Schema for SNAP - SNAP Gene Predictions

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Schema for SNAP - SNAP Gene Predictions

Database: DgriCAF1 Primary Table: snap Row Count: 16,002 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	scaffold_10012-snap.1	`varchar(255)`	values
`chrom`	scaffold_10012	`varchar(255)`	values
`strand`	+	`char(1)`	values
`txStart`	66	`int(10) unsigned`	range
`txEnd`	933	`int(10) unsigned`	range
`cdsStart`	66	`int(10) unsigned`	range
`cdsEnd`	933	`int(10) unsigned`	range
`exonCount`	2	`int(10) unsigned`	range
`exonStarts`	66,801,	`longblob`
`exonEnds`	375,933,	`longblob`
`score`	0	`int(11)`	range
`name2`	gene.scaffold_10012-snap.1	`varchar(255)`	values
`cdsStartStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`cdsEndStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`exonFrames`	0,0,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds	score	name2	cdsStartStat	cdsEndStat	exonFrames
585	scaffold_10012-snap.1	scaffold_10012	+	66	933	66	933	2	66,801,	375,933,	0	gene.scaffold_10012-snap.1	unk	unk	0,0,
585	scaffold_10016-snap.1	scaffold_10016	+	2	385	2	385	2	2,240,	178,385,	0	gene.scaffold_10016-snap.1	unk	unk	0,2,
585	scaffold_10024-snap.1	scaffold_10024	+	886	1311	886	1311	2	886,1086,	1034,1311,	0	gene.scaffold_10024-snap.1	unk	unk	0,1,
585	scaffold_10027-snap.1	scaffold_10027	+	158	969	158	969	5	158,485,625,806,949,	421,560,725,894,969,	0	gene.scaffold_10027-snap.1	unk	unk	0,2,2,0,1,
585	scaffold_10030-snap.1	scaffold_10030	-	475	1182	475	1182	4	475,557,851,1175,	503,610,1003,1182,	0	gene.scaffold_10030-snap.1	unk	unk	2,0,1,0,
585	scaffold_10033-snap.1	scaffold_10033	+	659	884	659	884	1	659,	884,	0	gene.scaffold_10033-snap.1	unk	unk	0,
585	scaffold_10058-snap.1	scaffold_10058	+	166	862	166	862	2	166,853,	470,862,	0	gene.scaffold_10058-snap.1	unk	unk	2,0,
585	scaffold_10059-snap.1	scaffold_10059	-	320	1943	320	1943	3	320,1474,1685,	377,1621,1943,	0	gene.scaffold_10059-snap.1	unk	unk	0,0,0,
585	scaffold_10066-snap.1	scaffold_10066	+	310	660	310	660	2	310,502,	442,660,	0	gene.scaffold_10066-snap.1	unk	unk	0,0,
585	scaffold_10076-snap.1	scaffold_10076	+	814	1081	814	1081	1	814,	1081,	0	gene.scaffold_10076-snap.1	unk	unk	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