Schema for modENCODE TransDecoder Transcripts - D. suzukii TransDecoder Transcripts from modENCODE RNA-Seq

Database: DsuzGB1 Primary Table: modencode_transdecoder Row Count: 22,694

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	DsuzGB1_females_CUFF.1.1_m.15	`varchar(255)`	values
`chrom`	AWUT01012676	`varchar(255)`	values
`strand`	-	`char(1)`	values
`txStart`	519	`int(10) unsigned`	range
`txEnd`	3004	`int(10) unsigned`	range
`cdsStart`	2048	`int(10) unsigned`	range
`cdsEnd`	2360	`int(10) unsigned`	range
`exonCount`	1	`int(10) unsigned`	range
`exonStarts`	519,	`longblob`
`exonEnds`	3004,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds
585	DsuzGB1_females_CUFF.1.1_m.15	AWUT01012676	-	519	3004	2048	2360	1	519,	3004,
585	DsuzGB1_females_CUFF.5.1_m.23	AWUT01013449	-	211	3635	911	2933	1	211,	3635,
585	DsuzGB1_females_CUFF.6.1_m.34	AWUT01013449	+	7951	58780	8278	58779	6	7951,8440,56665,57355,57606,58731,	8365,9051,57299,57548,58676,58780,
585	DsuzGB1_males_CUFF.12.2_m.35	AWUT01013449	+	8088	58781	8278	57311	5	8088,8440,56665,57606,58731,	8365,9051,57548,58676,58781,
585	DsuzGB1_males_CUFF.12.1_m.43	AWUT01013449	+	8088	58032	8278	57359	6	8088,8440,56665,57355,57606,57866,	8365,9051,57295,57548,57815,58032,
585	DsuzGB1_males_CUFF.12.3_m.29	AWUT01013449	+	55024	63777	56822	63374	6	55024,56665,57355,57606,63272,63579,	55195,57299,57548,58676,63429,63777,
585	DsuzGB1_males_CUFF.15.1_m.54	AWUT01014658	+	27762	39319	27877	39319	5	27762,27979,28120,28226,39277,	27922,28047,28169,28394,39319,
585	DsuzGB1_females_CUFF.10.1_m.44	AWUT01014658	+	27808	39358	27877	39358	5	27808,27979,28120,28226,39277,	27922,28047,28169,28394,39358,
585	DsuzGB1_males_CUFF.23.1_m.78	AWUT01014734	+	1163	21099	17764	19765	6	1163,16352,17219,17480,17725,18686,	7728,16460,17418,17659,17885,21099,
585	DsuzGB1_females_CUFF.15.1_m.68	AWUT01014734	+	1561	16713	16312	16621	1	1561,	16713,

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

modENCODE TransDecoder Transcripts (modencode_transdecoder) Track Description


	Description This track shows the putative coding regions within Cufflinks transcripts that have been identified by TransDecoder. References Haas BJ et al. De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis. Nat Protoc. 2013 Aug;8(8):1494-512.

Description