Schema for SNAP - SNAP Gene Predictions

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Schema for SNAP - SNAP Gene Predictions

Database: DbiaGB2 Primary Table: snap Row Count: 19,965 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	AFFD02000035-snap.1	`varchar(255)`	values
`chrom`	AFFD02000035	`varchar(255)`	values
`strand`	-	`char(1)`	values
`txStart`	703	`int(10) unsigned`	range
`txEnd`	943	`int(10) unsigned`	range
`cdsStart`	703	`int(10) unsigned`	range
`cdsEnd`	943	`int(10) unsigned`	range
`exonCount`	1	`int(10) unsigned`	range
`exonStarts`	703,	`longblob`
`exonEnds`	943,	`longblob`
`score`	0	`int(11)`	range
`name2`	gene.AFFD02000035-snap.1	`varchar(255)`	values
`cdsStartStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`cdsEndStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`exonFrames`	0,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds	score	name2	cdsStartStat	cdsEndStat	exonFrames
585	AFFD02000035-snap.1	AFFD02000035	-	703	943	703	943	1	703,	943,	0	gene.AFFD02000035-snap.1	unk	unk	0,
585	AFFD02000037-snap.1	AFFD02000037	+	2935	3990	2935	3990	4	2935,3051,3441,3906,	2990,3188,3846,3990,	0	gene.AFFD02000037-snap.1	unk	unk	0,1,0,0,
585	AFFD02000037-snap.2	AFFD02000037	+	5296	7468	5296	7468	3	5296,6079,6627,	6022,6162,7468,	0	gene.AFFD02000037-snap.2	unk	unk	0,0,2,
585	AFFD02000037-snap.3	AFFD02000037	+	9164	15215	9164	15215	11	9164,9460,10784,11264,12565,13046,13492,13650,14015,14363,15008,	9402,9668,11106,12474,12912,13445,13591,13961,14298,14528,15215,	0	gene.AFFD02000037-snap.3	unk	unk	0,1,2,0,1,0,0,0,2,0,0,
585	AFFD02000037-snap.4	AFFD02000037	-	19758	21645	19758	21645	1	19758,	21645,	0	gene.AFFD02000037-snap.4	unk	unk	0,
585	AFFD02000041-snap.1	AFFD02000041	-	1084	1296	1084	1296	1	1084,	1296,	0	gene.AFFD02000041-snap.1	unk	unk	1,
585	AFFD02000056-snap.1	AFFD02000056	-	175	356	175	356	1	175,	356,	0	gene.AFFD02000056-snap.1	unk	unk	2,
585	AFFD02000057-snap.1	AFFD02000057	-	21	233	21	233	1	21,	233,	0	gene.AFFD02000057-snap.1	unk	unk	0,
585	AFFD02000064-snap.1	AFFD02000064	-	385	589	385	589	1	385,	589,	0	gene.AFFD02000064-snap.1	unk	unk	0,
585	AFFD02000073-snap.1	AFFD02000073	+	3294	3498	3294	3498	1	3294,	3498,	0	gene.AFFD02000073-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