GORULE violations assigned by HGNC-UCL

Contents

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

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

gorule-0000027 Each identifier in GAF is valid

gorule-0000046 The ‘with’ field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to ‘self-binding’ terms.

gorule-0000061 Allowed gene product to term relations (gp2term)

gorule-0000065 Annotations to term that are candidates for obsoletion should be removed

MESSAGES

gorule-0000008

No annotations should be made to uninformative high level terms

• total: 2

messages

• WARNING - Violates GO Rule:GORULE:0000008: No annotations should be made to uninformatively high level terms--`UniProtKB P41226 UBA7 involved_in GO:0036211 PMID:16428300 IDA P Ubiquitin-like modifier-activating enzyme 7 UBA7|UBE1L|UBE2 protein taxon:9606 20070205 HGNC-UCL UniProtKB:P41226 `
• WARNING - Violates GO Rule:GORULE:0000008: No annotations should be made to uninformatively high level terms--`UniProtKB Q86XK2 FBXO11 involved_in GO:0036211 PMID:16487488 IDA P F-box only protein 11 FBXO11|FBX11|PRMT9|VIT1|UG063H01 protein taxon:9606 20071025 HGNC-UCL UniProtKB:Q86XK2 `

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--`UniProtKB P60662 MYL6 enables GO:0000146 PMID:16953301 IC GO:0000146 F Myosin light polypeptide 6 MYL6 protein taxon:9823 20070416 HGNC-UCL UniProtKB:P60662 `

gorule-0000027

Each identifier in GAF is valid

• total: 4

messages

• WARNING - Invalid identifier:GORULE:0000027: ZDB-PUB-110105-1 does not match any id_syntax patterns for ZFIN in dbxrefs--`ZFIN ZDB-GENE-040801-115 dpm1 involved_in GO:0006506 ZFIN:ZDB-PUB-110105-1 ISS UniProtKB:O60762 P dolichyl-phosphate mannosyltransferase subunit 1, catalytic zgc:101018 protein_coding_gene taxon:7955 20070403 HGNC-UCL `
• WARNING - Invalid identifier:GORULE:0000027: ZDB-PUB-110105-1 does not match any id_syntax patterns for ZFIN in dbxrefs--`ZFIN ZDB-GENE-030131-2172 metap2b involved_in GO:0016485 ZFIN:ZDB-PUB-110105-1 ISS UniProtKB:P50579 P methionyl aminopeptidase 2b metap2|wu:fb98h06|zgc:66250 protein_coding_gene taxon:7955 20070328 HGNC-UCL `
• WARNING - Invalid identifier:GORULE:0000027: ZDB-PUB-110105-1 does not match any id_syntax patterns for ZFIN in dbxrefs--`ZFIN ZDB-GENE-030131-2172 metap2b located_in GO:0005737 ZFIN:ZDB-PUB-110105-1 ISS UniProtKB:P50579 C methionyl aminopeptidase 2b metap2|wu:fb98h06|zgc:66250 protein_coding_gene taxon:7955 20070328 HGNC-UCL `
• WARNING - Invalid identifier:GORULE:0000027: ZDB-PUB-110105-1 does not match any id_syntax patterns for ZFIN in dbxrefs--`ZFIN ZDB-GENE-050913-42 pdf involved_in GO:0043687 ZFIN:ZDB-PUB-110105-1 ISS UniProtKB:Q9HBH1 P peptide deformylase, mitochondrial zgc:114141 protein_coding_gene taxon:7955 20250119 HGNC-UCL `

gorule-0000046

The ‘with’ field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to ‘self-binding’ terms.

• total: 22

messages

• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q28997 ADRB2 enables GO:0042803 GO_REF:0000024 ISS UniProtKB:P07550 F Beta-2 adrenergic receptor ADRB2 protein taxon:9823 20250125 HGNC-UCL UniProtKB:Q28997 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q95252 ADRB3 enables GO:0042803 GO_REF:0000024 ISS UniProtKB:P13945 F Beta-3 adrenergic receptor ADRB3|BAR3 protein taxon:9823 20070906 HGNC-UCL UniProtKB:Q95252 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`RGD 2061 Adrb3 enables GO:0042803 GO_REF:0000024|RGD:1600115 ISS UniProtKB:P13945 F adrenoceptor beta 3 gene taxon:10116 20060703 HGNC-UCL `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB P13945 ADRB3 enables GO:0042803 PMID:15123695 IDA F Beta-3 adrenergic receptor ADRB3|ADRB3R|B3AR protein taxon:9606 20060628 HGNC-UCL UniProtKB:P13945 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB P20585 MSH3 NOT|enables GO:0042803 PMID:8942985 IDA F DNA mismatch repair protein Msh3 MSH3|DUC1|DUG protein taxon:9606 20060905 HGNC-UCL UniProtKB:P20585 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB P21549 AGXT enables GO:0042803 PMID:12899834 IDA F Alanine--glyoxylate aminotransferase AGXT|AGT1|SPAT protein taxon:9606 20060810 HGNC-UCL UniProtKB:P21549 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB P43246 MSH2 enables GO:0042803 PMID:8942985 IDA F DNA mismatch repair protein Msh2 MSH2 protein taxon:9606 20060905 HGNC-UCL UniProtKB:P43246 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q07812 BAX enables GO:0042803 PMID:16608847 IDA F Apoptosis regulator BAX BAX|BCL2L4 protein taxon:9606 20070301 HGNC-UCL UniProtKB:Q07812 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q12904 AIMP1 enables GO:0042803 PMID:11306575 IDA F Aminoacyl tRNA synthase complex-interacting multifunctional protein 1 AIMP1|EMAP2|SCYE1 protein taxon:9606 20071018 HGNC-UCL UniProtKB:Q12904 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q15223 NECTIN1 enables GO:0042803 GO_REF:0000024 ISS UniProtKB:Q9JKF6 F Nectin-1 NECTIN1|HVEC|PRR1|PVRL1 protein taxon:9606 20230221 HGNC-UCL UniProtKB:Q15223 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q15257 PTPA enables GO:0042803 PMID:16916641 IDA F Serine/threonine-protein phosphatase 2A activator PTPA|PPP2R4 protein taxon:9606 20070426 HGNC-UCL UniProtKB:Q15257 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q8N126 CADM3 enables GO:0042803 PMID:12826663 ISS UniProtKB:Q99N28 F Cell adhesion molecule 3 CADM3|IGSF4B|NECL1|SYNCAM3|TSLL1|UNQ225/PRO258 protein taxon:9606 20230221 HGNC-UCL UniProtKB:Q8N126 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q9NPP4 NLRC4 enables GO:0042803 PMID:15107016 IDA F NLR family CARD domain-containing protein 4 NLRC4|CARD12|CLAN|CLAN1|IPAF|UNQ6189/PRO20215 protein taxon:9606 20060524 HGNC-UCL UniProtKB:Q9NPP4 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q9NQS3 NECTIN3 enables GO:0042803 GO_REF:0000024 ISS UniProtKB:Q9JLB9 F Nectin-3 NECTIN3|PRR3|PVRL3 protein taxon:9606 20230221 HGNC-UCL UniProtKB:Q9NQS3 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q9ULZ3 PYCARD enables GO:0042803 PMID:15030775 IDA F Apoptosis-associated speck-like protein containing a CARD PYCARD|ASC|CARD5|TMS1 protein taxon:9606 20060525 HGNC-UCL UniProtKB:Q9ULZ3 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q9Y2G2 CARD8 enables GO:0042803 PMID:15030775 IDA F Caspase recruitment domain-containing protein 8 CARD8|DACAR|KIAA0955|NDPP1 protein taxon:9606 20060525 HGNC-UCL UniProtKB:Q9Y2G2 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q9Y697 NFS1 enables GO:0042803 PMID:16527810 IDA F Cysteine desulfurase NFS1|NIFS|HUSSY-08 protein taxon:9606 20071022 HGNC-UCL UniProtKB:Q9Y697 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB P46626 ADRB3 enables GO:0042803 GO_REF:0000024 ISS UniProtKB:P13945 F Beta-3 adrenergic receptor ADRB3 protein taxon:9913 20060703 HGNC-UCL UniProtKB:P46626 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q28044 ADRB2 enables GO:0042803 GO_REF:0000024 ISS UniProtKB:P07550 F Beta-2 adrenergic receptor ADRB2 protein taxon:9913 20250125 HGNC-UCL UniProtKB:Q28044 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB Q8HXK9 PYCARD enables GO:0042803 GO_REF:0000024 ISS UniProtKB:Q9ULZ3 F Apoptosis-associated speck-like protein containing a CARD PYCARD|ASC protein taxon:9913 20060525 HGNC-UCL UniProtKB:Q8HXK9 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB O02662 ADRB3 enables GO:0042803 GO_REF:0000024 ISS UniProtKB:P13945 F Beta-3 adrenergic receptor ADRB3|B3AR protein taxon:9615 20060703 HGNC-UCL UniProtKB:O02662 `
• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB P54833 ADRB2 enables GO:0042803 GO_REF:0000024 ISS UniProtKB:P07550 F Beta-2 adrenergic receptor ADRB2 protein taxon:9615 20250125 HGNC-UCL UniProtKB:P54833 `

gorule-0000061

Allowed gene product to term relations (gp2term)

• total: 2

messages

• WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`UniProtKB P12883 MYH7 is_active_in GO:0016459 PMID:12933792 TAS C Myosin-7 MYH7|MYHCB protein taxon:9606 20240214 HGNC-UCL UniProtKB:P12883 `
• WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`UniProtKB P13533 MYH6 is_active_in GO:0016459 PMID:12933792 TAS C Myosin-6 MYH6|MYHCA protein taxon:9606 20240214 HGNC-UCL UniProtKB:P13533 `

gorule-0000065

Annotations to term that are candidates for obsoletion should be removed

• total: 1

messages

• WARNING - Violates GO Rule:GORULE:0000065: Annotations to term that are candidates for obsoletion should be removed--`ZFIN ZDB-GENE-040426-1291 ube2nb involved_in GO:0051092 ZFIN:ZDB-PUB-110105-1 ISS UniProtKB:P61088 P ubiquitin-conjugating enzyme E2Nb ubc13b|ube2nl|zgc:63901 protein_coding_gene taxon:7955 20110323 HGNC-UCL `