RNA-Seq for Enrichment and Analysis of IRF5 Transcript Expression in SLE
Figure 7
Profiling IRF5 alternative splicing using junction counts and de novo junction discovery.
A, Counts were obtained for the 6 junctions unique to single cloned transcripts by aligning reads from healthy donor (n = 4) and SLE patient samples (n = 5) to 94-bp junction sequences. Proportionally more transcripts containing each junction were found in either healthy donors (open circles) or SLE patients (closed circles); plotted are the p values obtained by the Pearson’s χ2-test. B, De novo junction discovery was performed using TopHat to identify novel alternative splicing events. Representative junctions are displayed using IGV with the IRF5 genomic sequence as a reference. Each pair of red blocks represents one junction, and lines joining two blocks denote spliced-out portions of IRF5. Junctions 1-3 show evidence of splicing to unannotated intronic regions of IRF5; junctions 4–9 have novel inter- and intra-exonic deletions. C, Schematic illustration of junctions in B confirmed by qPCR.