Fig. 1
From: Smu1 and RED are required for activation of spliceosomal B complexes assembled on short introns
Knockdown of Smu1 and RED leads to the retention of constitutively spliced introns. a Pie charts showing the distribution of different splicing events altered in HeLa cells after knockdown of Smu1, RED or MFAP1, as determined by RNA-seq. Usage of alternatively spliced (Alt) 3′ or 5′ splice sites, changes in the inclusion or skipping of cassette exons, and retention of introns are indicated. b Fraction of constitutively spliced introns among those retained (unspliced) upon knockdown of Smu1, RED or MFAP1. c Introns were sorted into 4 classes according to their length—i.e. <200 bases, 200–1 Kb, 1–5 Kb and >5 Kb. Charts showing the relative distribution of these 4 intron length classes in the genome or in those introns retained after Smu1, RED or MFAP1 knockdown. d 5′SS to BS distances in short introns (<250 nts long) retained after Smu1, RED or MFAP1 knockdown versus non-retained short introns with a matching intron-length distribution. The observed distributions for retained versus non-retained (unaffected) short introns are significantly different for ΔSmu1 and ΔRED (p-value < 1e−12, two-sided, two sample Smirnov–Kolmogorov test), but not for ΔMFAP1 (p-value > 0.01)
