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Anntoations missing from Amigo #429

Open ValWood opened 1 year ago

ValWood commented 1 year ago

Describe the issue/bug

This PomBase annotation appears to be missing from Amigo, any ideas why?

PomBase SPCC663.12 cid12 involved_in GO:0043631 GO_REF:0000050 ISM Pfam:PF03828 P poly(A) polymerase Cid12 csp10|csp8 protein taxon:4896 20060814 PomBase

Thanks Val

kltm commented 1 year ago

Appears: bbop@wok:/home/skyhook/release/products/annotations$ zcat pombase-src.gaf.gz | grep SPCC663.12 | grep GO:0043631 Appears: bbop@wok:/home/skyhook/release/products/annotations$ zcat pombase_valid.gaf.gz | grep SPCC663.12 | grep GO:0043631 Appears: bbop@wok:/home/skyhook/release/annotations$ zcat pombase.gaf.gz | grep SPCC663.12 | grep GO:0043631 In AmiGO: http://amigo.geneontology.org/amigo/search/annotation?q=*:*&fq=annotation_class_label:%22RNA%20polyadenylation%22&fq=evidence_subset_closure_label:%22match%20to%20sequence%20model%20evidence%20used%20in%20manual%20assertion%22&fq=assigned_by:%22PomBase%22&sfq=document_category:%22annotation%22

@ValWood My guess here is that it is maybe having trouble around the textual search wrt synonyms and/or the use of the internal part of the identifier. For example, is comes up in the "general" search with "SPCC663.12", but has trouble filtering on that directly. It works better for others like "SPCC663.18" as that is part of the symbol/label, and not a synonym. We have a couple of tickets open for these, most directly https://github.com/geneontology/amigo/issues/120 .