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source for GO annotations

Schaefer, Carl (NIH/NCI) schaefec at mail.nih.gov
Thu Apr 29 12:05:06 PDT 2004


Any idea why the annotations in
http://www.geneontology.org/cgi-bin/GO/downloadGOGA.pl/gene_association.goa_
uniprot.gz are not consistent with annotations in the SP/TrEMBL flat files.
For example, in
ftp://us.expasy.org/databases/trembl/release_compressed/hum.dat.gz,
accession Q96RE8 has annotations:

 

DR   GO; GO:0016021 <http://www.ebi.ac.uk/ego/DisplayGoTerm?id=GO:0016021> ;
C:integral to membrane; IEA.
DR   GO; GO:0019028 <http://www.ebi.ac.uk/ego/DisplayGoTerm?id=GO:0019028> ;
C:viral capsid; IEA.
DR   GO; GO:0004937 <http://www.ebi.ac.uk/ego/DisplayGoTerm?id=GO:0004937> ;
F:alpha1-adrenergic receptor activity; IEA.
DR   GO; GO:0004872 <http://www.ebi.ac.uk/ego/DisplayGoTerm?id=GO:0004872> ;
F:receptor activity; IEA.
DR   GO; GO:0001584 <http://www.ebi.ac.uk/ego/DisplayGoTerm?id=GO:0001584> ;
F:rhodopsin-like receptor activity; IEA.
DR   GO; GO:0005198 <http://www.ebi.ac.uk/ego/DisplayGoTerm?id=GO:0005198> ;
F:structural molecule activity; IEA.
DR   GO; GO:0007186 <http://www.ebi.ac.uk/ego/DisplayGoTerm?id=GO:0007186> ;
P:G-protein coupled receptor protein signalin...; IEA.

 

But gene_association.goa_uniprot has annotations

 

Q96RE8      GO:0001584  GOA:interpro      IEA   

Q96RE8      GO:0004872  GOA:spkw    IEA   

Q96RE8      GO:0004930  GOA:spkw    IEA   

Q96RE8      GO:0004937  GOA:interpro      IEA   

Q96RE8      GO:0007186  GOA:interpro      IEA   

Q96RE8      GO:0007186  GOA:spkw    IEA   

Q96RE8      GO:0016021  GOA:interpro      IEA   

Q96RE8      GO:0016021  GOA:spkw    IEA   

 

So hum.dat has 0019028 and 0005198, which are not in the goa file, while the
goa file has 0004930, which is not in hum.dat.

 

Carl Schaefer

National Cancer Institute

Center for Bioinformatics

 

 

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