I have a list of immune signalling proteins of Camponotus. I want to identify the isoforms of these proteins. Is it possible to get the isoforms by searching the corresponding genes in NCBI? Is there any tool available for detecting protein isoforms and alternative spliced products of the genes?
Hello,
to have a list of alternative splicing products you can try FAST DB (http://www.fast-db.com/fastdb2/frame.html) it is free but you would need to register
you could also try the ensembl (http://www.ensembl.org/Homo_sapiens/Gene/), it gives you loads of information but FAST DB is much easier to use
Hello,
You can easily find the isoforms in your dataset if you know the corresponding genes. You should consider the protein identification software that you use because identifications will either be reported as groups or as individual entries. Nevertheless if the gene name (or ID) is present you just have to check if the gene name (or ID) is repeated in your dataset. Every two proteins / protein groups that share the same gene name / ID should be isoforms. This is because isoforms are results of alternative splicing, thus there are different proteins which share the same gene name / ID.
Hope this helps.
Ilian
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