Schema for Combined RAMPAGE TSS (R5) - Combined RAMPAGE Transcription Start Sites (R5)

Database: dm6 Primary Table: tss_RAMPAGE_Peaks Row Count: 31,131 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	7435	`int(10) unsigned`	range
`chromEnd`	7519	`int(10) unsigned`	range
`name`	CAGEpeak_009124	`varchar(255)`	values
`score`	284	`int(10) unsigned`	range
`strand`	+	`char(1)`	values

This table points to a file in BigWig format.

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand
585	chr2L	7435	7519	CAGEpeak_009124	284	+
585	chr2L	11906	11948	CAGEpeak_010609	140	-
585	chr2L	12214	12221	CAGEpeak_011896	27	-
585	chr2L	16643	16685	CAGEpeak_009454	115	-
585	chr2L	16758	16766	CAGEpeak_006847	44	+
585	chr2L	18333	18340	CAGEpeak_010024	20	-
585	chr2L	18998	18999	CAGEpeak_010245	14	-
585	chr2L	20606	20663	CAGEpeak_010782	99	-
585	chr2L	20922	20981	CAGEpeak_010894	194	-
585	chr2L	21235	21411	CAGEpeak_011659	35586	-

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

Combined RAMPAGE TSS (R5) (tss_RAMPAGE_Combined) Track Description


	Description This track shows the locations of putative Transcription Start Sites (TSS) in the D. melanogaster genome based on the analysis of RAMPAGE results from multiple developmental stages. Credits The datasets were retrieved from the Gene Expression Omnibus database at NCBI under the accession number GSE36212. The results were lifted from the D. melanogaster release 5 assembly to the release 6 assembly. Batut P, Dobin A, Plessy C, Carninci P, Gingeras TR. High-fidelity promoter profiling reveals widespread alternative promoter usage and transposon-driven developmental gene expression. Genome Res. 2013 Jan;23(1):169-80.

Description