Schema for SNAP - SNAP Gene Predictions

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Schema for SNAP - SNAP Gene Predictions

Database: DkikGB2 Primary Table: snap Row Count: 22,304 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`name`	AFFH02000049-snap.1	`varchar(255)`	values
`chrom`	AFFH02000049	`varchar(255)`	values
`strand`	+	`char(1)`	values
`txStart`	2345	`int(10) unsigned`	range
`txEnd`	2602	`int(10) unsigned`	range
`cdsStart`	2345	`int(10) unsigned`	range
`cdsEnd`	2602	`int(10) unsigned`	range
`exonCount`	1	`int(10) unsigned`	range
`exonStarts`	2345,	`longblob`
`exonEnds`	2602,	`longblob`
`score`	0	`int(11)`	range
`name2`	gene.AFFH02000049-snap.1	`varchar(255)`	values
`cdsStartStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`cdsEndStat`	unk	`enum('none', 'unk', 'incmpl', 'cmpl')`	values
`exonFrames`	2,	`longblob`

Sample Rows

bin	name	chrom	strand	txStart	txEnd	cdsStart	cdsEnd	exonCount	exonStarts	exonEnds	score	name2	cdsStartStat	cdsEndStat	exonFrames
585	AFFH02000049-snap.1	AFFH02000049	+	2345	2602	2345	2602	1	2345,	2602,	0	gene.AFFH02000049-snap.1	unk	unk	2,
585	AFFH02000063-snap.1	AFFH02000063	+	28	1539	28	1539	2	28,1210,	152,1539,	0	gene.AFFH02000063-snap.1	unk	unk	0,1,
585	AFFH02000086-snap.1	AFFH02000086	+	1678	1941	1678	1941	1	1678,	1941,	0	gene.AFFH02000086-snap.1	unk	unk	0,
585	AFFH02000093-snap.1	AFFH02000093	-	421	637	421	637	1	421,	637,	0	gene.AFFH02000093-snap.1	unk	unk	0,
585	AFFH02000114-snap.1	AFFH02000114	-	951	1167	951	1167	1	951,	1167,	0	gene.AFFH02000114-snap.1	unk	unk	0,
585	AFFH02000165-snap.1	AFFH02000165	-	23809	24205	23809	24205	1	23809,	24205,	0	gene.AFFH02000165-snap.1	unk	unk	0,
585	AFFH02000165-snap.2	AFFH02000165	+	25783	32402	25783	32402	4	25783,27341,30879,31110,	25949,27904,31087,32402,	0	gene.AFFH02000165-snap.2	unk	unk	0,1,0,1,
585	AFFH02000165-snap.3	AFFH02000165	+	32542	33043	32542	33043	1	32542,	33043,	0	gene.AFFH02000165-snap.3	unk	unk	0,
585	AFFH02000183-snap.1	AFFH02000183	+	862	1273	862	1273	1	862,	1273,	0	gene.AFFH02000183-snap.1	unk	unk	1,
585	AFFH02000236-snap.1	AFFH02000236	-	51	405	51	405	1	51,	405,	0	gene.AFFH02000236-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