Uploaded image for project: 'Jalview'
  1. Jalview
  2. JAL-2920

Uniprot 'sequence variant' features no longer provide a text description of mutation

    XMLWordPrintable

    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: None
    • Fix Version/s: 2.10.4, 2.10.4b1
    • Component/s: None
    • Labels:
      None

      Description

      At some point in the last few uniprot releases, the sequence feature XML has changed to allow residue changes for sequence variant features to be provided as additional elements.

      e.g.

      <feature type="binding site" description="Substrate" evidence="1">
      <location>
      <position position="89"/>
      </location>
      </feature>
      <feature type="sequence variant">
      <original>M</original>
      <variation>L</variation>
      <location>
      <position position="41"/>
      </location>
      </feature>

      Jalview's uniprot xml parser needs to be updated to show these data in a meaningful way to the user.

        Attachments

          Issue Links

            Activity

              People

              Assignee:
              gmungoc Mungo Carstairs
              Reporter:
              jprocter Jim Procter
              Votes:
              0 Vote for this issue
              Watchers:
              2 Start watching this issue

                Dates

                Created:
                Updated:
                Resolved: