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The following image shows how this works. The top panel of the IGB Main View window shows the normal, non-spliced view of a region containing overlapping genes from a human, AGBL4 which contains several very large introns, one of which completely encompasses another gene, BEND5. The Sliced View panel on the bottom shows AGBL4, and then BEND5, but with the intronic sequences reduced to 100bp. The points where the introns were shortened appear as black hash marks in the coordinate axis of the Sliced View tab. Note how the Sliced View makes it easy to see the gene structures, whereas in the main view the exons of AGBL4 are so small it is impossible to even see size comparisons of the exons it contains.
Sliced view example (click to enlarge)
Sliced view example (click to enlarge)
