Fig. 2

Output of DEXSeq showing differential exon usage. A Exon usage of etr-1 comparing wild-type muscle to wild-type whole animal. The red line represents muscle expression, the blue line represents whole animal expression. Exons that are significantly different (q ≤ 0.05) are in purple and indicated with purple asterisks. Etr-1 exons were overrepresented in muscle cells, including exon 8 harboring the lq61 mutation. B Exon usage of etr-1 comparing etr-1(lq61) muscle cells to wild-type muscle cells. The red line represents etr-1(lq61) expression and the blue line represents wild-type expression. Etr-1 exons generally were underrepresented in etr-1(lq61), with exon 8 and the 3′ exon significantly so (purple). Some exons have multiple comparisons because of different 5′ and 3′ exon boundaries for the exon in transcript isoforms annotated in the .gtf file. For example, exon 2 has six distinct 5′ and 3′ boundaries in different annotated isoforms, whereas exons 3 and 4 have a single 5′ and 3′ boundary in all annotated isoforms