Fig. 7
From: Principles of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins
Insights from eCLIP of spliceosome-associated RBPs. a Heatmap indicates fold-enrichment for individual snRNAs within eCLIP datasets. Shown are all RBPs with greater than 5-fold enrichment for at least one snRNA. b Browser shows read density for eCLIP of AQR (K562), SF3B4 (K562), and SF3A3 (HepG2) for the NARF exon 11 3′ splice site region. Dotted line indicates position of enriched reverse transcription termination at crosslink sites. c (left) Pie chart shows all (n = 2475) introns with > 20 reads in the − 50 to − 15 (branch point) region in AQR K562 eCLIP. Blue indicates putative branch points (the subset with more than 50% of read 5′ ends at one position). (right) Motif information content for 11-mers centered on the putative branch points. Image generated with seqLogo package in R. d Lines indicate mean normalized eCLIP enrichment in IP versus input for SF3B4 and SF3A3 at (red/purple/green) alternative 3′ splice site extensions in RBP knockdown or (black) alternative 3′ splice site events in control HepG2 or K562 cells. The region shown extends 50 nt into exons and 300 nt into introns