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

Database: DrhoGB2 Primary Table: modencode_transdecoder Row Count: 29,403

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	DrhoGB2_eggs_CUFF.7.1_m.13	`varchar(255)`	values
`chrom`	AFPP02000017	`varchar(255)`	values
`strand`	+	`char(1)`	values
`txStart`	801	`int(10) unsigned`	range
`txEnd`	2574	`int(10) unsigned`	range
`cdsStart`	2313	`int(10) unsigned`	range
`cdsEnd`	2574	`int(10) unsigned`	range
`exonCount`	1	`int(10) unsigned`	range
`exonStarts`	801,	`longblob`
`exonEnds`	2574,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds
585	DrhoGB2_eggs_CUFF.7.1_m.13	AFPP02000017	+	801	2574	2313	2574	1	801,	2574,
585	DrhoGB2_eggs_CUFF.5.1_m.19	AFPP02000026	+	3	1269	3	1268	2	3,938,	150,1269,
585	DrhoGB2_eggs_CUFF.6.1_m.22	AFPP02000029	-	0	1075	27	1073	2	0,923,	318,1075,
585	DrhoGB2_males_CUFF.6.1_m.12	AFPP02000033	-	3	1289	95	1288	3	3,180,1020,	126,376,1289,
585	DrhoGB2_males_CUFF.9.1_m.15	AFPP02000044	-	8	1731	8	1694	6	8,89,563,692,1541,1662,	37,459,632,1110,1598,1731,
585	DrhoGB2_eggs_CUFF.11.1_m.27	AFPP02000058	+	3	1166	4	250	1	3,	1166,
585	DrhoGB2_males_CUFF.15.1_m.25	AFPP02000060	+	3	982	64	982	2	3,766,	250,982,
585	DrhoGB2_eggs_CUFF.15.1_m.30	AFPP02000067	+	50	891	51	371	2	50,125,	66,891,
585	DrhoGB2_females_CUFF.2.1_m.2	AFPP02000067	+	123	1034	125	371	1	123,	1034,
585	DrhoGB2_eggs_CUFF.13.1_m.33	AFPP02000069	-	30	1150	32	1150	2	30,1101,	403,1150,

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