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japonicusdb / japonicus-config

Configuration for JaponicusDB
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Add UniProt protein feature data for japonicus #102

Closed kimrutherford closed 2 weeks ago

kimrutherford commented 2 weeks ago

Using the UniProt API we can download data for displaying in the protein feature viewer. Like we did for PomBase: pombase/pombase-chado#52

I've downloaded a japonicus data file and added to SVN for when we have time to configure this: pombe-embl/external_data/uniprot_data_from_api_japonicus.tsv

There is less information for japonicus than for pombe but more than I expected.

ValWood commented 2 weeks ago

excellent!

kimrutherford commented 2 weeks ago

That's done now. The list of imported modification annotations is here: https://www.japonicusdb.org/reference/PMID:36408920

We also get some features in the protein feature viewer for signal peptides, transit peptides, chains, binding site and active sites:

https://www.japonicusdb.org/gene_protein_features/SJAG_02827 image

https://www.japonicusdb.org/gene_protein_features/SJAG_03009 image