Figure 1. A case study of PE‐mRNA‐Seq to identify Fox‐2 target exons. (a) A representative exon with predicted Fox‐2‐dependent exon activation. The locations of GCAUG and UGCAUG elements, followed by read‐coverage profiles of Fox‐2 and No‐Fox samples, exon and intron structure, and sequence conservation in vertebrates are shown at the top. The Fox‐2 binding site(s) predicted to be important for splicing regulation are indicated by an arrowhead. The AS pattern is shown in the region highlighted by a box with dotted lines. The numbers of exon tags and exon‐junction tags are shown for each sample at the bottom. The results of RT‐PCR validation are shown on the right. j_in = exon junction(s) of the inclusion isoform; j_ex = exon junction(s) of the exclusion isoform; (b) Similar to panel (a), but a representative exon showing Fox‐2 dependent exon repression. j5 and e5 = 5′ junction and exon; j3 and e3 = 3′ junction and exon.