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[go-friends] [go] Alert: Proposal to obsolete GO:0004158, : term that impacts existing annotation

Rachael Huntley huntley at ebi.ac.uk
Fri May 9 06:05:48 PDT 2014


I have put a request to InterPro on the SF annotation tracker.
The EC2GO annotations should disappear once the term is obsoleted.

Rachael.

On 08/05/2014 21:17, Harold Drabkin wrote:
> The term GO:0004158, dihydroorotate oxidase I,( Catalysis of the 
> reaction: (S)-dihydroorotate + O(2) = H(2)O(2) +orotate.), which was 
> mapped to EC 1.3.3.1 , is scheduled to be made obsolete.
> EC has determined that this reaction in fact does not exist. They have 
> withdrawn EC 1.3.3.1.
>
> There are currently 65 total annotations directly to this term.
> *IDA: 1*
> 1, RGD to Dhodh
> *ISS: 21: *
> 1MGI,  1 UniProtKB, one JCVI_CMR, and the remaining TIGR_CMR.
> *IEA: 41; *
> 21 UniProtKB, 2 Flybase, 1 MGI, 10 CGD, 1 AspGD, 2 Zfin, 1 RGD, 1 SGD, 
> 1 Pombe, 1 dictybase
>
> All mappings to EC2GO, IP2GO, and SP_KW2GO should be removed. The term 
> has a mapping in IP2GO (hence the IEAs); It is used in the catalytic 
> slim subset (and thus will be removed).
>
> Note: If fumarate is not shown to be nvolved, you may want to 
> consider GO:0004152, dihydroorotate dehydrogenase activity (parent 
> term); if the reaction involves fumarate, then use 
> GO:0052888 dihydroorotate oxidase (fumarate) activity
>
> See SF 10770 for details. 
> http://sourceforge.net/p/geneontology/ontology-requests/10770/
>
> The deadline for comments is 5/20/14  If we hear nothing, the 
> obsoletion goes ahead --
>
> ________________
>
> Harold J Drabkin, Ph.D.
> Senior Scientific Curator
> Mouse Genome Informatics
> The Jackson Laboratory
> 600 Main Street
> Bar Harbor, ME 04609
> voice:207-288-6650
> fax: 207-288-6131
> Email: harold.drabkin at jax.org <mailto:harold.drabkin at jax.org>
>
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-- 
Project Leader
UniProt - Gene Ontology Annotation Project
European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge, CB10 1SD
United Kingdom

Email: huntley at ebi.ac.uk
UniProt Gene Ontology Annotation Project: http://www.ebi.ac.uk/GOA
http://twitter.com/emblebi

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