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. 2015 Dec;21(12):2053–2066. doi: 10.1261/rna.052969.115

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© 2015 Cole et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society

This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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FIGURE 4. — HnRNP L-enhanced exons are preferentially flanked by short GC-rich introns. (A) Fraction of repressed, enhanced, and unresponsive cassette exons that have an CA-repeat hexamer (left) or one of the enriched GC-rich hexamers (right) (see Supplemental Table S6) within the exon or the flanking 300 nt. (B) De novo motif enrichment analysis of sequence features enriched in exonic and exon-proximal regions for repressed and enhanced exons within cassettes that do not contain hnRNP L CLIP-seq peaks. Logo of enriched hexamers is shown. See Supplemental Table S6 for all enriched hexamers. (C) Box plots of exon and intron lengths in hnRNP L-repressed, hnRNP L-enhanced, and unresponsive cassettes. (D) Length of upstream intron (I1, left) and downstream intron (I2, right) of repressed, enhanced, and unresponsive cassettes partitioned by presence or absence of the GC-rich motif in the upstream 300-nt interval or within the exon. “Total” represents all exons in the class irrespective of GC content. In all cases (*) P < 0.05, (**) P < 0.01, (***) P < 0.001.