Schema for SNAP - SNAP Gene Predictions

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Schema for SNAP - SNAP Gene Predictions

Database: DsuzGB1 Primary Table: snap Row Count: 21,370 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	AWUT01013449-snap.1	`varchar(255)`	values
`chrom`	AWUT01013449	`varchar(255)`	values
`strand`	+	`char(1)`	values
`txStart`	64458	`int(10) unsigned`	range
`txEnd`	69705	`int(10) unsigned`	range
`cdsStart`	64458	`int(10) unsigned`	range
`cdsEnd`	69705	`int(10) unsigned`	range
`exonCount`	5	`int(10) unsigned`	range
`exonStarts`	64458,64743,68518,69015,69648,	`longblob`
`exonEnds`	64494,64833,68665,69141,69705,	`longblob`
`score`	0	`int(11)`	range
`name2`	gene.AWUT01013449-snap.1	`varchar(255)`	values
`cdsStartStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`cdsEndStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`exonFrames`	0,0,0,0,0,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds	score	name2	cdsStartStat	cdsEndStat	exonFrames
585	AWUT01013449-snap.1	AWUT01013449	+	64458	69705	64458	69705	5	64458,64743,68518,69015,69648,	64494,64833,68665,69141,69705,	0	gene.AWUT01013449-snap.1	unk	unk	0,0,0,0,0,
585	AWUT01014064-snap.1	AWUT01014064	+	3676	4162	3676	4162	1	3676,	4162,	0	gene.AWUT01014064-snap.1	unk	unk	0,
585	AWUT01014064-snap.2	AWUT01014064	-	17849	28161	17849	28161	4	17849,20056,20402,28149,	17885,20341,20513,28161,	0	gene.AWUT01014064-snap.2	unk	unk	0,0,0,0,
585	AWUT01014734-snap.1	AWUT01014734	+	13067	19765	13067	19765	6	13067,16352,17219,17480,17725,18686,	13073,16460,17454,17659,17885,19765,	0	gene.AWUT01014734-snap.1	unk	unk	0,0,0,1,0,1,
585	AWUT01014734-snap.2	AWUT01014734	-	25556	30264	25556	30264	2	25556,29783,	27736,30264,	0	gene.AWUT01014734-snap.2	unk	unk	1,0,
585	AWUT01015089-snap.1	AWUT01015089	+	4149	4365	4149	4365	1	4149,	4365,	0	gene.AWUT01015089-snap.1	unk	unk	0,
585	AWUT01015096-snap.1	AWUT01015096	+	18709	19015	18709	19015	1	18709,	19015,	0	gene.AWUT01015096-snap.1	unk	unk	0,
585	AWUT01015145-snap.1	AWUT01015145	-	1105	8432	1105	8432	3	1105,3636,8385,	1267,3655,8432,	0	gene.AWUT01015145-snap.1	unk	unk	0,2,0,
585	AWUT01015145-snap.2	AWUT01015145	+	6534	19302	6534	19302	6	6534,9012,9514,11978,18225,19234,	6569,9238,9637,11987,18271,19302,	0	gene.AWUT01015145-snap.2	unk	unk	0,2,0,0,0,1,
585	AWUT01015145-snap.3	AWUT01015145	+	26555	28319	26555	28319	2	26555,27299,	27197,28319,	0	gene.AWUT01015145-snap.3	unk	unk	0,0,

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

SNAP (snap) Track Description


	Description This track shows predictions from the SNAP program written by Ian Korf. The predictions are based on transcriptional, translational, and donor/acceptor splicing signals, as well as the length and compositional distributions of exons, introns and intergenic regions. References Korf I. Gene finding in novel Genomes. BMC Bioinformatics 2004, 5:59