Schema for SNAP - SNAP Gene Predictions

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Schema for SNAP - SNAP Gene Predictions

Database: DyakCAF1 Primary Table: snap Row Count: 16,899 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	chr2L-snap.1	`varchar(255)`	values
`chrom`	chr2L	`varchar(255)`	values
`strand`	-	`char(1)`	values
`txStart`	10264	`int(10) unsigned`	range
`txEnd`	13753	`int(10) unsigned`	range
`cdsStart`	10264	`int(10) unsigned`	range
`cdsEnd`	13753	`int(10) unsigned`	range
`exonCount`	2	`int(10) unsigned`	range
`exonStarts`	10264,13736,	`longblob`
`exonEnds`	10427,13753,	`longblob`
`score`	0	`int(11)`	range
`name2`	gene.chr2L-snap.1	`varchar(255)`	values
`cdsStartStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`cdsEndStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`exonFrames`	2,0,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds	score	name2	cdsStartStat	cdsEndStat	exonFrames
585	chr2L-snap.1	chr2L	-	10264	13753	10264	13753	2	10264,13736,	10427,13753,	0	gene.chr2L-snap.1	unk	unk	2,0,
585	chr2L-snap.2	chr2L	-	16689	29753	16689	29753	15	16689,17541,17769,18264,18549,21194,21490,22503,22955,23238,23487,27440,28097,28211,29414,	17214,17711,17865,18438,18649,21393,21928,22700,23134,23432,23574,27815,28144,28634,29753,	0	gene.chr2L-snap.2	unk	unk	0,1,1,1,0,2,2,0,1,2,2,2,0,0,0,
585	chr2L-snap.3	chr2L	-	29805	31479	29805	31479	1	29805,	31479,	0	gene.chr2L-snap.3	unk	unk	0,
585	chr2L-snap.4	chr2L	-	32036	50207	32036	50207	4	32036,32502,47635,50176,	32237,33059,47737,50207,	0	gene.chr2L-snap.4	unk	unk	0,1,1,0,
585	chr2L-snap.5	chr2L	+	56139	61113	56139	61113	5	56139,56602,57548,59103,61082,	56277,57200,59046,59322,61113,	0	gene.chr2L-snap.5	unk	unk	0,0,1,2,2,
585	chr2L-snap.6	chr2L	-	64561	69701	64561	69701	3	64561,67782,69577,	64651,67790,69701,	0	gene.chr2L-snap.6	unk	unk	0,1,0,
585	chr2L-snap.7	chr2L	-	72463	76318	72463	76318	2	72463,76311,	73485,76318,	0	gene.chr2L-snap.7	unk	unk	1,0,
585	chr2L-snap.8	chr2L	+	84208	87299	84208	87299	5	84208,84461,84788,86463,87227,	84249,84650,85866,86544,87299,	0	gene.chr2L-snap.8	unk	unk	0,2,2,0,0,
585	chr2L-snap.9	chr2L	+	89604	91342	89604	91342	5	89604,90361,90594,90868,91299,	89650,90540,90724,90965,91342,	0	gene.chr2L-snap.9	unk	unk	0,1,0,1,2,
585	chr2L-snap.10	chr2L	+	91798	93127	91798	93127	3	91798,92369,92879,	92246,92798,93127,	0	gene.chr2L-snap.10	unk	unk	0,1,1,

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