Schema for Combined RAMPAGE TSS (Replicate 2) (R5) - Combined RAMPAGE Transcription Start Sites (Replicate 2) (R5)
  Database: dm6    Primary Table: tss_RAMPAGE2_Peaks    Row Count: 24,710   Data last updated: 2022-10-21
fieldexampleSQL type info
bin 585smallint(5) unsigned range
chrom chr2Lvarchar(255) values
chromStart 11911int(10) unsigned range
chromEnd 11967int(10) unsigned range
name FBgn0002121_11varchar(255) values
score 146int(10) unsigned range
strand -char(1) values

This table points to a file in BigWig format.

Sample Rows
 
binchromchromStartchromEndnamescorestrand
585chr2L1191111967FBgn0002121_11146-
585chr2L1221112458FBgn0002121_10223-
585chr2L1437714389FBgn0002121_0919-
585chr2L1664316706FBgn0002121_08140-
585chr2L1675816766RAMPAGEpeak_00540279+
585chr2L1782917865FBgn0002121_0738-
585chr2L1862318628FBgn0002121_0622-
585chr2L1899818999FBgn0002121_0518-
585chr2L2063020663FBgn0002121_0469-
585chr2L2092320977FBgn0002121_03150-

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

Combined RAMPAGE TSS (Replicate 2) (R5) (tss_RAMPAGE2_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 stages of Drosophila embryos (biological replicate 2).

The datasets were retrieved from the Gene Expression Omnibus database at NCBI under the accession number GSE89299. The results were lifted from the D. melanogaster release 5 assembly to the release 6 assembly.

References

Batut PJ, Gingeras TR. Conserved noncoding transcription and core promoter regulatory code in early Drosophila development. Elife. 2017 Dec 20;6.

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.