Locations of RBP-binding sites in FLEXIs and other classes of introns.

<p>Density plots of ENCODE eCLIP-identified RBP-binding sites in K-562 or Hep G2 cells and PAR-CLIP identified binding sites for AGO1-4 and DICER in HEK-293 cells [<a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1011416#pgen.1011416.ref038" target="_blank">38</a>–<a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1011416#pgen.1011416.ref040" target="_blank">40</a>] for the 53 RBPs with binding sites for ≥30 FLEXIs (≤300 nt; red line) compared to other short introns (≤300 nt; blue line) and long introns (>300 nt; back lines). RBP-binding sites overlapping introns (≥1 nt) were identified by intersecting annotated RBP-binding sites with intron coordinates using BEDTools and plotted as the mid-point of the annotated RBP-binding sites normalized as a percentage of intron length with 0% and 100% corresponding to the 5’ and 3’ end of the intron, respectively. Vertical red dashed lines indicate the position of peaks in the density plots for FLEXI RNAs. RBP names are color coded by protein function as indicated at the bottom of the Figure. Blank spaces were left for datasets that were not available for one of the two cell lines used to obtain the eCLIP datasets.</p> <p>(PDF)</p>