ID Penelope1_CI repbase; DNA; CIN; 2803 BP. XX AC . XX DT 06-NOV-2003 (Rel. 8.1, Created) DT 06-NOV-2003 (Rel. 8.1, Last updated, Version 1) XX DE Penelope-like non-LTR retrotransposon - a consensus. XX KW Penelope; Non-LTR Retrotransposon; Transposable Element; KW Penelope superfamily; Penelope1_CI; reverse transcriptase. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RP 1-2803 RA Kapitonov V.V. and Jurka J.; RT "Penelope1_CI, a family of Penelope-like non-LTR retrotransposons RT from the sea squirt Ciona intestinalis."; RL Repbase Reports 3(10), 187-187 (2003). XX DR [1] (Consensus) XX CC Penelope1_CI is a family of non-LTR retrotransposons from the CC Penelope superfamily. Penelope1_CI encodes a 604-aa Penelope1_CIp CC reverse transcriptase (pos. 1-2531, conceptual translation). CC Penelope1_CI retrotransposons usually are 5' truncated. CC Therefore, CC the consensus sequence is incomplete at its 5' end. CC Penelope1_CI is represented in the genome by approximately 1000 CC ~1kbp long 3'-end copies. They are 5% divergent from the CC consensus CC sequence. The ~200-bp 3'-terminus is often repeated and forms CC a palindromic structure. XX SQ Sequence 2803 BP; 789 A; 643 C; 639 G; 732 T; 0 other; tggcaaattg aaagttccac tggtgaaaca ctctctaaca aggattgggt catgaatatg 60 tccgataaag aacttacacc cgcgcagtcc gtattatctt taggattgaa tttcgccgta 120 tcgcccgata atgtaccgtg gaagcagatc gtagcgtcca tagagaaggg cctcgtcgga 180 caacccctgc acattaagtc acttttacaa agcaagttgg tgggatgcat tcgtagccat 240 aagaccacaa ccaccaacgt ccctaaatca tacttagccg ctatacggga attacaaaaa 300 gaccgttcga ttgttatatt atcggctgat aagggaaatc gtgcggtggt tatgaaccga 360 acggattaca cagcgaaact tttggaactc ctgaaagacg ccagaaccta caagaagctg 420 gctcggaatc cgactccttc cttagaacgt aaggtaaata attatgttcg acgtcttcgt 480 gaggttctat cgtacagtga atttcggcag ctactgtacg gatgggagga caccccagtt 540 aaagaaggcc tttgcaaggt tggagaaagt gttgaaccat agccttctga cgtcgcttgt 600 ctgtcatgta aggagaggat caactcgaat cgttgcactg ggagtaaaaa agtgtgatga 660 caacattgag agatggcgtg gcaaattgaa agttccactg gtgaaacact ctaacaagga 720 ttgggtcatg aatatgtccg ataaagaact tacacccgcg cagtccgtat tatctttagg 780 attgaatttc gccgtatcgc ccgataatgt accgtggaag cagatcgtag cgcatagaga 840 agggcctcgt cggacaaccc ctgcacatta agtcactttt acaaagcaag ttggtgggat 900 gcattcgtag ccataagacc acaaccacca acgtccctaa atcatactta gccgctatac 960 gggaattaca aaaagaccgt tcgattgtta tattatcggc tgataaggga aatcgtgcgg 1020 tggttatgaa ccgaacggat tacacagcca aacttttgga actcatgaaa gacgccagaa 1080 cctacaagaa gctggctcgg aatccgactc cttccttaga acgtaaggta aataattatg 1140 tttgacgtct tcacagggaa cgtgaggttc tatcgtacag tgaatttcgg cagctacact 1200 gtacggatgg gaggacaccc caactgtatg gactaccgaa ggtccataaa ccagatatcc 1260 cgttacgagc gattgtttct tttattggtt cgcctagcta tatgttggct aagtttctcg 1320 ccaaaatcgt tgcccccttg attggaaata atagtcacca cgtcaggaat tcacatgagt 1380 tcgcggccga ggtaagagac atgacaattg cagatggtga gtgtttagtt tcctttgatg 1440 tggtttcctt attcaccaac gttccgatac ccctggcgat gttggtctcc ggttgtgtct 1500 taacgctaca tgttttgcgt ttcagggtgc attctaccaa caaatgtttc ggtacagcga 1560 tgggtggttc gcccatctct gtcgtcattg caaacgtcgt tattgagact attgaagagg 1620 atgccctcgc tactttcatg caccctcctc gatactggaa gcgctacgtt gacgacactt 1680 ttgccatcat tgcggcggaa caactccacc cttttctggg aatagaggag tccatccagt 1740 ttaccctaga aagagagaac gaaggaaaaa tagcgttctt agatgttgag gtgagtcggg 1800 acgaagaagg aggaatgaaa acctatgtat acaggaaacc tacccacact aatcgctatc 1860 tatctttttg gtcagctcat ccgatcgaac ataaaaaagc ggtagtaagg tccctaaaac 1920 acagagcaga ggctttggtg tccgatccac tacgtctaca agatgaaatg aaattcatta 1980 aagacgggct tcggtacaac tcatacccgc cgtggatggt aaagtggaag ccaacacaga 2040 aacccaaaga agtaacacct actattgcta ctttgagcct cccgtatgtc ccaggcctat 2100 ccgacacttt aaagagaatg cttaccgatc acggtattaa ggtttattca aagccgcaca 2160 caacgcttcg cagcctgtta tctcaccccg ttgagaatca ggcaactgag cccaaggggg 2220 ttgtgtattt gattccctgt ggtgactgtg aggagggtgt gtacatcgga gaaacgggca 2280 gagctctaaa aacgcgcttg aaagaacatc gccgagatgt cgcagcaaag gacgcgagca 2340 agacggctct gtccaagcac tcagctgtat gtaatcaccg agtggcgttt gagaacgttc 2400 aaattctcga acgggagacc gacttgacca aacggttgtt tttagagact ctacacattc 2460 acaaacaccg agaatgtgtc aacaacaaag aacaatgcac ctatttcccc acagtttaca 2520 acaacctgat ataaaatttt tttctgtttc cgatttttca cgtgactgcc gttgtgcgtt 2580 tttgccctct caccgtctct tccttacagt gcccttatca cgttaatatc gcctttttct 2640 caccttttct gcttttcgct tgttgtaact gttgcgtttc attccctgat gaagtctcgc 2700 cgtatggcag acgaaacgtt ggaaatacac tatacgtttt tataccagat gagccactga 2760 tatattgttt atactatgcc tggtagcaga agtaacagaa tat 2803 // ID R2CIB_CI repbase; DNA; CIN; 3720 BP. XX AC AB097122; XX DT 17-NOV-2004 (Rel. 9.1, Created) DT 17-NOV-2004 (Rel. 9.1, Last updated, Version 1) XX DE Ciona intestinalis retrotransposon R2Ci-B, complete sequence. XX KW R2; Non-LTR Retrotransposon; Transposable Element; KW reverse transcriptase; R2CIB_CI. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RA Kojima K.K. and Fujiwara H.; RT "Cross-Genome Screening of Novel Sequence-Specific Non-LTR RT Retrotransposons: Various Multicopy RNA Genes and Microsatellites RT Are Selected as Targets."; RL Mol. Biol. Evol 21(2), 207-217 (2004). XX DR Genbank; AB097122; Positions 1 3720. XX SQ Sequence 3720 BP; 1161 A; 892 C; 868 G; 799 T; 0 other; cgacggtgaa ccaccttgtc gcggtgtaag agctttagtg tctcgaacaa gaaatagctt 60 gtgtgctgtc cttctgggcg gtgcacatac ttcttaacct cccgaggcca tgccggcggg 120 ggctttagcc cccggcaggt tttaccatgc cggacgggtt cgagaggtag aggccaaact 180 aagagttcac cagcagactt cgcacgcggc tggccactgg ccgaagttta aacaacaggg 240 ccgcatcttc ccaaactcaa tatatggtgt taagtgaacc gtgccgatgg gtgaatggcc 300 atgggtaagt tggtctctaa cggtccttgt ggagaagtgg cgacccttca caatacttca 360 gccttaccct atgcccgggc aacttagggt ggacgtatat ctcccgcgga aaacatctta 420 tctcatggat aaaaatatat acgaaaacac tacttctcca ggagggggac cgctttgcgg 480 tgagaagacg catcgttccg atgtgatcat ccctccaccg gggttcgccc cgtcgacgga 540 cactgcttcc aatacattag gggaaaatgt ggatgcatct gcaaccacta gcagtgccaa 600 cccattaagt caggaaccag gatggtgcga atcttgttcc aagctgttca aatcacaaag 660 aggacttaga gtccaccaaa gatcaaaaca tccagagttg taccattctc agaatcaacc 720 gcttccgcga tctaaagcac gatggagtga tgaggaaatg gttatctttg ctcgcgaaga 780 aattgcaaat aggaagatcc gctttatcaa tcagcactta cacaaagtgt ttccacacag 840 aacgctagag tcaattaaag ggttgagggg aaaaaacgta agatacgctc gcatcatggc 900 tgaccttgag gcggaaatga cctctcagcc cgaagcagcc acaagcttgt gcaccgaaac 960 atcagaaaat ctcgcttcta gcaatgttct gccccaaaca agaggatggg ctgaaaatct 1020 cgtcgaaaat attgacacag cacatctggc aaaccttggg ccgttatccc agtttgaacc 1080 tggtaaacca agcagcagta caaaagaggc tatcaacacc gagtacaacg actggatcag 1140 caaatggctt ccctctggtg ctgctcatag agaaagaaga gcaaatccac cctcaactaa 1200 gctaaatgct agagcaacaa ggaggctaca atacagtagg atccagaatc tctacaaatt 1260 aaatcgttct gcctgcgccc aagaagtatt aagcggggct tggaaggtcc agtcgggcga 1320 actgaacttg aaagaggtcc aaccgttttg ggaaaaaatg ttccggaaag aatccgccaa 1380 ggacaggcgc aagcccaagc ccactggtga agtactctgg ggactgatgg agcctctaac 1440 aattgccgag gtgggatcca ctctgaagtc aacgacacca tcagccccag gacccgacaa 1500 gttaacacta gatggcgtaa agaggatacc cattgctgaa ctagtatccc attacaacct 1560 atggttgtac gctggctacc aaccagaggg actgcgcgaa ggaataacca ccctaattcc 1620 gaaaattaag ggtacgcgtg acccggctaa gctacgccca attacagtgt ctagctttat 1680 ttgccgcatc ttccaccgat gtttggcaca acgaatggaa acctctcttc cattgggcga 1740 aagacagaaa gctttccgca aggtcgatgg catctgtcat aatatttggt ccctaaggtc 1800 tctaatacac aatagcaaag acaacttaaa agaactcaat ataacatttt tggacgtacg 1860 aaaagcattt gactccatct cgcataaatc actgggcata gctgcagccc gccttggact 1920 tcccccaccc ttgataacat acatctccaa cctttaccca aactgttcta ccaaattaaa 1980 agtaaacgga aaaatatcaa aaccaattga agttcgtcga ggagtccgac aaggagaccc 2040 actctccccg ctactgttta atgcagtaat ggattgggcc ctatctgaac tggacccaag 2100 agtgggagta caaattgggg aacaacgaat aaaccatcta gcattcgccg atgatattat 2160 tttggtctct tcaacaaaga tcggaatggt gtcctccatc aatacgttga gtcgccatct 2220 ggcaaaatca ggcctcgaaa ttagcgctgg gaaagaagga aaatcagcta gtatggccat 2280 cgttgttgat ggaaagaaaa agatgtggac agtagatccc cttcctaggt tcaaagtaaa 2340 cagccagaaa attccggcac tgagtattac acaacagtat aagtatctgg ggataaacat 2400 agatgcccaa ggggcaagaa atgatgcagc tcgaatcctt acagagggtc tagcagaatt 2460 atctcgtgcc ccactgaagc cacaacagcg actatatctg cttcgggtgc atcttcttcc 2520 gaaactgcaa cacggactgg ttttaagtag ttgtgcaaaa agagcgctaa catacctgga 2580 caaaagtgta aggtctgcaa taagaagatg gcttacactt ccgaaggaca caccaacagc 2640 cttttaccat gcgaaagcat gtgacggtgg actaggcatt acacgtttgg aacacacaat 2700 accaatactc aaaagaaata gaatgatgaa gttgacattg tcagaggatc cagtgatcat 2760 ggaacttgta aaattgacat actttacaaa tttactacac aaatactcaa atgtgaagct 2820 gcttaactcc tggccagtaa cagacaaaga cagtctggcc cgtgccgaag cctccatgct 2880 tcacacctct gtggatgggc gtggactaag caattgcagt gatgtcccgc gccaaagtga 2940 ctgggtcaca aatggcgcgt cgctacttag tggtcgtgac tttattggag caataaaagt 3000 gaggggcaac ctcttgccaa caaaggttag tgcggcacgt ggacggcaac gggagataac 3060 atgcgactgc tgcagacgac cggagtcact gggccacatc ctgcagacct gccctagaac 3120 atggggaccg agaatctcca ggcatgactc cctgttgaag cgagttcgga atcaggcatg 3180 cttaaaaaac tggaccccga taatagagcc atcgatacca accaacatag gacttcgtcg 3240 gccagacctc gttttggcca aaggtaacat cgcctttctt gtagatgcca ccgtggttgc 3300 agacaatgcc aacatgcagt tgcaacacga agcaaaagtg gaaaagtaca acaactcaga 3360 tataaaggaa tggataaaag tacactgccc aggggttgat gaagtgaggg taacgtcact 3420 aactgcgaac tggcgcggtt gcttgtatgg aggttcagca tccttcctaa cagaagacct 3480 gggactgcct aaagcagagt taagtctgct cagtgcaaag atcaatgaaa aaggatacta 3540 cctttggtgt gctcactaca ggggaacagc aaggttgtgg aatcgaccgt taaggtcctg 3600 acagtaatat gaaaacatca catctgaccg gcacagaatc accatgccgt aatgcaccca 3660 actaaggatt ccaatgggta aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa 3720 // ID YURE_CI repbase; DNA; CIN; 5198 BP. XX AC AB097133; XX DT 17-NOV-2004 (Rel. 9.1, Created) DT 20-DEC-2008 (Rel. 9.1, Last updated, Version 2) XX DE Ciona intestinalis retrotransposon YURECi. XX KW R2; Non-LTR Retrotransposon; Transposable Element; KW reverse transcriptase; YURE_CI. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RA Kojima K.K. and Fujiwara H.; RT "Cross-Genome Screening of Novel Sequence-Specific Non-LTR RT Retrotransposons: Various Multicopy RNA Genes and Microsatellites RT Are Selected as Targets."; RL Mol. Biol. Evol 21(2), 207-217 (2004). XX DR Genbank; AB097133; Positions 1 5198. XX SQ Sequence 5198 BP; 1108 A; 1515 C; 1337 G; 1238 T; 0 other; tcaatcaata aggaggtgtt ttctttggtc tgttgtttta tagtttaccg ttataatagt 60 ctgttgtcct atagttttcc gtggtgtatt tctggtctac tatagttggt gcctctaaaa 120 cattattata ccgaagagtg ctagcgattt ctattattaa ctcacccacc agtactgctg 180 tgcatccacg cagcaccacg cctgccatca cgtacagtgc gcttgctgcc ttgtgttttg 240 ttttgcagac accactggac gatagatggc gacttcgtct tcctccgttt catcggggaa 300 tgttcagacc gaggtgcgtt gcgtctacca cggaaaagga gacttgttgc tggaatgccc 360 agttgcccat tgccctagca tacaccccac agttgccaca atcacaaaac acttaaaaaa 420 acatcacaca cctcaattcg aacagataac cactaaaaat ctcacaataa catatacatg 480 cagtcaatgt agtttctcca ccaccggtct cacacaacac cacatatcca aacactacaa 540 aacatgcaaa ggcgtgggcg ctgttcagga aggcaacaag ggtcgattct gctgccctgc 600 atgcggtacc aggtgggctc ttttgtgtaa ggcacggcac cattttaata atgtccactt 660 cgagtatgac acccctccaa ttgccgcttt ctctggcaca ccctataaac taaaaaaacg 720 gaaatttaca attattaata aggccctaac atattcatgc cctctccccc tcaaccaact 780 actttgccct ttgtggtcgt gctccctcac gatcttaaat aaacctcttt caagcgtgca 840 gcaggaaacg gcacatggcg acggctcaca aggccagagt tatgttccaa ctcagttgcg 900 gcaggtgctc agagcccgtt gccactgcgg aaaccctcca attggaaagg gccactgggc 960 atcttgccaa gggaagcgac cactctcttc acctaagggt gggcgcagtt cgcccactcc 1020 acctgctaat ctaaccctcc acttccttaa ctatctcccc ttccaacttc cctcacaaag 1080 ctcctccccc caaagtagca ccctcgaccc tacggcctgt aaagctcgag tccccatccc 1140 ctctttccta cgcggcgact gtgaagtcac ctttttcatc atcccctccg ttaattttta 1200 tagaccctac ctctcctacc ccctcaggat gttctggcgt aaccgaacat cctccggtca 1260 ctgttcccta caccgggtcg ttcgaggctt tgtccgagag cgactcgtcc cccatcctcg 1320 gtcgaaatcg ccggcgagga ctccccttga attcctctgc gagttccggc tcgcgggggt 1380 cttccccgat cctgggaagg tcgcgtccct tcgacccgta ccagctcccc ttacgctttg 1440 cctttctcca ccagtcgctg gtccaatgat ttcctgtgag gaccacagcg cccccccttc 1500 cgttcgctcg agctccccca ttcctaactc cccagcctcc gtaagctccg tggaggcgca 1560 cttgtctgac ttgttagaca aagtgtcttc cggagaactg cggccgctgt cccccaccct 1620 gccttcttca ggcttttttg gccctctgtt gccacccact ccccctcccc gacctacccc 1680 ctcggccgaa aaggcatctc cttcaggcct ttcctaccta ccctgcagag aagtaaaaat 1740 cgcgtccatt gcacggccat cccctgcctc acagagggtc ggctgcgacg cggaccgaac 1800 agggccttcg ctgaacccta attatcagca aacctccccc ccgtctactc cgagtttctc 1860 ccccatagtt agacccccta aattcccccg gtcgggcgcc aaagtaaatt ccaagtccaa 1920 accccccggc gtccgaccac gccgtgccaa gccaattgag ccagggaccg agtcggcatc 1980 acccgttgat gtcgacacta ttagtagttc ggttcaggaa ccttgtactc cagaaaacag 2040 aaccccggaa tttttttatg agcgaaagtg gctcgtgagt attttaaata ttcacgagcg 2100 ggagggatcc aatttttttc aatttaaccg ggatctggag tattggacgc agttgctttc 2160 aggctcccag aagggaggac gcgcgaagcg tgcgtcctac aatcgtggtg cggcgaacca 2220 agcgatgaaa aaccgcgatt ccggccgtaa ggatttcgat ccccggccgg tagcaggcca 2280 cagtagtgga ggtggcaccg agctcggttc gcggccacga taccctaagg gcgcacgtct 2340 tcgtgccgac ttctggaggg acatgaaagg gacggtccgt aagttacttg atggttcgaa 2400 cggtgagcgt cgctgcggga ttcccctcga tatcatagag cggaaattcc ggcaagtatc 2460 catgcccggc tggatagacc acagacggta cgcggccggc gcgtccccgt ccctagtaac 2520 ccaagctgaa acggatgttg ccatcaccag tgaggaagtt gaggcggtcc tcagtggcct 2580 aaacgttcag tccgctccgg gctcggatgg cctctcctat cgattttgga agggcctcga 2640 tcctagtggt cgattgttgt catgcctttt cgaaatcgtt aggaggcatg gtcgtattcc 2700 gggcgcgtgg ccgacttgta gcgtcatcct gctctgtaaa gatgctcagg gtgacgttca 2760 ggacgtggga aactggagac cgatcaccat ctgccgcact ctgtacaaat tgtacgcggc 2820 tgtgatcgcc agacgtattc agacttgggc gaaacagggc ggggtgctct cgcggctcca 2880 gaaagggttc atgccagttg agggtgtgtt tgagcacgtc ttcatgttgg ataccgtcct 2940 ttccgacgcc aagctgaggc gcaagaatct tcttgccgtc ttccttgacg ttcggaatgc 3000 gttcggaagc gtccggcatg aatgcttgct caaagttctt cggcacttcg atgctcccca 3060 ttacctggtt gaactcgtga gggatattta caccggtgcg acctgccgtg ttagatcttc 3120 ggttggtgag accggtgata taccctgtga tcgaggtgtc aggcagggct atcccctgtc 3180 tggcattctt ttcaacctgg taacggaggt gctaataccg gggctcagtg ccgggaatga 3240 tggctaccgg atggcttgct taggtggtaa gctcactcaa gtcctggcct acgctgacga 3300 tctggtggta gtcacggaaa accgtgatca gatgctacgt cagctgggtg tgtgtgagga 3360 attcggccgt tgggcaggcc ttgcattcaa tcaacggaag tgtggcctga tcggctggag 3420 gacgttgcgg ggagggagga gggtcgcact ggaggatcct ctgctcctta acggagtaga 3480 gatccccctg ttgcggcccg gtgaacacta taaatacctt ggcgccatga ctggcgtcat 3540 gagtgttccc cgcaccggat cccagctgat caaggacttc cgtgcaaggc tccaacgact 3600 gtttacatcg ttcctcacac cacaccagaa gctgatcgct ctgaaacggt ttctgctgcc 3660 aagtctcagc tttcatctga gggttcgtcc gattgcgcgg tctgagctga tcgcgctcga 3720 ccgtcgcgtg cgcgagtgcc ttagggtggc gtttcgcttg accaagccct cgtgtcaggc 3780 tgtgtttcat acaccgactg acatggatgg tctgggtgtc ccgtcggtat gcagtgagag 3840 cagcatactg acgatcgccc aggggttcaa ggtgttaacg tcacccgacg gcacagtgtc 3900 cgcgacggct tcggcgcgcg tgaagctcta cgccgctaaa tttggcggcc tcactgaagc 3960 aggtccttcg gactgggcgc gttatctatc tggtgatgac gtcaacggga atagcactcg 4020 caaacccggc gctaacctgc cttctggtct gtggactcgc gtccgctgtg ccagcaggca 4080 gttaggtgct gtgtggcgcg tttgcccgga aaacggcatc actgtccggg tgcgtaattc 4140 tgtgattacc tcccgagacc gacggaagct catcagatcc ttccacgatt gctctaatca 4200 gcagtggaag gagcagtgga tgcagcaccc caaccaggag aagaccgctg cagcgcatat 4260 ggcttatgcc gatgcgaacc gctgggtgaa gcagccgtcg gttatggaac ctcatacata 4320 cttttttgca ttgagggcgc gcttgaacct gttacccact agggtttcac gagctattta 4380 tagcagggac caacacccgg acattttatg ccgacgttgt ggtgcgtcag ttgagtccct 4440 cccgcatgta ctaaaccatt gtcctcccaa tatgagcata atactcggga ggcataattt 4500 ggtactgcag gaggttctga acgcggtaga caaaacccag ttcaaagaga tatccgttga 4560 ccgaacggtc cccgagcaca tgtcggagac aggtgaggcc ttgcggcctg acatagtggc 4620 acggcggaat gacggttccg tcgtggtcgt cgacgtggct tgcccgttcg atcaaaaggc 4680 gaactttgat gaggcggcaa aacggaagct cctaaagtac gacaagcttt gttgcaatat 4740 cgctgcctcc acaggtaaac ctgtggagtg tcattcgata gtcgtgggct ccttggggag 4800 cctcgcggag ggtctgtcca cctccctccg ggctttggga ataaccgatt ttgctcgctc 4860 taagcttgtc gcttgccatc aagggtagcc aaaagatttg gtgttcttgg cgagctgcag 4920 tcccggcaga gtaggcgaga tcgtgagctc tacaccgctt cacgatttga cgagttcttc 4980 ttgagtcgat ccccaacggc aacgcactcc aaatttaacg accgcatggc gacgccactg 5040 atctcccagt catccgtgct ccgagggcac ttaaggggaa ccgattcact gatgctgcaa 5100 gttggcgggg gcgcactcac caatggaaga tgagggagcc caacgatgcc ccgaactacc 5160 gcaccgtccc cagcaccgtg tccttgtgag taatattt 5198 // ID Merlin1_CI repbase; DNA; CIN; 1791 BP. XX AC . XX DT 16-JUN-2003 (Rel. 4.01, Created) DT 16-JUN-2003 (Rel. 4.01, Last updated, Version 1) XX DE DNA transposon Merlin1_CI - a consensus. XX KW DNA transposon; Merlin/IS1016 superfamily; 9-bp TSD; Merlin1m_CI; KW Merlin1_CI. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RP 1-1791 RA Feschotte C. and Wessler R.S.; RT "Merlin1_CI, a family of Merlin/IS1016-like DNA transposons from RT the sea squirt Ciona intestinalis."; RL Repbase Reports 3(5), 93-93 (2003). XX DR [1] (Consensus) XX CC The Merlin1_CI family is one of the founding members of a new CC superfamily of eukaryotic DNA transposons related to the IS1016 CC group of bacterial insertion sequences. There are at least 3 CC copies CC of Merlin1_CI containing large ORFs in the C. intestinalis draft CC genome sequence (WGS assembly 1.0, 116.7 Mb). The sequence below CC is a consensus constructed from these 3 copies. Merlin1_CI has CC been CC recently active because the three copies are ~94-98% similar to CC the CC consensus. Merlin1_CI are related and have probably provided the CC transposase to a large family of nonautonomous elements CC (Merlin1m_CI, CC see description in RR). The Merlin1_CI consensus sequence is CC 1791-bp CC long with 155-bp TIRs (8 mismatches). It contains one predicted CC gene CC (positions 518-1435), which can encode a 273-aa protein, CC Merlin1_CIp. CC The C-terminal half of this protein has strong similarity with CC the CC putative transposases of IS1016 from Haemophilus influenzae (and CC related IS) and with ORFs from a wide range of eukaryotes, CC including CC other ascidians (annotated transposase, GenBank AAM76104), CC nematodes, CC flat worms, mosquito (described previosly in the AF293351 GenBank CC locus CC as an IS1016-like insertion), zebrafish, Xenopus and humans. Many CC of CC these ORFs are clearly parts of transposable elements. CC Multiple alignments reveal that the most conserved domain CC of these proteins contains a putative DDE motif (D(60)D(36)E in CC Merlin1_CIp). A HTH DNA-binding domain is predicted in the CC N-terminal CC region of Merlin1_CIp. Thus, this protein is likely to represent CC the CC Merlin1_CI transposase. Merlin1_CI elements create a 9-bp TSD CC upon CC insertion, unlike most other members of the Merlin/IS1016, which CC create an 8-bp TSD. There may be other lineages of Merlin CC transposases CC in Ciona intestinalis. CC Putative Merlin1_CIp transposase: CC MQKDFEGENSESLPCIRCKSCGTYVSPRKNSFFAFMDNRNRANVKISYKQVMAILINWVQRVPVGTTQQ CC NYGFGAHTVTDWYNFCREMCMLGFSKREPMGGPNTIVEIDESLLRGKRKYNRAGIEGPWIFGMCHVTVD CC SEGARSTQEVRFFHVLRRDKQTLLPIIQNEVLPSTTIHSDQWAAYTGLDQLGYSHQSVNHSENFIDPQT CC GAHTQTIESTWHHMKTTLLRNMRGVEPELLDSYLAELWARKLYRDHAALLEKLFDWIVEAYPIRNI. XX SQ Sequence 1791 BP; 504 A; 380 C; 393 G; 508 T; 6 other; ggtaatcctg ccgctggtga ccagtgaaaa ttttggtctc aaaatgttcc ttacgtctct 60 ctgatactcg ctgtatatat ttaaaaaaaa caaactcggg cgttcgtatc gaaaattaac 120 tttgaaaatc cgcgaaaaac tgctgcgtca ccgtactcgc ctgtgctgaa caaaatcaac 180 gaatatatgg ttacattatg acgtcacata gtagttacgt caaaatgatg gaaaatccgt 240 tctgttacgt cataatacaa ccctaaatat atataccggt ccacgtgttg cgaaactcct 300 ttttttgctc aaaattttaa cttgtactct ataacgatgg cattttttcc acacatgcaa 360 gccattattg cggatgcaga caaattacaa ggttacttac tagaaaaaaa tcttatacgg 420 ggtccatctt cttttgatcg atgcccgaac cgaagttgtc gcaagagtat actcttgttt 480 ggggtagccg gcggagaccc ctgaacgcag caagctcatg caaaaagatt ttgagggcga 540 gaactcagaa tctttgccgt gtattcgatg caaatcttgc ggcacgtatg tttccccgag 600 aaaaaattca ttttttgcct ttatggataa ccggaaccgt gccaatgtta aaatcagcta 660 taagcaggtt atggccattt taattaactg ggtgcaacgg gtacccgtcg gcacaacgca 720 acagaactat ggttttggcg cacacacagt tactgattgg tataatttct gtcgagaaat 780 gtgcatgctg ggatttagca agagagagcc catgggaggt ccaaacacga tcgtggaaat 840 tgatgagtct cttcttcggg gcaagaggaa gtataaccgt ggcaggttac ttcgtggtga 900 cgtccgagaa gacgatgtca atgacacgga cgatgaggac ctggtcgcgc atgtatctga 960 cgcccgcaat tacggttcca ggatcgaagg accatggatt tttgggatgt gtcatgtcac 1020 cgtcgactcg gaaggggcaa ggtctacaca agaagtgcgt ttttttcacg ttttaaggcg 1080 tgataaacag accttgctcc caatcattca aaacgaagtc ctccccagta ccaccataca 1140 ctccgatcaa tgggcagctt acactggatt ggaccagctc gggtattcgc accagtctgt 1200 caatcacagc gagaacttca ttgatccgca gactggcgca cacacacaga ccattgagtc 1260 cacgtggcac cacatgaaga cgacactact ccgcaatatg cgaggtgttg agcctgagtt 1320 actggattcc tatttggcag agctttgggc aagaaagttg taccgcgacc acgccgcatt 1380 attggagaag ctttttgact ggatcgttga agcttatccg atccgcaata tttaattttt 1440 ttatttattt tttttatttt gaacagttct ttttagagct acgagccttc gggttcactt 1500 ttaaacaagt atttatgaaa taagattagt tatttgcgct akttcacgca ataagacaag 1560 ttttctattg tgacgtcata gttgtattgt gacgttaaaa acbgcctttt acttataggt 1620 aaacaatatg gcgcatgcaa ttacggtgac gcagcagttt ttcgcagatt ttcaaagtta 1680 attttcgata cgaacgcccg agtttttttt aaaatataca gcgagtatcw gggagwcgta 1740 agraayattt tgagaccaaa attttcactg gtcaccagcg gcaggattac c 1791 // ID Merlin1m_CI repbase; DNA; CIN; 605 BP. XX AC . XX DT 16-JUN-2003 (Rel. 4.01, Created) DT 16-JUN-2003 (Rel. 4.01, Last updated, Version 1) XX DE Nonautonomous DNA transposon Merlin1m_CI - a consensus. XX KW nonautonomous DNA transposon; Merlin/IS1016 superfamily; 9-bp TSD; KW Merlin1m_CI; Merlin1_CI. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RP 1-605 RA Feschotte C. and Wessler R.S.; RT "Merlin1m_CI, a family of nonautonomous Merlin/IS1016-like DNA RT transposons from the sea squirt Ciona intestinalis."; RL Repbase Reports 3(5), 96-96 (2003). XX DR [1] (Consensus) XX CC Merlin1m_CI is a family of nonautonomous elements related to the CC Merlin1_CI family. There are ~250 Merlin_Ci1m elements in the C. CC intestinalis draft genome sequence (WGS assembly 1.0, 116.7 Mb). CC The sequence below is a consensus constructed from 20 copies CC extracted from the database. Elements can be grouped into CC subfamilies CC that range in size from 400 to 700 bp and have 90-99% similarity CC to CC the consensus. Some subfamilies have recently expanded because CC they are very homogeneous in length and sequence. The Merlin1m_CI CC consensus sequence is 605-bp long with 155-bp TIRs (5 CC mismatches). CC The TIRs are almost identical to those of the Merlin_Ci1 CC consensus, CC but the internal 295 bp are of unknown origin. Like Merlin1_CI, CC Merlin1m_CI elements create a 9-bp TSD upon insertion. XX SQ Sequence 605 BP; 170 A; 109 C; 132 G; 184 T; 10 other; ggtaatactg ccgctggtga ccagtgaaaa ttttggtctc aaaatgttcc ttacgtctcc 60 ctgatactcg ctgtataatt ttttttwaaa aaactcgggc gttcgtatcg aaaattaact 120 ttgaaaatgc gcgaaatcgt gctgcgtcac cgtattttcc acacgagccg tcaaaggtta 180 gattatkacg tcatagaatg cgtattacma cctttgattt cwacgttaca gattacgtaa 240 tttgttagtt tttttrgatt tagrggttrs gggttaaamg taggggttag ggttgggtta 300 agggttaggg cttggggttt tccctagcat aaaacagtgc gaaaaacaag attataacgt 360 gctgtaacgt acgtaatatg tcactactgt gacgtaacat atcgctattg tgacgtaata 420 aatcgttaac cttacgcaag tcaggcgaat tacggtgacg cagcacgttt tcgcgcattt 480 tcaaagttaa ttttcgacac gaacgcccga gttttttcwa aaaaaaatta tacagcgggt 540 atcagggaga cgtaaggaac attttgagac caaaattttc actggtcacc agcggcagta 600 ttacc 605 // ID Cimi1_CI repbase; DNA; CIN; 193 BP. XX AC . XX DT 05-AUG-2003 (Rel. 8.07, Created) DT 05-AUG-2003 (Rel. 8.07, Last updated, Version 1) XX DE Cimi1_CI is a nonautonomous mariner-like DNA transposon - DE consensus. XX KW Mariner/Tc1; DNA transposon; Transposable Element; Nonautonomous; KW nonautonomous DNA transposon; mariner superfamily; Cimi1_CI. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RP 1-193 RA Simmen W.M. and Bird A.; RT "Sequence analysis of transposable elements in the sea squirt, RT Ciona intestinalis."; RL Mol. Biol. Evol 17, 1685-1694 (2000). XX DR [1] (Consensus) XX SQ Sequence 193 BP; 59 A; 35 C; 42 G; 57 T; 0 other; tagtagggtg ggggaagatg ggacaccttt agcacataat atccaaatat cctgatcgtg 60 ttttaaacaa ttaacaacgg tctatgggag tcgtgaggat acggttttat aattctttga 120 atgttctttg tttactacca aatgggacga gaaaatagaa tgaaaaggtg tcccatcttc 180 ccccacccta cta 193 // ID YURECi repbase; DNA; CIN; 5198 BP. XX AC AB097133; XX DT 17-NOV-2004 (Rel. 9.1, Created) DT 03-JUN-2009 (Rel. 9.1, Last updated, Version 3) XX DE Ciona intestinalis retrotransposon YURECi. XX KW NeSL; Non-LTR Retrotransposon; Transposable Element; KW reverse transcriptase; YURE_CI; YURECi. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RA Kojima K.K. and Fujiwara H.; RT "Cross-Genome Screening of Novel Sequence-Specific Non-LTR RT Retrotransposons: Various Multicopy RNA Genes and Microsatellites RT Are Selected as Targets."; RL Mol. Biol. Evol 21(2), 207-217 (2004). XX DR Genbank; AB097133; Positions 1 5198. XX SQ Sequence 5198 BP; 1108 A; 1515 C; 1337 G; 1238 T; 0 other; tcaatcaata aggaggtgtt ttctttggtc tgttgtttta tagtttaccg ttataatagt 60 ctgttgtcct atagttttcc gtggtgtatt tctggtctac tatagttggt gcctctaaaa 120 cattattata ccgaagagtg ctagcgattt ctattattaa ctcacccacc agtactgctg 180 tgcatccacg cagcaccacg cctgccatca cgtacagtgc gcttgctgcc ttgtgttttg 240 ttttgcagac accactggac gatagatggc gacttcgtct tcctccgttt catcggggaa 300 tgttcagacc gaggtgcgtt gcgtctacca cggaaaagga gacttgttgc tggaatgccc 360 agttgcccat tgccctagca tacaccccac agttgccaca atcacaaaac acttaaaaaa 420 acatcacaca cctcaattcg aacagataac cactaaaaat ctcacaataa catatacatg 480 cagtcaatgt agtttctcca ccaccggtct cacacaacac cacatatcca aacactacaa 540 aacatgcaaa ggcgtgggcg ctgttcagga aggcaacaag ggtcgattct gctgccctgc 600 atgcggtacc aggtgggctc ttttgtgtaa ggcacggcac cattttaata atgtccactt 660 cgagtatgac acccctccaa ttgccgcttt ctctggcaca ccctataaac taaaaaaacg 720 gaaatttaca attattaata aggccctaac atattcatgc cctctccccc tcaaccaact 780 actttgccct ttgtggtcgt gctccctcac gatcttaaat aaacctcttt caagcgtgca 840 gcaggaaacg gcacatggcg acggctcaca aggccagagt tatgttccaa ctcagttgcg 900 gcaggtgctc agagcccgtt gccactgcgg aaaccctcca attggaaagg gccactgggc 960 atcttgccaa gggaagcgac cactctcttc acctaagggt gggcgcagtt cgcccactcc 1020 acctgctaat ctaaccctcc acttccttaa ctatctcccc ttccaacttc cctcacaaag 1080 ctcctccccc caaagtagca ccctcgaccc tacggcctgt aaagctcgag tccccatccc 1140 ctctttccta cgcggcgact gtgaagtcac ctttttcatc atcccctccg ttaattttta 1200 tagaccctac ctctcctacc ccctcaggat gttctggcgt aaccgaacat cctccggtca 1260 ctgttcccta caccgggtcg ttcgaggctt tgtccgagag cgactcgtcc cccatcctcg 1320 gtcgaaatcg ccggcgagga ctccccttga attcctctgc gagttccggc tcgcgggggt 1380 cttccccgat cctgggaagg tcgcgtccct tcgacccgta ccagctcccc ttacgctttg 1440 cctttctcca ccagtcgctg gtccaatgat ttcctgtgag gaccacagcg cccccccttc 1500 cgttcgctcg agctccccca ttcctaactc cccagcctcc gtaagctccg tggaggcgca 1560 cttgtctgac ttgttagaca aagtgtcttc cggagaactg cggccgctgt cccccaccct 1620 gccttcttca ggcttttttg gccctctgtt gccacccact ccccctcccc gacctacccc 1680 ctcggccgaa aaggcatctc cttcaggcct ttcctaccta ccctgcagag aagtaaaaat 1740 cgcgtccatt gcacggccat cccctgcctc acagagggtc ggctgcgacg cggaccgaac 1800 agggccttcg ctgaacccta attatcagca aacctccccc ccgtctactc cgagtttctc 1860 ccccatagtt agacccccta aattcccccg gtcgggcgcc aaagtaaatt ccaagtccaa 1920 accccccggc gtccgaccac gccgtgccaa gccaattgag ccagggaccg agtcggcatc 1980 acccgttgat gtcgacacta ttagtagttc ggttcaggaa ccttgtactc cagaaaacag 2040 aaccccggaa tttttttatg agcgaaagtg gctcgtgagt attttaaata ttcacgagcg 2100 ggagggatcc aatttttttc aatttaaccg ggatctggag tattggacgc agttgctttc 2160 aggctcccag aagggaggac gcgcgaagcg tgcgtcctac aatcgtggtg cggcgaacca 2220 agcgatgaaa aaccgcgatt ccggccgtaa ggatttcgat ccccggccgg tagcaggcca 2280 cagtagtgga ggtggcaccg agctcggttc gcggccacga taccctaagg gcgcacgtct 2340 tcgtgccgac ttctggaggg acatgaaagg gacggtccgt aagttacttg atggttcgaa 2400 cggtgagcgt cgctgcggga ttcccctcga tatcatagag cggaaattcc ggcaagtatc 2460 catgcccggc tggatagacc acagacggta cgcggccggc gcgtccccgt ccctagtaac 2520 ccaagctgaa acggatgttg ccatcaccag tgaggaagtt gaggcggtcc tcagtggcct 2580 aaacgttcag tccgctccgg gctcggatgg cctctcctat cgattttgga agggcctcga 2640 tcctagtggt cgattgttgt catgcctttt cgaaatcgtt aggaggcatg gtcgtattcc 2700 gggcgcgtgg ccgacttgta gcgtcatcct gctctgtaaa gatgctcagg gtgacgttca 2760 ggacgtggga aactggagac cgatcaccat ctgccgcact ctgtacaaat tgtacgcggc 2820 tgtgatcgcc agacgtattc agacttgggc gaaacagggc ggggtgctct cgcggctcca 2880 gaaagggttc atgccagttg agggtgtgtt tgagcacgtc ttcatgttgg ataccgtcct 2940 ttccgacgcc aagctgaggc gcaagaatct tcttgccgtc ttccttgacg ttcggaatgc 3000 gttcggaagc gtccggcatg aatgcttgct caaagttctt cggcacttcg atgctcccca 3060 ttacctggtt gaactcgtga gggatattta caccggtgcg acctgccgtg ttagatcttc 3120 ggttggtgag accggtgata taccctgtga tcgaggtgtc aggcagggct atcccctgtc 3180 tggcattctt ttcaacctgg taacggaggt gctaataccg gggctcagtg ccgggaatga 3240 tggctaccgg atggcttgct taggtggtaa gctcactcaa gtcctggcct acgctgacga 3300 tctggtggta gtcacggaaa accgtgatca gatgctacgt cagctgggtg tgtgtgagga 3360 attcggccgt tgggcaggcc ttgcattcaa tcaacggaag tgtggcctga tcggctggag 3420 gacgttgcgg ggagggagga gggtcgcact ggaggatcct ctgctcctta acggagtaga 3480 gatccccctg ttgcggcccg gtgaacacta taaatacctt ggcgccatga ctggcgtcat 3540 gagtgttccc cgcaccggat cccagctgat caaggacttc cgtgcaaggc tccaacgact 3600 gtttacatcg ttcctcacac cacaccagaa gctgatcgct ctgaaacggt ttctgctgcc 3660 aagtctcagc tttcatctga gggttcgtcc gattgcgcgg tctgagctga tcgcgctcga 3720 ccgtcgcgtg cgcgagtgcc ttagggtggc gtttcgcttg accaagccct cgtgtcaggc 3780 tgtgtttcat acaccgactg acatggatgg tctgggtgtc ccgtcggtat gcagtgagag 3840 cagcatactg acgatcgccc aggggttcaa ggtgttaacg tcacccgacg gcacagtgtc 3900 cgcgacggct tcggcgcgcg tgaagctcta cgccgctaaa tttggcggcc tcactgaagc 3960 aggtccttcg gactgggcgc gttatctatc tggtgatgac gtcaacggga atagcactcg 4020 caaacccggc gctaacctgc cttctggtct gtggactcgc gtccgctgtg ccagcaggca 4080 gttaggtgct gtgtggcgcg tttgcccgga aaacggcatc actgtccggg tgcgtaattc 4140 tgtgattacc tcccgagacc gacggaagct catcagatcc ttccacgatt gctctaatca 4200 gcagtggaag gagcagtgga tgcagcaccc caaccaggag aagaccgctg cagcgcatat 4260 ggcttatgcc gatgcgaacc gctgggtgaa gcagccgtcg gttatggaac ctcatacata 4320 cttttttgca ttgagggcgc gcttgaacct gttacccact agggtttcac gagctattta 4380 tagcagggac caacacccgg acattttatg ccgacgttgt ggtgcgtcag ttgagtccct 4440 cccgcatgta ctaaaccatt gtcctcccaa tatgagcata atactcggga ggcataattt 4500 ggtactgcag gaggttctga acgcggtaga caaaacccag ttcaaagaga tatccgttga 4560 ccgaacggtc cccgagcaca tgtcggagac aggtgaggcc ttgcggcctg acatagtggc 4620 acggcggaat gacggttccg tcgtggtcgt cgacgtggct tgcccgttcg atcaaaaggc 4680 gaactttgat gaggcggcaa aacggaagct cctaaagtac gacaagcttt gttgcaatat 4740 cgctgcctcc acaggtaaac ctgtggagtg tcattcgata gtcgtgggct ccttggggag 4800 cctcgcggag ggtctgtcca cctccctccg ggctttggga ataaccgatt ttgctcgctc 4860 taagcttgtc gcttgccatc aagggtagcc aaaagatttg gtgttcttgg cgagctgcag 4920 tcccggcaga gtaggcgaga tcgtgagctc tacaccgctt cacgatttga cgagttcttc 4980 ttgagtcgat ccccaacggc aacgcactcc aaatttaacg accgcatggc gacgccactg 5040 atctcccagt catccgtgct ccgagggcac ttaaggggaa ccgattcact gatgctgcaa 5100 gttggcgggg gcgcactcac caatggaaga tgagggagcc caacgatgcc ccgaactacc 5160 gcaccgtccc cagcaccgtg tccttgtgag taatattt 5198 // ID YURE_CI repbase; DNA; CIN; 5198 BP. XX AC AB097133; XX DT 17-NOV-2004 (Rel. 9.1, Created) DT 17-NOV-2004 (Rel. 9.1, Last updated, Version 1) XX DE Ciona intestinalis retrotransposon YURECi. XX KW Non-LTR Retrotransposon; Transposable Element; KW reverse transcriptase; YURE_CI. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RA Kojima K.K. and Fujiwara H.; RT "Cross-Genome Screening of Novel Sequence-Specific Non-LTR RT Retrotransposons: Various Multicopy RNA Genes and Microsatellites RT Are Selected as Targets."; RL Mol. Biol. Evol 21(2), 207-217 (2004). XX DR Genbank; AB097133; Positions 1 5198. XX SQ Sequence 5198 BP; 1108 A; 1515 C; 1337 G; 1238 T; 0 other; tcaatcaata aggaggtgtt ttctttggtc tgttgtttta tagtttaccg ttataatagt 60 ctgttgtcct atagttttcc gtggtgtatt tctggtctac tatagttggt gcctctaaaa 120 cattattata ccgaagagtg ctagcgattt ctattattaa ctcacccacc agtactgctg 180 tgcatccacg cagcaccacg cctgccatca cgtacagtgc gcttgctgcc ttgtgttttg 240 ttttgcagac accactggac gatagatggc gacttcgtct tcctccgttt catcggggaa 300 tgttcagacc gaggtgcgtt gcgtctacca cggaaaagga gacttgttgc tggaatgccc 360 agttgcccat tgccctagca tacaccccac agttgccaca atcacaaaac acttaaaaaa 420 acatcacaca cctcaattcg aacagataac cactaaaaat ctcacaataa catatacatg 480 cagtcaatgt agtttctcca ccaccggtct cacacaacac cacatatcca aacactacaa 540 aacatgcaaa ggcgtgggcg ctgttcagga aggcaacaag ggtcgattct gctgccctgc 600 atgcggtacc aggtgggctc ttttgtgtaa ggcacggcac cattttaata atgtccactt 660 cgagtatgac acccctccaa ttgccgcttt ctctggcaca ccctataaac taaaaaaacg 720 gaaatttaca attattaata aggccctaac atattcatgc cctctccccc tcaaccaact 780 actttgccct ttgtggtcgt gctccctcac gatcttaaat aaacctcttt caagcgtgca 840 gcaggaaacg gcacatggcg acggctcaca aggccagagt tatgttccaa ctcagttgcg 900 gcaggtgctc agagcccgtt gccactgcgg aaaccctcca attggaaagg gccactgggc 960 atcttgccaa gggaagcgac cactctcttc acctaagggt gggcgcagtt cgcccactcc 1020 acctgctaat ctaaccctcc acttccttaa ctatctcccc ttccaacttc cctcacaaag 1080 ctcctccccc caaagtagca ccctcgaccc tacggcctgt aaagctcgag tccccatccc 1140 ctctttccta cgcggcgact gtgaagtcac ctttttcatc atcccctccg ttaattttta 1200 tagaccctac ctctcctacc ccctcaggat gttctggcgt aaccgaacat cctccggtca 1260 ctgttcccta caccgggtcg ttcgaggctt tgtccgagag cgactcgtcc cccatcctcg 1320 gtcgaaatcg ccggcgagga ctccccttga attcctctgc gagttccggc tcgcgggggt 1380 cttccccgat cctgggaagg tcgcgtccct tcgacccgta ccagctcccc ttacgctttg 1440 cctttctcca ccagtcgctg gtccaatgat ttcctgtgag gaccacagcg cccccccttc 1500 cgttcgctcg agctccccca ttcctaactc cccagcctcc gtaagctccg tggaggcgca 1560 cttgtctgac ttgttagaca aagtgtcttc cggagaactg cggccgctgt cccccaccct 1620 gccttcttca ggcttttttg gccctctgtt gccacccact ccccctcccc gacctacccc 1680 ctcggccgaa aaggcatctc cttcaggcct ttcctaccta ccctgcagag aagtaaaaat 1740 cgcgtccatt gcacggccat cccctgcctc acagagggtc ggctgcgacg cggaccgaac 1800 agggccttcg ctgaacccta attatcagca aacctccccc ccgtctactc cgagtttctc 1860 ccccatagtt agacccccta aattcccccg gtcgggcgcc aaagtaaatt ccaagtccaa 1920 accccccggc gtccgaccac gccgtgccaa gccaattgag ccagggaccg agtcggcatc 1980 acccgttgat gtcgacacta ttagtagttc ggttcaggaa ccttgtactc cagaaaacag 2040 aaccccggaa tttttttatg agcgaaagtg gctcgtgagt attttaaata ttcacgagcg 2100 ggagggatcc aatttttttc aatttaaccg ggatctggag tattggacgc agttgctttc 2160 aggctcccag aagggaggac gcgcgaagcg tgcgtcctac aatcgtggtg cggcgaacca 2220 agcgatgaaa aaccgcgatt ccggccgtaa ggatttcgat ccccggccgg tagcaggcca 2280 cagtagtgga ggtggcaccg agctcggttc gcggccacga taccctaagg gcgcacgtct 2340 tcgtgccgac ttctggaggg acatgaaagg gacggtccgt aagttacttg atggttcgaa 2400 cggtgagcgt cgctgcggga ttcccctcga tatcatagag cggaaattcc ggcaagtatc 2460 catgcccggc tggatagacc acagacggta cgcggccggc gcgtccccgt ccctagtaac 2520 ccaagctgaa acggatgttg ccatcaccag tgaggaagtt gaggcggtcc tcagtggcct 2580 aaacgttcag tccgctccgg gctcggatgg cctctcctat cgattttgga agggcctcga 2640 tcctagtggt cgattgttgt catgcctttt cgaaatcgtt aggaggcatg gtcgtattcc 2700 gggcgcgtgg ccgacttgta gcgtcatcct gctctgtaaa gatgctcagg gtgacgttca 2760 ggacgtggga aactggagac cgatcaccat ctgccgcact ctgtacaaat tgtacgcggc 2820 tgtgatcgcc agacgtattc agacttgggc gaaacagggc ggggtgctct cgcggctcca 2880 gaaagggttc atgccagttg agggtgtgtt tgagcacgtc ttcatgttgg ataccgtcct 2940 ttccgacgcc aagctgaggc gcaagaatct tcttgccgtc ttccttgacg ttcggaatgc 3000 gttcggaagc gtccggcatg aatgcttgct caaagttctt cggcacttcg atgctcccca 3060 ttacctggtt gaactcgtga gggatattta caccggtgcg acctgccgtg ttagatcttc 3120 ggttggtgag accggtgata taccctgtga tcgaggtgtc aggcagggct atcccctgtc 3180 tggcattctt ttcaacctgg taacggaggt gctaataccg gggctcagtg ccgggaatga 3240 tggctaccgg atggcttgct taggtggtaa gctcactcaa gtcctggcct acgctgacga 3300 tctggtggta gtcacggaaa accgtgatca gatgctacgt cagctgggtg tgtgtgagga 3360 attcggccgt tgggcaggcc ttgcattcaa tcaacggaag tgtggcctga tcggctggag 3420 gacgttgcgg ggagggagga gggtcgcact ggaggatcct ctgctcctta acggagtaga 3480 gatccccctg ttgcggcccg gtgaacacta taaatacctt ggcgccatga ctggcgtcat 3540 gagtgttccc cgcaccggat cccagctgat caaggacttc cgtgcaaggc tccaacgact 3600 gtttacatcg ttcctcacac cacaccagaa gctgatcgct ctgaaacggt ttctgctgcc 3660 aagtctcagc tttcatctga gggttcgtcc gattgcgcgg tctgagctga tcgcgctcga 3720 ccgtcgcgtg cgcgagtgcc ttagggtggc gtttcgcttg accaagccct cgtgtcaggc 3780 tgtgtttcat acaccgactg acatggatgg tctgggtgtc ccgtcggtat gcagtgagag 3840 cagcatactg acgatcgccc aggggttcaa ggtgttaacg tcacccgacg gcacagtgtc 3900 cgcgacggct tcggcgcgcg tgaagctcta cgccgctaaa tttggcggcc tcactgaagc 3960 aggtccttcg gactgggcgc gttatctatc tggtgatgac gtcaacggga atagcactcg 4020 caaacccggc gctaacctgc cttctggtct gtggactcgc gtccgctgtg ccagcaggca 4080 gttaggtgct gtgtggcgcg tttgcccgga aaacggcatc actgtccggg tgcgtaattc 4140 tgtgattacc tcccgagacc gacggaagct catcagatcc ttccacgatt gctctaatca 4200 gcagtggaag gagcagtgga tgcagcaccc caaccaggag aagaccgctg cagcgcatat 4260 ggcttatgcc gatgcgaacc gctgggtgaa gcagccgtcg gttatggaac ctcatacata 4320 cttttttgca ttgagggcgc gcttgaacct gttacccact agggtttcac gagctattta 4380 tagcagggac caacacccgg acattttatg ccgacgttgt ggtgcgtcag ttgagtccct 4440 cccgcatgta ctaaaccatt gtcctcccaa tatgagcata atactcggga ggcataattt 4500 ggtactgcag gaggttctga acgcggtaga caaaacccag ttcaaagaga tatccgttga 4560 ccgaacggtc cccgagcaca tgtcggagac aggtgaggcc ttgcggcctg acatagtggc 4620 acggcggaat gacggttccg tcgtggtcgt cgacgtggct tgcccgttcg atcaaaaggc 4680 gaactttgat gaggcggcaa aacggaagct cctaaagtac gacaagcttt gttgcaatat 4740 cgctgcctcc acaggtaaac ctgtggagtg tcattcgata gtcgtgggct ccttggggag 4800 cctcgcggag ggtctgtcca cctccctccg ggctttggga ataaccgatt ttgctcgctc 4860 taagcttgtc gcttgccatc aagggtagcc aaaagatttg gtgttcttgg cgagctgcag 4920 tcccggcaga gtaggcgaga tcgtgagctc tacaccgctt cacgatttga cgagttcttc 4980 ttgagtcgat ccccaacggc aacgcactcc aaatttaacg accgcatggc gacgccactg 5040 atctcccagt catccgtgct ccgagggcac ttaaggggaa ccgattcact gatgctgcaa 5100 gttggcgggg gcgcactcac caatggaaga tgagggagcc caacgatgcc ccgaactacc 5160 gcaccgtccc cagcaccgtg tccttgtgag taatattt 5198 // ID Foldback1N_CI repbase; DNA; CIN; 2444 BP. XX AC 1764010; XX DT 05-AUG-2003 (Rel. 8.07, Created) DT 05-AUG-2003 (Rel. 8.07, Last updated, Version 1) XX DE Foldback1N_CI is a nonautonomous DNA transposon - consensus. XX KW DNA transposon; Transposable Element; Nonautonomous; KW nonautonomous DNA transposon; Foldback1N_CI. XX OS Ciona intestinalis OC Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Enterogona; OC Phlebobranchia; Cionidae; Ciona. XX RN [1] RP 1-2444 RA Simmen W.M. and Bird A.; RT "Sequence analysis of transposable elements in the sea squirt, RT Ciona intestinalis."; RL Mol. Biol. Evol 17, 1685-1694 (2000). XX DR Genbank; 1764010; Positions 18327 20770. XX SQ Sequence 2444 BP; 828 A; 441 C; 407 G; 768 T; 0 other; ggtaccagat aatctcatac cgctgcaggt caccgttgcc tttttccttt gcgtttctct 60 cgtttaacaa ttggttgatt atgtcgtcag ttaggtaact gtgtgtccca cgaataatat 120 acgagtcaag agtctgacag ttgcaggtcg tttttttaaa gtagtcttac agtttcaggt 180 cgtttttata cagtagtctt acagttgcag gtcgtttttg taaagtagtc tgacagttgc 240 aggtcgtttt tataaagtag tcttacagtt gcaggtcgtt tttataaagt agtctgacag 300 ttgcaggtcg tttttataaa gtagtcgtac agttgcaggt cgtttttata aagtagtctt 360 acagttgcag gtcgtttttg taaagtagtc tggccgtttt tataaagtag tcgtacagtt 420 gcaggtcgtt tttataaagt agtcgtacag ttgcaggtca tttttataaa tcagtcctac 480 agttgcaggt cgtttttata aagtagtcgt acagttgcag gtcgttttta taaagtagtc 540 ttacagttgc aggtcgtttt tgtaaagtag tctggccgtt tttataaagt agtcgtacag 600 ttgcaggtcg tttttataaa gtagtcgtac agttgcaggt catttttata aatcagtcct 660 acagttgcag gtcgttttta aaagcagtct tacagtccta cacagttttt ttgtttcatc 720 tataaatttt gtaacatcat tccagtttgg atgcaattca caaatttgaa acagacacag 780 ttacaaaatt tgatgttttt attttagaat tctgaaactt ttattacaaa attacctatt 840 tgcattttac agatgtaaaa aatgtaaagt tcagtttggt tctaaagatg gtattccatt 900 tgtttgtaaa tcctatacaa aactggaatg tcagcatttg gaccaaacag agcaattgaa 960 actccatctg taaatatttg tggttcatga acttttccaa aacgctacac ctccacagtc 1020 aactaacaga agattctttc caacaaaaaa acgacattag caatcactat cattgtatca 1080 tattgcatat acaaagcaca agctgtcaaa aattgatgaa ccagatgatg ttcaattcct 1140 ggtggtccca tggtgtcaac aaatcacctg aagatagcat atttccttta ggccgtacat 1200 tgccagtgtc agtccgaaac agccagatag tgacatggtc attgctgatt ttcgcttgtt 1260 ttattctaga aaaatatcaa agatgaacaa cagtgtatat ttacaactta caacacaagt 1320 ttaaaattaa tgacttacga ttttgatctc tttttttatt tttaaagtgc ccagcggcac 1380 cccctttgct tgggccgatt tgatcggaag tcgaaatttt gttccatcta aaaatttatg 1440 caaaaaatgt attacacacc acaccctctc gcatgagaaa attgttaatg tatttgttgg 1500 taagatataa ttaagagtac tataaaattg caaatataaa aaaatgataa taaaacatgc 1560 ttttaaatac caacaacagt ggccaaatta aaacaaatac caataacagt ggccaatact 1620 tacattttta aataacaatt tgattgtaac atatgttctg taataataat aaaaagaaac 1680 ggttgggcaa tttaaacatc aacaaatata taattggaaa ttggaatgat attacaaaat 1740 ttgtagatga aacaaaaaac tgtaagacta ctttataaaa acgacctgca actgtaagac 1800 tactttataa aaacgacctg caactgtaag actactttat aaaaacgacc tgcaactgta 1860 agactacttt acaaaaacga cctgcaactg taagactact ttacaaaaac gacctgcaac 1920 tgtaagacta ctttataaaa acgacctgca actgtaagac tactttacaa aaacgacctg 1980 caactgtcag actactttat aaaaacgaca tgcaactgtc agactacttt acaaaaacga 2040 cctgcaactg taagactatt ttataaaaac gacctgcaac tgtaagacta ctttataaaa 2100 acgcgacctg caactgtcag actactttat aaaaacgacc tgcaactgtc agactacttt 2160 ataaaaacga cctgcaactg taagactact ttacaaaaac gacctgcaac tgtcagacta 2220 ctttataaaa acgacctgaa actgtaagac tactttataa aaacgacctg aaactgtaag 2280 actactttaa aaaaacgacc tgcaactgtc agactcttga ctcgtatatt attcgtgggc 2340 acacagttac ccaactgacg acataatcaa ccaattgtta aacgagagaa acgcaaaaga 2400 aaaaggcaac ggtgacctgc agcggtatga gattatctgg tacc 2444 //