AlgoLab/PIntron — Issue #3: Unnecessary exons
Author: rrizzi
Created: 2011-11-23 09:33:46+00:00
State: open

In the gene AIM1, the factorization of RefSeq NM_001624 is composed by 21 exons, while the annotated factorization is composed by 20 exons.
In particular, one of the predicted exons is short and can be eliminated by partitioning it in two parts: the first one can be matched as an additional suffix of the previous exon, while the second part can be matched as an additional prefix of the following exon.

PIntron version: `v1.2.16`
Input files: https://gist.github.com/dec7e2fec220de5c97a6
Command-line:

./bin/pintron -k --genomic=genomic.txt --EST=ests.txt --organism=human --gene=AIM1 --output=pintron-full-output.json --gtf=pintron-cds-annotated-isoforms.gtf --extended-gtf=pintron-all-isoforms.gtf --logfile=pintron-pipeline-log.txt --general-logfile=pintron-log.txt