wiki:ProteinFeatureAnnotation

Version 1 (modified by vw253, 6 years ago) (diff)

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Protein feature annotation

  • Protein feature annotation is not yet included in the annotation tool but will be in the future.
  • In the meantime we can capture protein features in artemis usin the syntax /controlled_curation="term=protein sequence feature, cleavage site; residue=K65-T66; db_xref=PMID:8314086; date=20120222"

  • So far this has been used for the following feature types:
    • cleavage site
    • coiled-coil
    • copper binding region
    • DDB-box
    • destruction box
    • ER retention signal
    • KEN box
    • mitochondrial signal sequence
    • N-terminal signal anchor
    • N-terminal signal sequence
    • NES
    • NLS
    • PIP box
    • repeat containing
    • transmembrane helices
    • transmembrane helix
    • vacuolar sorting signal

If you wish to annotate a feature which is not in this list you need to identify the SO protein feature ID and supply a mapping to (where? this might be part of the chado loader, so probably to Kim)