The tissue-specific transcriptomic landscape of the midgestational mouse embryo

Classification of alternative splice junctions and exon coverage with respect to the gene structure found in the PRA, into the following classes with the software ASprofile: exon skipping (SKIP), alternative transcript start or termination site (TSS, TTS), and alternative exon (AE) (http://ccb.jhu.edu/software/ASprofile). The vast majority of novel events comprise alternative or extended first and last exons, most likely reflecting frequent tissue specific differences in the choice of TSS and TTS.