ProtAnnot: an App for Integrated Genome Browser to display how alternative splicing and transcription affect proteins.
Where this comes from
- Record sourced from PubMed, PMID 27153567.
- Also identified by DOI 10.1093/bioinformatics/btw068 and PMC identifier 4978921.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
One gene can produce multiple transcript variants encoding proteins with different functions. To facilitate visual analysis of transcript variants, we developed ProtAnnot, which shows protein annotations in the context of genomic sequence. ProtAnnot searches InterPro and displays profile matches (protein annotations) alongside gene models, exposing how alternative promoters, splicing and 3' end processing add, remove, or remodel functional motifs. To draw attention to these effects, ProtAnnot color-codes exons by frame and displays a cityscape graphic summarizing exonic sequence at each position. These techniques make visual analysis of alternative transcripts faster and more convenient for biologists. ProtAnnot is a plug-in App for Integrated Genome Browser, an open source desktop genome browser available from http://www.bioviz.org aloraine@uncc.edu.
Medical subject headings
- Alternative Splicing
- Genome