Coverage plots, junction plots and gene models for genes with sex-differential transcript isoforms, data for (A) doublesex and (B) sex lethal is shown. Throughout red and blue indicate data from female and male, respectively. Coverage plots for exon sequences are shown with peaks in red and blue indicating coverage from RNA from females and males, respectively; grey indicates non-exonic gene regions as annotated by Flybase. Junction plots are shown as solid horizontal lines beneath the coverage plots. The number above each line indicates the number of sequence reads that span a junction. All numbers are based on 1 million mapped reads. Flybase gene models are shown at the bottom of each panel with exon regions shown in brown. Female- and male-preferred junctions are indicated by red and blue lines between donor and acceptor sites on the gene models. The circled numbers in the junction plots correspond to the female and male preferred junctions.