GORULE violations assigned by SynGO

Contents

gorule-0000006 IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC

gorule-0000008 No annotations should be made to uninformative high level terms

gorule-0000013 Taxon-appropriate annotation check

gorule-0000016 With/From: IC annotations require a With/From GO ID

gorule-0000020 Automatic repair of annotations to merged or obsoleted terms

MESSAGES

gorule-0000006

IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC

• total: 20

messages

• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`FB FBgn0000346 comt is_active_in GO:0099523 FB:FBrf0229008|PMID:25953899 IEP C comatose CG 1618|CG1618|Comatose|Comt|DmNSF|N-Ethylmaleimide-sensitive Factor|N-ethyl-maleimide sensitive fusion protein|N-ethylmaleimide-sensitive factor 1|N-ethylmaleimide-sensitive fusion protein|NEM-sensitive fusion protein|NSF|NSF 1|NSF-1|NSF1|Nsf|Nsf1|com|dNSF|dNSF-1|dNSF1|dNsf1|dnsf1 protein taxon:7227 20220928 SynGO `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`FB FBgn0000346 comt is_active_in GO:0031594 FB:FBrf0229008|PMID:25953899 IEP C comatose CG 1618|CG1618|Comatose|Comt|DmNSF|N-Ethylmaleimide-sensitive Factor|N-ethyl-maleimide sensitive fusion protein|N-ethylmaleimide-sensitive factor 1|N-ethylmaleimide-sensitive fusion protein|NEM-sensitive fusion protein|NSF|NSF 1|NSF-1|NSF1|Nsf|Nsf1|com|dNSF|dNSF-1|dNSF1|dNsf1|dnsf1 protein taxon:7227 20220928 SynGO `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB O75052 NOS1AP is_active_in GO:0098978 PMID:26869880 IEP C Carboxyl-terminal PDZ ligand of neuronal nitric oxide synthase protein NOS1AP|CAPON|KIAA0464 protein taxon:9606 20240306 SynGO part_of(UBERON:0002421) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB O75962 TRIO is_active_in GO:0048786 PMID:27907191 IEP C Triple functional domain protein TRIO protein taxon:9606 20240306 SynGO part_of(UBERON:0002421) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P02649 APOE is_active_in GO:0043083 PMID:22637583 IEP C Apolipoprotein E APOE protein taxon:9606 20240306 SynGO part_of(GO:0098978),part_of(UBERON:0000956) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P02649 APOE is_active_in GO:0098978 PMID:22637583 IEP C Apolipoprotein E APOE protein taxon:9606 20240306 SynGO part_of(UBERON:0000956) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P35125 USP6 is_active_in GO:0098978 PMID:31841517 IEP C Ubiquitin carboxyl-terminal hydrolase 6 USP6|HRP1|TRE2 protein taxon:9606 20240306 SynGO part_of(UBERON:0002421) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P35125 USP6 is_active_in GO:0099092 PMID:31841517 IEP C Ubiquitin carboxyl-terminal hydrolase 6 USP6|HRP1|TRE2 protein taxon:9606 20240306 SynGO part_of(GO:0098978),part_of(UBERON:0002421) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P42858 HTT is_active_in GO:0099523 PMID:7748555 IEP C Huntingtin HTT|HD|IT15 protein taxon:9606 20240306 SynGO part_of(UBERON:0000956) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P51790 CLCN3 is_active_in GO:0030672 PMID:11182090 IEP C H(+)/Cl(-) exchange transporter 3 CLCN3 protein taxon:9606 20240306 SynGO part_of(GO:0098978),part_of(UBERON:0000955) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P51790 CLCN3 is_active_in GO:0030672 PMID:11182090 IEP C H(+)/Cl(-) exchange transporter 3 CLCN3 protein taxon:9606 20240306 SynGO part_of(GO:0098982),part_of(UBERON:0000955) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P51790 CLCN3 is_active_in GO:0030672 PMID:11182090 IEP C H(+)/Cl(-) exchange transporter 3 CLCN3 protein taxon:9606 20240306 SynGO part_of(UBERON:0002421) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P51790 CLCN3 is_active_in GO:0098978 PMID:11182090 IEP C H(+)/Cl(-) exchange transporter 3 CLCN3 protein taxon:9606 20240306 SynGO part_of(UBERON:0000955) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P51790 CLCN3 is_active_in GO:0098982 PMID:11182090 IEP C H(+)/Cl(-) exchange transporter 3 CLCN3 protein taxon:9606 20240306 SynGO part_of(UBERON:0000955) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q13526 PIN1 is_active_in GO:0098978 PMID:28458925 IEP C Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 PIN1 protein taxon:9606 20240306 SynGO part_of(UBERON:0000956) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q13526 PIN1 is_active_in GO:0099524 PMID:28458925 IEP C Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 PIN1 protein taxon:9606 20240306 SynGO part_of(GO:0098978),part_of(UBERON:0000956) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q8N6T3 ARFGAP1 is_active_in GO:0045202 PMID:22423108 IEP C ADP-ribosylation factor GTPase-activating protein 1 ARFGAP1|ARF1GAP protein taxon:9606 20240306 SynGO part_of(UBERON:0000955) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q96LT7 C9orf72 is_active_in GO:0099523 PMID:30075745 IEP C Guanine nucleotide exchange factor C9orf72 C9orf72|DENND9|DENNL72 protein taxon:9606 20240306 SynGO `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q9ULW5 RAB26 is_active_in GO:0030672 PMID:25643395 IEP C Ras-related protein Rab-26 RAB26 protein taxon:9606 20240306 SynGO part_of(UBERON:0002421) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P10096 GAPDH is_active_in GO:0098850 PMID:12488440 IEP C Glyceraldehyde-3-phosphate dehydrogenase GAPDH|GAPD protein taxon:9913 20240306 SynGO part_of(UBERON:0001869) `

gorule-0000008

No annotations should be made to uninformative high level terms

• total: 4

messages

• WARNING - Violates GO Rule:GORULE:0000008: No annotations should be made to uninformatively high level terms--`MGI MGI:1316660 Cacng2 involved_in GO:2000311 MGI:MGI:5887196|PMID:15758178 IDA P calcium channel, voltage-dependent, gamma subunit 2 B230105C07Rik|B930041E13Rik|stargazin|TARP gamma 2 protein_coding_gene taxon:10090 20170324 SynGO `
• WARNING - Violates GO Rule:GORULE:0000008: No annotations should be made to uninformatively high level terms--`MGI MGI:1919805 Shisa9 involved_in GO:0098962 MGI:MGI:4440391|PMID:20185686 IC GO:0045211,GO:2000311 P shisa family member 9 2700045P11Rik|CKAMP44 protein_coding_gene taxon:10090 20160615 SynGO occurs_in(GO:0098794),occurs_in(GO:0060076),has_input(GO:0032281) `
• WARNING - Violates GO Rule:GORULE:0000008: No annotations should be made to uninformatively high level terms--`MGI MGI:1919805 Shisa9 involved_in GO:2000311 MGI:MGI:4440391|PMID:20185686 IDA P shisa family member 9 2700045P11Rik|CKAMP44 protein_coding_gene taxon:10090 20160603 SynGO `
• WARNING - Violates GO Rule:GORULE:0000008: No annotations should be made to uninformatively high level terms--`UniProtKB Q8TDF5 NETO1 involved_in GO:2000312 PMID:26277340 IDA P Neuropilin and tolloid-like protein 1 NETO1|BTCL1 protein taxon:9606 20160620 SynGO `

gorule-0000013

Taxon-appropriate annotation check

• total: 2

messages

• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`UniProtKB O73706 CACNA1B is_active_in GO:0044305 PMID:7993621 EXP C Voltage-dependent N-type calcium channel subunit alpha-1B CACNA1B protein taxon:9031 20240306 SynGO `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`UniProtKB O73706 CACNA1B is_active_in GO:0044305 PMID:7993621 IDA C Voltage-dependent N-type calcium channel subunit alpha-1B CACNA1B protein taxon:9031 20240306 SynGO `

gorule-0000016

With/From: IC annotations require a With/From GO ID

• total: 1

messages

• WARNING - Violates GO Rule:GORULE:0000016: All IC annotations should include a GO ID in the "With/From" column that is also different from the entry in the "GO ID" column--`MGI MGI:95808 Gria1 located_in GO:0098839 MGI:MGI:3615715|PMID:14555717 IC GO:0098839 C glutamate receptor, ionotropic, AMPA1 (alpha 1) 2900051M01Rik|Glr1|Glr-1|GluA1|Glur1|Glur-1|GluR1|GluRA|GluR-A|HIPA1 protein_coding_gene taxon:10090 20161125 SynGO part_of(GO:0060076),part_of(CL:1001571),part_of(EMAPA:32768) `

gorule-0000020

Automatic repair of annotations to merged or obsoleted terms

• total: 1

messages

• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`RGD 2261 Camk2a involved_in GO:0099004 PMID:20670832|RGD:12050125 IMP P calcium/calmodulin-dependent protein kinase II alpha gene taxon:10116 20170126 SynGO occurs_in(GO:0043197),occurs_in(CL:0002608) `