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  1. Jalview
  2. JAL-3491

uniprot sequences occasionally do not get species name when resolving ensembl crossrefs

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      Description

      In 2.11.1
      - retrieve the uniprot sequences found by the following query (gene:BACE2 OR gene:BACE1) AND reviewed:yes
      These are
        BACE1_HUMAN
        BACE1_MOUSE
        BACE1_RAT
        BACE1_CAVPO
        BACE1_BOVIN
        BACE2_HUMAN
        BACE2_MOUSE
        BACE2_RAT
       -- however, trying these on there own seem to not result in the bug happening...
      - retrieve crossrefs to Ensembl (this takes a while)
      Mouse over the CDS sequences - most will have a Species:Chromosome dbref, but one mouse or human sequence (so far in my testing) seem to only get the chromosome number, not the species.

      I don't see this problem with a smaller number of sequences, suggesting there may be a race condition somewhere in the ensembl fetcher in the vicinity of the Locus construction code.

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            Assignee:
            jprocter Jim Procter
            Reporter:
            jprocter Jim Procter
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              Created:
              Updated: