Schema for SNAP - SNAP Gene Predictions

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Schema for SNAP - SNAP Gene Predictions

Database: DsimGB2 Primary Table: snap Row Count: 16,416 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	CM002910-snap.1	`varchar(255)`	values
`chrom`	CM002910	`varchar(255)`	values
`strand`	-	`char(1)`	values
`txStart`	5400	`int(10) unsigned`	range
`txEnd`	8146	`int(10) unsigned`	range
`cdsStart`	5400	`int(10) unsigned`	range
`cdsEnd`	8146	`int(10) unsigned`	range
`exonCount`	3	`int(10) unsigned`	range
`exonStarts`	5400,7621,8038,	`longblob`
`exonEnds`	5424,7687,8146,	`longblob`
`score`	0	`int(11)`	range
`name2`	gene.CM002910-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,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds	score	name2	cdsStartStat	cdsEndStat	exonFrames
585	CM002910-snap.1	CM002910	-	5400	8146	5400	8146	3	5400,7621,8038,	5424,7687,8146,	0	gene.CM002910-snap.1	unk	unk	0,0,0,
585	CM002910-snap.2	CM002910	-	11109	13647	11109	13647	4	11109,11309,11793,13169,	11117,11331,11801,13647,	0	gene.CM002910-snap.2	unk	unk	1,0,1,0,
585	CM002910-snap.3	CM002910	-	13983	14731	13983	14731	3	13983,14238,14724,	14180,14334,14731,	0	gene.CM002910-snap.3	unk	unk	1,1,0,
585	CM002910-snap.4	CM002910	-	18256	19654	18256	19654	2	18256,19463,	18698,19654,	0	gene.CM002910-snap.4	unk	unk	2,0,
585	CM002910-snap.5	CM002910	-	25228	29504	25228	29504	5	25228,26058,26228,27443,29360,	25775,26105,26660,29318,29504,	0	gene.CM002910-snap.5	unk	unk	2,0,0,0,0,
585	CM002910-snap.6	CM002910	-	30030	36966	30030	36966	3	30030,30754,36920,	30231,31311,36966,	0	gene.CM002910-snap.6	unk	unk	0,1,0,
585	CM002910-snap.7	CM002910	+	54291	56624	54291	56624	3	54291,55231,56587,	54367,56360,56624,	0	gene.CM002910-snap.7	unk	unk	0,1,2,
585	CM002910-snap.8	CM002910	+	58365	58885	58365	58885	2	58365,58870,	58740,58885,	0	gene.CM002910-snap.8	unk	unk	0,0,
585	CM002910-snap.9	CM002910	+	59555	60278	59555	60278	2	59555,60218,	59678,60278,	0	gene.CM002910-snap.9	unk	unk	0,0,
585	CM002910-snap.10	CM002910	-	69413	73189	69413	73189	3	69413,70069,73182,	69790,70423,73189,	0	gene.CM002910-snap.10	unk	unk	1,1,0,

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