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Figure 4 | Genome Biology

Figure 4

From: Intronic motif pairs cooperate across exons to promote pre-mRNA splicing

Figure 4

Co-occurring motif pairs are specific for position and splicing efficiency. (a) Regional specificity. Each row compares the P-values of the co-occurring pairs found in one regional class (open triangles; by definition less than 1/410 = approximately 10-6) with the P-values of those same motif pairs in the other three regional combinations (filled circles). Most of the co-occurring pairs were only significantly correlated for the regions in which they were discovered. (b) Constitutive exons versus alternative exons. Each row first compares the P-values of the co-occurring pairs found among constitutive exons (open triangles) with the P-values of those same motif pairs among alternative exons (closed circles), and then vice versa. (c) Positional distributions of co-occurring pairs around human constitutive and alternative exons. For each regional class the co-occurring motifs were enumerated at each nucleotide position in their respective 50-nucleotide regions, as indicated. Pentamers were counted on each side of an exon starting with the closest nucleotide. Approximately 120,000 constitutive exons and 70,000 alternative exons (including alternative cassette exons, alternative 3' splice site and alternative 5' splice site exons) were surveyed. D, downstream; U, upstream; p, proximal; d, distal.

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