Fig. 6

a (Left) Density plot comparing junction-spanning read coverage (RPM) for new cassette exons in EJC and RNA-Seq libraries. Line indicates median expression per library and dots represent individual cassette exons. N: number of observed cassette exons per library. (Right) Results of one-way ANOVA and Tukey’s post hoc significance tests comparing the distribution of junction reads in the indicated library types. b (Left) Scatterplot comparing mean conservation (phyloP, 30-way) at 5′ and 3′ splice sites of new cassette exons. Exons with scores above 0 at both splice sites are colored (white to dark blue) to indicate mean exon conservation and sized by the number of junction-spanning reads supporting that exon in EJC RIPiT-Seq libraries. Diamonds indicate exons that create a frameshift in the resulting mRNA; circles indicate non-frameshifting exons. (Right) Zoomed view of exons with mean 5′ and 3′ splice site conservation scores above 1.04 and 0.63, respectively. b, c Genome browser tracks of library coverage across new poison cassette exons in PHIP (b) and PTPRA (c). New cassette exons are shown in blue and numbered according to their placement in the major isoform observed in all libraries. Conservation tracks and annotations are as in Fig. 1b–d. See “Methods” for PSI formula