I have downloaded MISO annotation files for hg19, applied the MISo algorithm for a BAM aligned to hg19, and noticed that some annotations' event names have coordinates that (upon checking in the UCSC browser) do not refer to exons; e.g:
(from the output summary of the A5SS events)
Any idea why?
Code:
event_name miso_posterior_mean ci_low ci_high isoforms counts assigned_counts chrom strand mRNA_starts mRNA_ends chr1:65463023:65463145|65463141:+@chr1:65464334:65470420:+ 0.55 0.04 0.99 'chr1:65463023:65463145|65463141:+@chr1:65464334:65470420:+.A.coreAndExt_chr1:65463023:65463145|65463141:+@chr1:65464334:65470420:+.A.dn','chr1:65463023:65463145|65463141:+@chr1:65464334:65470420:+.B.core_chr1:65463023:65463145|65463141:+@chr1:65464334:65470420:+.B.dn' (1,1):170 0:76,1:94 chr1 + 65690435,65690435 65697832,65697832
Any idea why?