Schema for SNAP - SNAP Gene Predictions

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Schema for SNAP - SNAP Gene Predictions

Database: DvirCAF1 Primary Table: snap Row Count: 15,242 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	scaffold_10024-snap.1	`varchar(255)`	values
`chrom`	scaffold_10024	`varchar(255)`	values
`strand`	+	`char(1)`	values
`txStart`	385	`int(10) unsigned`	range
`txEnd`	3890	`int(10) unsigned`	range
`cdsStart`	385	`int(10) unsigned`	range
`cdsEnd`	3890	`int(10) unsigned`	range
`exonCount`	2	`int(10) unsigned`	range
`exonStarts`	385,3192,	`longblob`
`exonEnds`	1447,3890,	`longblob`
`score`	0	`int(11)`	range
`name2`	gene.scaffold_10024-snap.1	`varchar(255)`	values
`cdsStartStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`cdsEndStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`exonFrames`	1,1,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds	score	name2	cdsStartStat	cdsEndStat	exonFrames
585	scaffold_10024-snap.1	scaffold_10024	+	385	3890	385	3890	2	385,3192,	1447,3890,	0	gene.scaffold_10024-snap.1	unk	unk	1,1,
585	scaffold_10051-snap.1	scaffold_10051	-	50	951	50	951	3	50,576,935,	478,864,951,	0	gene.scaffold_10051-snap.1	unk	unk	1,1,0,
585	scaffold_10055-snap.1	scaffold_10055	+	706	1272	706	1272	2	706,1236,	946,1272,	0	gene.scaffold_10055-snap.1	unk	unk	0,0,
585	scaffold_10060-snap.1	scaffold_10060	+	56	793	56	793	1	56,	793,	0	gene.scaffold_10060-snap.1	unk	unk	1,
585	scaffold_10191-snap.1	scaffold_10191	+	6	573	6	573	2	6,491,	386,573,	0	gene.scaffold_10191-snap.1	unk	unk	0,2,
585	scaffold_10221-snap.1	scaffold_10221	-	877	1166	877	1166	1	877,	1166,	0	gene.scaffold_10221-snap.1	unk	unk	0,
585	scaffold_10322-snap.1	scaffold_10322	+	45909	55184	45909	55184	5	45909,46999,53242,53452,55161,	45913,47143,53396,53601,55184,	0	gene.scaffold_10322-snap.1	unk	unk	0,1,1,2,1,
585	scaffold_10322-snap.2	scaffold_10322	+	57956	58668	57956	58668	3	57956,58224,58359,	58058,58266,58668,	0	gene.scaffold_10322-snap.2	unk	unk	0,0,0,
585	scaffold_10322-snap.3	scaffold_10322	-	59026	61517	59026	61517	3	59026,59213,61397,	59108,61321,61517,	0	gene.scaffold_10322-snap.3	unk	unk	2,0,0,
585	scaffold_10322-snap.4	scaffold_10322	-	62227	63856	62227	63856	5	62227,62491,62670,63414,63710,	62432,62607,62887,63642,63856,	0	gene.scaffold_10322-snap.4	unk	unk	2,0,2,2,0,

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