Figure 4.

7SK represses upstream divergent transcription. (A) Ensembl genome browser image of the Rbm34 locus, showing normalized RNA sequencing (RNA-seq) read coverage (mean of two biological replicates) for ESCs nucleofected with scrambled control antisense oligonucleotides (ASOs) or 7SK ASOs. Published global run-on sequencing (GRO-seq) data for ESCs [1] indicated occupancy of transcriptionally engaged Pol II. Purple box highlights upstream divergent RNA (udRNAs). The plus (green) and minus (blue) strand reads are displayed in separate tracks. (B) Change in udRNA expression after 7SK knockdown for all 2676 genes (rows) with a detected udRNA. Colors indicate fold change on the antisense strand in 50 bp windows around the transcription start site (TSS). (C) RNA-seq and GRO-seq read coverage at the Pou5f1 (Oct4) locus. The udRNA region is highlighted in purple box. Note that different scales are displayed for plus/minus strand and GRO-seq tracks in panels (A) and (C).

Castelo-Branco et al. Genome Biology 2013 14:R98   doi:10.1186/gb-2013-14-9-r98
Download authors' original image