##gff-version 3
#
#Protein-Coding Genes
#
#We'll now look at how to represent several common cases, starting
#with protein-coding genes.
#
#The most general way of representing a protein-coding gene is the
#so-called "three-level gene." The top level is a feature of type
#"gene" which bundles up the gene's transcripts and regulatory
#elements. Beneath this level are one or more transcripts of type
#"mRNA". This level can also accommodate promoters and other
#cis-regulatory elements. At the third level are the components of the
#mRNA transcripts, most commonly CDS coding segments and UTRs. This
#example shows how to represent a gene named "EDEN" which has three
#alternatively-spliced mRNA transcripts:

ctg123	example	gene	1050	9000	.	+	.	ID=EDEN;Name=EDEN;Note=protein	kinase

ctg123	example	mRNA	1050	9000	.	+	.	ID=EDEN.1;Parent=EDEN;Name=EDEN.1;Index=1
ctg123	example	five_prime_UTR	1050	1200	.	+	.	Parent=EDEN.1
ctg123	example	CDS	1201	1500	.	+	0	Parent=EDEN.1
ctg123	example	CDS	3000	3902	.	+	0	Parent=EDEN.1
ctg123	example	CDS	5000	5500	.	+	0	Parent=EDEN.1
ctg123	example	CDS	7000	7608	.	+	0	Parent=EDEN.1
ctg123	example	three_prime_UTR	7609	9000	.	+	.	Parent=EDEN.1

ctg123	example	mRNA	1050	9000	.	+	.	ID=EDEN.2;Parent=EDEN;Name=EDEN.2;Index=1
ctg123	example	five_prime_UTR	1050	1200	.	+	.	Parent=EDEN.2
ctg123	example	CDS	1201	1500	.	+	0	Parent=EDEN.2
ctg123	example	CDS	5000	5500	.	+	0	Parent=EDEN.2
ctg123	example	CDS	7000	7608	.	+	0	Parent=EDEN.2
ctg123	example	three_prime_UTR	7609	9000	.	+	.	Parent=EDEN.2

ctg123	example	mRNA	1300	9000	.	+	.	ID=EDEN.3;Parent=EDEN;Name=EDEN.3;Index=1
ctg123	example	five_prime_UTR	1300	1500	.	+	.	Parent=EDEN.3
ctg123	example	five_prime_UTR	3000	3300	.	+	.	Parent=EDEN.3
ctg123	example	CDS	3301	3902	.	+	0	Parent=EDEN.3
ctg123	example	CDS	5000	5500	.	+	1	Parent=EDEN.3
ctg123	example	CDS	7000	7600	.	+	1	Parent=EDEN.3
ctg123	example	three_prime_UTR	7601	9000	.	+	.	Parent=EDEN.3