Schema for GLEAN-R Alignments - Alignment of GLEAN-R Predictions from Other Drosophila species

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Schema for GLEAN-R Alignments - Alignment of GLEAN-R Predictions from Other Drosophila species

Database: DmojImproved Primary Table: gleanr_dgri Row Count: 12,530

field	example	SQL type	info
`bin`	73	`smallint(5) unsigned`	range
`chrom`	improved_6498	`varchar(255)`	values
`chromStart`	90598	`int(10) unsigned`	range
`chromEnd`	253255	`int(10) unsigned`	range
`name`	FBpp0145838	`varchar(255)`	values
`score`	960	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`thickStart`	90598	`int(10) unsigned`	range
`thickEnd`	253255	`int(10) unsigned`	range
`reserved`	0	`int(10) unsigned`	range
`blockCount`	9	`int(10) unsigned`	range
`blockSizes`	43,98,73,170,211,128,173,29...	`longblob`
`chromStarts`	0,114,5029,7357,90592,12249...	`longblob`

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	thickStart	thickEnd	reserved	blockCount	blockSizes	chromStarts
73	improved_6498	90598	253255	FBpp0145838	960	+	90598	253255	0	9	43,98,73,170,211,128,173,296,89,	0,114,5029,7357,90592,122490,152637,162019,162568
587	improved_6498	386506	389076	FBpp0145845	3734	-	386506	389076	0	4	679,1434,90,146,	0,773,2275,2424
588	improved_6498	427838	430251	FBpp0146689	2069	+	427838	430251	0	4	456,512,378,712,	0,695,1264,1701
588	improved_6498	454503	469737	FBpp0145844	3007	-	454503	469737	0	3	167,926,1241,	0,222,13993
589	improved_6498	591537	592209	FBpp0151913	557	-	591537	592209	0	1	672,	0
589	improved_6498	613404	622172	FBpp0145843	601	-	613404	622172	0	3	45,223,200,	0,8295,8568
589	improved_6498	639396	640007	FBpp0146691	869	+	639396	640007	0	3	137,195,169,	0,191,442
589	improved_6498	640106	640661	FBpp0145842	734	-	640106	640661	0	2	297,195,	0,360
590	improved_6498	689502	698412	FBpp0146692	2336	-	689502	698412	0	4	1545,1110,105,72,	0,1609,2798,8838
590	improved_6498	712374	713966	FBpp0145839	394	+	712374	713966	0	3	97,177,110,	0,1248,1482

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

GLEAN-R Alignments (gleanr_drosophila) Track Description


	Description This track shows the SPALN alignment of GLEAN-R predictions from different Drosophila species against the genome. The GLEAN-R predictions were originally generated by the Drosophila 12 Genomes Consortium and are currently maintained by FlyBase. References GLEAN-R gene predictions are available for download at FlyBase Drosophila 12 Genomes Consortium. Evolution of genes and genomes on the Drosophila phylogeny. Nature 450, 203-218 (8 November 2007) Iwata H., and Gotoh, O. Benchmarking spliced alignment programs including Spaln2, an extended version of Spaln that incorporates additional species-specific features. Nucleic Acids Research. 2012, 109