Description

This track summarizes the alternative splicing seen in the mRNA and EST tracks. The blocks represent exons and the lines are the possible splice junctions. When the track is in full mode and the resolution is approximately gene level the exons are laid out such that alternative exons don't overlap each other and are easier to see. The more ESTs and mRNAs that contain that exon or splice junction the darker they are drawn.

To help filter out the noise present in the EST libraries both exons and splice junctions have been filtered. Only those exons and splice junctions which have an orthologous exon or splice junction present in the mouse transcriptome, or are present three or more times, are kept. This process is similar to that presented in: "Transcriptome and Genome Conservation of Alternative Splicing Events in Humans and Mice" C.W. Sugnet, W.J. Kent, M. Ares Jr., and D. Haussler.

Methods

The outline for generating this track is:
  1. For both the mouse and human genomes separately.
  2. Using the graphs generated independently for both the human and mouse genomes find exons and splice junctions that are common to both or that occur three or more times in human. Ortholgous splicing graphs are identified using the Mouse Net track.