgtcttgca acttggatac cagctcagcc acagtaggat agggcaccgg 780 gcagagtcct gaggccccca ttccaggccc tagctcccag acgacatttc tagacacacc 840 ctgggccaga agggaacccg ctgccttgaa gggaaggacc cagtcctggc aggattcatc 900 acctgctgac taaagagccc ttgggccctg aataatcagc agcggtaccc aggcagtact 960 cgccgtgggc cttgggtgag actcagagac gtgctggctt caggtgtgac ccagcacatt 1020 cccagctgtg gtggctatgg ggagagactc cttctgcttg agaaaaggag agggaagagt 1080 aaaggggact ttgtcttgca gcttaggtac cagctcagcc acagtggggt agagcaccaa 1140 gcgggctctt ggggtccccg attccaggcc ttggctcttg gacggcattt ctggacctgc 1200 cctgggccag aggggagccc actgccctga agggngagtc ccaggcctgg cagcattcac 1260 cacaagctga ctgaagagcc cttgggcctt gagtgaacat cggcggtagc cnggcagtac 1320 tcgccgtggg cctggggtgg tggtggccat ggggagagac tcctctgcct gtggaaaggg 1380 gagggaagag tgggaaggac tttgtcttgt ggcttgggtg ccagctcagc cgcagtagaa 1440 tagagcacca ggtagattcc taaggtttct gactccaggc cctggctcct ggatggcatc 1500 tctggacccg cctggggccn gggggaactc gccaccctga agggaaggac acaagcctgg 1560 ctggctttgc cacctgctga ttgtagagcc ctagggcctt gagcaaacat aggcggtagc 1620 caggcagtgg ttacngcggg ccttgggcga gacccagtgc tgtgctggct tcaggtctga 1680 cccagcgcag tcccagtggt ggtggccaca ggggtgcttg tgtcacccct cccccagctc 1740 caggcagctc agcacagaga gagagactcc gtttgtttgg gagaaagtaa gggaagagaa 1800 caagagtctc tgcctggtaa tccagagaat tcttccggat cttatccaag accaccaagg 1860 cggtacctct acgagtctgc aagagccaca gcgttactgg gcttggggtg ccccctaatg 1920 cagatacggc tgcagtgacc aaaaacttag atcacaacac ccaagtccct tcgaatacct 1980 ggaaagcctt cccaagaagg acgggtacaa acaagcccag actgtgaaga ctacaataaa 2040 tacctaactc ttcaatgccc agacaccgac gaacatccac aagcatcaag accatccagg 2100 aaaacatgac ctcaccaaat gaactaaata aggcaccagg gaccaatccc ggagagacag 2160 agatatgtga cctttcagac agagaattca aaatagctgt tttgaggaaa ctcaangaaa 2220 ttcaagataa cacagagaag gaattcagaa tcctatcaga taaatttaac aaagagattg 2280 aaataattaa aaagaatcaa gcagaaattc tggagttgaa aaatgcaatt gacatactga 2340 agaatgcatc agagtctctt aacagcagaa ttgatcaagc agaagaaaga attagtgagc 2400 ttgaagacag gctatttgaa aatacacagt cagaggagac aaaagaaaaa agaataaaaa 2460 agaatgaagc acgcctacaa gatctagaaa atagcctcaa aagggcaaat ctaagagtta 2520 ttggccttaa agaggaggta gagagagaga taggggtaga aagtttattc aaagggataa 2580 taacagagaa cttcccaaac ctagagaaag atatcaatat tcaagtacaa gaaggttata 2640 gaacaccaag cagatttaac ccaaagaaga ctacctcaag gcatttaata atcaaactcc 2700 caaaggtcaa ggataaagaa aggatcctaa aagcagcaag agaaaagaaa caaataacat 2760 acaatggagc tccaatacgt ctggcagcag acttttcagt ggaaacctta caggccagga 2820 gagagtggca tgacatattt aaagtgctga aggaaaaaaa cttttaccct agaatagtat 2880 atccagtgaa aatatccttc aaacatgaag gagaaataaa gactttccca gacaaacaaa 2940 agctgaggga tttcatcaac accagacctg tcctacaaga aatgctaaag ggagttcttc 3000 aatctgaaag aaaaggacat taatgagcaa taagaaatca tctgaaggta caaaactcac 3060 tggtaatagt aagtacacag aaaaacacag aatattataa cactgtaatt gtggtgtgta 3120 aactactcat atcttaagta gaaagactaa aagatgaacc aatcaaaaat aataactaca 3180 acaacttttc aagacataga cagtacaata agatataaat agaaacaaca aaaagttaaa 3240 aagcgggggg acgaagttaa agtgtagagt ttttattagt tttctctttg cttgtttgtt 3300 tgtgcaatca gtgttaagtt gtcatcagtt taaaataatg ggttataaga tattatttgc 3360 aagcctcatg gtaacctcaa atcaaaaaac atacaacaga tacacaaaaa ataaaaagca 3420 agaaattaaa acataccacc agagaaaatc accttcacta aaaggaagac aggaaggaag 3480 gaaagaagga agagaagacc acaaaacaac cagaaaacaa ataacaaaat ggcaggagta 3540 agtccttact tatcaataat aacattgaat gtaaatggac taaactctcc aatcaaaaga 3600 catagagtgg ctgaatggat aaaaaaacaa gacccaacga tctgttgcct acaagaaaca 3660 cacttcacct ataaagacac akatagactg aaaataaagg gatgaaaaaa gatatttcat 3720 gcnaatggaa accaaaaaag agnaggagta gctatactta yatcaganaa aatatatttc 3780 aagacgaaaa ctataagaag agacaaagaa ggtcactata taatgataaa ggag 3834 // ID HERV4_LTR repbase; DNA; HUM; 306 BP. XX AC . XX DT 01-JUL-2005 (Rel. 10.06, Created) DT 06-JUL-2005 (Rel. 10.06, Last updated, Version 2) XX DE Long terminal repeat of human endogenous retrovirus HERV4 - a DE consensus. XX KW Endogenous Retrovirus; Transposable Element; Long terminal repeat; KW Human endogenous retrovirus; HERV4_LTR. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-306 RA Polavarapu N., Bowen N.J. and Mcdonald J.F.; RT "Consensus sequence of human endogenous retrovirus HERV4."; RL Repbase Reports 5(6), 148-148 (2005). XX DR [1] (Consensus) XX SQ Sequence 306 BP; 94 A; 71 C; 48 G; 93 T; 0 other; aaatacaccc ttaacaccct taggcaggag aatagggtct gtgtgcatgg aatctaaggc 60 cgaattgcgc tgactcatac ttagaagatt ccaattaatc aatgggaaac ctctagaggt 120 atttaaaccc aagtaaattc tgtatctgga gagcttgagc cccttgcaaa ggcccacttt 180 cacactgtgg agtatacttt aaatttaaat aaatttctac ttttcctttc ctcacctcat 240 tagatttgtg cttttgtcca attctttgtt taaaacacca aaaaccctga acaacttcta 300 ccacca 306 // ID MER61F repbase; DNA; HUM; 676 BP. XX AC . XX DT 23-APR-2001 (Rel. 6.03, Created) DT 21-MAY-2008 (Rel. 13.06, Last updated, Version 2) XX DE Long terminal repeat LTR20C - a consensus. XX KW LTR Retrotransposon; Transposable Element; LTR; LTR25; LTR20B; KW LTR20C; MER61F. XX NM LTR20C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-676 RA Jurka J.; RT "LTR."; RL Direct Submission to Repbase Update (31-MAR-2001). XX DR [1] (Consensus) XX CC 3' similar to LTR20B, LTR25 and, to a lesser extent, to CC other LTRs. Additional similarity to LTR25 is at positions CC 163-270. XX SQ Sequence 676 BP; 219 A; 146 C; 154 G; 151 T; 6 other; tgagggagaa gaaaagnagg aaaaatcagt tnggtaaaca gctaaggctg gtccttggag 60 aagcagcctg cctgaaaaat cacagctaca ggcaaaaata gagcagcctg gggaaaaaaa 120 aaaaaaaaaa aaaactcagg ctgcacctgc acagataagc cacagataag cagggcaggg 180 tccagcacag aagccttttg ttctttgtgt aattagcggg ctcccaggaa aaagtttcct 240 ccccttttca ggcatataca tggtgggctc catgggaact tgcacaggga ggaggggggc 300 ttacctaaaa caaacccaca gttatacaaa caagagaagc agcgctttgt gcttgcctag 360 agacataccc acagctgcat aagataaggg gagttgcaca gacagcttta ctgataagag 420 aagttactca aacagctaca gagatgagag gagtttctta taaaagcttt tgaattcagc 480 tgtaaaaacg gcaatccact tggactcccc tctctgctgc agagagcttt cttctttcgc 540 ttattaaact ttcrctccaa cctcaccctt tgtgtccatg ctccttaatt ttcttggttg 600 tgagacaaag aactcnggnt aatacctcag acaatgagaa actgcnacat taaggtgcat 660 tggtgagact gcaaca 676 // ID MER124 repbase; DNA; HUM; 397 BP. XX AC . XX DT 06-JUL-2006 (Rel. 11.07, Created) DT 24-JUN-2008 (Rel. 13.06, Last updated, Version 5) XX DE Unclassified repetitive element from mammals - consensus. XX KW Transposable Element; Nonautonomous; DNA; MER124; conserved; CNE. XX NM MER124. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 56-345 RA Jurka J.; RT "MER124: Unclassified repetitive element from mammals."; RL Repbase Reports 6(7), 377-377 (2006). XX RN [2] RP 56-345 RA Gentles AJ., Wakefield MJ., Kohany O., Gu W., Batzer MA., RA Pollock DD. and Jurka J.; RT "Evolutionary dynamics of transposable elements in the RT short-tailed opossum Monodelphis domestica."; RL Genome Res 17(7), 992-1004 (2007). XX RN [3] RP 56-345 RA Jurka J., Kapitonov V.V., Kohany O. and Jurka MV.; RT "Repetitive sequences in complex genomes: structure and RT evolution."; RL Annu Rev Genomics Hum Genet 8, 241-259 (2007). XX RN [4] RP 1-397 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (28-NOV-2007). XX DR [1] (Consensus) XX CC Present in >500 copies per haploid genome in all mammals CC (including marsupials). Putative non-autonomous DNA transposon CC due to significant self-complementarity. CC [4] Extended and improved consensus (original corresponds to pos CC 56-342). Entire sequence is palindromic. 108 bp termini are TIRs CC without gaps. Probably extends even further out; no match to CC known DNA TIRs yet. Absent from platypus genome. XX SQ Sequence 397 BP; 125 A; 75 C; 66 G; 130 T; 1 other; agctaaaagc tnaatttggg ctaatgtccg taaacaggga ataactatta gcaaattcat 60 taattagggt catgtttaca cttctattgt caactataat catttgttta aactgaggtc 120 tccttagttt attacagtca ttactgcctg tcagtaagag ataatgtgct tgaatttcac 180 aagtatgtgt gaattgcaca tatcttgcat ttcttagcag ggacccagcc tcagtcaata 240 ttttcacaga atgacagttc tcaggaaggc acagggtctt acttaagcta acaaatgatt 300 atccttcaca atagaactac aaacaggacc ctaattaatg aatttgctaa tagctgttcc 360 ctgtttacga acattagccc aaattgatct tttagct 397 // ID L1MB4 repbase; DNA; HUM; 928 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MB4) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1M3; L1MB4; L1MB4 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-928 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-928 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 675; average divergence of copies from consensus: CC 16%. XX SQ Sequence 928 BP; 366 A; 151 C; 186 G; 220 T; 5 other; cttgtatcca gaatatataa agaactccta caactcaaca acaaaaaaac aaataaccca 60 attaaaaaat gggcaaagga cttgaataga catttctcca aagaagatat acaaatggcc 120 aataagcaca tgaaaagatg ctcaacatca ctantcatta gggaaatgca aatcaaaacc 180 acaatgagat accacctcac acccactagg atggctataa tcaaaaaaac agaaaataac 240 aagtgttggc gaggatgtgg agaaattgga accctcatgc attgctggtg ggaatgtaaa 300 atggtgcagc cgctgtggaa aacagtttgg tggttcctca aaaagttaaa catagaatta 360 ccatatgacc cagcaattcc actcctaggt atatacccaa aagaattgaa agcagggact 420 cgaacagata cttgtacacc aatgttcata gcagcattat tcacaatagc caaaaggtgg 480 aaacaaccca agtgtccatc aacggatgaa tggataaaca aaatgtggta tatacataca 540 atggaatatt attcagcctt aaaaaggaag gaaattctga tacatgctac aacatggatg 600 aaccttgaaa acattatgct aagtgaaata agccagwcac aaaaggacaa atattgtatg 660 attccactta tatgaggtac ctagaatagk caaattcata gagacagaaa gtagaatagw 720 ggttaccagg ggctgggggg aggggaaaat ggggagttac tgtttaatgg gtacagagtt 780 tctgtttggg atgatgaaaa agttctggaa atggatagtg gtgatggttg cacaacamtg 840 tgaatgtact taatgccact gaattgtaca cttaaaaatg gttaaaatgg taaattttat 900 gttatgtata ttttaccaca ataaaaaa 928 // ID MER57A1 repbase; DNA; HUM; 432 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-MAY-2008 (Rel. 3, Last updated, Version 4) XX DE Long terminal repeat: consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW MER4I-group family; LTR of retrovirus-like element; MER57B; KW MER57A1. XX NM MER57A1; MER57B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 172-432 RA Kapitonov V.V. and Jurka J.; RT "MER57B."; RL Direct Submission to Repbase Update (30-NOV-1995). XX RN [2] RP 1-432 RA Smit A.F.; RT "MER57B."; RL Direct Submission to Repbase Update (30-NOV-1995). XX DR [2] (Consensus) XX CC Renamed to MER57A1. XX SQ Sequence 432 BP; 111 A; 109 C; 83 G; 129 T; 0 other; tgttaaagcg aactaaatac ggcctgagaa ggactccgta cttctatatt tgagtccttg 60 tggacgaacc gtaacctagc ttaataggca gacaagattg aaaacctaac ttaggagtat 120 gcgcctgtaa caatagctga gtcttggcca atcccagcgg ccatacttca accactcata 180 gactgccgag cgttcaaact gtgttcaaat aaggcaaacg ccgacccgta accaatccag 240 ccgtttctgt acctcacttc cgatttctgt acgtcacttc cctttttttg tctataaatt 300 tgttctgacc acgaggcatc cctggagtct ctctgaatct gctgtgattc tgggggctgc 360 ccgattcgcg aatcgttcat tgctcaatta aactccttta aatttaattc ggctgaagtt 420 tttcttttaa ca 432 // ID SVA repbase; DNA; HUM; 1640 BP. XX AC L09706; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 11-NOV-2005 (Rel. 2.03, Last updated, Version 3) XX DE Composite retroposon. XX KW SINE; Non-LTR Retrotransposon; Transposable Element; KW Repetitive sequence; SINE-R; SVA. XX NM SVA. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Ono M., Kawakami M. and Takezawa T.; RT "A novel human nonretroviral retroposon derived from an RT endogenous retrovirus."; RL Nucleic Acids Res 15, 8725-8737 (1987). XX RN [2] RA Shen L., Wu C.L., Sanlioglu S., Chen R., Mendoza R.A., RA Dangel W.A., Carroll C.M., Zipf B.W. and Yu Y.C.; RT "Structure and genetics of the partially duplicated gene RP RT located immediately upstream of the complement C4A and the C4B RT genes in the HLA class III region. Molecular cloning, exon-intron RT structure, composite retroposon, and breakpoint of gene RT duplication."; RL J. Biol. Chem 269, 8466-8476 (1994). XX DR GenBank; L09706; Positions 7919 6280. XX CC This element consists of fragments of two Alu elements and a CC fragment CC of an HERV-K LTR (LTR5) flanking a variable number of 40 bp CC tandem CC repeats. XX SQ Sequence 1640 BP; 286 A; 539 C; 497 G; 318 T; 0 other; ctccctctcc ctcaccctct ccccatggtc tccctctccc tctctttcca cggtctccct 60 ctgatgccga gccgaagctg gacggtactg ctgccatctc ggctcactgc aacctccctg 120 cctgattctc ctgcctcagc ttgccgagtg cctgcgattg caggcgcgcg ccgccacgcc 180 tgactggttt tcgtattttg ttagtggaga cggggtttcg ctgtgttggc cgggctggtc 240 tccagctcct aaccgcgagt gatccaccag cctcggcctc ccgaggtgct gggattgcag 300 acggagtctc gttcactcag tgctcaatga tgcccaggct ggagtgcagt ggcgtgatct 360 cggctcgcta caacctccac ctcccagcag cctgccttgg cctcccaaag tgccgagatt 420 gcagcctctg cccggccgcc accccgtctg ggaagtgagg agtgtctccg cctggccacc 480 catcgtctgg gatgtgagga gcgtctctgc cctgccgccc atcgtctgag atgtggggag 540 cacctctgcc cggccgcccc gtccgggatg tgaggagcgt cgctgcccgg ccgccccgtc 600 tgagaagtga ggagaccctc tgcctggcaa ccgctccatc tgagaagtga ggagcccctc 660 cgcccggcag ccgccctgtc tgagaagtga ggagcccctc cgcccagcag ccacctggtc 720 cgggagggag gtgggggggt cagccccccg cccggccagc cgccccgtcc gggagggagg 780 tgggggggtc agcccccagc ccggccagcc gccccgtccg ggaagtgagg ggcgcctctg 840 cccggccgcc cctactggga agtgaggagc cactttgccc ggccagccac tctgtccggg 900 agggaggtgg gggggtcagc cccccgcccg gccagccgcc ccgtccggga gggaggtggg 960 gggatcagcc ccccgcccag ccagccgccc cgtccgggag ggaggtgggg gggtcagccc 1020 cccgcccggc cagccgccct gtccgggagg tgaggggcgc ctctgcccgg ccgcgcctac 1080 tggaaagtga ggagcccctc tgcccggcca ccaccccgtc tgggaggtgt gcccaacagc 1140 tcattgagaa ggggccatga tgacaatggc ggttttgtgg aatagaaagg ggggaaaggt 1200 ggggaaaaga ttgagaaatc ggatggttgc cgtgtctgtg tagaaagagg tagacctggg 1260 agacttttca ttttgttctg tactaagaaa aattcttctg ccttgggatc ctgttgatcg 1320 gtgaccttac ccccaaccct gtgctctctg aaacatgtgc tgtatccact cagggttgaa 1380 tggattaaga gcggtgcaag atgtgctttg ttaaacagat gcttgaaggc agcatgctcc 1440 ttaagagtca tcaccactcc ctaatctcaa gtacccaggg acacaaacac tgcggaaggc 1500 cgcagggtcc tctgcctagg aaaaccagag acctttgttc acttgtttat ctgctgacct 1560 tccctccact attgtcctgt gaccctgcca aatccccctc tgtgagaaac acccaagaat 1620 gatcaataaa aaaaaaaaaa 1640 // ID MER4E1 repbase; DNA; HUM; 763 BP. XX AC . XX DT 29-JAN-2001 (Rel. 6, Created) DT 29-JAN-2001 (Rel. 6, Last updated, Version 1) XX DE Long terminal repeat from an endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER4E; KW MER4E1; MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-763 RA Kapitonov V.V. and Jurka J.; RT "MER4E1."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-763 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX RN [3] RP 1-763 RA Kapitonov V.V.; RT "MER4E1."; RL Direct Submission to Repbase Update (JAN-2001). XX DR [3] (Consensus) XX CC It has been reported previously [2] that MER4E copies are ~14% CC divergent from the MER4E consensus sequence. This divergence CC is twice overestimated since the MER4E family is CC composed of several subfamilies, which are only ~7% divergent CC from their consensus sequence [3]. MER4E1 is one of them. CC There is 11% divergence between the MER4E1 and MER4E consensus CC sequences. However, MER4E1 copies are only 7% divergent from CC the MER4E1 consensus sequence [3]. XX SQ Sequence 763 BP; 218 A; 186 C; 120 G; 239 T; 0 other; tgaggactaa actctgattt tttttatctt gcccaaattc ctatctaagg ggtctgggga 60 gtcatgccct acaaatcata aattctcatc agatgggttt tatttaaccc tatatatcgt 120 gacttacttt ccaacctgac tctggcataa cattacgaga caaggaagaa aatcaaaata 180 ttttacccca aaacatgttt ctttgccata ttttgaaatg gccctgcaaa gctgttcttt 240 gtgggggaaa atttgcatct gtaaagaatc tctattaaca tagctagatc tttttcttcc 300 agaccctccc aatcctaaag agattaacta agatctgaat aggaaacatt tgtcatctat 360 tgtctctaag ggcagccact ataagacttc aaaagaactt tggtctccac aatctttatc 420 ttaacctgaa cattcccttt ctatcaatcc caggtcttta gacaaactca accaattgtc 480 aaccagaaaa tgtttaaatt cacctatagc ctggaagccc cccccacccc atcctggctt 540 tgagttgtcc cgcctttctg gaccaaacca atgtatttct taaatgtatt tgattgatgt 600 ctcatgcctc tctaaaatgt ataaaaccaa gctgcgcccc gaccaccttg ggcacatgtt 660 ctcaggacct cctgagggct gtgtcacggg ccatggtcac tcatatttgg ctcagaataa 720 atctcttcaa atattttaca gagttcgact cttttcgtcg aca 763 // ID HERVKC4 repbase; DNA; HUM; 5262 BP. XX AC U07856; XX DT 27-JAN-1997 (Rel. 2, Created) DT 07-OCT-1998 (Rel. 3.09, Last updated, Version 2) XX DE Internal part of endogenous retrovirus HERVK(C4). XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW Endogenous retrovirus HERVK(C4); HERVKC4; LTR14; internal part. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-5262 RA Dangel W.A., Mendoza R.A., Baker J.B., Daniel M.C., Carroll C.M., RA Wu C.L. and Yu Y.C.; RT "The dichotomous size variation of human complement C4 genes is RT mediated by a novel family of endogenous retroviruses, which also RT establishes species-specific genomic patterns among Old World RT primates."; RL Immunogenetics 40(6), 425-436 (1994). XX RN [2] RP 1-5262 RA Yu Y.C.; RT "HERVKC4."; RL Direct Submission to Genbank (19-MAR-1994)C. Yung Yu, The Ohio RL State University, Pediatrics, 700 Children's Drive, Columbus, OH RL 43205, USA. XX DR GenBank; U07856; Positions 555 5816. XX CC internal part of HERVK(C4) is flanked by LTR14. XX SQ Sequence 5262 BP; 1920 A; 1071 C; 789 G; 1482 T; 0 other; ttctggcgcc caacgtgggg cccaaaagaa tctggtgagg aaacgctcaa gcatgtgaaa 60 cagaggacca acgaacaaag gactcccaag gacataaaag ttttaacctc tacaggtaag 120 cggggcgccc agagaaagct agggacacaa tgggaaaaac tgaaagtaag tacaccacgt 180 atttgagctt cctacggcag ctcttcaagc atgcatggtg gggtaaaagt tgatacggaa 240 aatcttatgg atttgtttca tgctatggaa caattttgcc cttggttccc aaaacaggaa 300 actttgaaat taaaacatta agaaggagtt ggaaaggacc ttaaaagagc atatagagaa 360 ggaaaggaaa ttcctttgcc tgtttggtcg ctttggtcat tggtgcatgc agcactggag 420 ccttttcaga cagataatga ggctgagtca gaggaggaga gagaggagtt tgataatcag 480 aactctgaac cacctctacc gagtactaac aaaaaggaga gtctgaagat gatttatgcc 540 aatctcccca gtctccctaa acctactcaa aaaattgttc agcccacggt tcctgtagag 600 aaatgtccag aatggccacc tcctcctcag ccgagtgggt gcagggggag ggagcccgag 660 acttggctca ccgtgcccat tattgcccga cccacagttc attatggaga tggggcaatt 720 caggttcacc ctacagttat tacagtgaag gagcaatttc ccttaaaatg gatgacccgg 780 cgccccgtct gggttgaaca gtggccgctc cctaaggaaa agttgggggt gctttataaa 840 ataaactact aaaaaaagga tatatttcac ccactttctc tccttggaat tccccagtat 900 ttgtaattaa gaaaaagtcc ggtagatggc gtcaacgctg taattcaacc gatgggagcc 960 ttacaacctg ggctcccatc ccccactgtg ctccctaaag actgaccgct tgttattata 1020 gatttaaaag actgcttttt tacaattcct ttagcagagg cagatttcaa aaaatttgcc 1080 tttaccattc ctgccgttaa taacaaaaaa cctgcagcca aatatcattg gaaagttttg 1140 ccccagggta tgttaaatag tcccacagtt tgtcaaactt ttgtaggcag aactatccag 1200 cctgttagag atcagtttcc agatttgtgc agcaaaaagt agagaccaac ttattcaata 1260 ttattaatct ttgcaaaaga caattacaaa tgctgaatta cttatagcac ctgacaaaat 1320 tcaaacaacc actccttttc agtatttgaa aatacaagta caggatagag ccattaagcc 1380 tcaaaaggtt caaattagaa gagattcttt caaaacctta aataattttc aaaaattgtt 1440 agaagatatt aattggattt ggcccaattt agcaattcct acttatgcta tgtctaatct 1500 cttctcaata ttgaggggaa ataccaactt acgcagtaac agagaactaa cacccgaggc 1560 catgaaagag ttatcagtaa ttgaaaacaa aattcagcaa gcccaggtca gtaggattga 1620 ctcagacttg cctttataat tcattgtgtt ccctacttca cactaaccac acaataatgg 1680 gggttattgt tcaaaatgat gatttagtta aatggtcctt tttgccacat aataccataa 1740 aagcacttac agtatactta aatcagatgg caattctaat tggacaggct catatatgaa 1800 ttattaaact ttgtggcact gagcccaata aaaattatag ttccaataaa taaaaatcag 1860 gttaaacagg catttattaa ctcagttaca tgacagatta atttaacaaa atttgttgga 1920 tgtattaata atcattatcc taaaaacttt tcaattctta aaattaacta cataggttct 1980 tccaaaaatt acttgtgatg cccctttgga aggagccata gctgttttta ctggtgggtc 2040 tggtaaacat gaaaaagcaa cagtctggtg gagaccacat aatccaatca cttgatctga 2100 atttactaac attcagagag ctaaggttat tctgtgtatt tatttaaaaa ctattacagc 2160 cttaagtttg ctctggagcc cactctgtgt ggtctttttc ttcaacttca acaattacta 2220 gaccaaggta cacatcctac ttttattaca cacattcgag cccacagctc tctgcctggc 2280 ccattggctt acggcaataa tcaagcagac cttcaggtta tgacatcact gcttgaccaa 2340 gccacccaat cacatcgatt attccaccaa aattggagaa acttatctaa ataatttcaa 2400 cttacacaga ggctggctaa acaaattatc ccacaatgcc cagattacca gctcacaggc 2460 acataccctc cttcaatagg tgttaaccgt aaagaattgg aacctagtca gttctggcaa 2520 acagatgtta aacacatcct aaattttaaa aactaaaata tgtacataca tccattgtta 2580 ccaacactca tctaattatt acacatttaa aaaaataaaa gtaaaaaaaa gactaagaca 2640 aaaatcaaaa aaatacaaaa aagtaaaaaa atttaaaaag ttataaaaat gtacctttag 2700 taaaaaaatt ataaaacata aaaagttaag acatgttaaa aattgtctgt aaaagtcata 2760 aaaaaagtta taaaaaattt atataaaaaa ggttgtttaa ttttgtttta aagatctaaa 2820 caagttttaa aatgataatt gtaaaaaatt ccgtgtgtaa acatatttac taaagttaaa 2880 aagatatcat ccagttttct ataaactaaa cattaaaata aaacacaagt ttttcttaaa 2940 acactaacct gctctttaaa aattgtaaaa agtctcttaa cacagacgcc actcctaaaa 3000 tttccagtac cagcctaaag actacatcct catcaaagga taaaaaatta aaaaataaaa 3060 aaacatttga accagcctaa aaaagaccct acaggaacta cagcctcaac aatgcgactt 3120 ccacaaacaa cacaggcctc agacattata ctaaaaaaac aaaagtctaa gccaaataat 3180 ttattcattt ttaattctct cactttgcct actacctata cctgctacac tgtattaagc 3240 tcgtatctta aatccgcctt tcttctgccc tgttacttta acaaacaccc ccttctcagc 3300 ttctaataac ataactgctt agctagaata aattaacata cccccagtgg ggttcctcat 3360 taataacata tagtaaacta agatgccaag taacactaca ggtcactctt ttactaaaaa 3420 aaaaagttac taattatact catgtttgtc ttctgttatt tactaatcct agaatacaaa 3480 gccaaaataa aaacagtgac ctcctcgcct aacaaacctg tggctacaac agcccaaaat 3540 tatacctatt gggcatgtgt cccattcctg cctttaatta ggcctgtcac atggttaaaa 3600 cccccagttg aagtttatgt taataatagc gtttggatcc ctaagcctac aaatactcat 3660 gggccctctc acccaaagga aaaaaaaaaa agttaataaa tgtgtccata ggttatcagt 3720 tcccccctct ttacataagg ccaactatcg gttgcctaaa aggctaccga caacattgac 3780 tagttaaaat tccaggtcat aatcaaagac cagtatccta tcatttattt tctggatgga 3840 gcccggatca ttcacagagt tcaattcaat taacagttta agcccccaaa aaagaggtgc 3900 caacaacctt aacaatggtc aaataattta aaaatattaa ttaaaaaaaa ttacatctct 3960 gatcacacta tggtactaca aaataattcc tatgaaattg tcattaattg gtcccctgag 4020 gggaccttta cagttaattg tacccatcaa aataataaat acaagacaaa actaaaacag 4080 aaactatact atcaaaaagg taacactact tacactgaaa aacgtgctca ttttcccata 4140 atttggacca attttagtac agctggccca catcccaaaa taattaatcc aataataggc 4200 cctaaacact ccaaattatg aaagttaata atggcccaat ctcatattta agtttagaaa 4260 aaaatatatt atctttaaaa aaaaaaggtt aaaaacttca atttgcgtat cagttttctt 4320 ccaacaaaac agtgcccatt cagagttgtg tcaaccctcc ttttatgtta atggtcaaaa 4380 atattgacat tcgacctaat tctcaaacta ttacttgtca aaactgtcac cttttcacct 4440 gtattaattc cacgttcggt gtaaaaacat ctgtgttact gataaaaact aagaaaggag 4500 tttggatact ggtttccctc aatagacctt agaaagcctc tccttccatt catattgtca 4560 caaaaatgtt ttaaaaaaaa gtgtttacca aaacaaagag atttattttt acccttataa 4620 cagtcttatg ggccttattg cagtcacagc tactgctgcg gctgctggaa ttgctttaca 4680 ctcctctgtt caaactacaa aatatataaa tagttaacaa aaaattcctc aaaattgtgg 4740 aattctcaga cccaaataga ccaacaattg acaaatcaaa caaatgatct tagacagact 4800 gttatttaaa tggaagatcg tacaataaac ttaaaacatc aattagaagt acaatgtaat 4860 tgaaatactt ccaatttcta cataactccc cattcgtata atactactaa acatcatttt 4920 taaaaagtta gacatcatct aaaagaaaaa aataaaaatt taacattaaa tataaccaaa 4980 ttttaaaaaa acaggttttt aaagcatctc aggctcattt aaccctcctg cctgagactg 5040 acattctcat tggagctact gacggacttt caaatataaa tcctcttaaa cagattaaga 5100 ccattaaagg atcaactatt acaaatttta ctttaatgtg tatctgttta tgctgtttac 5160 ttttagtcta cagatgcaaa agacacttct gaaaacagac caaacaccac aaataagcca 5220 taatagcaat agcggttaaa aaaaaaaaaa gggagggggg ca 5262 // ID MER44C repbase; DNA; HUM; 733 BP. XX AC . XX DT 01-MAY-1996 (Rel. 1.04, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 3) XX DE Nonautonomous DNA transposon. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MER2 family; KW MER44; MER44C; Repetitive sequence; TIGGER7. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-733 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [2] RP 1-733 RA Smit A.F.; RT "MER44C."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC Internal deletion product of TIGGER7 MER2-family DNA transposon. CC 23 bp terminal inverted repeats, TA target site. CC Consensus sequence reversed from [1] in agreement with Tigger7. XX SQ Sequence 733 BP; 197 A; 165 C; 182 G; 189 T; 0 other; cagtagtccc cccttatccg cggtttcgct ttccgcggtt tcagttaccc gcggtcaacc 60 gcggtccgaa aatattaaat ggaaaattcc agaaataaac aattcataag ttttaaattg 120 cgcgccgttc tgagtagcgt gatgaaatct cgcgccgtcc cgctccgtcc cgcccgggac 180 gtgaatcatc cctttgtcca gcgtatccac gctgtatacg ctacccgccc gttagtcact 240 tagtagccgt ctcggttatc agatcgactg tcgcggtatc gcagtgcttg tgttcaagta 300 acccttattt tacttaataa tggccccaaa gcgcaagagt agtgatgctg gcaattcgga 360 tatgccaaag agaagccgta aagtgcttcc tttaagtgaa aaggtgaaag ttctcgactt 420 aataaggaaa gaaaaaaatc gtatgctgag gttgctaaga tctacggtaa gaacgaatct 480 tctatccgtg aaattgtgaa gaaggaaaaa gaaattcgtg ctagttttgc tgtcgcacct 540 caaactgcaa aagttacggc cacagtgcgt gataagtgct tagttaagat ggaaaaggca 600 ttaaatttgt gggtggaaga catgaacaga aacgtgttcc gattgatggc aatcgggttc 660 ggtactatcc gcggtttcag gcatccactg ggggtcttgg aacgtatccc ccgcggataa 720 ggggggacta ctg 733 // ID LTR1 repbase; DNA; HUM; 785 BP. XX AC X06277; Y00491; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like sequence (HUERS-P2). XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR1; KW Long terminal repeat; provirus. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Harada F., Tsukada N. and Kato N.; RT "Isolation of three kinds of human endogenous retrovirus-like RT sequence using tRNA pro as a probe."; RL Nucleic Acids Res 15, 9153-9162 (1987). XX RN [2] RA Smit A.F.; RT "LTR1."; RL Direct Submission to Repbase Update (1996). XX DR [2] (Consensus) XX SQ Sequence 785 BP; 181 A; 246 C; 211 G; 128 T; 19 other; tgatacggac aggrgrggga artgctgggt agaggagggc gggktccctg gctagggctc 60 caccctcggg cctgtgccca cggacctagg tgaggacagg catttytgtt ttcccgccca 120 aatgttgcat ttyccaagac cacccytggc ctgccacgcc ccccatcctg tgcctataaa 180 aacccgagac cytagcrggc asasacacaa gcggctggac gtcaagagga acacaccggc 240 ggaagaacac actgacggtg gcgccggcag gccatcgact ggcggaacsa ttcgganttc 300 ggcaggggcg gycggaggac agctggarra cagccaggcc gctgagcggc cggactccag 360 gggaarayca ccttcccact ccatcyccct tccggctccc ccatctgctg agagctactt 420 ccactcaata aaaccttgca ctcattctcc aagcccacgt gtgatccgat tcttccggta 480 catcaaggca agaaaccccg ggatacagaa agccctctgt ccttgcgaca aggcagaggg 540 tctaactgag ctggttaaca caagccgcct atagatggca aactaaaaga gcaccctgta 600 acacacgccc actggggctt caggagctgt aaacattcac ccctagacac tgccgtgggg 660 tcggagcccc acagcctgcc cgtctgtatg ctcccctaga ggtttgagca gcggggcact 720 gaagaagcga gccacacccc catcgcacgc cctgtgaggg ggacaaggga acctttccca 780 tttca 785 // ID LTR16D repbase; DNA; HUM; 464 BP. XX AC . XX DT 02-SEP-1998 (Rel. 3.08, Created) DT 02-SEP-1998 (Rel. 3.08, Last updated, Version 1) XX DE Primate LTR16D repetitive element - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR16B; LTR16D; KW Long terminal repeat of endogenous retrovirus; MER71B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-464 RA Smit A.F.; RT "LTR16D."; RL Direct Submission to Repbase Update (1996). XX DR [1] (Consensus) XX CC A retroviral LTR. The internal sequence is closely related to CC that of HERV-L. CC 5 bp duplication sites. The LTR16A and B consensuses are 65% CC similar CC over 305 bp. XX SQ Sequence 464 BP; 83 A; 154 C; 99 G; 122 T; 6 other; tgtggtggcc atgaaaatgt gcctctcaga tctcctgctg cagggagcat agttgactga 60 cggccccagc tgctgtccyt tggratccac cactgcgttt gcaccaaggc cacgcttccc 120 tcaggctact cccagccagt gactgagcac ggcaggggtg ctaatgcagg cccgttcctg 180 snagatgcgg gactcctccg acgggcaact ttggctcgag gactcctcat cagcctggtt 240 gaaactttct tagaactgca ctgcagtctg aggctcttcc tacccaatcc ttcttccttc 300 cccctctcct ttcacaggtg tcagacctgc atcatggtcc gaagtctctc ctngcccgct 360 cctgctccct ccccttttat ctttcacagg ntttccccta ataaatctct tgcacattta 420 accctgtctt ggcgtctgct tctcagagga cctgaactaa caca 464 // ID MLT1J1 repbase; DNA; HUM; 446 BP. XX AC . XX DT 03-SEP-1998 (Rel. 3.08, Created) DT 24-JUL-2000 (Rel. 5.06, Last updated, Version 2) XX DE Mammalian long terminal repeat MLT1J1. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like MaLR element; MLT1J1; KW MaLR family. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 13-446 RA Jurka J.; RT "MLT1J1."; RL Direct Submission to Repbase Update (AUG-1998). XX RN [2] RP 1-446 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC LTR of MLT1J1 retrovirus-like MaLR element. 5 bp target site CC dups. CC Average divergence from consensus 27%. CC 84% and 76% full-length similarity to MLT1J2 and MLT1J, resp. XX SQ Sequence 446 BP; 99 A; 126 C; 99 G; 120 T; 2 other; tgtggcagag actggctagc tgttcaccaa atctgtttcc ttttcttcct gggcacacag 60 ctggactaca tttcccagcc tcccttgcag ttaggtgtgg ccatgtgact gagttctagc 120 caacggaatg taagcagaag tgatgtgcgc cacttccagg cctggcccat aaaaacctcc 180 catgccatct tcctctctat tctctcttct ctgcatctgc tggctggatg tngacgccca 240 gggcgacctt ggaagccacg tgttgaagat ggcagagcct ccatcagcct gggtccctga 300 atgactgcgt ggagcagagc tccactccca ccccnccacc atcaattgga cttcacatga 360 gcaagaaata aacttctatt gtgttaagcc actgtacatt ttggggttta tttgttacag 420 cagctagcgt taccttaact aataca 446 // ID MER34C repbase; DNA; HUM; 551 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 04-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; retroelement; MER39; LTR48; LTR49; LTR34B; MER34C. XX NM MER34C. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-551 RA Jurka J.; RT "MER34C."; RL Direct Submission to Repbase Update (30-SEP-2000). XX DR [1] (Consensus) XX CC 74% similar to MER34B over the entire length, 83% similar to CC consensus. Distantly related to MER39, LTR48, LTR49, LTR29 and CC MER4D. XX SQ Sequence 551 BP; 153 A; 120 C; 99 G; 178 T; 1 other; tgtaggagac cagaatatgc caccccaaaa tatgcctctt tggcataagg attattttga 60 gctgattatt ttgagaaact gcagacacag gagaagctct gaaaacagag tagaagttac 120 ccttttgtaa gggaaattta catctataaa ggaaatctcc atttgtaagg gtgtctccct 180 ctctgtacca ggaagagaag gatgactcta aatcactaga gactcttatc aatggagaag 240 gcaccaactt aaatctgcat aacaaacctt acccttgttt accatgcttt tcctggtcac 300 ctccccataa ctggccttcc ccacaccctt ctttctttgt ttcagcggaa gatggtnatt 360 taagcctgaa ttctaagcca cctctttgag atttactcat ttctctgggt atctcccatg 420 tatacatgag gtatacatgt tattaaactt ctgtttgttt ttctcttgtt aatctgtctt 480 ttgttacagg ggtctgtccc agctaagaac tatgaagggt agagagaaaa ttattttttt 540 cctcccctac a 551 // ID HSATI repbase; DNA; HUM; 577 BP. XX AC X00470; XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 04-AUG-2008 (Rel. 13.07, Last updated, Version 3) XX DE Human satellite I DNA HinfI fragment. XX KW SAT; Satellite; Simple Repeat; HSATI; KW Satellite repetitive element. XX NM HSATI. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 70-577 RA Frommer M., Prosser J. and Vincent C.P.; RT "Human satellite I sequences include a male specific 2.47 kb RT tandemly repeated unit containing one Alu family member per RT repeat."; RL Nucleic Acids Res 12(6), 2887-2900 (1984). XX RN [2] RP 1-577 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (05-MAR-2004). XX DR GenBank; X00470; Positions 1 631. XX CC Alu repeat removed from satellite I. CC [2] (Chr 21, 22). XX SQ Sequence 577 BP; 142 A; 109 C; 112 G; 214 T; 0 other; ttgggggtgc cctatttccc atctcataac ttattttaag aagcacagca taataatgtg 60 tgggcttggg attcagtttt tgaaacaaaa cactgagcct tcgatgacct tcctgtacat 120 gtaaaagcac acctgtctgc atggcagcag ttggacctca cagtgtggat tgtgccttca 180 ccctggaatg tttatgccct atcgccatgg tgatgggatt agggatctcc tgcccttggt 240 cctaagtgcc actgtctgtg ctgagttttt caaaggtcag agcagattga acctttgtgg 300 tttcattttc cctgattttg atttttctta tggggaacct gtgttgctgc attcaaggta 360 tgttcatact ggcctgtcaa atgcgatctt ttcaaattac tagttaatgc tttcaaaata 420 tgttatttaa aaaattatcc tctgtatttt ccatatgcag ttataaatat gtttcatggt 480 tatgttttat tcctcaattt atatatttga ttattgtacc aagcagagta cctttgaaat 540 ttttcttcat ttaaaaaata tgtatcttgg ctcaggc 577 // ID L1PA12_5 repbase; DNA; HUM; 3072 BP. XX AC . XX DT 23-JAN-1998 (Rel. 3, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 2) XX DE Primate L1PA12_5 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW 5' end of primate L1 repeat; L1P5_5; L1PA12_5. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-3072 RA Smit A.F.; RT "L1PA12_5."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-3072 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC 5' end of LINE elements with L1PA12-14 subfamily 3' ends (mostly CC PA14). CC ORF1 starts at bp 2461. The UTR region from 583 to 2072 contains CC a CC variable number of imperfect ~275 bp tandem repeat units. XX SQ Sequence 3072 BP; 822 A; 921 C; 813 G; 508 T; 8 other; ggaggtggcc aagatggccg actagaagca gctagtgtgt gtggctctca cggagaggaa 60 cggaaggggc gagtaaatac agcaccttca actgaaacat ccaggtactc gcattgggac 120 taatcaagga aacaactcga cccacggaga atggagaaaa gcaaggcagg acgacggccc 180 acccgggagc gacacggagc caggggaacc tcccctgccc agggaagcgg tgagtgaatg 240 tgcgaccccg ggaaaccacg cttctcccat ggatctttgc aaccctcggg tcaggagatc 300 ccctcgtgaa cccactccac cagggccttc agtctgacac acagagctac gtggagtctc 360 ggcagagcag ccgctcaggc acgcgcggag acccnggagc cttagatacc cgggctttct 420 gggcttcccg gcaaaagtag ctgcaactcc ggcaaagtgg gaggttagac ccccgtacat 480 acccctagga aagaggctga atccaggggg ctgagcagcg acagcctgca ggccccactt 540 ccacggcacc tcacaggata agacccactg gcttggaatt ccagccagcc accggtagca 600 gcgttgcacc tccctgagan ggagctccca gggggagggg cgggccgcca tctttgctgt 660 ttgggcgact tagccattcc agccttcggg ctttggagag tccaagctga ccgggggcgg 720 aagggatccc ccagcacagc acagctgctc taccaaaacg tggccagact gcttctttaa 780 gcgggtcccc gatcccgttc ctcctcactg ggcgggacct cccaaccggg gcctccagcc 840 acccccgccg gtgttctccg gccgacagag atttgaaacc tccctgggac ggagctccca 900 gagggagggg cgggccgcca tctttgctgt ttgggcgact tagccgttcc agccttcggg 960 ctttggagag tccgagccga ccgggggcgg aagnggtccc ccagcacagc acagctgctc 1020 tacgaaaacg tggccagact gcttttttaa gcgggtcccc gatcccattc ctcctcactg 1080 ggcgggacct cccaaccggg gtctccagcc acccctgccg gtgttctccg gccgacagag 1140 atttswaacc tccctgggac ggagctccca gagggagggg cgggccgcca tctttgctgt 1200 ttgggcgact tagccgttcc agccttcggg ctttggagng tccgaggcga ccgggggctg 1260 aagcggaccc ccagcacagc acagctgctc tacgaaaacg tggccagact gcttttttaa 1320 gcgggtcccc gatcccattc ctcctcactg ggcgggacct cccaaccggg gtctccagcc 1380 acctcctaca ggtgcnttcg ggccggcaac aggtccgtac ctccctggga cggagctccc 1440 agagggaggg gcaggctgcc atctttgctg tttcgcagcc ttcactggtg atacctccag 1500 gtactggaaa atccgaggcg actagggact ggagcgggcc cccagcatac cgcagcagcc 1560 ctacggaaaa gtggccagac tgttacgtgg gtgcccgttc ccatatctcc tcaccgggca 1620 ggtcctccag gcctgggcct ccagccaccc cccgccagag ctatcgagcc agtagcaact 1680 cggcaactcc ctggacagag cctccagggg caactgaaag cctctctgcc actgcctctg 1740 cagtggaact gcccttgcta ccctcggact aacgaaggag caaagaccct aagtgcctta 1800 tccacacctc caacaagctg cagtcgaccc aaggagagga ggccagtccg tctcccacgg 1860 gtcccacaca ccccccactg ctcgtcacca gacagggaac ccctggcttg ggcccacagc 1920 acagaccctc catcctgggc tgattgcact gagcgattgc tgacctgcat ctctctgggg 1980 tggagccccc aggagacaag caaangaccc ttggccacaa ccactactaa ggtcccttcc 2040 tctgctgcct ccaagttggg gaaggaacat aaacactgag atcgccccag agctgcagtg 2100 ggcagcccag gagtgccaag ccacgatcta cagccagcac tcaaggggga gaggaaccca 2160 cactttcaga gcattgagag ggaacacggc tgcaactgtg aggaaacata ggggagccac 2220 acaaccgagc aagagtctac caactgacca ataagcctaa gtgccacctg ctggatcaca 2280 ccccaaagct tcaacaccaa aaatacctca ctaacatacc cccctctgaa accagagaca 2340 agaagtcagc ttcaaataaa gaccctgcac aaagcctcgg cccggtgaaa acatccagaa 2400 aagaagtcta ttgactgtac tcaatctaca ctgcagttaa aggaacaccc acacgcagag 2460 atgagaaaga accaacgcaa gaactccggt aactcaaatg gccagagtgt cgtatgtcct 2520 ccaaacgacc gcaccagttc tccaacaaga gttcttaacc aggctgaact ggctggaatg 2580 acagaaatag aattcagaat atggatagga acgaagatca ttgagattca ggaggatggc 2640 aaaacccaat ccaaggaaaa taagaatcac aataaagcga tacaggagct gaaggacgaa 2700 atagccggta taaaaaagaa cctaacggat ctgacagagc tgaataacac aatacaagaa 2760 tttcacaatg caatcacaag tattaacagc agaataaacc aagctgagga aagaatctca 2820 gaacttgaag actggttctc tgaaataaga cagtcagaca aaaataaaga aaaaagaata 2880 aaaaggaatg aacaaaacct ccgagaagta tgggattatg taaagaggcc aaatctatga 2940 atcactggca tccctgaaag ggagggggag aaagcaaaca acttggaaaa catatttcag 3000 gatatcgtcc atgaaaactt ccccaacctt gctagagagg ccaacagtca aattcaggaa 3060 atacagagaa ct 3072 // ID MER63D repbase; DNA; HUM; 1061 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 28-AUG-2008 (Rel. 13.09, Last updated, Version 2) XX DE Primate MER63D repetitive element - a consensus. XX KW hAT; DNA transposon; Transposable Element; DNA transposon fossil; KW hAT superfamily; MER63D. XX NM MER63D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1061 RA Smit A.F.; RT "MER63D."; RL Direct Submission to Repbase Update (31-JAN-2000). XX DR [1] (Consensus) XX CC Putative internal deletion product of a hAT-DNA transposon, CC sharing CC with these the characteristics of 15 bp terminal inverted repeats CC and 8 bp target site duplications. Copies on average 23% CC diverged. XX SQ Sequence 1061 BP; 350 A; 175 C; 181 G; 349 T; 6 other; cagtggtgtg ctggagccgg ctcataccgg ctcgcgagag ccgattgtta aattttcagg 60 aattttgcga gccggttgtt aaacacagcc attattaaaa attaaattat ataaacttac 120 aattaaataa attatattaa aaacaaaggt aataaatact caaaactcat cacttcctaa 180 ttattttact acattttact attatctatg ctcttgaggt tatttacgtc tattgtatct 240 gtatggtgga aatactatat aatggtgtgc tactgcgcat ctcttcccaa ctccgcgttc 300 agtgacgtca cgttggtagc ttgaaatcgg ccatggtggg agtatttaca ccacggaaat 360 tggcaaacgc tacaaatcag ggcttgattt attgttttgt tgattgtcta gacttaagaa 420 agtgatggag aaaatgttaa taatgcagat taaacttaaa agtgtgtcgt gtctgtagcc 480 gttacattgt gaatagcaca aaaaattgag gaaatattct tccagtattt gaaaactatt 540 atccgattca gcaaagaagt cgctcacatc attgacgaac gagtgaagtt ccgacatacg 600 tcttcgttgt ttcactttcg tcttacttta atxaatataa tttxtacgaa ggtgagaaat 660 agtttaacag tagatcacat cagttattat gaaaxtaaat ttattggaaa gagttataga 720 ttgggatgca actccatttg tcaaatcxtx xtcttactca ttaatgtaaa cgaaaatatc 780 aaccaacatt catgttggaa ctacactcgt tcgtcaattg caaccatagg ttggctacgg 840 atacaagagt tcggcaaaaa tcaataaaag cattctgtga gaatcaattg gctatatgga 900 atttacaata aagagtattg tatattttat tattatttgt aaattgtgtg ctacacatcc 960 tttatatcag taaaatttat aataaactta tatatgtata tacatacata cattttttcc 1020 cccagagagc cagttgttaa acatttacca gcacaccact g 1061 // ID MSTA1 repbase; DNA; HUM; 465 BP. XX AC . XX DT 06-MAY-1999 (Rel. 4.04, Created) DT 06-MAY-1999 (Rel. 4.04, Last updated, Version 1) XX DE Long terminal repeat - MSTa1 subfamily - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; MER10; MSTA1; KW MSTA; MaLR family; MstII; non-LTR retrotransposon. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RA Jaiswal K.A., Gonzalez J.F. and Nebert W.D.; RT "Human P1-450 sequence and correlation of mRNA with genetic RT differences in benzo[a]pyrene metabolism."; RL Nucleic Acids Res 13, 4503-4520 (1985). XX RN [2] RA Lawrance K.S., Das K.H., Pan J. and Weissman M.S.; RT "The genomic organization and nucleotide sequence of the RT HLA-SB(DP) alpha gene."; RL Nucleic Acids Res 13, 7515-7528 (1985). XX RN [3] RA Mermer B., Colb M. and Krontiris G.T.; RT "A family of short interspersed repeats is associated with RT tandemly Repetitive DNA in the human genome."; RL Proc. Natl. Acad. Sci. U.S.A 84, 3320-3324 (1987). XX RN [4] RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [5] RP 1-465 RA Jurka J.; RT "MSTA1."; RL Direct Submission to Repbase Update (APR-1999). XX DR [5] (Consensus) XX CC 79% similar to MSTA over the entire length. XX SQ Sequence 465 BP; 103 A; 120 C; 99 G; 138 T; 5 other; tgctatagtt tggatatttg tcccctccaa atctcatgtt gaaatttgat ccccaatttg 60 gcartgttgg aggtggggcc tagtgggagg tgtttgggtc atgggggcag atccctcatg 120 aatagattaa tgccctcctt tgnggtggga atgagtgagt tctcactcta ttgtgggaat 180 ctattagttc ccataagagc tggttgttaa aaagagcctg gcacctncct cctctctctc 240 tcttgcttgc ttcctctctc accatgtgat ctctgcacac gctggctccc cttccccttc 300 accttcygcc atgagtggaa gcagcctgag gccctcacca gatgcagatg ctcgcaccat 360 gctttttgtc cagccagcag aaytatgagc caaataaacc tcttttcttt ataaattacc 420 cagcctcagg tattccttta tagcaacaca aaatggacta agaca 465 // ID CHARLIE2A repbase; DNA; HUM; 2862 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE DNA transposon. XX KW hAT; DNA transposon; Transposable Element; Charlie2; CHARLIE2A; KW DNA transposon fossil; hAT superfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-619 RA Smit A.F.; RT "CHARLIE2A."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-2862 RA Smit A.F.; RT "CHARLIE2A."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC An internal deletion product of a member of the CC hobo/Activator/Tam CC group of DNA transposons. The ORF from 1456-2247 encodes a CC peptide CC 56% similar to the C terminal region of the Charlie3 transposase. CC 15-16 bp terminal inverted repeats. 8 bp target site CC duplications. CC Individual copies on average 23% diverged from consensus. XX SQ Sequence 2862 BP; 955 A; 457 C; 483 G; 954 T; 13 other; cagtggtctt caaactgggg tatacatacc cctgggggta cgtaaagact ttccaagggg 60 tacgcgggca cggatagttt taagggaatc aatttccaga tcctcaactt ccatatgtac 120 tctttcctaa aactgatctg cctgagaacg tacctgtggc gaagtctgcc ctttcccact 180 tcccctttca caattgccct tctcccactt tacaaaagaa aggcatatct ctcacccatc 240 ccgaatctta ctatggtgca ttgccccggg gtgtaaaaac ctccagggcg ccaaacaaag 300 ggacaattcg aaatattggt gttggggaag cctcctttaa tgattaatca aggcaccata 360 aacccatggt agggcttcct gtctttccct gtcttataca tatttctgtt aagggtgaag 420 catggcgtta gaaatggggt attttggccc gtgttgggat gttctgaatt cagatatatt 480 gtagagtggg gcagtggaag tgatgacaat tttcgtttaa tgaccttgcc tcttccattc 540 cccgactatt gtcaaagaat gcattgctcc tgagggagag tcccgtgaga gcaaagcaaa 600 gagagcatcg gtaagaaata ctgaatgcta aaaacggcat tttttcacat atttaaacgt 660 aagcaattct tttcagctat tctcaacact catccctagg atgtgtcatt agctggaaag 720 aaaagcaact tcgaacagcc gaagcagtat aggttagtga cgctgattct tttaaatgta 780 actggaatgt tttctaggac taccaaattt ttcaagatac attggataaa acccgcggat 840 aaaantttta catgatttct ttcagatttg gtgtgcatta ttcaataagg tagttaaaac 900 ctattttatc aaatcatatc atgaaatatt tattccaatt acagtcaatc ctcatcttat 960 ttcatcttat aaaatgttta atattttcta cctcctatta acaaaaaata aaattatatg 1020 ctagctgccg gaccgattag tttttagcag tatatacctt tttctttcat taaatacata 1080 ggaaaagttt gatcatnatg tctaataaaa ttaatggagt tatttctgat ttttatacat 1140 gattcttatt taattattcc caaaagccga acaccagagt tcaatataca catgcacaca 1200 tatttacnaa aggaatacca tgncttttat catactcctt gcttcataaa taacttataa 1260 ttttagctac anattacatt gcattattnc aaattaagta atgagaaaca gcatantgat 1320 ttattatctt gtttttataa cttactataa aaatagatna attatattag atctacatna 1380 ttttaatctt gactgctttt agtaatctat cttataagat acattccgta atttatttct 1440 cagtaatttt tataatattc cttaaaatgc atattaacac atttatttga attgaaaaat 1500 gaagtcagac tttttctgac agaaagtaag tctgatttgg ctgattggtt tgacaatgag 1560 gactggcttt gccaattagg ttatatggca gacattttcc ataaattgaa tgagctaaat 1620 ctgcagctcc aaggttttga cgaaaatata tttaaagcac gtaataagat aaaagcattt 1680 tntcaaaaaa tattgtattg gcaaaggtgt antgaaatta acaatatttc aattttccca 1740 accctttctg agtatattgg attaaacaag gtgcctctaa gtgaaagagt aacaggtata 1800 attaatagtc atttgataag tcttggtaaa gcctttttgg tatacttccc agaaattgag 1860 aaagtgaatg actctaatga ctgggtaaca aatccttttg caagtcaggt ggtttccaat 1920 tctttgcttt caacaaaatt gaaggaggac ctaatcgagt tgtcagctga tagatcatta 1980 aaaataattt ttgatgatag atcactatgt gatttttggc atataactcg gaaggagttc 2040 aaagaattga gtgacattgc tataacaaaa ctccttccat tcccatctac ttatttatgt 2100 gaacaaggtt tctcagcgct tacatctata aaaatgaaaa ataggaatag aattgatgct 2160 gaaccctgtc tcattctagc aataagtaat attcatccac ggatacatga actaattggg 2220 aaaanaaagc cccatccatc tcattaagag atgcatttcc aataaaattt tactttttat 2280 gtttaatatt tatcaaaatt tgtaatatat ttatgttgtt ttgatcaatt gtatactaat 2340 aataattgta atgataactc aatccagaag aaaattttta acacttagag ccttatggtc 2400 acaggaaata taaaaaatta aatttcaatt tatatacata tttttgttgc agagaagtat 2460 gatagggtga tcaataaaag actttcaagc ataaaaatat attacattag gataaaattc 2520 tgtgggggaa gtggaatgga aatatgagtt caaggagaaa aagagaacga tgtaaaattt 2580 ctgactgtta aagaagagct tgttcatgta ttttttaaat ggatgatggt gggtatcaaa 2640 tcgctatggt atttagattc cattggatac atttaaaaga gtgatgtaac agttttattt 2700 taaaatgtca atatttacaa tatgccagaa attacatcct ttgcaactat ttaaacttat 2760 gatgaaaaat tttagatgtc aacttaaaaa tgtgcgaggg ggtacatagt ttttcaaaat 2820 tcttttaggg ggtatgcgag caaaaawgtt tgaagaccac tg 2862 // ID MamGypLTR1b repbase; DNA; HUM; 782 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 02-JUL-2009 (Rel. 14.08, Last updated, Version 2) XX DE Long terminal repeat of Gypsy LTR Retrotransposon from mammals. XX KW Gypsy; LTR Retrotransposon; Transposable Element; MamGypLTR1b_LTR; KW MamGypLTR1b. XX NM MamGypLTR1b_LTR. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-782 RA Smit A.F.; RT "MamGypLTR1b_LTR - Gypsy LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 4 bp TSDs; 33% subst in dog-human. Associated with Gypsy CC internal sequence. Includes rnd-4_family-1902 & -3183 10% CC similar to MamGypLTR1a. XX SQ Sequence 782 BP; 169 A; 183 C; 254 G; 166 T; 10 other; tgtggcagga taatttattg agatattaat ttgtgttttg ctctctgtat ttttcccttc 60 cctcccaatt ccaagaaggt agccaggccc tttgtgntcc cttgcctcgg gggaggtttg 120 tgctgcaggg ccgaaagcag aagttgcctg aagacaaccc ccttcctggc ttttgttttc 180 aaaagcctaa gctcnttgag gagattatgc tggtgccctg agggagagag ggaggtgctt 240 gaggggggag ntgggagaag gnagaaaggg gaggagcttc cccaagactg ggaaggggac 300 aggagtctgg cggntcctgg agtagggatg aggcccaggg ccctgctccc tgncagtgcc 360 ccggggaggt ggcaggacct cagaggggaa tggctgcgtg gtgtgcctag ggaggctgga 420 ccctaggcac cggggctccc agcctcggca aagattcccg tgcccaagcn tggcacggaa 480 gcagcagagc cgccngcctt caagggacca tgcgggcttg gacaatgagc atntcagcgg 540 tgaccagtgt ggaccgaaga ccagagggcc ctccccgaat gttccgtnct gcgtaagacc 600 cccgggacct ttgcacgacc ctgggggagg gagggggagc cccaataatg actgagattg 660 aatttcccgc cagcctagtg ggatgggggc tcggagtcag atttaatttg atttaaagaa 720 ataaagaaat gtgacatttc ttgcacacct gagtttgtgg agtaagattc atacccgcta 780 ca 782 // ID L1MD3 repbase; DNA; HUM; 1342 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1MD3) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1MD3; L1MD3 subfamily; MER42B; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 890-1327 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-1342 RA Smit A.F.; RT "L1MD3."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC Partial 3' UTR; start of this consensus corresponds to pos. 1379 CC of CC L1MC3; average divergence of copies from consensus: 20% CC Bp 626-750 are derived from a MLT1F1 MaLR LTR insertion. XX SQ Sequence 1342 BP; 482 A; 241 C; 282 G; 331 T; 6 other; tatacataca catatttcct agctctgtcc gctgagaggg cctagaatca atgacacccc 60 agtagcaatg agcacaccta gcatccagat cttggtttct aaataccatt ctccaataaa 120 aggaaccagg gctccttgga gaaatggctg attctagggc tggggcaggg aaaatacaag 180 atgagcctgg agcatctcgt agtgccagaa ggtaaggaag tgctcaaaaa caaaaggang 240 ggggcatgtc aaaaggacac aggagccaac ctgaaagagc tcccaatggc caaagctgga 300 acaatttgag caacaaaata aataatgnta gtattggatt ataacccaaa gtataaaata 360 aatatccatg agtccatact gatataaata aatgattgaa taaataaata ggggggaagg 420 gaaacaaatc tttcttacag aagaattcca aataatanat gtagaaggaa tgagggaagt 480 agaaaatcgc cattagaaca ctacngtaat aattgccgca ggcaagatcc accgatggat 540 gctaaaatta gtgggtgaaa ctttaaggag aagcnggata tttgcatagc ctcaaagtat 600 cttccccaaa atatttatta attattgcgg tggttttaac atatgtccac aaattagttg 660 atactcctcc ctccaggagg tggagcttaa ttcccctccc cttgagtgtg ggctggactt 720 agtgacttac ttccaaagaa tagagtatgg aaagggaaaa atagtaactt tacagtggag 780 aaacctggca gacaccacct taaccaagtg atcaaggtta acatcaccag tgataagtca 840 tgttgatatc atgtaccccc tgatatgatg cgatgagaag ggcacttcac ctctgtggta 900 ttcttcccaa aaacccataa ccccagtcta atcatgagaa aacatcagac aaacccaaat 960 tgagggacat tctacaaaat acctgaccag tactcttcaa aantgtcaag gtcatgaaaa 1020 acaaggaaag actgagaaac tgtcacagat cggaggagac taaggagaca tgacaactaa 1080 atgcaacgtg gtatcctgga ttggatcctg gaacagaaaa aggacattag tggaaaaact 1140 ggtgaaatcc gaataaagtc tgtagtttag ttaatagtat tgtaccaatg ttaatttctt 1200 agttttgata aatgtaccat ggttatgtaa gatgttaaca ttaggggaag ctgggtgaag 1260 ggtatacggg aactctctgt actatctttg caacttttct gtaaatctaa aattatttca 1320 aaataaaaag tttatttaaa aa 1342 // ID MER57E3 repbase; DNA; HUM; 487 BP. XX AC . XX DT 23-MAY-2008 (Rel. 13.05, Created) DT 23-MAY-2008 (Rel. 13.05, Last updated, Version 1) XX DE Long terminal repeat of ERV1 Endogenous Retrovirus from placental DE mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; MER57E3. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-487 RA Jurka J.; RT "MER57E3 - a subfamily of endogenous retroviruses from placental RT mammals."; RL Direct Submission to Repbase Update (24-MAY-2008). XX DR [1] (Consensus) XX SQ Sequence 487 BP; 162 A; 110 C; 88 G; 127 T; 0 other; tgagaccctg cttgcgacac atgtgaaaaa cgcaggggaa aatcagtccc ctgtggagtg 60 tgaaaataat taaatagcag gcaattagac tgaggtggct ctagtgccct gggttcctac 120 ttaaaaaaaa atctaactcg aatgcatttt ttgtaaatta ctacattagg ggaaaacaaa 180 attcaggctt aaccaaccat aaaccgccaa ttaacctctg attacataac caggaaattt 240 ccacctggat agtacaaata aagaaactac gtaactgtac ctaaccaatt attgaatttg 300 gtttgcttcc tcacgcacct tataaaagcc tttccttcaa gcccctccca tggaccacaa 360 actacaaacc atagctgggt gctctacgat tcatgaatcg ctgttcgatt aaattcttta 420 atatttttac ggtgactccc ataaattttt aacaggagaa aggagggact ggggacccca 480 cggacca 487 // ID TIGGER9 repbase; DNA; HUM; 659 BP. XX AC . XX DT 29-JUN-2000 (Rel. 5.05, Created) DT 29-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE Mammalian TIGGER9 repetitive element - a consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; KW DNA transposon fossil; MER111; mariner/Tc1 superfamily; TIGGER9. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 488-217 RA Jurka J.; RT "TIGGER9."; RL Direct Submission to Repbase Update (FEB-1999). XX RN [2] RP 1-659 RA Smit A.F.; RT "TIGGER9."; RL Direct Submission to Repbase Update (2000). XX DR [2] (Consensus) XX CC TIGGER9 [2] replaces the unclassified MER111 [1] repeat. CC Partial consensus of pogo-like TIGGER9 DNA transposon. 5'-end may CC be CC there, 3'-end is much truncated. Translation of pos 251-508 has CC closest CC similarity to transposases of the TIGGER group (especially CC TIGGER3- CC GOLEM and TIGGER6). However, the average divergence of copies CC from the CC consensus (29%) is much higher than that of previously described CC MER2- CC group elements, which all show an average divergence between CC 14-17%. CC At least 500 copies in our genome. Consensus inverted from [1]. XX SQ Sequence 659 BP; 200 A; 114 C; 123 G; 202 T; 20 other; caggtggtcc tcaactttta nacgtttnac tttcaaacaa cccgcacttt tntgcattat 60 acattgatat ccctaaactg cctttcntat gccgaattcg gacttntgca catcagctga 120 tnaacgaaca ttttgagntn tccttatgtg gtgctgcctg ccagtcagat ttcacggcan 180 tgccaatgtt tctgtctgta cagcgntgtt tgtgcaatta tttgaatatt ttattgcatt 240 ttgcccttat tattttataa aaatgagtgg aaaatagaaa aatgaaagtg ctgatactag 300 tgataagaag cataggtctc ataaatwtaa tacaattgag acaaagatgg aaatcattag 360 gcatgctgaa agcggcgaat ctttagcctc agtcggacgc tcattggact taagccagtt 420 gactgcgtgt tcaattgtga aggaaaagaa caaaattaaa gaacatgtac aaaatgctgg 480 aaatatatca tcgaagattg tgtctaaagg ggaagtncaa ttaggaattt tatactattt 540 ttnagctctc tgggaanaaa tccntcccta caacacgtat ntcaatcatt tnacttttac 600 acactcaatg ttcgacatac gttttcagga atgtattang tangaaancg ggggactgg 659 // ID HSAT6 repbase; DNA; HUM; 126 BP. XX AC . XX DT 10-NOV-2003 (Rel. 8.1, Created) DT 10-NOV-2003 (Rel. 8.1, Last updated, Version 1) XX DE Human centromeric satellite. XX KW SAT; Satellite; Simple Repeat; Centromeric; HSAT6; KW Satellite repetitive element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-126 RA Smit A.F.; RT "HSAT6: Human centromeric satellite."; RL . XX RN [2] RP 1-126 RA Pavlicek A. and Jurka J.; RT "HSAT6: Human centromeric satellite."; RL Direct Submission to Repbase Update (OCT-2003)Submission to. XX DR [1] (Consensus) XX CC The consensus sequence contains 3 repetitions of 42bp-long units CC GTATTATGACATCACAATATATTATGACATCATAATTCGTAT. The unit contains two CC 18bp-long satellite-like subunits TATTATGACATCACAATA CC and one partial palindrome (3-19 and 36-20). XX SQ Sequence 126 BP; 48 A; 18 C; 12 G; 48 T; 0 other; gtattatgac atcacaatat attatgacat cataattcgt atgtattatg acatcacaat 60 atattatgac atcataattc gtatgtatta tgacatcaca atatattatg acatcataat 120 tcgtat 126 // ID LTR47B2 repbase; DNA; HUM; 436 BP. XX AC . XX DT 28-MAR-2009 (Rel. 14.03, Created) DT 28-MAR-2009 (Rel. 14.03, Last updated, Version 1) XX DE LTR from human endogenous retrovirus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; LTR47B2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-436 RA Jurka J.; RT "A variant of LTR47B subfamily."; RL Repbase Reports 9(3), 704-704 (2009). XX DR [1] (Consensus) XX CC ~85% identical to consensus. XX SQ Sequence 436 BP; 90 A; 118 C; 96 G; 132 T; 0 other; tgtggagaca aaagtgactc catcttggat gctaatccgc catgttgact tctgattagc 60 cccagtcccg tgaatgcctc ctgattccta ctttatttac tgtccctagt gtaagaacat 120 gtcaaccttg atgttatcgc acaaattata ggctatgacg cacgtagcat tcttgcctgt 180 tctggagggt tgcctttaat tgtcttgcac ggagcacgta taccctttcc ctatggtata 240 taagccctgg gtctggggag taacaggtgc ggagatctac ctgtcttgct gccgcccaag 300 accacgcttc cgtctgtaag ttcccccaat aaaacaccct ttaccgacaa actggatttg 360 tctgcctcgt tctttggttt ctcggctcct tcggcatttg ggggccgctt tgcatatacg 420 gccctttcac ggaaca 436 // ID GSATII repbase; DNA; HUM; 216 BP. XX AC . XX DT 01-JUL-2003 (Rel. 8.06, Created) DT 01-JUL-2003 (Rel. 8.06, Last updated, Version 1) XX DE Human centromeric satellite. XX KW SAT; Satellite; Simple Repeat; Centromeric; GSATII; KW Satellite repetitive element. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-216 RA Smit A.F.; RT "GSATII: Human centromeric satellite."; RL . XX DR [1] (Consensus) XX SQ Sequence 216 BP; 44 A; 64 C; 83 G; 25 T; 0 other; gcctgggtcc cccacggacg aaagtgcctt cccatcagcc cctgcgctgg gccccgggga 60 ccctggcgtc cctggttcga acccagggtg cgcctcgggc ccgctagggg taccccaagg 120 cgggcagaag gcccatgagg ggaaggtgag gtttgaggga ggggaggtga ggcacctgtg 180 gcagaaaaaa aaaaaaccgc gccgcggaga agcggg 216 // ID LTR12D repbase; DNA; HUM; 1254 BP. XX AC . XX DT 26-APR-2001 (Rel. 6.03, Created) DT 26-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE LTR from human ERV9-like endogenous retrovirus- a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; ERV9; LTR; KW LTR12; LTR12C; LTR12D; PTR5; PTR7. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1254 RA Jurka J.; RT "LTR12D."; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC A variant of LTR12C with internal indels. Overall CC 90% identical with LTR12C and 95% identical with CC LTR12, starting at position 546. XX SQ Sequence 1254 BP; 273 A; 366 C; 371 G; 241 T; 3 other; tgagaggtga caacgtgcta gcagccctcg ctcgctctcg gcgcctcctc ggcctcggcg 60 tccgctctgg ccgcgctcga ggagcccttc agcccgccgc tgcgctgtgg gggcccctct 120 ctggggctgg ccgaggccgg agccggctcc ctctgctcgc ggggaggtgt ggagggagag 180 gcgcgggcgg gagccggggc tgcgcgcggc gctcgcgggc cggcgcgggt tccgggtggg 240 cgcgggctcg gcgggccccg cacttggcgc agccggccgg cgcctgctgg gcttgatcgg 300 gggacgagct ccctctgggc tgccggagtg cccgggctag gtgccgcaaa gtcccgcggc 360 gagtgccagt gagaggtgaa gccggctggg cttctgggac gggtggggac ttggagaact 420 tttctgtcta gctaaaggat tgtaaacgca ccaatcagca ctctgtgtct agctaaaggt 480 ttgtaaacgc accaatcagc actctgtgtc tagctaaagg tttgtaaacg caccaatcag 540 ngctctgtgt ctagctaatc tggtggggac ttggagaact tttgtgtcta gctaaaggat 600 tgtaaacgca ccaatcagca ctctgtgtct agctaaaggt ttgtaaacgc accaatcagc 660 actctgtcaa aacggaccaa tcagctctct gtaaaatgga ccaatcagct ctctgtaaaa 720 tggaccaatc agctctctgt aaaatggacc aatcagcagg atgtgggtgg ggccagataa 780 gggaataaaa gcaggccacc cgagccagca gcggcaacct gctcgggtcc ccttccatgc 840 tgtggaagct ttgttctttt gctctttgca ataaatcttg ctgctgctca ctctttgggt 900 cygtgccgcc tttatgagct gtaacactca ccgcgaaggt ctgcagcttc actcctgaag 960 ccagcgagac cacgaaccca ccgggaggaa cgaacaactc cggacggaag gaacgaacaa 1020 ctccagacgc gccgccttta agagctgtaa cactcaccgc gaaggtctgc agcttcactc 1080 ctgaagtcag cgagaccacg aacccaccag aaggaagaaa ctccggacac atctgaacat 1140 ctgaaggaac aaactccgga cacaccatct ttaagaactg taacactcac cgcgagggtc 1200 cgcggcttca ttcttgaagt cagcgagacc aagaacccac caattcngga caca 1254 // ID MER65D repbase; DNA; HUM; 473 BP. XX AC . XX DT 21-SEP-2000 (Rel. 5.08, Created) DT 21-SEP-2000 (Rel. 5.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retroelement; internal DE sequence MER65I belongs to the MER4I-group; subfamily MER65D. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW LTR of retrovirus-like element; MER4I-group family; MER65D. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-473 RA Jurka J.; RT "MER65D."; RL Direct Submission to Repbase Update (SEP-2000). XX DR [1] (Consensus) XX CC 64% identity to MER65A over the entire length. Various segments CC show CC <70% identity to MER65B, MER65C and LTR23. Individual repeats are CC ~83% identical with the consensus. XX SQ Sequence 473 BP; 135 A; 104 C; 84 G; 143 T; 7 other; tgtgaaagtt gcagatacca ggatgaaatc actttttgtc agacccaaac aaattagagc 60 tgggaaagca tgaaggagga gagctcatgc ttgcatgtct gagataaaga ctgtctcaag 120 gactttctaa aataacccca caagaaaaan tattctttct ttaggactgc agcaattaga 180 tgmtkcagat aagatgctct yraaagaaca cttgcccagt aatggcatct ccaccaatga 240 actgatgcca actctggctt tgagcctctg gaaccaatga actctgtttc caagcagctt 300 atgtgaactt ctccttttgc caataaaagc ttccctttac cctcccctct tcagatgcat 360 ctgtggcttg ccatagctgt gcatcncagg ttataatcct ctttgcttac tcccaaataa 420 attcatcata ttaggagata tttttctctg atgtnttttt ttttaggttg aca 473 // ID MER58D repbase; DNA; HUM; 386 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE hAT DNA transposon from placental mammals. XX KW hAT; DNA transposon; Transposable Element; CHESHIRE; MER58D. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-386 RA Smit A.F.; RT "MER58D - hAT DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 22% div. XX SQ Sequence 386 BP; 114 A; 86 C; 63 G; 123 T; 0 other; caggggtcgg caaactacgg cccgcgggcc aaatccggcc cgccgcctgt ttttgtacgg 60 cccgcgagct aagaatggtt ttaacagatg aacatttgca atcgatttcg atgataggga 120 acactaactt tgaaccccaa ttaagcaaaa tgttatctcc ccaaaaagaa ttccattctt 180 ctcattagta gacctgtatt acaaaaaatt gtactcaatt attattatta ttatattttg 240 aatttcatca ataaaaattt tgtggaaatt tgttttctct cttgttatat aagtacctac 300 ataatatcct cgattttgcc tcttggcccg caaagcctaa aatatttact atctggccct 360 ttacagaaaa agtttgccga cccctg 386 // ID LTR1B1 repbase; DNA; HUM; 863 BP. XX AC . XX DT 14-AUG-2008 (Rel. 13.08, Created) DT 14-AUG-2008 (Rel. 13.08, Last updated, Version 1) XX DE Long terminal repeat of endogenous retrovirus - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR1B1. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-863 RA Jurka J. and Jurka M.G.; RT "Primate long terminal repeats."; RL Repbase Reports 8(8), 826-826 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 863 BP; 201 A; 284 C; 244 G; 127 T; 7 other; tgatacggra rggagacagg gaaatactgg gtagaagagg gcaggttccc tggcgaaggc 60 cccaccctca agcctgaata cccgcggccc taaatgagaa caggcatttc tgttttcgcg 120 cccaaaaagt tgccttttcc aagaccactc tggccygcca cgccccccat cctgcgccca 180 tataaacccg araccttagc gggcacagac acaagcggct gaacgtcgag aggagcagag 240 gaccagatsg acagacacca gcagacacca gcagaccagc gacggyggaa cgacgcggca 300 gagaaagaga gaagaggagg gacgtctgga cgccgagggg agttyggccg ggggcggtcg 360 gagaagagtc cggccgctgg gcggcccgac tccaggggaa gaccaccttc ccactccatc 420 ccccgcttcc ggctccccat ccatccctcg ctgagagcca cctccaccac tcaataaaac 480 cttgcactca tccttcgagc ccgcgtgtga tccgattctt ccgggacact gggcaagagc 540 tcgggataca gaaggctgtc acactggccc tctgcccttg cgataaggca gagggtccat 600 tgagctgatt aacacacaag ccgtctgcag acggcaaagc tgaaagagca cgctgtaaca 660 catgcccact tgggcttcgg gagtcgcaga cacccacccc tagacgctgc cgtggggccg 720 gagcccaaaa gcactccccc cggcctctgc acctgcccgt ctgcatgctc cccctagggg 780 tttgagctgc ggggcgacca aacaggcgag ccacacccct gtcgcacgtc ctgcgagggg 840 aatcagggaa ctctcccgtt tca 863 // ID LTR58 repbase; DNA; HUM; 679 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 1) XX DE Long terminal repeat of LTR retrotransposon related to the DE MER4I-group; a consensus sequence. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR35; KW LTR43; LTR58; MER41; MER4I-group; retroelement. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-679 RA Kapitonov V.V. and Jurka J.; RT "LTR58."; RL Direct Submission to Repbase Update (AUG-1998). XX DR [1] (Consensus) XX CC LTR58 is a LTR from LTR-retrotransposon related to the CC MER4I-group, MLTV and HERV17 retroviruses. CC Putative 4 bp target site. Individual copies are ~83% identical CC to the consensus sequence. LTR58 shares common parts with CC LTR35; MER41 and LTR43 because of their common origin: CC ------------------------------------------------ CC LTR58 portion other LTRs identity CC consensus positions consensus position CC ------------------------------------------------ CC 350 - 503 197 - 348 (LTR43) 68% CC 463 - 567 445 - 551 (MER41A) 64% CC 526 - 677 455 - 609 (LTR35) 73% CC ------------------------------------------------. XX SQ Sequence 679 BP; 173 A; 188 C; 142 G; 169 T; 7 other; tgagacagta tagggaagag actcagtcct ggcagacaag agacatggta accaagatcc 60 caatgggcct cacatgtcca ggcatattcc ctcccctacc ttcttgcctc ccttaacaag 120 ctgacccaag tcacgtagca gaaagggggn cctctcctaa cttagctgac caggctgaat 180 tcctaaccat aaaaggaaga acctaaccat ttatctcctt gagtnatgtc ttccaaggtt 240 gctgaagcag gactctggca ttcctgataa gaacctgacc agatgcagcc ggctgaagac 300 aagatggact ccagcgctga cctttcacca agtttttctt cattataatc tcattgtaat 360 actaaaatct ccgcccargg tgggrnttat ctgccahttt ctrgacatgc gatgcatgtt 420 agagcatgac gtctcactgc gcaggcgcta aaaagacccc gcctaaacat gcttgcctac 480 acgtcgctcc tttttcctgc ctcaacttcc ttaaaatgac aagagccgag cccttttggg 540 agctagcatc aggatccctt tcctgtacgc tgctcccttg cgctgctcga gccgcaagcc 600 tattaaacct tgcctgagaa aatcggtttg gcctggtgtt aatttctact tacatgagag 660 ccaaggaact tggggtcca 679 // ID MER69B repbase; DNA; HUM; 1226 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 28-JUN-2000 (Rel. 5.05, Last updated, Version 5) XX DE Non-autonomous hAT-like DNA transposon - a consensus. XX KW DNA transposon; Transposable Element; MER69B. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1226 RA Smit A.F.; RT "MER69B."; RL Direct Submission to Repbase Update (1996). XX RN [2] RP 1-179 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (2000). XX DR [2] (Consensus) XX CC 11 bp terminal inverted repeats. 8 bp duplication. CC MER69B is the most common internal deletion product of an CC hAT-like DNA CC transposon. See MER69C for longest reconstruction of original CC element. CC Average divergence from consensus 25-26%. XX SQ Sequence 1226 BP; 330 A; 235 C; 280 G; 380 T; 1 other; cagaggcgga tttaccgtga agctaatgaa gcttaagctt cagggcccct cacttgcacg 60 ggccccttcc aaggccctgg gaggggccct agcaatgtgt tcacatggtc atatgttttt 120 gtaaaatttg caaaagtaag atattttaac cgcaatcggt taagaccgct gtctctttcc 180 actccgactt cccctccgtc acacttcccc tcgtgtcggg tggcgttgga gtggccgtgg 240 gcatttttgg gatccggcta aggggaagtt gagttgggga tacatttagt ttgggtttag 300 tgggatatat ttatgtggtt cgcagtcact tccgtgtata gttaagttat tgctagccgt 360 cccggtgtag gaatggcttc caggaatact cctactgccc actgtgccga ctcacccggc 420 gtcgtgacac gaaggtgcag ggccagaggt cgtatcgcga tatgaacgtg tcctacggca 480 cccggcaccg gaagtatgtg ggtagtggag gagaaacaag gtttgaaatg tatggagcca 540 gaagctagtc tgtggaaaat tcttccaatc atcagacgtg taaaattgta agcggaggat 600 tcggttctca tcgatgccta gtcaaaacgg aagttctctc ctgtcaggaa tatactcgat 660 aatgcagcgt atacaattat aaatgcacca tacatttttt tttcattttt gatgggaatc 720 gcgcgaaata gaatttatca gaattcctgt gtttgtaggg cacaaacctg tagcagtact 780 acaaacagcg agtacgtctg tgtgtgaagt cgcatgtttt atgcatccca actatcaata 840 ataaaaaaca aattttgatc aaccatgcta gaggaaagac tgaattatct ttctattctc 900 tctatagaaa atgatattac aaaatcattg tcatatgaag aggcgatcaa agagtatgca 960 gccaaaaaat gtagggaaaa agtattatag aggtgtgtca ggcagttaat taataaaaat 1020 attatgttat ttttctggat tttgtgatgt ttgtggtatt tgtcagcttt ttaaaatttg 1080 taatttgttg tgatttnttt tctcattcta aataaatatt cacttttgta cctaattttg 1140 tatttgtaat tttgtattct ttttcttaaa gagggccccc caaattgtat aagcttcagg 1200 ccccacaaaa cctggatctg cccctg 1226 // ID MER34-int repbase; DNA; HUM; 8207 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from placental mammals. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER34-int. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-8207 RA Smit A.F.; RT "MER34-int - ERV1 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX SQ Sequence 8207 BP; 2205 A; 2075 C; 1601 G; 2231 T; 95 other; gttctggcaa tgaggttggg atatcactgg ctgggacacc ctgcgcactc cagaagctac 60 cattgagatc ttgggagcnc cgannaaagt cggcnaaggg taagaattcc ttaccgcgtc 120 agcctcctag atctctgcnt gtagtatctg gtcaagtgaa aatggcaaga gaatctcttg 180 tctttttccc tttccaaact tangattagc aggagaaaac atttgtgtga actagttctt 240 tgggtatagc gactttggcg ttttatttga gtgtgantat ttatattatt tgatcctttt 300 tctcccagag atggtctttg tcattgtttt cccatttcct ctgtcttttt gtgtcatttg 360 tcataaggag gggaaccaca gggtagaaca caggcatagg tcctataanc ccgctgttcg 420 agctggcctt atagactggt gagtttacng ttctcatcag actggcgtct gtttagacaa 480 actttgctgt gggtccctga aacaaaaact ggatgagatt ctccttttat cttgttttat 540 gtgccctgag agcttggctt tgtgaccaag tgaggatact ctctctggtc cctgccatca 600 ggggggtaca agttttgggt ttgtgtcagg tggccagtct gaaaagactg ggaacccgag 660 acacgtaaga tattaagcag cacnctcttt gtccgaatgt gccaagctct caggggaggt 720 tccagtccat aagaggcctt tgttgtgtna atcttttgtt gtctngtcag tgctgggaaa 780 gtcccatccc agnatcgcct gcccgatgtc agagattagt gggtctgtgg ctggaggcgt 840 ctcacatttt gtgaganacc agagacatca tttgcacaat cacttctcac tgcctgtggc 900 gacaaaggtc tttgctttct tagnctattt ctgagagtga atttttggat catgggggct 960 gcatcttctg cgcccnctcc aggaacgcct cttgcatcca tggtaaagat ttattctaag 1020 cctggaaagt tacctcctgg tctttccatg aaaaggctta ttggattgag tcactattgg 1080 aatanataca ccattgaaga tcctaattgt caatggccag angacggatc ctttgaatta 1140 gaaagacttt tatatttgaa aaaaatttta gagagctctc attctaaaca nttgccttat 1200 tgtacttatg ggaagatcaa attgaaagaa ggacncagaa nagtattatg gctagcctta 1260 ggaattccct tgacaaaatt aaagaacaga aatcagacct agaacaaaag ttaaaatccg 1320 cncccactnt aaatcccctt ccccaccact tatacccttc tttaccccca actccntgtc 1380 cctgaccctc cagaagatct tttggatctc tgggcccctg gcttgaatcc ccctcctcga 1440 aatccagccc canctcctca gcaaactcct ntaataaccc ctaaaactat tncaccccta 1500 actccccaga aaatccctta gacatccagc tgcctncttt aacttccctt tccctggang 1560 atttacagaa agcactctgg cctgatctcn aggcccgggg catacaggtc acttgtgtaa 1620 angctgacag ccaggaaata aacctggcac aggctccagg gacacgcagc agggctcgnt 1680 ttnctgtgcc ttacgacncc tcctacttcc cggggctntg taatcagact ccatcagctc 1740 cagaccttcc tacgcaatgc cccctgtgaa tgtatcctgg acccccacca caaagaattc 1800 acgtcccctg gacagcagca gatcttttaa attacaaagc ccttttgccc ccactttcag 1860 aagatcctac caagtttaga gaggagttgg agaggttagt ggccattcac aaccccactc 1920 atagggacct tgactggcta ctaaggggtg tacttcccac ccatgatnat actgcagtta 1980 ttagacaggc cagacggccc ccnggggaaa accctctcca cagagggaac aggtggccgg 2040 aacctctccc nggccctcct gcaaatgacc aggaaatggc tcagctagan gctgatattc 2100 agggcctgat aggggcgata ttagaggcct tccctcctaa ggtgaattgg tctaaggttg 2160 aattatgtac ccagaaggag ggagagcacc ctaaggcttt tgtngagtga tttatacaag 2220 cttttcaaag gcatactgca ttaaatcccg aagccccaga gcatagaaat cttcnaattt 2280 ctgccctggt tggaaatctt cttcctgata taaagaggca aatccaaaat agtgtagttg 2340 gctgggctgg tcagtctcta agcgttatna tggaagcagc tacncaattc tttgaaaata 2400 gcttgcagga aaacaagggg aaaaagaatt aaaatcaaca gtccttgcct tgcagnttga 2460 gtctttacaa aaacaaagnc atgcctctaa gaataactca aagtcctctc atntctctng 2520 ccagccacag agcnttcctg tttgcctcca gatgtttgca gatactgtaa aaaaccgggg 2580 cattggaaaa acagctgtcc tgcacttaaa agaaaggaaa actnaaaaaa tctccctaga 2640 acccagcacc ctcagaaggc tcatttttcc cctcctgtgg gacaataccc cattgattga 2700 tggggtcagc cgatcctcag tcgcacccca gagcccacca ttaaacttaa agtagaggat 2760 caggaactgg atttctnaat tgacactggt gcgactttct ctaccatttg ctcagaggaa 2820 ttatctctac ctgtcacctc tgattctatt caagctgttg gagtctctgg gcaacctatt 2880 tcatcgccca tatctcaggc caccccaata tccttaggcc ctcttaacac ccaccatgcc 2940 tttctagttt ctgactcctc accggcaaac cttttaggta gagatttgtt atgtaagttt 3000 aatgccacca tacaatgtaa tgagaaaggc gtttttattt ccctgccctc agaccaaact 3060 tcaaactttc tactttccct aatggaaacc catcttgatt taaantcctc tgaagaggat 3120 gcaatcttaa aagatgtccc agctagtctc tgggcctcac atgcaaatga gattggattg 3180 ctactgagtg cagagcctgt acacattgcc tggaaaagga acaaaccttt cccgtcagta 3240 gctcagtacc ccctctcacg agatgcagag cgaggaattg aacctataat agactccctt 3300 ttacagcagg gtgtncttat ctttactncc tcaccctgta acaccccaat cttgccagta 3360 aagaaagaag gaaaatttga ttcagatggg aatcaaatct atcgatttgt acaagatcta 3420 agagccataa gccctttgta attcctcgcc accctatagt ccctaatcca gctgctatcc 3480 ttacctcaat tcctgctgat gcagcctggt ttacagtaat tgacctctgc tcagctttct 3540 tttcgattcc gttgcaccct gactcaaaat ttctctttgc atttacgttt agagggagac 3600 aattaacatg gactcgcata cctcagggat attgtgagtc cccttcaata ttctcccaag 3660 tccttaaagc cnacttagac tctgtagcct ttacccaagg ctccactctt gttcagtatg 3720 ctgatgatct tttgctttgt aaccaaacta agcagggtgc ccttatagac tccctcattc 3780 tcctaaaggc actagctgaa cgangccata aagcctccag atctaaactt cagtgggtgc 3840 agacaactgt tacttactta ggacatgaga tatctcaggg cactcaaaag ctcaccccaa 3900 aatgcctcga gtcagttttg tccatccctc tccccaaacn aaaaagcagc tgtgtaaatt 3960 tctaggggca gctggctatt gccaccaatg gattcctaat tttgctgctc ttgctaaacc 4020 nctatatgcc ctcctcccag atgccactcc agagnccatt ctctggccct cagagncatt 4080 aacctcctcc gaagccttaa aattagcatt gccctacccc ctgctcttgg cttacctaat 4140 tttgacaaac cttttcacct atattgccat gaaaataatg ggattgctgc aggtattcta 4200 gggcaaccct ttgcctctca gatacancct gtagcatatt tctcatgcca attggaccct 4260 gtggcagcag gcatgccccc atgcctgcgt gcagtagcag cagctgccgc cctaattgac 4320 aaagtcagca ctcttacatt aggttccccc attcacctcn atgttcccca tgctgtgtct 4380 gctctcttac aagttcataa gacgcagcac ctctctacac gatgacagac cacctatgag 4440 caagccctgt taaccaatcc ctccatcatc ttacaccntt gtgacacttt aaatccagct 4500 acnctcctac ccctccctga tgatggagag cctcactcca ttccacatga ttgccttgca 4560 gctatagaaa tggtttcaaa gccacgagag gatctctcag acactccttt agacaaccca 4620 gacttacttc tattttgtga tggctcttgc aaatgaaatt tcaagggaaa cataataact 4680 ggctatgcca tagtttcccc acatgaaacg cttgaggcat actctttgcc cactataaag 4740 tcagcccaag ctgctgaact tatagctctt actagagctt gcacattggc aaaaggaaaa 4800 actgccacta tttacgctga ctccagatat gcctttggag tctgccatgc tgttggcaca 4860 atctggaaat cccgtggatt cttaacctct gctggtactc ctattgccaa tgggcatata 4920 attgctgccc tattacaggc tgttcacctt cctactaaaa ttgctattgt tcattgtcca 4980 gcccacacta aggagactga tactgtatct ctagggaatg atagggcaga caaggctgct 5040 aagtacgcag ccaaaaacgg cccccctntc ctttttccac ccaatttatn aacctgcctt 5100 tatccctgnc tgatattatt gattatcagg cnaatgcccc acaatntgaa aaagataaat 5160 ggatacaaaa gggtgccaaa caattatcag atggattgta tattgggcca aatggacttc 5220 ctgtggcccc ttttctttta accttttggc ttgcacttat ctcccatcag atgggacata 5280 tgtgcagatg ggggatagtt aaggaactaa aagataattg gttctgccct gggatctaca 5340 aaatttctgn ccgaattatt tcccagtgca ctacttgtaa atctcaccaa atttctggag 5400 gaaaccaaca ttcctcagga agtcctccaa ggcccacgct gccccttgcg gcactccaga 5460 tagatttcat agatttacct ccagctttag gcttttctca ctgtttggtt attgtctgca 5520 tgtttagtgg atggactgaa cgctatccga ctagacgtgc tgacgccacg acagtggtga 5580 agaaatnagt aactgagatt attcctcatt ttggcatccc tttatggatt gagtcagacc 5640 aaggaactca ttttacagca gaaataaacc acttgcttgc aaaanctctg gggtactcat 5700 taaaatttca taccccatac catccccaat cctcagggca agtggaacgt aaaaatctag 5760 acataaaaag gactttggga aaagtctgtc aaganactgg acttaaatgg ccagaagcat 5820 tacccctggc ccttataaaa atctngaata ctccaaatag aagacatgga ttaacccctt 5880 ttgaaatagt gtttggtcgc tccatgccta ctggcacctc taaaccttcc attcctgggt 5940 tgaatgaaca ctatggggat ttaagtgaac aatttgatgc tatgactagc tatgtacagg 6000 aactactagt atacttggag catatcatca caggtaaaaa gggcatggcc tctgccaact 6060 gacaagcctt gccatccttt tcgaccagga gatcgtgtgt acatcaaggt ttttagaaaa 6120 aagcacgcgc tgtcacctag ctaggaaggn ccttatgaag tactgctaac cacctacgct 6180 gctatcaaat aaaagaaaaa tcctcctgga ttcatgcgag ccacgccaag ctagacccag 6240 atcagcactc tcaggacaat tggaagacca tccctacagg tgaccttaaa gtaaggattt 6300 ccagggccaa tccccaggcc ccggaagcag acggcatcat gaagtagaca gcttttccca 6360 agatcacgga tcaagaaact ttacttccac ctattttctc ccccttttgg gtctccctac 6420 ctctnncctg aaaaaaaaaa aggacctctt tcttttaatg aacaagcctt cctccctctt 6480 tgtggtnacc tattgaaaaa gctgactgga gattgttgtc tcagtctatc ctattctccc 6540 tctgatcctc cactatggnc tttctttcaa actgtgtctt gctcttatta acccttactg 6600 ttttctcaac aggtcaggca cagacctgac atccctttgc accagtcttc caaaccctgg 6660 ccacgttaac taancaatct gattgctggt tatgtcaaca tctagattat gcaaaagaac 6720 ctgaacttat ttttgttcct gccaatgcaa gtgcctggtg gatcaagtct ggaagatgga 6780 tgtatgacaa ggtatggcat ccacgaccaa gaaaacaacg tcacactact tctccttttg 6840 gtgagtcaac tggacacgga aaaacctcta tggaagctcg aggactgtcc tttgctcagg 6900 taaagtcatt agaaaggaat ttttcccttt gcattgaaaa caggnatggt gctggaccct 6960 tcctaggtga cataccaagg caatattgca atcaaaccct gtggtttgat tccacaggtg 7020 gcatcctcaa gcctctcacg aaggtcatag atggtcctga cactgactct tatggtacaa 7080 acacttgcca aatcaccaga tgttacggat ggctcacaag ccagccctgt gcaacctggg 7140 gtagctcacc tgctcccctc attaggctgc cagacaccaa agattacata tggatagacc 7200 aaaaatctgg actgacttgg ccaggtgaca aaaccaagcc ttatagctgc caaagccaaa 7260 ctgcaggcct cctatattag atattttgca acctgttctg ctcctacgga ctgacagggg 7320 cacatggaag atggagatgc gcagatgcca atatgacaga agacaaggca caacaaaccc 7380 caanctgtng ggtcacaagt tccactctga ccttatccgt gaacaacact ggtcttttta 7440 tcttgtgtgg cgacaaggta tatgaanggt tcccacctan atggtcagga cgatgtggac 7500 tcggatatct gacaccttct gtcaccaggt actccacttt aaatgccagc caaattacaa 7560 acttgggctc ctttgttcat aaagtagtgc cacacaaacg tactagatgn gatnttatag 7620 aaaacccact tgtatatcac aattctaagt tcttttcagt gctgagatcc tttttcccag 7680 gcatttggaa cttatgagan ggaaagggca attctaaatn tttccatggt aatagaacaa 7740 gagttcagta ttactatgca agcactggga gcactccaat cagaagttaa cagtttagcc 7800 nctgttgtac ttcagaatcg ccacgtcctg gatacactga cagcccaaca aggaggagct 7860 tgcgcaatca ttggtgagga acgctgcttc tatgtaaatc actngggaca aatagagtct 7920 aatctgcacc ttttgaaaga caagataaat actctccatc agataaatga ggctaaacca 7980 ttcnattgga ctgacctatt cccagggntg ggagactggt ttaatggngt gtggggaaat 8040 gtgtttagat ttgttctttt ctgcttattn attctcattc taatctatgt tcttctctcc 8100 ctttgcagat cccttgccac tcagctacta acccgactct tctctccaca gccaccaact 8160 cagcttttaa tgtgcgaaac ttctagngaa gtttcagaca gggaaaa 8207 // ID MER41A repbase; DNA; HUM; 554 BP. XX AC . XX DT 18-APR-1997 (Rel. 2.03, Created) DT 23-JAN-1998 (Rel. 3, Last updated, Version 4) XX DE Long terminal repeat of endogenous retrovirus; internal sequence DE belongs to the MER4I group; a subfamily. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of retrovirus-like element; MER41A; KW MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-554 RA Jurka J., Kapitonov V.V., Klonowski P., Walichiewicz J. RA and Smit A.F.; RT "Identification of new medium reiteration frequency repeats in RT the genomes of Primates, Rodentia and Lagomorpha."; RL Genetica 98(3), 235-247. XX DR [1] (Consensus) XX SQ Sequence 554 BP; 159 A; 138 C; 117 G; 134 T; 6 other; tgtcagagac gtgtgaacca gagcaactcc atcttgaata ggagctgggt aaaatraggc 60 tgaracctac tgggctgcat tcccagacgg ttaaggcatt ctaagtcaca ggatgagata 120 ggaggtcggc acaagataca ggtcataaag accttgctga taaaacaggt tgcagtaaag 180 aagccggcya aaacccacca aaaccaagat ggccacgaga gtgacctctg gtcgtcctca 240 ctgctacact cccaccagca ccatgacagt ttacaaatgc catggcaacg tcaggaagtt 300 accctatatg gtctaaaaag gggaggcatg aataatccac cccttgttta gcatatcatc 360 aagaaataac cataaaaatr ggcaaccagc agccctcggg gctgctctgt ctatggagta 420 gccattcttt tattccttta ctttcttaat aaacttgctt tcactttact ctrtggactc 480 gccctgaatt ctttcttgca cragatccaa gaaccctctc ttggggtctg gatcgggacc 540 cctttcttgt aaca 554 // ID Ricksha_a repbase; DNA; HUM; 1181 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 09-DEC-2005 (Rel. 10.11, Last updated, Version 1) XX DE MuDR DNA transposon from placental mammals. XX KW MuDR; DNA transposon; Transposable Element; RICKSHA_0; Ricksha_a. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1181 RA Smit A.F.; RT "Ricksha_a - MuDR DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC 19%. XX SQ Sequence 1181 BP; 338 A; 218 C; 206 G; 418 T; 1 other; gggtttggat cataatcccg aaagacacaa tcccgaacgc cataatcccg aatgttgaaa 60 tcccgaaaga tcaaaatccc taaagtctaa aatccctaaa gtctaaaatc cctaacgtct 120 aaaatcccga aaatcacgaa tcatagaaga atttcaaaaa gagcagcgcc acgtagaaaa 180 tgaatgtgaa cgtattctcc gaggagagcc atgtcctaaa agaaaaaaag cagctattca 240 tcgtgatgca agacttcaaa atatagttaa tgatcgtgaa agtcggccag ctcttatgga 300 ctacctccgt gcaattgccc ataatctatc cctgtaatac actttttcat atgtcgaatt 360 ttctttttag tttttttctt ttctttttta gtttttttca ctattttaaa ttgtcagcat 420 tattttttac aattcgctat gctatgtatt tcatcttcgc atcatttcca atactggagg 480 tataaattgt gtaaagactt ttagagagtt ctaattcgtt ttatgcattt tttttgcaaa 540 tttgactcca cgaaagtgca ttatcacaac gttgactttg tgtgtaagca ttgtgcgtgt 600 acgtaaaaac gttgaaactt cctcaataaa tgaagagatg tcctttttgt acatctgcat 660 ttgtgaaaga taaaatttct cgagatctcg gctctttggg cgactgcata tgcggtggtg 720 acccatcgcg gtttttgatc gatctcgtca aaagacttag gttgtccgtc acggtatttc 780 agatgaccgc agttataaag ctgggtgcac acaattacca accatagtga tatgcattta 840 tacatttcgc tttttgacct atttctttat gaatacggtt catctgctca taactgttat 900 acccgtgcga ctgtcgttag tatacctgag tgtttatgct tgcaaaaata tgtatgttat 960 tattgcctat tttattgtgt aaagtggcct atgaagtgtt ctgtcgtgtt tttatatgtt 1020 tctcaaataa atcccctttt aaaaatgtaa ataaatgtct tttaaanaat tttaaattat 1080 tttttccaga attatatttt cgggattttg atctttcggg atttcaacat tcgggattat 1140 ggcgttcggg attgtgtctt tcgggattat ggcccaaacc c 1181 // ID LTR16A2 repbase; DNA; HUM; 495 BP. XX AC . XX DT 17-JUN-2008 (Rel. 13.06, Created) DT 17-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE Long terminal repeat - a consensus. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat of endogenous retrovirus; LTR16A2. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-495 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 662-662 (2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 495 BP; 93 A; 153 C; 107 G; 140 T; 2 other; tgtagcagac actgttggtg cccacccaga tccccttgga tcccttttac catttctgtg 60 caccccttcc ccagcttctg tgtgcttttg cttctaacgg cctgcacctg tgactctttt 120 cagaggactg ccctcgggct actggagccg ctttgcccgc atgcagagag ccggaagtgc 180 ctgggagttt atgacctctt tccctccagg gcagccttta gccaatgact gattggtatg 240 ggagtatgaa agcccagctc ccttgcctca agttgggaca aactctgagg tataatttac 300 actccagagc tcccctgcgg gatcaggctg aagctaggac tttgcctgaa attgcaccct 360 tgcttggctt cttycccttc cctgtcctgc ttcctcactc ccttaccagt ttctcctggg 420 agcacttcct taataaatca cttgcacata aatcctcatc tcagggtctg cttctrggga 480 actcgaccta agaca 495 // ID HERVI repbase; DNA; HUM; 7785 BP. XX AC M34038; M92067; XX DT 11-NOV-1996 (Rel. 1.1, Created) DT 27-JAN-1997 (Rel. 2, Last updated, Version 2) XX DE Internal part of endogenous retrovirus RTVL-I (HERV-I family). XX KW ERV1; Endogenous Retrovirus; Transposable Element; HERV-I family; KW HERVI; Internal part of retrovirus RTVL-I; LTR10; env; gag; pol. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-7785 RA Maeda N. and Kim S.H.; RT "Three independent insertions of retrovirus-like sequences in the RT haptoglobin gene cluster of primates."; RL Genomics 8(4), 671-683 (1990). XX DR GenBank; M92067; Positions 568 8651. XX CC An Alu sequence in position 7799-8097 was excluded. CC LTRs of HERV-I are presented by the LTR10B sequence in REPBASE. CC Although none of the HERV-I elements have retained long open CC reading CC frames, stretches having amino acids identical to various parts CC of CC the Moloney murine leukemia virus (Mo-MuLV) proteins were CC detected [1]. XX SQ Sequence 7785 BP; 2502 A; 1753 C; 1591 G; 1938 T; 1 other; aatttggtgg cccatacagg gaaaacattg tcctccggga aagggttctt tgatcatcct 60 cttgagagga gaacacatcc cactgtcctt gttgcggtgg cctcatgagt aggaatcgag 120 acccacctgt ctgatgaata accccagact ctcaacaacg tggggagaaa aagacttgca 180 acactatggt ggccaggtaa ctctgtgcgc agaccaaggt aagaaatgtc gcaggagtga 240 caaagtactt ccttggtggt cactatattc tggtggctga aagttcatga atggtaacaa 300 gtgctactgc tgtgtggagt gaatgagtcc aatctgtggg tctatggtta cctcatacgg 360 cttagccttc tctgaaggat cctgatgttg gggtttatat agtcctccca atgctaagcg 420 ggacttaaaa tattcctagg aggaaagtgg ccagagtgga tgaagcaaaa ggagaagagt 480 gtgaagaacc tccaggaggt ggggctaaaa gataggcaag aaatctctaa tacgagggat 540 tgagccacag aaagctccag acagataaaa aagaaattcc taatatgagg aactgagcca 600 cagcaagcct ccagcaggca acaaatccct aatatgaggg attgagccta gctaagaccc 660 aatatgggaa ataccccaag aaagacagag aataagaagg atgaaaatag taacaaggat 720 ataccccttg atagtcccct aggtttcatg ttaaaatact ggaaagataa tgagaggact 780 aagcataaga agaaggagca aatgataaaa tattgctgtt tcatttggac ccaaggtccc 840 atcctcaaac cctcaatctt ctggccaaag tatgggtcga atgagggtgt aatgagtcaa 900 ctcctaatcc aatatgttaa tgataaaagt ctggtttctc aagaagaact agactatgct 960 ctttgttgga agcagggacc tgtcctcctc tttcccttaa agacaactag ggaagaatcc 1020 gatccagcat ctcaaattga gaagtcagac aagccgactc ccacacctaa agtcagcaca 1080 tgggatcccc tagactgtct tcctttgctt actgccccaa tcctaacccc cctactcctc 1140 aggcagctgc tgctgcccca gatcccatcc cagattcttc cccaactcat gatgttcctc 1200 ccgcttacaa ccctgactct caggggcagt cgtcccaaga gcctgttcat tgccaaccta 1260 aatatccttc cttaaaaggg ctccaacatg aaatagagca gtgtaaaaag gacattcaga 1320 actccccttt tctttccaca cctaaggagt cagccataac tttcttccct ttaaaagggg 1380 tatcacaagg aggggaagtc attggttttg taaatgctct cttgactatt tcagaagtct 1440 gaggtctgaa gaaagaactt aagccactgc tagatgaccc ctatggagtg gcagatcaag 1500 ttgatcaatt cttagggacc tcagttatac acttgggtcg agcaaatgtc tatcctaggc 1560 tcttcttttc aggggaggaa agaaagcatg atccgtaggg ctgctatggc aatttgggaa 1620 catgaacacc ctcctggtca aaacgttcct actgtggacc aaacatttgc tgcccaagca 1680 agactcctgg tgggacaaca gcaatgcagc ccactgagaa aacatgcagg acctaaggga 1740 aataataata aaaggaatca gtgaatccat acccagaact caaaagctct ctaaagcatt 1800 tgatatacaa caggagaaag atgagggacc tataagattc ctagacagac taaaggagca 1860 aatgaagcaa tatacaggtc tgaatttaga agatcccctt gggcaaagga tgttaaagat 1920 ccattttgtc actaaaggct ggccagatgt ttcaaaaaag ttacaaaaat tggaggactg 1980 agaaaaccga cctctaagag aacttctcag agaagctcaa aaggtgtatg tgaggaggga 2040 cagggaaaaa caaaaacaga agtcaaaacc aatgttatct actttccagc aggtggctcc 2100 aaacccatat gctactaaat gaggcttcca gggagccaga aactataaaa ggtcccaagc 2160 ctcccaaacc cagtttagag aaaccaaacc ttcagctaga ggacccaagt ctacatttcc 2220 caggccccct aaagagcata gaaaagcaag accaaaaaat cccaaaactg agagagggga 2280 aggacaagat aagtgttaca aatgtggaag gacagccccc ttcaaaagag aatgtcccaa 2340 attagaaaag gagagagaag cccttccact cacgaccttt gaagaggaac agggaagtca 2400 ggggctctgt ctatattatc ttgagtccca ccaggagccc ttgataaatt tggaggtggg 2460 acctacacat gagcttatca catttttggt tgattcagga gcggcctgtt cctctgtttg 2520 tttcccctca tctaatgttg cctgctcttc agaagaactt atagtctctg agataaaagg 2580 ggaaggattt acggtgagaa tcttagaaaa tacagaagtc aagtaccaag actaaacaac 2640 ccaggttcaa tttttgttaa tccctgaagc agcaactagt ttgttaggaa gagacttaat 2700 gttaaagtta ggcataggcc tacaagtcag cccaaaggga ttccttactt cattaaactt 2760 actcaccacg gcggatgaga aatacattca tcctgatgtt tggtcaaggg aagaaaactg 2820 aggaaagctt cgaattctcc caatccacat caagctaaac accccgcact gggaagtagt 2880 gaggaggaag caattcccca ttcccttaga gggcatgcta gggctaaaac ctataattga 2940 aagtctcatt aatgatgggc ttcttgaacc ctgtatgtct ccttataaca ccccaatact 3000 gcctgtcaaa aaatcagatg ggtcataccg gctggtgaaa gacctcagag ccattaacca 3060 aacagtccag accactaacc ctgttgtccc caacccttac accattctca gcaaaattcc 3120 atataatcat caatggttta ctgtaataga tttaaaggat gctttttggg catgtccctg 3180 gctgaagaga gccgagacac atttgccttt gagtgggaag atccccagtt agggtgaaaa 3240 caatggtatc aatggacagt cttgcctcag gggttcatgg attcacccaa cctttttggt 3300 caaattttag aacaagtgct agacaaagtt tctgttccaa aacaattatg cctgcttcaa 3360 tatgtcgatg atattctcat atctggtgag gatatagaga aagaagctgg cttctctaca 3420 catatttttg accatctaca gttcgagggg ttacgggtct caaagggaaa gcttcagtgt 3480 atggaaccta aagttaaata tttaggccgc ttaataagtg cgggcaagcg aaggataggg 3540 cctgaatggg tcgaaggaat cgtgtcctta cccttgcctc agactaaaca ggaactcagg 3600 aaatttttag ggttagttgg atactgccgc ttaaggatta actcacatgc cctaaacagt 3660 aaacttttat accaaaaact tgcccaggga aaacctgagc atctcctgtg gacttctaaa 3720 gaggtcgatc aggtcaaaga gctaaaagga atagcttata actgctcttg ccctagcctt 3780 accttcccta gaaaatacac ttcacctttt cgtcagcgtg aaaaatgggg tggctttagg 3840 ggtgcttatc caagagcaca gaggctgctg gcagcccatg gccttcctgt caaaaatttt 3900 ggacctggtc acctgtggat ggcctcagtg catccaatcc attgcagcta cagcagtatt 3960 agttgaagag agtagaaaat taacctttgg gtggagatta acagtaagca caccccacca 4020 agttagagag ctattttaaa taaaaaagca ggaaggcgac taactgactc cagaatctta 4080 aaatatgggg ctattctact aaaaaaagat gagagaacac ctatgtctag atttaattga 4140 ctaccaaaca aaactcaggc cagatctagg aaagatccct ttcaaaacag gacggcactt 4200 atttatagat ggttcctccc agctgattga gggaaaaaga cacaacgggt atccagtaat 4260 cgatggagaa attctctatg tataagaaca gagtcaagaa aattgcctaa taattggtct 4320 gcccaaactt gtgaactgtt tgcactcagc caagccttaa agcacttgca aaaccaggaa 4380 ggaaccatct atactgattc taagtatgcc tttggagtgg ctcatacatt tggaaaaagt 4440 tggactgaat gtggcctcac taatagtaaa ggtcatgacc ttgttcataa ggagttaatc 4500 atccaagtac tggataacct tcagttgcca gaagaaatag ctattgtccg tgtacccggg 4560 caccagaaaa gcctttcttt tgaaagtcga ggaaataacc taacaaacca gatagccaaa 4620 caagctgctg tttcctccga aacacctatg tttcacttaa ctccttgtct tccttcccct 4680 actgcaattt cctttttctc ttccattgaa aaagaagaat aaagatagga gccaaaggag 4740 aagaccagaa tgaaaacggc tgttactaga ccaaaaggaa atgttatcca agcccgttat 4800 gtggaagatc tagtctcaac tatatctgag gacacactgg ggatcccaag ccatgtgcga 4860 tgcagttctc agggtctatg gatgtataag aatttacacc ctagccaaac aagttacaga 4920 tagttgctta atatgtaaaa agactagtaa gcagattcta agaaaaccgc cccttggaga 4980 aagagattca gggctaagac catttccaag tgttcaatta attatactga aatgccccca 5040 attggtcatt taaaatactt attagtaata atagaccact ttacctactg ggtagagact 5100 atcccacact caaatgcaac caccagtaac gtagttaagg cattaattga aaacattgta 5160 cccagatttg gactaataca aagcactgat tcagacaatg gaacccattt cactgcatat 5220 gtcattaaaa agttagccca ggtactagac ataaaatgga aaaaccatat cccttggcat 5280 ctctcctcct caagaagagt agaaaggatg aatcagactc taaaaagcca cttaactaaa 5340 ttagttctag aaacttgatt gccatggact aaatgtcttc ctattgcctt gttaagaatc 5400 cgaactgctc ctcagagaga tactggcctt tccccttatg agatgctcta tggattgccc 5460 tatttatact ccactgctaa cattcctaca ttcaaaataa aagatcagtt cctcaaaaat 5520 tatatacttg gtccatactc tactttctct tcccttaaga ctaaaggtct cctagcacag 5580 gcgccaccgc tggagtttcc agcacattag cgtcagcctg gagaccatgt cctcataaaa 5640 gggtggaagg aaggcaaact caaaccagct tgggaaggac cctacttggt gctcctaaat 5700 actaagactg cagtccgaac agcagaatga ggatggactg atcacacccg cgtcaaaaag 5760 gcgctgccac ctccaggatc ataaaccgtc actccagggc tcaccccaac caaattaact 5820 ctaaaaaggg cttaataatc acttgtttat tttttctttt ctttccaaca gaaggtcatc 5880 ttgtcatcaa tgtaacttgg gctaaccatc ctttaatcct tcagtttgat gcttgttcag 5940 tcatcctgtg tggagacaag caagctcaaa ggaagctgtc tcatgtagat aagtacctat 6000 gtccatacca taaaaagtca accaagtata agtatagaac cttaaaaagt ccctgtggtg 6060 actggacaga tgtttggaaa ccactcagta tggagggtgg acagccaggc ccccttttca 6120 aataagttat ggggactaaa acagaaactc caactaattc atggtcccac cccaccaaac 6180 tgtaagccac tgcagtgtaa cccctcattg ctaattatag ctaaccccca aacaatggcc 6240 caagaaccca ctatattcaa acagtatgga ttaggagcaa atgttacaaa acaaaatccc 6300 ataaaaatct tcaaccactg gttaacaatg ataattaaaa aaaaatccac acccagagtc 6360 tgggaaacga gtggaatcta acactctctc caagtatagc gagctcagcg tcctcctccc 6420 atctccaaaa caacccaact aaagtaacgg ttgtaaaggt aaaaaattta aagcagacta 6480 tagccctaga gacaggatgt caagatgcaa atgcttggct aaaatggatt aaatattcca 6540 tctgcacttt aaacaaatat gaatgttatg cttgtgctca cggtagacca gaggcccaga 6600 ttgtcccctt tccactcaga tggtcttcta actgaccggg cataagctgt atggtagttc 6660 tcttccaaga tcacacagcc tggggtgaca aatcatgtca agctctttct ctgctgttcc 6720 ctgaagctca acaccctgag ggtcagcccc cgagggcatc agcttccgtt tcccaatgcc 6780 aattttactt tgtgtctctc acaacaggga gaaaacttgg tgttccttgg agccttaatg 6840 ggatgcagtg agcttaagtc cttccaagag cttacccatc agtctgccct tagtcatcct 6900 cgagcggatg tatggtggta ttgtggtgga ccattactgg acactgccga gtaactggag 6960 cagaacatgc actctaattc cattggctat ccctttcacc ctggcatttc atcaaccaga 7020 aaagatagaa accaaacact gtaaaacaag agaggcccct catgggtctg ttgactccca 7080 catttatata gattccactg gagtccaacg aggagtgcca gatgaattta aggcccaaaa 7140 tcagacaact gcaggatttg aatccacgtt cttctggtgg ttaactataa ataaaaatgt 7200 gaattagata aactacattt attacaacca antatgattt gttaattata ctagagatgc 7260 tcttaaaggg acagctgaac aattaagacc caccagtcaa atggcctggg aaaataaaat 7320 agcattagac atgataccag cgaaagaagg tggagattgt gtcattatcg gaacccgatg 7380 ctatactttt atccctaata atactactcc aggtgggatc acaccaaaag cactacaagg 7440 tcttaccgcc ttatcaaatg agctagccaa aaattctgga ctaaacgacc ccttcacaaa 7500 tttaatggga aattctttgg caaatggaag ggatttatgt cctcaatcct catgtctctt 7560 gccatcagaa tagggttgct tattcttgta ggatgctgtg tcataccctg tgccctagga 7620 ttaatacaaa agctcattga aacagctctc cccaaaacct ccctcaatcc tcctcctcct 7680 cgttccagtg agctttttct tttagaagac ccaagtagaa taacagagcc aaattatgtt 7740 aaaagggttt aagaaaaaat actgtaaaat atttaacagg gggat 7785 // ID CHARLIE9 repbase; DNA; HUM; 2757 BP. XX AC . XX DT 21-SEP-2001 (Rel. 6.08, Created) DT 21-SEP-2001 (Rel. 6.08, Last updated, Version 1) XX DE Autonomous DNA transposon CHARLIE9. XX KW hAT; DNA transposon; Transposable Element; CHARLIE9; MER112. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-83 RA Jurka J.; RL Direct Submission to Repbase Update (1999). XX RN [2] RA Smit A.F.; RL Direct Submission to Repbase Update (MAY-2001). XX DR [2] (Consensus) XX CC Divergence from consensus 19%. XX SQ Sequence 2757 BP; 869 A; 523 C; 392 G; 932 T; 41 other; cagtggcttt caaacttttt tgaccgcgac ccacagtaag aaatacattt tacattgcga 60 cccagtacac acatacacat atagacacac agaaatagtn cctccccana aatgaattaa 120 agttttgtag aacanttgat tttattaaat ataacaaaaa ctaaaacata acataaagta 180 tcacatattg ttttattanc atttaaatgt aacatagaaa aatactncaa aataagaaat 240 acaaaaacaa aaactaggna agattttatt tantgtgatg ggtgtgcttg cctgttcata 300 agttcattcc agtccggaac acacgaggac aatgctaccc acatagctgg tgcaccgttn 360 agcccgtttc tttcctttgt ttttaactgg gttaaggttg aaaaccctag ttcacacaaa 420 taggtcgttg tgaatggtan taatagcgat acactctttc tacttagcaa tggaaantct 480 tctttaacct taatccaaaa tgntgataaa cttaangtct cataatcatt cttcagtgta 540 tatgaagaac taagctgcaa taattcattc tcttcttcgg gcaccaagtt taactcaatt 600 attgattcag ggtttcgaaa agcaaatgga tcttttatcc aacttttccc ttaatgtttc 660 aaatttctct tctggaaagt aatggttaaa agtttgagac agagaagtga gatgcaacaa 720 tatctctaat tttatttcnt tcaaaatgtc ttcattaata atattctctt caatatgttg 780 caanaatgtt gggaacatat agtagctagg gtgattactt ttaagtcttg cttgccataa 840 caataatgtc ttttggaatc cttggatacg ttnaacatgt tgaaatacat cgttgttttt 900 cccctgtagt ttcaaattca gttttaagaa tgccgaaaat atcagttaaa tatgccaatt 960 ttattactca aatatcatct tcgaaaatat ttgccaaatg agattgcttt tcaattagaa 1020 aaatgtgaat ctcgttcctg agttcataca ccctgcttag tattttccct tngacaacca 1080 acgaatttca gtatggtana gtaagtgggt atggttagct ccaatctctg aacaaaatat 1140 ttcaaaaagt tggctattca gtgagcttcc tttaatanaa ttaacaactt tcactgcgtt 1200 tttcaatatt ccatgagatt cagcggaatt tctttggatn ccaaagcttc gcgatatata 1260 aaacagtgat tccaaacagc actgttatta gtagcttcta acaatntttt aatnactctn 1320 ttatgttttc cagtcatatt tgctgctcca tcactcgtaa ttcctttaca gtttttccag 1380 tttaatttat gttgatcaac aatgcncttt tccaattctg taaatatatc taatccagtt 1440 gtgtgtgagg ttaaatttaa acaacacaac aaatcctcca taaaatcatc ttgccacgca 1500 tatctgacat aaactaaaag tgttgcgcaa cttgcaatat cagtgctctc atcaagttgg 1560 atcgcaaaat ctataccgga ctgtaaccgc gtaataagca ttgcttctaa acgttctgca 1620 gtagtanaga tttgangaga tactgtgtta tcactaggta tagtttttaa tttatcagct 1680 gatttatcat caaaatcata cgcaccatat ccatacatgc tagaagaata attttttcag 1740 cagctgtgtg agccattttc tcttttgcca catgatatgc aactaaatat gatgataata 1800 aggctttctc actaacagtn gtngaacgac taagaaattg tgccgataac tttatgtctt 1860 ttttctttct ttgaaaatat tcgagaggct tattaacaag ttcagcatgc tgtgtttcca 1920 agtatctttt taattttgaa ggttttaagc tttcatttgc aagaatatca ttacaaataa 1980 tacattgggg tctgtcattt tcattgggtt ttgcacattt gataaaacca tattttaaat 2040 aatcttcatt ataaagtctt gcacttactt ttttcttttt agaatgtggc tcaaataaag 2100 tcaaagtttg ctgattagag tcaacatttt tctcaatatt gtcactattt acacttccag 2160 atccagcagt tgaacttgaa catgcctctg tatttttcac ttcaccgttc ttntttcttc 2220 taataataaa gcgacccatt ttaagggcaa tttgtactag tttaattaaa atgttacaat 2280 tgtcacaaac tcaaaaatat cncactnaat aacgtccttt ctgaaaaata cactgaaagt 2340 tcctaactga aactcggttg aaagtctngc nnactgcaga taaaattctc accctcactt 2400 cacaactaac tgcaaattat gttaacataa aattaaactg tacagcgtta accctcccgt 2460 tacaatnatg atcaaattga ccatcatata ccagaagacn ccaatgagca gacgaccaaa 2520 tgacanttcc tggccaatnc atgtattcat tanntctcnt tctccaactg ccactcatnt 2580 caattggccg cggcattcgt tgcaacgtgc acagttcatg ctaaggatcc gtgcgatgca 2640 ctctgatatt ttctattcta ttctatttca ttttactttt aaaaatgctg gtcgcgaccc 2700 actaaattga tttcacgacc cactaatggg tcacaacctg cagtttgaaa aacactg 2757 // ID LTR5A repbase; DNA; HUM; 1033 BP. XX AC . XX DT 14-NOV-2005 (Rel. 10.11, Created) DT 14-NOV-2005 (Rel. 10.11, Last updated, Version 1) XX DE Long terminal repeat of ERV2 Endogenous Retrovirus from primates. XX KW ERV2; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR5A_LTR; LTR5B; HERVK; LTR5A. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-1033 RA Smit A.F.; RT "LTR5A - ERV2 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (11-NOV-2005). XX DR [1] (Consensus) XX CC HERVK LTR 5-10%. XX SQ Sequence 1033 BP; 257 A; 242 C; 243 G; 280 T; 11 other; tgtagggaaa agaaagagag atcagactgt cactgtgtct atgtagaaag ggaagacata 60 agagactcca ttttgaaaaa gatctgtact cngaacaatt gctttgcctg agatgctgtt 120 catttgtagc tttgccccag ccactttgcc ccaaccactt tgacccaact tggagctcac 180 agaaacatgt gttgtataaa atcaaggttt aagggatcta gggctgtgca ggatgtgcct 240 tgttaacaaa atgtttacag gcagtatgct tggtaaaagt catcgccatt ctccagtctc 300 aatnaaccag gggcacaatg cactgtggaa agccgcaggg acctctgccc tngaaagcag 360 ggtattgtcc aaggtttctc cccatgtgat agtctgaaat atggcctcgt gggatgagaa 420 agacctgacc gtcccccagc ccgacacccg taaagggtct gtgctgaggn ggattagtaa 480 aagaggaaag cctcttgcag ttgagatgag aggaaggcca ctgtctcctg cctgcccctg 540 ggaactsaaw gtctcggtgt aaaacccgat tgtacatttg ttcaagtctg agataggaga 600 aaagctgccc tgtggcggga ggcgagacat gttngcagca atgctgcctt gttattcttt 660 actccactga gatgtttggg tggagagaaa cataaatctg gcctacgtgc acgtccaggc 720 atagtacctt cccttgaact tanttatgat atagattctt ttgctcacat gttttcttgt 780 tgaccttctc cttattatca ccctgctctc ctantacatt cctttttgct gaaataatga 840 aaatcgtaat caataaaaac tgagggaact cagaggccgg tgccngtgca ngtcctcggt 900 gtgctgagcg ccggtcccct ggacccactg ttgtttctct atactttgtc tctgtgtctt 960 atttcttttc tccgtctctc atcccacccg actagaaata cccacaggtg tggaggggca 1020 ggccacccct tca 1033 // ID Tigger9b repbase; DNA; HUM; 624 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Mariner DNA transposon from placental mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; mariner; KW Tigger9b. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-624 RA Smit A.F.; RT "Tigger9b - Mariner DNA transposon from placental mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 16% subst in dog-human. No matches to coding region. Also, not a CC "traditional" subfamily with respect to Tigger9, as pos 1-115 & CC 445-624 (end) are diverged (24% and 15% respectively) from pos CC 1-115 & 545-732 of Tigger9a. The middle region is unrelated. XX SQ Sequence 624 BP; 164 A; 160 C; 111 G; 189 T; 0 other; cagtcagttc tgctataacg cttgttttga aaacgcgaat ttgttccaac gcgattgata 60 tattagggaa caatttgagc ataacgcgaa tttcgcgttt gcttatgcgc gatttcgtcc 120 gcgagaaaca ctaggtgaac gcagaaaact gcacccagct gaaccgagcc gcgtaggaat 180 acacaaaacg cacacacgca cacacctcaa acatctacca gctacctcag ttcaccgcgt 240 gtgttatgag ccacacccat ccacatctgg tgttacaact ttccatccga tttcagataa 300 ccctccttcc accacttcac aataactcac aagctgcaac ccttccgacg cccacttcca 360 caagcaaact tcaggtcttt ttcaaggtaa agtgccatat ttattgtagt atttatgtat 420 ttcttaacca tttaacatgt gtaaaactgt gctaccattt ttattaggtt cctatctttt 480 ttttttatgt gtcactgacg aagtttttga gtgttgtgcc cctaacccca ttttccccat 540 aagccctgtg gtttttattg cgcgattttg catagcgcgg tgatttttag gaacgcatat 600 gtcgcgttat agcagaactg actg 624 // ID LTR10B1 repbase; DNA; HUM; 547 BP. XX AC . XX DT 05-MAR-2004 (Rel. 13.06, Created) DT 26-JUN-2008 (Rel. 13.06, Last updated, Version 1) XX DE ERV1 Endogenous Retrovirus from primates. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR10B1. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-547 RA Smit A.F.; RT "LTR10B1 - ERV1 Endogenous Retrovirus from primates."; RL Direct Submission to Repbase Update (26-JUN-2008). XX DR [1] (Consensus) XX CC HERVI-LTR. XX SQ Sequence 547 BP; 119 A; 165 C; 100 G; 159 T; 4 other; tgtcagatac agtaagttcc tcttcaaagg tttaacttgc tcaacttcct tgttctttgt 60 tcttaagacc aacttccttg tactctcttg cccctagcta cctgctctgt aaacaacttc 120 tcccgccagt cccaatctgt aactcacatc tcttccttac ttggaaagag tcctctttac 180 tcctggctac ccattctgta aacaaccctc cttcccgcct ttgccgcgcc ctgacatgcc 240 cagacatgcc ttgtactgta acggacagcc tctcccttcc cacctagnta gccatattca 300 attttaaaca gtagccaatc gggtcagctt agattgtgcg gtccgactcc agccaatggg 360 ganaggacac agaagcaggg actaactgcg ttagggataa aaaccccttc cctccttcgt 420 tcggtgtgct ctcgcagcag ccagaaatgc gagcagcacc cttctgcaga agtaaatttg 480 ccttgctgag aaatcttttg tttgagtgct ngttcttctt tgcggcwccg agctcttgtt 540 tccaaca 547 // ID MER50C repbase; DNA; HUM; 782 BP. XX AC . XX DT 05-JUN-2008 (Rel. 13.06, Created) DT 05-AUG-2008 (Rel. 13.07, Last updated, Version 2) XX DE LTR from human endogenous retrovirus-like element. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW Long terminal repeat; MER50C. XX NM MER50C. XX OS Primates OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires. XX RN [1] RP 1-482 RA Jurka J.; RT "Long terminal repeats from the human genome."; RL Repbase Reports 8(6), 668-668 (2008). XX RN [2] RP 1-782 RA Smit A.F.; RT "Consensus update."; RL Direct Submission to Repbase Update (01-AUG-2008). XX DR [2] (Consensus) XX CC This is a very small family (~30 copies). CC [2] Extended about thrice to full-length, matching MER50 and CC MER50B about 80% but with many indels. Despite high divergence CC level, appears to be primate-specific, or perhaps to CC Euarchontoglires. XX SQ Sequence 782 BP; 204 A; 200 C; 217 G; 153 T; 8 other; tgttagagta ggtagttaga cgtgagcagg gcaggagaga gggcccccag gaatgtcggg 60 catttgtcaa gccatggtca ggcgattata aatctgtccc tctgaaataa tgagcaggac 120 aagggaggga ccccagagct gtcnggctct catcgggtga nggacaggcg ggcataaaac 180 tgtccctctg agataataag tggccacgac tggcgccggg agnganagga gtcttncaac 240 agatagaaaa cacctggagc cagcaagcca caatccctga taaggtttca agcatgcgca 300 gtaaaggggc aagatggcgg aatttgaccg gtatatgacc ttcctctggg ggcgctcgac 360 cagtaaggga gaatcgcccc aagtgagcat gcgcacgact tcagtaaaca cactgcgcat 420 gcggcccctc ccaagtgctg gcaggccact gcgcatgcgg caattaagcg acagcccgcc 480 caagggagga acaaagggag gagacagaga gcccgggaaa agatacgggg tataaaaacc 540 ctaagccaag gancgagcgg ggcacttgat ttctcaagtc gcccgcttgg ccctcttcca 600 agtgtactct gctttctcta ataaactctc actttgctta aaataaattt tccctcctgc 660 tttaaacctt gcctgtgtct ctcgnttgaa ttctttcctc cgagaagaca agggaccgag 720 attgctgcgg antcgccact ccggagtttc tccggatagc tgcagactca ccgccggtaa 780 ca 782 // ID MamRep137 repbase; DNA; HUM; 444 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 08-FEB-2007 (Rel. 12.01, Last updated, Version 1) XX DE Mariner DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; MamRep137; KW mariner. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-444 RA Smit A.F.; RT "MamRep137 - Mariner DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC rnd-2_family-137 Could be a Tc1-Mariner DNA transposon, as it CC starts with TA (TSD) CAGT. The other end (orientation is of CC course unclear) is probably incomplete or represents a simple CC repeat tail. 24%/29% dog-human. XX SQ Sequence 444 BP; 117 A; 108 C; 106 G; 112 T; 1 other; tacagtggag tcgcatctta cncgggggtt aggttctaaa gtcagcgcgt aaggcgaaaa 60 tcacgtatag tcaaaattac ccttgaaaat cccttaggaa ggtgccacgt tggagaccga 120 cataccatct ctcagtaagt ccaacacagc cagtttttcc tccagcgttg gaacagatcg 180 ctgtttcttc ggttgagcac cagatgaagt agttggcttg cgtttagggg ccatgttgta 240 tgaaaaatac atatctttaa acactagaat cacactcagc gcggcgagat gctcacacta 300 tgagaggcac gtgggaactg agaccaactg agggaacagc agattcacgt ctcccatctc 360 acgctcactc cggggcatat gctcattgag tggaatggcg ggcagaatcg cccgcactat 420 ttaaattgtt ctctctttct ctct 444 // ID ALR repbase; DNA; HUM; 171 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 2) XX DE Human alpha repetitive DNA - a consensus. XX KW SAT; Satellite; Simple Repeat; ALR; Repetitive sequence; KW satellite DNA. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RA Vissel B. and Choo H.K.; RT "Human alpha satellite DNA--consensus sequence and conserved RT regions."; RL Nucleic Acids Res 15(16), 6751-6752 (1987). XX DR [1] (Consensus) XX SQ Sequence 171 BP; 52 A; 30 C; 35 G; 54 T; 0 other; aattctcagt aacttccttg tgttgtgtgt attcaactca cagagttgaa cgatccttta 60 cacagagcag acttgaaaca ctctttttgt ggaatttgca agtggagatt tcagccgctt 120 tgaggtcaat ggtagaatag gaaatatctt cctatagaaa ctagacagaa t 171 // ID LTR80A repbase; DNA; HUM; 583 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from placental DE mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR80A_LTR; LTR80A. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-583 RA Smit A.F.; RT "LTR80A - ERV3 Endogenous Retrovirus from placental mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSD; 20% subst in dog-human; orientation unknown. XX SQ Sequence 583 BP; 144 A; 123 C; 148 G; 164 T; 4 other; tggggaggaa ggagttaaag cagctggcct gtgatccatt tctctcctnt taccgggggg 60 acgctcctgg gaaagaaaga aggcaggtga cccggtctaa tctccttgta aacatgctga 120 taactggacc tcctggtaaa tagactaatg atatttgcta ggaggagagt ccttatctat 180 ggaatgctct tagcaggatg tccctggttt aggattgctt atggtaaaca aacctagaat 240 ctatggattt atgaggcatg gctccctgga gaatgtcacg taagctatac aactntctgg 300 ggtataaaat ggagatgttt cataacctaa acgctccctg ctgtgtgagg taacccgcaa 360 acctcactta gagacctcat ctattattct gggccagaga gcgcatgtcc gatgcgggaa 420 ggaaggacct ggggagccac ncnggatgtc ccagacctct ccctgcttcg cctgtgcctc 480 ttgattgctt gtatccttga aattattagt aaagcttgat actgggtaag atctctgatt 540 tgtgtgagtc tgatttgaca atctgatcct ttgtgttagc tca 583 // ID L1PA15 repbase; DNA; HUM; 912 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 18-APR-1997 (Rel. 2.03, Last updated, Version 3) XX DE 3'-end of L1 repeat (subfamily L1PA15) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P4; L1PA15; L1PA15 subfamily; MER13; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 696-885 RA Kaplan J.D., Jurka J., Solus F.J. and Duncan H.C.; RT "Medium reiteration frequency repetitive sequences in the human RT genome."; RL Nucleic Acids Res 19(17), 4731-4738 (1991). XX RN [2] RP 1-912 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [3] RP 1-912 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [3] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 12%. XX SQ Sequence 912 BP; 364 A; 191 C; 175 G; 182 T; 0 other; ctaatatcca gaatctataa ggaacttaaa caaattaaca agcaaaaaac aaacaacccc 60 attaaaaagt gggcaaagga catgaacaga cacttctcaa aagaagacat acacgtggcc 120 aacaagcata tgaaaaaatg ctcaacatca ctaatcatta gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagtcaga atggctatta ttaaaaagtc aaaaaataac 240 agatgctggc gaggttgcgg agaaaaggga acgcttatac actgctggtg ggaatgtaaa 300 ttagttcagc cattgtggaa agcagtttgg cgatttctca aagaacttaa aacagaacta 360 ccattcgacc cagcaatccc attattgggt atatacccaa aggaatataa atcattctac 420 cataaagaca catgcacgcg tatgttcatc gcagcactat tcacaatagc aaagacatgg 480 aatcaaccta aatgcccatc aacggtagac tggataaaga aaatgtggta catatacacc 540 atggaatact acgcagccat aaaaaagaac gagatcatgt cctttgcagc aacatggatg 600 gagctggagg ccattatcct aagcgaacta acgcaggaac agaaaaccaa ataccgcatg 660 ttctcactta taagtgggag ctaaacattg agtacacatg gacacaaaga agggaacaac 720 agacaccggg gcctacttga gggtggaggg tgggaggagg gtgaggatcg aaaaactacc 780 tatcgggtac tatgcttatt acctgggtga cgaaataatc tgtacaccaa acccccgtga 840 cacgcaattt acctatataa caaacctgca catgtacccc tgaacctaaa ataaaagtta 900 aaaaaaaaaa aa 912 // ID MER30B repbase; DNA; HUM; 190 BP. XX AC . XX DT 09-OCT-1997 (Rel. 2.09, Created) DT 09-OCT-1997 (Rel. 2.09, Last updated, Version 1) XX DE DNA transposon. XX KW hAT; DNA transposon; Transposable Element; DNA transposon fossil; KW MER1_type family; MER30B. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-118 RA Jurka J., Kaplan J.D., Duncan H.C., Walichiewicz J., RA Milosavljevic A., Murali G. and Solus F.J.; RT "Identification and characterization of new human medium RT reiteration frequency repeats."; RL Nucleic Acids Res 21(5), 1273-1279 (1993). XX RN [2] RP 1-118 RA Smit A.F. and Riggs D.A.; RT "Tiggers and other DNA transposon fossils in the human genome."; RL Proc. Natl. Acad. Sci. USA 93, 1443-1448 (1996). XX RN [3] RP 1-190 RA Smit A.F.; RT "MER30B."; RL Direct Submission to Repbase Update (1997). XX DR [3] (Consensus) XX CC 20 bp terminal inverted repeat, 8 bp insertion duplication site. CC 11% divergence from consensus. XX SQ Sequence 190 BP; 63 A; 43 C; 39 G; 45 T; 0 other; cacgggtgtc caatcttttg gcttccctgg gccacattgg aagaagaatt gtcttgggcc 60 acacataaaa tacactaaca ctaacgatag ctgatgagct aaaaaaaaaa ggtctgtgca 120 taattttcgt gatatccacc accacagata agcaaaaaag tccttgcatt caaagggttg 180 gacaccgctg 190 // ID MER52D repbase; DNA; HUM; 2123 BP. XX AC . XX DT 23-APR-2001 (Rel. 6.03, Created) DT 23-APR-2001 (Rel. 6.03, Last updated, Version 1) XX DE Long terminal repeat from MER4I-group retroelement. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW MER4I-group; MER52; MER52A; MER52B; MER52C; MER52D; subfamily. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-2123 RA Jurka J.; RL Direct Submission to Repbase Update (APR-2001). XX DR [1] (Consensus) XX CC Another variant of MER52 LTRs different by an additional CC ~540 bp from the 5'-end. This is the longest of the MER52 CC LTRs to date. Characteristically, the first 80 bp or so CC from the 5' end are similar to 5'-ends of MER52A and MER52B. CC There is also a patchy similarity to MER52C over a longer CC 5' ~300 bp region. XX SQ Sequence 2123 BP; 391 A; 685 C; 680 G; 316 T; 51 other; tgatgttaat gatggcagcg gtgggccrtc crgagtggcc gctgccatca cgccggctgc 60 agcggggagg tgtgagcagt ggcggcagga gcggctgtgg gagcagcagt ggtggcggtg 120 ggacccctgt gccctgtgtc ccctgtgccc tgcatcccca aggcagcyga ctgcaccacc 180 cccaccctca cacagccagg caggacccgc tcccaggccc agagcctccg ccactccaga 240 ccctggcccc gtgtcaccac tctcacccgc caccactgcg gggagggcgc agggaggang 300 gcagagctgg gncccnggcg ctgccangcc ccatggagcc ggcgggagcc agggacaagt 360 gggagccccc ccggagcccg ccgccctggg ggccaccgcg atggggccag gccgagtcgc 420 ccactggagg gggagcagtg cggttgggca tagaggggcg ggcagagagg ggcccagcga 480 ggacctggag cccccacccc aggctgcaag gaggcacagc cagggctgca tgctccacgg 540 agctggtggg agccagggag caggcaggag ccccgcccct ncngnnnngg cagggtggga 600 gctcccaggt gcagctgcag ctgccctgct gcagctgtgg acccaggcat ctctgcactc 660 ttgggggccc gggaaggccc cccctacccc tgcaggctng grggtgtctg ctcccgctgc 720 ctggcctctc cctgctccca gcacctgctc cratctcgga gcarngttgg ggccaagccy 780 gggcgctgtc acagcctggc cgggtgtgca cacactcggg gcagcgctga cacaccagcc 840 ccctgccacc tcggccccct ccagactttg ggcrccaaca agcatgggag ggaggccaag 900 ggggggctga gggcagctcg gtnctggcct gcaggtgccc cttggcatga rcagcctggg 960 yrccatgrac agtggcagga ggcagacagg ctcctgggyg gaagggggyg ggtccccagt 1020 gaagccccac cttcaagcca gggagggcct gaagcctggg ggctgggctg ccagtcccrc 1080 agaccagagt gggaacttgt ggtgcctttt cctgggcctg cccatggccg cccatggacc 1140 aatcggcatg cacttcctcc cctctgaggc ccataaaagc cccaggctca gccagaccag 1200 agacagagst gcacagagga cctacccgca gagagatgag ggctctgcta gagctgagga 1260 gatgacggga tgaccagctg cagagcagga gctacccact ccagggtctc ctctctgctg 1320 agagctgaag acttgatggg atgacctgcc tgcagagagg agctaccctc tctgctaaga 1380 gctgaacact cattgggaca ccctggctac ggagaggagc tgcccactgc rggtctcctc 1440 tgagctgttc tattgctcaa taaagctcct cttcgtcttg ctcaccctcc acttgtctgy 1500 gtacctcatt cttcctggac rcaggacaag aactcgggac ctgctaaatg gcgaggctaa 1560 aagagctgta acacaaacag ggctgaaaca tgccccttgc ttgccacatt gcgggtgaca 1620 agaagaagag aagagaggag agaaggagag aagagctgtg gccctttggg gagcccagac 1680 ctgggagctc cctgagccag ggctgtgact ccctctttgg ggccctgtgg ttcctggcat 1740 ctccaagctt cyaggcacca ctctgcattc cccggtgcca gctgtggaag ctgcttgtgg 1800 tgcgcctggt ccagctgcag cctcgcagag agccagcacc catgccggca cctggagctg 1860 cctgccccac tgcagcagcc ngcatgyctg actgtgtgca gtggccggac cccacgctca 1920 ctcacacacc cctcacngct ccacacctgr cttnnccttg gcaggnntgg atcnaggncc 1980 ttggcaggca tgggatccag gccrgtagcn tgagccaagc acagcctgcc aggcysagtg 2040 ggcccgagca aaactcaggc aaagghacca chgghcacag aggtttctgg ccagaaaagb 2100 gacaccccaa ggatcccgta aca 2123 // ID LTR46 repbase; DNA; HUM; 461 BP. XX AC . XX DT 29-MAY-1998 (Rel. 3.04, Created) DT 29-MAY-1998 (Rel. 3.04, Last updated, Version 1) XX DE Putative long terminal repeat of endogenous retrovirus - a DE consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; LTR46. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-461 RA Jurka J.; RT "LTR46."; RL Direct Submission to Repbase Update (1998). XX DR [1] (Consensus) XX CC 3' end starting at position 282 distantly similar to LTR19A and CC LTR19B. XX SQ Sequence 461 BP; 117 A; 138 C; 86 G; 109 T; 11 other; tgttagtcca aactgcacca ttttgtaagc tccctgctat tttgcagacc ttggtcaaag 60 tgaaacattc catgggggtt crggccgtga gaaacatcct gcctaaccac ctgacnacaa 120 ggcggacaaa ggcccactga agaaacatcc ctatcatatc ntgctgggca aagatccaag 180 gaacaccacg atcacatyct nctggaanaa gggccagaac tgcctcatca taggaacatc 240 ttatcaatat cctgccgggc agcaagccat actgcccaga cccctcccac ccagacctat 300 aaattgcccc agcctgtaag cagtggtggg ctctggcatt aagctggtcc cccacytyyr 360 caggttttnt gctggatata aaacctgcat ttgctgtaga gctgccctct ctctctctct 420 gtgtctttct ttaaccctca ccttcccttc aaaacctaac a 461 // ID MER57B2 repbase; DNA; HUM; 403 BP. XX AC . XX DT 27-JAN-1997 (Rel. 2, Created) DT 22-MAY-2008 (Rel. 3, Last updated, Version 4) XX DE Medium reiteration sequence MER57, putative LTR of retroelement DE MER57I, MER4I group, MER57A subfamily. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; KW Repetitive sequence; MER4I-group; endogenous retroelement; MER57A; KW MER57B2. XX NM MER57A. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-403 RA Kapitonov V.V. and Jurka J.; RT "MER57A."; RL Direct Submission to Repbase Update (30-NOV-1995). XX RN [2] RP 1-403 RA Jurka J.; RT "Renamed to MER57B2. Consensus updated."; RL Direct Submission to Repbase Update (22-MAY-2008). XX DR [1] (Consensus) XX CC CC This sequence was derived from sequence data generated by Human CC Genome Project Consortium, Celera Genomics. XX SQ Sequence 403 BP; 95 A; 107 C; 72 G; 129 T; 0 other; tgttaaatta agtttagcct aaagctgcct ccttacatat tttaagttcg gcctaaaggt 60 ttctccgtac atagtgaacc gtaacctaac tggatgtgta aacagaccgt aacctactct 120 tgtaccaatc accgagtttc ggccaatcac aggcggccaa ctgttcaaac cgtgttcaaa 180 taaggcaaac gccgagctgt aaccaatccg gctgtttctg tacctcactt ccgttttctg 240 tacgtcgctt tcctttttct gtccataaat cttctccgac cacgcggcag ccccggagtc 300 tctctgaacc tattctggtt ccgggggctg cccgattcgc gaatcgttct ttgctcaatt 360 aaactctgtt aaatttaatt tgtctaaagt ttttctttta aca 403 // ID Charlie15a repbase; DNA; HUM; 224 BP. XX AC . XX DT 07-MAY-2008 (Rel. 13.04, Created) DT 07-MAY-2008 (Rel. 13.04, Last updated, Version 1) XX DE Charlie15a. XX KW hAT; DNA transposon; Transposable Element; Nonautonomous; KW DNA/MER1_type; Charlie15a. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-224 RA Smit A.F.A.; RT "Charlie15a - consensus."; RL Direct Submission to Repbase Update (07-MAY-2008). XX DR [1] (Consensus) XX CC Description: rnd-3_family-244 8bp Charlie-type TSDs; 16 bp TIRs; CC Pos 1-42 are 85% similar to Charlie1 1-42. XX SQ Sequence 224 BP; 41 A; 52 C; 69 G; 58 T; 4 other; cagtggtttt caaactgtgt tccgcggagc cctaggggtt ccgcggaggt gcctcggggg 60 ctgctgggng ggnngtgagn ctgggcgggc ggggctctgg gcctcccacc cccgcttcaa 120 ccagagcagc tctgctttta tctgttttat atattgggct tccgcgtaag atttcatttg 180 aagaaagggt tctgctgctt aaaaaaaaag tttgaaaacc actg 224 // ID MER39 repbase; DNA; HUM; 707 BP. XX AC . XX DT 01-OCT-1995 (Rel. 1.09, Created) DT 16-JUN-2000 (Rel. 5.05, Last updated, Version 5) XX DE Long terminal repeat of retrovirus-like element - a consensus. XX KW ERV1; Endogenous Retrovirus; Transposable Element; LTR; MER39; KW MER40; MER4I-group. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 707-500 RA Iris F., Bougueleret L., Prieur S., Caterina D., Primas G., RA Perrot V., Jurka J., Rodriguez-Tome P., Claverie J. et al.; RT "Dense Alu clustering and a potential new member of the NFkappaB RT family within a 90 kilobase HLA class III segment."; RL Nature Genet 3, 137-145 (1993). XX RN [2] RP 707-260 RA Smit A.F.; RT "Structure and evolution of mammalian interspersed repeats."; RL Ph.D. thesis (USC 1995). XX RN [3] RP 260-707 RA Kapitonov V.V. and Jurka J.; RT "MER39."; RL Direct Submission to Repbase Update (JUN-1998). XX RN [4] RP 1-707 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [4] (Consensus) XX CC Putative LTR [3] of retroelement related to the MER4I-group; CC it has 4 bp target site duplications. CC MER39 is a member of a closely interrelated group of LTRs further CC including MER21, MER34, LTR29, LTR48 and LTR49. CC Original orientation [1,2] was changed after LTR29 and MER34 [3]. XX SQ Sequence 707 BP; 185 A; 194 C; 134 G; 193 T; 1 other; tgttggggct cagaaaacga taccccaaag tatggcactt tggcatgctg agtactttga 60 actgaaggag attggaaggc ctcagaagca gcctcagaag caaagtctct ctctgacctt 120 ctcccgccct cctgtctctc gcccccattc tctcctcccc gaagcaagtc atagaaacca 180 gaattcctct tccccaaggc aggtcataga aactagaact cctctccccc aaagcaagcc 240 ataaaaccta gaaatattac tctaaccttc ccccgccttt ctgtntagga gctggccata 300 aagaaattct ctgacctacc ttgtctgata gtaggtcata agaccctcat tccagaaggg 360 gtcctgcccc atacccggga ggaaggaatg ctacacagag aggccaagaa gaatctgaac 420 agacaggcct tgctgggttt ccccactcag tctattacca ttagatcata ccccttttgt 480 ccaatcacat ttctacatgg ctgtccattc ttcatcaaac ctaagcataa aaatagagtt 540 ttccctgggt ctttgggtct tcatttctga aggctcccat gtcacgtaaa actttgatta 600 aataaatttg ttatgctttt ctcttgttaa cctgtctttt gttataggag tgtcggccgt 660 gacccttatg atgggtagga aaggtatcac acctttctgc ccctaca 707 // ID L1MCB_5 repbase; DNA; HUM; 1197 BP. XX AC . XX DT 08-FEB-1999 (Rel. 4.01, Created) DT 08-FEB-1999 (Rel. 4.01, Last updated, Version 1) XX DE L1MCB_5 LINE1 repetitive element - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L186; L1MCB_5; KW LINE1 repeat. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1197 RA Smit A.F.; RT "L1MCB_5."; RL Direct Submission to Repbase Update (1997). XX DR [1] (Consensus) XX CC 5' end of LINE elements with L1MC1-3 subfamily 3' ends, CC comprising the CC 5' UTR and part of ORF1 (from pos. 929) [1]. CC Identified in humans and rodents. XX SQ Sequence 1197 BP; 432 A; 258 C; 251 G; 246 T; 10 other; tgacatgtaa ngagcttgga agttggcact cccttcaaca acaacaaaaa gntgaacaaa 60 cagaaaaatc aatgactttt cttagatcca taagagaagt gaggtcacag ggcaaactgt 120 cancctgaaa tctggagaga caggcgcatg cagagaatca cagcagagct ctgctttcct 180 gaagcagaag cctctgggag cacaagctgg taggaaaact taaatggtaa ttttggcaaa 240 ttgctagagg ctgagtgtgg actagtttga gagtaagaaa ttctcggngg cccagtctag 300 gggaacctcc acactttcgt gggctttacc tccaggagtc ccactagttt ctcacagtga 360 agatccgaga aanttcgctt cacggctctg gcagggggag gggaaaagca atcattktga 420 aatacgccca gagtattctc cgtaacaaac tcttgcccta caggagaaaa tactttgcca 480 gagccttatc ctagctttag ggaagggtaa tcacccaact ccagccccct ctagccttcc 540 tgtctcacct aaagggagaa aaaaagctaa gaaacacttg tgaaggtcac agcccaggga 600 ctcaggccca ctaaaagact gagatttaat cataggatta tagaacgttt cccttccccm 660 ataccttacc accacatcaa cagggctcca gtataataac aatggattac agctgaaaga 720 actgcaaaac mcagactcta tttaagaagg agctnctagg gaaacccaaa gacaggagag 780 gagacaaaaa caaggacacc ggagtraagt ttagcctctg acacctacag ctacagcaaa 840 cagtaaacac agtctaactc ttagccagat aaacataaaa cctcacatta aaggcctatt 900 tacttcagtt ccttttaccc agtacatcat gtccggcttt caacaaaaaa ttacaaggca 960 tactaaaagg caaaaaaaaa aaacacagtt tgaagagaca gagcaagcat cagaaccaga 1020 ctcagatatg acagggatgt tggaattatc agactgggaa tttaaaataa ctatgattaa 1080 tacgctaagg gctctaatgg aaaaagtgga caacatgcaa gaacagatga gtaatgtaag 1140 cagagagatg gaaactctaa gagaagaatc aaaagaaaac gctagaaatc aaaacat 1197 // ID Tigger10 repbase; DNA; HUM; 1843 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE Mariner/Tc1 DNA transposon from mammals. XX KW Mariner/Tc1; DNA transposon; Transposable Element; DNA; KW TcMar-Tigger; Tigger10. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-1843 RA Smit A.F.; RT "Tigger10 - Mariner/Tc1 DNA transposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC Truly old Tigger: 26% diverged (33% substituted) in common CC ancestor of dog and human (!). 5' incomplete, perhaps 3' too. CC ORF from 120-1843 encodes a transposase 38% identical (59% CC similar) to AA 116-655 of the Tigger4 transposase, though CC similarity may be higher due to current ambiguous bases. XX SQ Sequence 1843 BP; 556 A; 353 C; 407 G; 497 T; 30 other; acagncataa gctaagtnaa gactgtagnt tgtgtanaat aattgcacaa gcagcagaac 60 agagctgggt gtatcgtaga agccatcctg cgatacggat tccaaacttt ctctagtgaa 120 aggcaaagag acagaagcat aaaaagntgg tgctaacctt aaaagagaaa atggacatct 180 gtacacgact tgaaaagggt gagcacagga aaatgttgat ggatcagtac aatattggtt 240 catccacntt atatgatatc aaggctcaga aagggcagct gttcaaattc tttgcagatt 300 ctgagtcatc caaagctgtt gaacatntca gcatcncgca tctgcctaaa ttagagcacc 360 cagaccatgt tctatatgag tggttctcag tgaaaagatc ngagggtgcc cctatctctg 420 gcccagtgct nattgaaaag gcaaangatt tttatgagca aatgcagttg actgagccgt 480 gtgtattttc tgaagggtgg ctttggcatt tcaaantgag acatggcatt agaaggctag 540 atatagctgg tgaaaaacag tcagcaaatc atgaagctgc agaagaattt tgtggctttt 600 tcagagaact catttctgag cacagtctat cccctgaaca gttttacaat gctgatgaaa 660 ctggtctatt ttggcgatgc ttgccaaatt ctaccctggc aggtgccagt gaatcaagtg 720 cccctaggtt taagcagaat aaggacaggt tgactgttct tgcatgtgct aatgctgcag 780 gctcccataa aataaaacct ttggtgactg gaaaatttca tcatcctaga gctttcaaag 840 gtgtcacaca tttacctgtt gcttacagag cacaagctaa tgcatggatg gacaaagaaa 900 ttttttctga ctggttctat catctttttg taccttcagt gaaagatcat ttcagaanca 960 taggcttacc tgaggatagc aaagctattc tattgctaga caactgtaga gctcaccctg 1020 aggaagcagg gttagtgtct ggtaatattt ttaccatctt cctgcctgcc agtgttacct 1080 cattgattca acctatggac cagggcgtta ttcagaatat gaaatgttat tacagaagag 1140 atttcatgag aaagttgatc catcatgcag gcactataca ggactttcaa tctcattata 1200 acattaaaga tgcaattttt aatgttgctt gtgcctggaa ttctgttnaa agtcaaacat 1260 taaggagagc ttggagaaaa ctgtggcctg gtgtcatgtc tgcagaagtg ttntcttctg 1320 atgatgaaga atttgnaggc tttggaataa gncctcttca aaacactcta gcacaaattc 1380 ttgaaatggt gagggatact cctccttcac accccatnaa caaacttagt gcaagtgaga 1440 tagaagagtg ggtnnaagct gacaagaagg tgcctgtggt ccattgtgtt agtgatgcag 1500 aaatnacaga taatgttttg aatgntgctg acaagtcaaa ggacactgat agcaacagtg 1560 aagaagatga ttttctggag ggtgagaaaa ccacttggga gaaggctgct tcagcctttg 1620 attcantaat taattttgca gaaaggcagc catgttacac tgcccaggag gtcatgcagc 1680 tgcacatnct tcactctacc tttatgagaa agaggcaaat gaccaaaaag caagctgaca 1740 tcagggactt tttcaagaaa gcaagttcca gggcanctcn tggggtcagt acccattcag 1800 ccctatgtcc cacaccanct acatctgcan ctncanctac agc 1843 // ID MER45B repbase; DNA; HUM; 1040 BP. XX AC . XX DT 31-MAY-2001 (Rel. 6.04, Created) DT 31-MAY-2001 (Rel. 6.04, Last updated, Version 2) XX DE Nonautonomous hAT-like DNA transposon. XX KW DNA transposon; Transposable Element; Nonautonomous; MER45B; KW nonautonomous DNA transposon. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-1040 RA Smit A.F.; RT "MER45B."; RL Direct Submission to Repbase Update (1997). XX RN [2] RP 1-1040 RA Smit A.F.; RT "MER45B."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [2] (Consensus) XX CC 15 bp terminal inverted repeat, 8 bp insertion duplication site. CC Orientation reversed to agree with gene orientation in MER45R CC [2]. CC Sequences 22% diverged from consensus. XX SQ Sequence 1040 BP; 293 A; 226 C; 244 G; 277 T; 0 other; cagggccggc ttcatgggcg tgcgacctgt gcagtcgcac agggccccgc gctcagaagg 60 gccccgcgct tggtttaatg ctctgctgtc gccgtcttga aattcttaat aattttatct 120 ttgaacttgt gttttgtaag tgaagtccga tgggacaatg gagcatgcgc gtgagcagag 180 gagatacgcg caatatgcgt gtccgccgtt ccttgccgcc ccatttgcat atagcgttcg 240 cgatgcccca tgagcacaga attccggtgg acccacgatg cgtgggagtt cagcgagact 300 caaagcgagt acaaggtaag cgtgttacgt ctacgactga gtaagcgggg gcgctgacag 360 ccccgagagg ccacgctttc cgttcgaacc agaacttgct tcgaacgcag aaagaaggca 420 atggcattct aagaaacacg aacgaccaag gaaccctatc atatcctttc ttactcgtgt 480 tacttccctg tattagccaa ccacttacgc tgaaaatgat gacatagaag gaaagggaaa 540 gatagggcaa cccatagttc cttttccttt cagtccttcc ttactcatca gtaagccgaa 600 ggtagagagt gttggtagaa tgtgcgcgta tcaagaagtg aaataaaaac agttgagtta 660 gttttgtgca gcgtttccac tgttctggta agaacgaaat acatatgcat gtacgagcta 720 cgaaatacga attgtgtaat ttcggtgatt ccgcatacga gttaaatgct cttatatttg 780 catttaaaac tggcattgca caatataaag atgaatggta aaattcatgc taataattta 840 aaattttaat ttttctttac ttagaatgac attaaatagc aaatataaaa acaccatgac 900 aagtcgagag agagaccgcg gaagaaagga aaaagcttta tattttagta cctttaatgg 960 cacttttttc ctgctttttg aacaaggggc cccacatttt cattttgcac tgggccccgc 1020 aaattatgta gccggccctg 1040 // ID L1PA4 repbase; DNA; HUM; 902 BP. XX AC . XX DT 23-JUN-2000 (Rel. 5.05, Created) DT 23-JUN-2000 (Rel. 5.05, Last updated, Version 1) XX DE 3'-end of L1 repeat (subfamily L1PA4) - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; KW L1 (LINE) family; L1P2; L1PA4; L1PA4 subfamily; KW Repetitive sequence. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-902 RA Smit A.F., Toth G., Riggs D.A. and Jurka J.; RT "Ancestral, mammalian-wide subfamilies of LINE-1 repetitive RT sequences."; RL J. Mol. Biol 246(3), 401-417 (1995). XX RN [2] RP 1-902 RA Smit A.F.; RT "Direct submission."; RL Direct Submission to Repbase Update (03-MAY-2000). XX DR [2] (Consensus) XX CC ORF2 ends at bp 684; average divergence of copies from consensus: CC 2.5%. XX SQ Sequence 902 BP; 346 A; 179 C; 187 G; 190 T; 0 other; ctaatatcca gaatctacaa tgaactcaaa caaatttaca agaaaaaaac aaacaacccc 60 atcaaaaagt gggcgaagga tatgaacaga cacttctcaa aagaagacat ttatgcagcc 120 aaaagacaca tgaaaaaatg ctcatcatca ctggccatca gagaaatgca aatcaaaacc 180 acaatgagat accatctcac accagttaga atggcgatca ttaaaaagtc aggaaacaac 240 aggtgctgga gaggatgtgg agaaatagga acacttttac actgttggtg ggactgtaaa 300 ctagttcaac cattgtggaa gtcagtgtgg cgattcctca gggatctaga actagaaata 360 ccatttgacc cagccatccc attactgggt atatacccaa aggattataa atcatgctgc 420 tataaagaca catgcacacg tatgtttatt gcggcactat tcacaatagc aaagacttgg 480 aaccaaccca aatgtccaac aatgatagac tggattaaga aaatgtggca catatacacc 540 atggaatact atgcagccat aaaaaatgat gagttcatgt cctttgtagg gacatggatg 600 aagctggaaa ccatcattct cagcaaacta tcgcaaggac aaaaaaccaa acaccgcatg 660 ttctcactca taggtgggaa ttgaacaatg agaacacatg gacacaggaa ggggaacatc 720 acacaccggg gcctgttgtg gggtgggggg aggggggagg gatagcatta ggagatatac 780 ctaatgttaa atgacgagtt aatgggtgca gcacaccaac atggcacatg tatacatatg 840 taacaaacct gcacgttgtg cacatgtacc ctaaaactta aagtataata ataaaaaaaa 900 aa 902 // ID MER101 repbase; DNA; HUM; 474 BP. XX AC . XX DT 17-JUL-1998 (Rel. 3.06, Created) DT 05-SEP-2008 (Rel. 13.1, Last updated, Version 2) XX DE Putative long terminal repeat. XX KW ERV1; Endogenous Retrovirus; Transposable Element; KW Long terminal repeat; MER4-group family; MER101. XX NM MER101. XX OS Homo sapiens OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. XX RN [1] RP 1-474 RA Kapitonov V.V. and Jurka J.; RT "MER101."; RL Direct Submission to Repbase Update (30-JUN-1998). XX DR [1] (Consensus) XX CC MER101 individual copies are ~83% identical to the MER101 CC consensus sequence. MER101's hallmarks are 4 bp target CC duplications and 10 bp terminal inverted repeats. Subfamily CC structure, weak similarity to the MER65C and MER87, and the CC target site length indicate that MER101 may be a long terminal CC repeat related to the MER4I-group. XX SQ Sequence 474 BP; 135 A; 131 C; 86 G; 121 T; 1 other; tgtgaacaaa tgtgaacctg aaagagccaa tccttcaaga tggatcccga gtggctaact 60 gggcctaaat ttaaaataga gccaagcggc catttgctga ctagaggtca cacacgtact 120 ctgagttccc cgaaaaccca cacctctgtt taactttggg actttcagag ctcacctgaa 180 ccaaccaatc agagctcacc tgcmtcaacc aatcagggct cagctgtatc aaccaatcag 240 aactcagctg tgtcaaccaa tcagaactaa gcaagtttga atccttcatt tgcataaacg 300 gacctgattg ggaacctggg caggaacttt tgctataaaa cccaaaccct ccctttgttc 360 tctggaaccg caccttcgtt ttacaccgaa ggctgcatct ccccggtttg caaactgttc 420 actggaataa agtctctttc ctccaaattc cttttcagag aacttttgtt caca 474 // ID L1MD1_5 repbase; DNA; HUM; 1010 BP. XX AC . XX DT 07-FEB-2000 (Rel. 5.01, Created) DT 07-FEB-2000 (Rel. 5.01, Last updated, Version 1) XX DE L1MD1 LINE1 repetitive element 5' end - a consensus. XX KW L1; Non-LTR Retrotransposon; Transposable Element; L1 repeat; KW L1M6_5; L1MD1_5; L1MD_5; MER79. XX OS Eutheria OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia. XX RN [1] RP 1-1010 RA Jurka J.; RT "L1MD1_5."; RL Direct Submission to Repbase Update (FEB-2000). XX DR [1] (Consensus) XX CC ~73% to individual sequences and only partially similar CC to other L1M. The closest relative is L1MD_5. XX SQ Sequence 1010 BP; 296 A; 246 C; 242 G; 215 T; 11 other; ttacattaaa antaataaaa taaaataggt tccagttcca ggtaagatgg agtaagcaca 60 ctccaccctg tctctcccac tgaatgcagc tataaaacct ggacagaatg catggagcag 120 ctatttgagg actctgaaaa gtaaatagta gcaggcagat tggggaagaa gaccagaatt 180 caaagtacca ccaaactagc agtgagttta ccattttttc tccgnntrgc agtgtttttt 240 ncctctagta tcccacctat ccccccaggc tgrancctag cctggactca atgcagccta 300 aaacccagaa gtgggcactg gtgcagacag agagagctcc aggagaagcc ctctagttct 360 ggctcaagga gcaggaaagg ggactcctaa tgctcttcag agagagtggg ggaaaagaaa 420 tcccctattt tttttttttt tttnttttct ccattctctt ataccccagc ccccaggcaa 480 tcctgtggca gtggcagcag cagcagcagc agcrgcagca gggnnggggc ctgcaggagc 540 ctaaaactct gagagagggg aaccttcctc tctgatcaga ggagctgtgg tcccaagagg 600 gtggggcaaa cccccattgc ttttttttct ctgtcctcct accgcttggc cctagatgta 660 ggcacagtca taggaagtgt atagcagagc agggtaaata aagccccagc tttctggcca 720 gaggaccaaa aagaggagcc ccagggaacc agaaagtact agggagatca cagagaggga 780 ggagctcagg aaagcaaccc cataaagttg tttatgaact cctgggctca cccccaagct 840 gtacatgtat ggatctgatc ctaaacagca taccaaagac tttgagaact gaactaaagg 900 atagaccact acccaggtcc cagactggcc actgggtggc acacacatgg gacagatctg 960 aatagcactg caaaggcttt gaaaactgaa ctgacattga aaccacaacc 1010 // ID LTR86A2 repbase; DNA; HUM; 508 BP. XX AC . XX DT 05-FEB-2007 (Rel. 12.01, Created) DT 10-APR-2007 (Rel. 12.01, Last updated, Version 1) XX DE Long terminal repeat of ERV3 Endogenous Retrovirus from mammals. XX KW ERV3; Endogenous Retrovirus; Transposable Element; KW LTR retrotransposon; LTR86A2_LTR; LTR86A2. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-508 RA Smit A.F.; RT "LTR86A2 - ERV3 Endogenous Retrovirus from mammals."; RL Direct Submission to Repbase Update (05-FEB-2007). XX DR [1] (Consensus) XX CC 5 bp TSDs, with a bias for NNNNC. 28% subst in dog human. CC Orientation based on AATAAA site conserved in all LTR86 CC consensuses. 90% similar to LTR86A1, <75% similar to LTR86B and CC C. XX SQ Sequence 508 BP; 115 A; 120 C; 141 G; 128 T; 4 other; tgtggggaga tgggctttct gggacactgg aaagctggag gcagagatat tgttcaggga 60 cacctgggca ctgactctgc tttctccccc cggatgagga cgtggccttg ctgatgctga 120 gtttggttca agaaccagga gagcccgatg tttgtaaaca ttcccttaaa tggaagcaca 180 cagattgtta gtgtaagttc ttccggaatg gtgatgtaag cctgagtata aaagggcagt 240 ggcacagcaa gaattcggct tctttctcaa ctctggcagg actctgcctt gcacggagag 300 tgtcaccggc agctgcgtgc cccgttaggg aancnagggg ccagggaaaa gccgcgcnaa 360 gatatgctgc atctgctcct gctctgtgta gccacctcac ttccgttaag ttctgtatcc 420 ttggctaaat aaatcgggaa cttatagcan gtgtgtgtgt gtgtgttggt ctcttcccac 480 caatccgtaa cccacctgaa acgctaca 508 // ID L1ME5_3end repbase; DNA; HUM; 941 BP. XX AC . XX DT 29-AUG-2008 (Rel. 13.08, Created) DT 29-AUG-2008 (Rel. 13.08, Last updated, Version -1) XX DE L1 Non-LTR Retrotransposon from mammals. XX KW L1; Non-LTR Retrotransposon; Transposable Element; LINE; KW L1ME5_3end. XX OS Mammalia OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi. XX RN [1] RP 1-941 RA Smit A.F.; RT "L1ME5_3end - L1 Non-LTR Retrotransposon from mammals."; RL Direct Submission to Repbase Update (05-AUG-2008). XX DR [1] (Consensus) XX CC rnd-3_family-1098 rnd-3_family-1280 Only 75% similar to L1ME3B CC over first 723 bp. L1MF1? 22%/26% in dog/human. XX SQ Sequence 941 BP; 366 A; 154 C; 220 G; 195 T; 6 other; ttaatatcta gaatatacaa ggaactcctg caaatcaaca agaaaanaac ggcaacccca 60 atagaaaaat gggcaaagga tatgaatagg taatttacag aagaggaaac ccgaaaagct 120 aacaagcata tgaagagatg ctcaaactca ttagtaatca gagaaatgca aattaaaaca 180 acaatgagat atcactttac acctattaga ctggcaaaaa ttagaaagct ggataatgcc 240 aagtgttggt gaggatgtgg ggatatagga accctcatgc actgctggtg ggagtgtaga 300 ctggtgcagc cattctggag agcaatctgg cantacttag tcaaattaag tatacgcata 360 ccctatgacc cagcaattcc gctcctgggt atatatccca aagaaattct cacacaggtc 420 cataagggga catgtacgag gatgttcatt gcagcgttgt ttgtggtggc ggggagttgg 480 aggcaatctg ggtgtccatc actgggagag tggataggta aaatgtggtg gatgcacacc 540 atggagtact atgcagcagt tagaagcaac ggactagatg tacacatagc aacatggatg 600 gatcttaaaa acatagtgct gagtgaaaaa agtaagaaac agaatgagat ntataacaca 660 ataccattta tgtaaattaa aaatacatgc acacaaaaca acaatacaca ttttacaaga 720 acacatacaa acaaaaggat acacattaaa cacattagaa tggttgccta tgggggggag 780 gaagggggag nagggggnag ggaataaagg gaaagaataa angaataaat aaataaaaca 840 agagaggggc cttgcacgga ccaatgatga taatgtgcca tgaactgagg agtatgatta 900 actcaaccct ctgcacctga ggtccaaaaa aaaaaaaaaa a 941 //