go-annotation

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TreeGrafter issue (And PAINT) PANTHER:PTHR11208:SF45

1

bpb1 Branchpoint-bridging protein UniProtKB:O74555 | bpb1 | involved_in | GO:0048024    regulation of mRNA splicing, via spliceosome | ECO:0000318   IBA | GO_REF:0000033 | FB:FBgn0022984 more... | 284812 Schizosaccharomyces pombe (strain 972...

ValWood

IGNORE - checking obsoletion candidates set

1

GO:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity GO:0000413 protein peptidyl-prolyl isomerization GO:0001932 regulation of protein phosphorylation GO:0001933 negative regulation of protein phosphorylation GO:0001934 positive regulation of protein phosphorylation GO:0001977...

pgaudet

* **PTHR ID & PTN node:** PTN008511683 PEPTIDYL-PROLYL CIS-TRANS ISOMERASE (PTHR11071) PTN008511684 PEPTIDYL-PROLYL CIS-TRANS ISOMERASE (PTHR11071) * **Sequences with problematic annotation (ID + gene/protein name):** FBgn0039581 Moca-cyp is nuclear PMID:33176138...

hattrill

Review annotations to GO:0003867 4-aminobutyrate transaminase activity

6

Dear all, The proposal has been made to obsolete GO:0003867 4-aminobutyrate transaminase activity see https://github.com/geneontology/go-ontology/issues/28802. Annotations may consider GO:0034386 4-aminobutyrate:2-oxoglutarate transaminase activity -> EC:2.6.1.19 -> RHEA:23352 GO:0034387 4-aminobutyrate:pyruvate transaminase activity...

raymond91125

IPR012080 UniPathway:UPA00034 GO:0009089 lysine biosynthetic process via diaminopimelate

1

* **InterPro ID / label** IPR012080 * **Example sequences with problematic annotation (ID + gene/protein name):** https://www.ebi.ac.uk/QuickGO/annotations?geneProductId=P78780&aspect=biological_process and S. cerevisiae ortholog * **Description of issue** is via lysine biosynthetic process...

ValWood

* **PTHR ID & PTN node:** GO:0060628 | regulation of ER to Golgi vesicle-mediated transport | IBA with Q6NUQ1 , PTN000338119 | GO_REF:0000033 | 1 -- | -- | --...

ValWood

[Dear all, The proposal has been made to obsolete - GO:0051709 regulation of killing of cells of another organism and its child: - GO:0051712 positive regulation of killing of cells...

pgaudet

Ensembl IEA pipeline

14

This Ensembl pipeline is probably one of the largest sources of incorrect IEA annotation. One major issue that could be fixed is that the relationships appear to be ignored. So...

ValWood

GO:0015462 ABC-type protein transporter activity

pgaudet

See https://github.com/geneontology/go-ontology/issues/25837 GO:0052899 N(1),N(12)-diacetylspermine:oxygen oxidoreductase (3-acetamidopropanal-forming) activity GO:0052904 N1-acetylspermidine:oxygen oxidoreductase (3-acetamidopropanal-forming) activity GO:0052903 N1-acetylspermine:oxygen oxidoreductase (3-acetamidopropanal-forming) activity GO:0052895 N1-acetylspermine:oxygen oxidoreductase (N1-acetylspermidine-forming) activity GO:0052893 N1-acetylspermine:oxygen oxidoreductase (propane-1,3-diamine-forming) activity GO:0052897 N8-acetylspermidine:oxygen oxidoreductase...

pgaudet