GORULE violations assigned by DisProt

Contents

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

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

gorule-0000027 Each identifier in GAF is valid

gorule-0000028 GO aspect should match the term's namespace; otherwise it is repaired to the appropriate aspect

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)

MESSAGES

gorule-0000006

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

• total: 11

messages

• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`MGI MGI:97769 Prnp enables GO:0140677 PMID:28945221 IEP F Major prion protein protein taxon:10090 20220228 DisProt `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB O14672 ADAM10 enables GO:0042803 PMID:25349418 IEP F Disintegrin and metalloproteinase domain-containing protein 10 ADAM10|KUZ|MADM protein taxon:9606 20220228 DisProt has_input(UniProtKB:O14672) UniProtKB:O14672 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P01106 MYC enables GO:0140537 PMID:8755740 IEP F Myc proto-oncogene protein MYC|BHLHE39 protein taxon:9606 20220228 DisProt UniProtKB:P01106 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P18564 ITGB6 enables GO:0140677 PMID:11821050 IEP F Integrin beta-6 ITGB6 protein taxon:9606 20220228 DisProt UniProtKB:P18564 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P40337 VHL enables GO:0003714 PMID:11641274 IEP F von Hippel-Lindau disease tumor suppressor VHL protein taxon:9606 20220228 DisProt UniProtKB:P40337 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P46379 BAG6 enables GO:0140677 PMID:25713138 IEP F Large proline-rich protein BAG6 BAG6|BAT3|G3 protein taxon:9606 20220228 DisProt UniProtKB:P46379 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q06787 FMR1 enables GO:0008143 PMID:10496225 IEP F Fragile X messenger ribonucleoprotein 1 FMR1 protein taxon:9606 20220228 DisProt UniProtKB:Q06787 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q06787 FMR1 enables GO:0008266 PMID:10496225 IEP F Fragile X messenger ribonucleoprotein 1 FMR1 protein taxon:9606 20220228 DisProt UniProtKB:Q06787 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q06787 FMR1 enables GO:0034046 PMID:10496225 IEP F Fragile X messenger ribonucleoprotein 1 FMR1 protein taxon:9606 20220228 DisProt UniProtKB:Q06787 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB Q16236 NFE2L2 enables GO:0031625 PMID:16888629 IEP F Nuclear factor erythroid 2-related factor 2 NFE2L2|NRF2 protein taxon:9606 20220228 DisProt has_input(UniProtKB:Q14145) UniProtKB:Q16236 `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB P06836 GAP43 enables GO:0008289 PMID:1826685 IEP F Neuromodulin GAP43 protein taxon:9913 20220228 DisProt UniProtKB:P06836 `

gorule-0000020

Automatic repair of annotations to merged or obsoleted terms

• total: 7

messages

• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`UniProtKB Q8TEA8 DTD1 involved_in GO:0032508 PMID:17264083 EXP P D-aminoacyl-tRNA deacylase 1 DTD1|C20orf88|DUEB|HARS2 protein taxon:9606 20220228 DisProt UniProtKB:Q8TEA8 `
• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`UniProtKB P53999 SUB1 involved_in GO:1905463 PMID:16605275 IDA P Activated RNA polymerase II transcriptional coactivator p15 SUB1|PC4|RPO2TC1 protein taxon:9606 20220228 DisProt UniProtKB:P53999 `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`UniProtKB Q14457 BECN1 involved_in GO:0039521 PMID:18797192 IDA P Beclin-1 BECN1|GT197 protein taxon:9606 20220228 DisProt UniProtKB:Q14457 `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`ZFIN ZDB-GENE-031112-4 stm involved_in GO:0051238 PMID:26445027|ZFIN:ZDB-PUB-151008-2 IDA P starmaker cb885|id:ibd5112|sb:cb148|sb:cb568|sb:cb584 protein_coding_gene taxon:7955 20220228 DisProt `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`UniProtKB P04554 PRM2 involved_in GO:0051238 PMID:2243113 EXP P Protamine-2 PRM2 protein taxon:9606 20220228 DisProt UniProtKB:P04554 `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`UniProtKB P80303 NUCB2 involved_in GO:0051238 PMID:32184136 EXP P Nucleobindin-2 NUCB2|NEFA protein taxon:9606 20220228 DisProt UniProtKB:P80303 `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`UniProtKB Q02297 NRG1 involved_in GO:0051238 PMID:25944317 EXP P Pro-neuregulin-1, membrane-bound isoform NRG1|GGF|HGL|HRGA|NDF|SMDF protein taxon:9606 20220228 DisProt UniProtKB:Q02297-10 `

gorule-0000027

Each identifier in GAF is valid

• total: 5

messages

• WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB A0A1D5PXA5 TRPV4 enables GO:0008289 PMID:37443299 IPI ChEBI:34080,ChEBI:73001 F Transient receptor potential cation channel subfamily V member 4 TRPV4 protein taxon:9031 20220228 DisProt UniProtKB:A0A1D5PXA5 `
• WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB A0A1D5PXA5 TRPV4 enables GO:0008289 PMID:37443299 IPI ChEBI:34080,ChEBI:73001 F Transient receptor potential cation channel subfamily V member 4 TRPV4 protein taxon:9031 20220228 DisProt UniProtKB:A0A1D5PXA5 `
• WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB O00499 BIN1 enables GO:0008289 PMID:18658220 EXP F Myc box-dependent-interacting protein 1 BIN1|AMPHL protein taxon:9606 20220228 DisProt has_input(ChEBI:78018) UniProtKB:O00499 `
• WARNING - Invalid identifier:GORULE:0000027: 1341044 does not match any id_syntax patterns for MGI in dbxrefs--`MGI MGI:1341044 Alyref enables GO:0060090 PMID:12809490 EXP F THO complex subunit 4 protein taxon:10090 20220228 DisProt `
• WARNING - Invalid identifier:GORULE:0000027: 1341044 does not match any id_syntax patterns for MGI in dbxrefs--`MGI MGI:1341044 Alyref enables GO:0140691 PMID:12809490 EXP F THO complex subunit 4 protein taxon:10090 20220228 DisProt `

gorule-0000028

GO aspect should match the term's namespace; otherwise it is repaired to the appropriate aspect

• total: 4

messages

• WARNING - Violates GO Rule:GORULE:0000028: Found violation of: `Aspect can only be one of C, P, F` but was repaired--`ZFIN ZDB-GENE-031112-4 stm involved_in GO:0051238 PMID:26445027|ZFIN:ZDB-PUB-151008-2 IDA P starmaker cb885|id:ibd5112|sb:cb148|sb:cb568|sb:cb584 protein_coding_gene taxon:7955 20220228 DisProt `
• WARNING - Violates GO Rule:GORULE:0000028: Found violation of: `Aspect can only be one of C, P, F` but was repaired--`UniProtKB P04554 PRM2 involved_in GO:0051238 PMID:2243113 EXP P Protamine-2 PRM2 protein taxon:9606 20220228 DisProt UniProtKB:P04554 `
• WARNING - Violates GO Rule:GORULE:0000028: Found violation of: `Aspect can only be one of C, P, F` but was repaired--`UniProtKB P80303 NUCB2 involved_in GO:0051238 PMID:32184136 EXP P Nucleobindin-2 NUCB2|NEFA protein taxon:9606 20220228 DisProt UniProtKB:P80303 `
• WARNING - Violates GO Rule:GORULE:0000028: Found violation of: `Aspect can only be one of C, P, F` but was repaired--`UniProtKB Q02297 NRG1 involved_in GO:0051238 PMID:25944317 EXP P Pro-neuregulin-1, membrane-bound isoform NRG1|GGF|HGL|HRGA|NDF|SMDF protein taxon:9606 20220228 DisProt UniProtKB:Q02297-10 `

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: 4

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--`MGI MGI:107376 Msi1 enables GO:0042803 PMID:32225071 IDA F RNA-binding protein Musashi homolog 1 protein taxon:10090 20220228 DisProt has_input(UniProtKB:Q61474) `
• 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--`MGI MGI:1925662 Cyren involved_in GO:0051260 PMID:30017584 EXP P Cell cycle regulator of non-homologous end joining protein taxon:10090 20220228 DisProt `
• 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--`MGI MGI:1929258 Kcnip3 enables GO:0042803 PMID:15746104 EXP F Calsenilin protein taxon:10090 20220228 DisProt has_input(UniProtKB:Q9QXT8) `
• 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 P80723 BASP1 involved_in GO:0051260 PMID:32750402 IDA P Brain acid soluble protein 1 BASP1|NAP22 protein taxon:9606 20220228 DisProt UniProtKB:P80723 `

gorule-0000061

Allowed gene product to term relations (gp2term)

• total: 9

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--`MGI MGI:1925662 Cyren is_active_in GO:1990391 PMID:30017584 IPI UniProtKB:P23475,UniProtKB:P70388,UniProtKB:P97313,UniProtKB:Q3KNJ2,UniProtKB:Q61216,UniProtKB:Q62388,UniProtKB:Q8K0Y7,UniProtKB:Q9R207 C Cell cycle regulator of non-homologous end joining protein taxon:10090 20220228 DisProt `
• 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:0002331 should be one of RO:0002327, RO:0002326. Repaired to RO:0002327--`ZFIN ZDB-GENE-031112-4 stm involved_in GO:0051238 PMID:26445027|ZFIN:ZDB-PUB-151008-2 IDA P starmaker cb885|id:ibd5112|sb:cb148|sb:cb568|sb:cb584 protein_coding_gene taxon:7955 20220228 DisProt `
• 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 O43561 LAT is_active_in GO:0036398 PMID:33080222 IDA C Linker for activation of T-cells family member 1 LAT protein taxon:9606 20220228 DisProt UniProtKB:O43561-2 `
• 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:0002331 should be one of RO:0002327, RO:0002326. Repaired to RO:0002327--`UniProtKB P04554 PRM2 involved_in GO:0051238 PMID:2243113 EXP P Protamine-2 PRM2 protein taxon:9606 20220228 DisProt UniProtKB:P04554 `
• 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 P38936 CDKN1A is_active_in GO:0070557 PMID:11463845 IPI UniProtKB:P12004 C Cyclin-dependent kinase inhibitor 1 CDKN1A|CAP20|CDKN1|CIP1|MDA6|PIC1|SDI1|WAF1 protein taxon:9606 20220228 DisProt UniProtKB:P38936 `
• 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:0002331 should be one of RO:0002327, RO:0002326. Repaired to RO:0002327--`UniProtKB P80303 NUCB2 involved_in GO:0051238 PMID:32184136 EXP P Nucleobindin-2 NUCB2|NEFA protein taxon:9606 20220228 DisProt UniProtKB:P80303 `
• 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:0002331 should be one of RO:0002327, RO:0002326. Repaired to RO:0002327--`UniProtKB Q02297 NRG1 involved_in GO:0051238 PMID:25944317 EXP P Pro-neuregulin-1, membrane-bound isoform NRG1|GGF|HGL|HRGA|NDF|SMDF protein taxon:9606 20220228 DisProt UniProtKB:Q02297-10 `
• 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 Q16236 NFE2L2 is_active_in GO:0016592 PMID:32727915 EXP C Nuclear factor erythroid 2-related factor 2 NFE2L2|NRF2 protein taxon:9606 20220228 DisProt UniProtKB:Q16236 `
• 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 Q92574 TSC1 is_active_in GO:0033596 PMID:26893383 EXP C Hamartin TSC1|KIAA0243|TSC protein taxon:9606 20220228 DisProt UniProtKB:Q92574 `