Figure 4: RNA processing events separate DHS clusters.
From: Nuclear stability and transcriptional directionality separate functionally distinct RNA species
(a) Histograms of de novo-assembled transcript counts, broken up by number of exons and associated DHS cluster. Vertical axes indicate the number of thousand transcripts. In the bottom panels, the unidirectional stable DHSs are split on major (left) and minor (right) strands, revealing that PROMPTs are highly similar to transcripts of weak unstable DHSs. (b) Frequencies of RNA processing motifs (5′SS, left panel, and pA-site hexamer, right panel) downstream (major strand) of CAGE summits broken up by DHS cluster. Vertical axis shows the average number of predicted sites per kb within an increasing window size from the TSS (horizontal axis) in which the motif search was done. 0 indicates the expected hit density from random genomic background. (c) Average number of rejected substitutions across mammals per bp around summits of transcribed DHSs, broken up by DHS class.
