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geneontology / go-annotation

This repository hosts the tracker for issues pertaining to GO annotations.
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Incorrect Unirule mapping: UR000166233 GO:0016192 vesicle-mediated transport #4897

Open ValWood opened 10 months ago

ValWood commented 10 months ago

UniProt UniRule (ID and label):

UR000166233 GO:0016192 vesicle-mediated transport

Sequences with problematic annotation (ID + gene/protein name):

https://www.pombase.org/gene/SPBC839.14c Q9P7Z3

from https://www.yeastgenome.org/locus/S000001326 based on a phenotype so could be indirect (tef1 is currently only recorded substrate)

Q9P7Z3

Description of issue

ValWood commented 10 months ago

Also Nomenclature history: YIL064W was originally named SEE1 (Secretion and Early Endocytosis) based on defects in both secretion of heterologous proteins and endocytosis. The name was changed to EFM4 (Elongation Factor Methyltransferase) in September 2014 based on a request received from the community. The change unifies the nomenclature for the family of translation factor methyltransferase genes (EFM1, 2, 3, and 4) that encode enzymes which methylate elongation factors.

probably SGD should consider changing GO BP annotation @edwong57 ?

PedroRaposo commented 10 months ago

@ValWood I am not sure I understand the issue. The GO:0016192 is wrongly annotated unto Q9P7Z3, is that it? @pedruzzi Since this rule was created by SIB, could we revise Case 1 where GO:0016192 was propagated?

ValWood commented 10 months ago

Yes, it seems I the rule was based on a phenotype annotation which although still present at SGD, is out of date. @edwong57 can confirm before proceeding to fix the mapping in case I made a mistake.

edwong57 commented 10 months ago

@ValWood, I took a look and removed the BP annotation. It is gone from Protein2GO, but may take a little while to get into the latest SGD file.