IGV and proteomics
Hello, I have a list of peptides and I am interested in visualizing their location in the genome so that gene structure could be revised. How do I get to know whether the peptide is in intron or in UTR or overlapping two exons?
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mdfardin374 •
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IGV is not really related to the question you are asking, is it?
You should probably add some information about where these peotides come from? What is their length? You can do
blatsearches against the genome to find their location easily (as long as they are long/unique). Once you find their location you could then map that information on to annotation.Would this be of help? https://www.rcsb.org/pages/help/featureView
From your question it's not really clear what type of data you have (i.e. do you have a list of (arbitrary) peptide identifiers, or Uniprot accession numbers of the proteins they belong to etc.)
Actually, it is a list of novel peptides identified from MS/MS database search.
does that mean you do not know which proteins they belong to?