GORULE Violations

Generated by GOA at EMBL-EBI logo - 2026-07-24 16:44:02.421089

Total Lines

341

Total Lines Processed

341

Valid Lines

248 (72.73%)

Total Problems Detected

93

File Header

!gaf-version: 2.2
!generated-by: GOC
!date-generated: 2026-02-17
! Dummy GAF file containing deliberate errors to test that GO rules are correctly implemented.
! Should be equivalent to https://github.com/geneontology/go-site/blob/master/docs/gorules_test_errors.gpad when the rule applies.
! FAILS GORULE:0000001 - empty col1 and col2
RuleDescriptionCount
⛔️GORULE:0000001 GAF lines are parsed according to GAF 2.2 specifications 47
⛔️GORULE:0000002 No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515' 2
⛔️GORULE:0000005 IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations are not allowed for direct annotations to protein binding ; GO:0005515 or GO:0005488 binding 3
⛔️GORULE:0000006 IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC 4
⛔️GORULE:0000007 IPI should not be used with GO:0003824 catalytic activity or descendants 1
⛔️GORULE:0000008 No annotations should be made to uninformative high level terms 2
⛔️GORULE:0000011 ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND 2
⚠️GORULE:0000013 Taxon-appropriate annotation check 27
⛔️GORULE:0000015 Dual species taxon check 3
⛔️GORULE:0000016 With/From: IC annotations require a With/From GO ID 3
⛔️GORULE:0000017 IDA annotations must not have a With/From entry 2
⛔️GORULE:0000018 IPI annotations require a With/From entry 3
⛔️GORULE:0000020 Automatic repair of annotations to merged or obsoleted terms 8
⛔️GORULE:0000022 Check for, and filter, annotations made to retracted publications 1
⛔️GORULE:0000027 Each identifier in GAF is valid 29
⚠️GORULE:0000030 Obsolete GO_REFs are not allowed 1
⛔️GORULE:0000033 Group-specific Reference IDs are not allowed, only public reference IDs (PMID, doi, or GO_REF) 1
⛔️GORULE:0000039 Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants 2
⛔️GORULE:0000042 Qualifier: IKR evidence code requires a NOT qualifier 1
✅GORULE:0000043 Check for valid combination of evidence code and GO_REF 0
⛔️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. 3
⛔️GORULE:0000050 Annotations to ISS, ISA and ISO should not be self-referential 3
✅GORULE:0000053 'NOT' annotation should not have extension 0
⛔️GORULE:0000055 References should have only one ID per ID space 2
⛔️GORULE:0000063 Annotations using ISS/ISA/ISO evidence should refer to a gene product (in the 'with' column) 1
⚠️GORULE:0000065 Term candidate for obsoletion 2

Messages

⛔️ GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications

  • Total Violations: 47
  • Line 7 – ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Too few fields (13), expected at least 15
  • Line 9 – PomBase SPAC977.10 is_active_in GO:1990578 PMID:19171118 IDA C plasma membrane sodium ion/proton antiporter Nhe1/Sod2 sod2 protein taxon:4896 20151201 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-DB Object Symbol is required
  • Line 11 –
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Too few fields (1), expected at least 15
  • Line 13 – PomBase SPAC977.10
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Too few fields (2), expected at least 15
  • Line 15 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-1 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase part_of
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-(see also GORULE:0000058) bad extension syntax
  • Line 17 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-2 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase part_of(x)
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-(see also GORULE:0000058) bad extension syntax
  • Line 19 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-3 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase part_of(X:9 X:8)
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-(see also GORULE:0000058) bad extension syntax
  • Line 21 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-4 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase "part_of(X:9 X:8),part_of(X:1)"
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-(see also GORULE:0000058) bad extension syntax
  • Line 23 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 MADEUP SGD:S000001583 C GORULE_TEST:0000001-5 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase part_of(X:1)
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Evidence Code is invalid: MADEUP
  • Line 25 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-6 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 3/5/15 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Date must be in YYYYMMDD format
  • Line 25 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-6 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 3/5/15 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Date must be in YYYYMMDD format
  • Line 27 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-7 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 TODAY PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Date must be in YYYYMMDD format
  • Line 27 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-7 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 TODAY PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Date must be in YYYYMMDD format
  • Line 29 – ZFIN ZDB-GENE-070117-1552 obj_symbol acts_upstream_of_or_within GO:0045601 PMID:17531218 IMP ZFIN:ZDB-GENO-080318-17 P GORULE_TEST:0000001-8 gene_product taxon:0 20080326 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-bad entity type - gene_product
  • Line 29 – ZFIN ZDB-GENE-070117-1552 obj_symbol acts_upstream_of_or_within GO:0045601 PMID:17531218 IMP ZFIN:ZDB-GENO-080318-17 P GORULE_TEST:0000001-8 gene_product taxon:0 20080326 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Invalid taxon id
  • Line 31 – ZFIN ZDB-GENE-070117-1552 obj_symbol acts_upstream_of_or_within GO:0045601 PMID:17531218 IMP ZFIN:ZDB-GENO-080318-17 P GORULE_TEST:0000001-9 gene_product taxon:12v!89 20080326 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-bad entity type - gene_product
  • Line 31 – ZFIN ZDB-GENE-070117-1552 obj_symbol acts_upstream_of_or_within GO:0045601 PMID:17531218 IMP ZFIN:ZDB-GENO-080318-17 P GORULE_TEST:0000001-9 gene_product taxon:12v!89 20080326 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Invalid taxon id
  • Line 33 – FB FBgn0011273 Acam GO:0070865 FB:FBrf0193169|PMID:16790438 IDA C GORULE_TEST:0000001-10 Androcam ACaM|And|CG17769|CalB|Calmodulin-related 97A|Camr97A|androcalmodulin|androcam protein taxon:7227 20180501 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Relation must have 1 or 2 items
  • Line 35 – PomBase SPAC25B8.17 ypf1 is_active_in BAD_GO_ID GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-11 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-GO ID must start with 'GO:'
  • Line 37 – PomBase SPAC25B8.18 ypf2 is_active_in GO0006921 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-12 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-GO ID must start with 'GO:'
  • Line 39 – PomBase SPAC25B8.19 ypf3 is_active_in RO:0006921 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-13 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-GO ID must start with 'GO:'
  • Line 41 – UniProtKB A1B2F4 aztD "acts_upstream_of,_positive_effect" GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-14 protein taxon:318586 20230427 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Invalid relation value
  • Line 43 – UniProtKB A1B2F4 aztD acts_upstream_of_,positive_effect GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-15 protein taxon:318586 20230427 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Invalid relation value
  • Line 45 – UniProtKB A1B2F4 aztD "acts_upstream_of_or_within,_positive_effect" GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-16 protein taxon:318586 20230427 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Invalid relation value
  • Line 47 – UniProtKB A1B2F4 aztD "acts_upstream_of_or_within,_negative_effect" GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-17 protein taxon:318586 20230427 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Invalid relation value
  • Line 49 – UniProtKB A1B2F4 azt|D acts_upstream_of_or_within_negative_effect GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-18 protein taxon:318586 20230427 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Pipes are not allowed in Symbol field (GAF column 3)
  • Line 51 – UniProtKB A0A078CGE6 M3KE1 enables GO:0005515 PMID:11489177 IPI A0A078FEZ9 F GORULE_TEST:0000001-19 protein taxon:3708 20150115 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-'with' missing namespace
  • Line 53 – PomBase SPAC25B8.17 ypf1 is_active_in BAD_GO_ID GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-20 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-GO ID must start with 'GO:'
  • Line 55 – PomBase SPAC25B8.18 ypf2 is_active_in GO0006921 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-21 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-GO ID must start with 'GO:'
  • Line 57 – PomBase SPAC25B8.19 ypf3 is_active_in RO:0006921 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-22 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-GO ID must start with 'GO:'
  • Line 59 – UniProtKB O76187 darA NOT|enables GO:0005509 PMID:9802899 IDA GO0005634 F GORULE_TEST:0000001-23 Darlin darA protein taxon:44689 20100205 PomBase
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-'with' missing namespace
  • Line 61 – UniProtKB A0A078CGE6 M3KE1 enables GO:0005515 PMID:11489177 IPI A0A078FEZ9 F GORULE_TEST:0000001-24 protein taxon:3708 20150115 PomBase involved_in(GO0090503)
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-'with' missing namespace
  • Line 61 – UniProtKB A0A078CGE6 M3KE1 enables GO:0005515 PMID:11489177 IPI A0A078FEZ9 F GORULE_TEST:0000001-24 protein taxon:3708 20150115 PomBase involved_in(GO0090503)
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-(see also GORULE:0000058) bad extension syntax
  • Line 63 – UniProtKB A1B2F4 aztD acts upstream of GO:0097696 PMID:26468286 IDA F GORULE_TEST:0000001-25 protein taxon:318586 20230427 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Invalid relation value
  • Line 65 – UniProtKB A1B2F4 aztD acts upstream of GO:0097696 PMID:26468286 IDA F GORULE_TEST:0000001-26 other taxon:318586 20230427 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Invalid relation value
  • Line 65 – UniProtKB A1B2F4 aztD acts upstream of GO:0097696 PMID:26468286 IDA F GORULE_TEST:0000001-26 other taxon:318586 20230427 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-bad entity type - other
  • Line 67 – UniProtKB A1B2F4 aztD acts_upstream_of_positive_effect GO:0097696 PMID:26468286 IDA F GORULE_TEST:0000001-27 taxon:318586 20230427 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-bad entity type -
  • Line 69 – UniProtKB A1B2F4 aztD acts_upstream_of_positive_effect GO:0097696 PMID:26468286 IDA F GORULE_TEST:0000001-28 misc_RNA taxon:318586 20230427 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-bad entity type - misc_RNA
  • Line 71 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 PMID: IDA P GORULE_TEST:0000001-29 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Bad reference syntax (has namespace but not value)
  • Line 73 – UniProtKB Q6UW15 REG3G involved_in GO:0006401 PMID:16931762 IGI UniProtKB:P77335|A0A0K3AV08 P GORULE_TEST:0000001-30 Regenerating islet-derived protein 3-gamma REG3G|PAP1B|UNQ429/PRO162 protein taxon:9606 20220606 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-'with' missing namespace
  • Line 75 – FB FBgn0024811 Crk involved_in GO:0048010 FB:FBrf0180198 PMID:15457211 IMP P GORULE_TEST:0000001-31 Crk oncogene CED-2|CG1587|CRK|D-CRK|D-Crk|DCrk|Dcrk|crk|dCRK|dCrk protein taxon:7227 20180912 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Two references in different ID spaces, space separated
  • Line 201 – UniProtKB A0A0K3AV08 mlk-1 enables GO:0005080 PMID:23072806 IDA GORULE_TEST:0000028-4 Mitogen-activated protein kinase kinase kinase mlk-1 mlk-1,K11D12.10 protein taxon:6239 20170322 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Aspect must be P, F, or C
  • Line 219 – ComplexPortal CPX-102 dapk-calm_human part_of GO:0032991 PMID:10629061 IMP C GORULE_TEST:0000039-1 protein_complex taxon:9606 20200218 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-bad entity type - protein_complex
  • Line 221 – ComplexPortal CPX-102 dapk-calm_human part_of GO:0043020 PMID:10629061 IMP C GORULE_TEST:0000039-2 protein_complex taxon:9606 20200218 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-bad entity type - protein_complex
  • Line 229 – UniProtKB P05067 APP enables GO:0042803 PMID:15447668 IPI UniProtKB:P05067-PRO_0000000092 F GORULE_TEST:0000046-3 protein taxon:9606 20230314 GO_Central UniProtKB:P05067-PRO_0000000092 `
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-(see also GORULE:0000058) bad extension syntax
  • Line 333 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000063-1 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20230427 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Too few fields (14), expected at least 15
  • Line 341 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0030047 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000065-1 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20230427 GO_Central
    GORULE:0000001-GAF lines are parsed according to GAF 2.2 specifications-Too few fields (14), expected at least 15

⛔️ GORULE:0000002-No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515'

  • Total Violations: 2
  • Line 77 – UniProtKB O76187 darA NOT|enables GO:0005515 PMID:9802899 IPI UniProtKB:P34149 F GORULE_TEST:0000002-1 Darlin darA protein taxon:44689 20100205 GO_Central
    GORULE:0000002-No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515'
  • Line 79 – UniProtKB O76187 darA NOT|enables GO:0005488 PMID:9802899 IPI UniProtKB:P34149 F GORULE_TEST:0000002-2 Darlin darA protein taxon:44689 20100205 GO_Central
    GORULE:0000002-No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515'

⛔️ GORULE:0000005-IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations are not allowed for direct annotations to protein binding ; GO:0005515 or GO:0005488 binding

  • Total Violations: 3
  • Line 81 – UniProtKB O76187 darA enables GO:0005515 PMID:9802899 ISS UniProtKB:P34149 F GORULE_TEST:0000005-1 Darlin darA protein taxon:44689 20100205 GO_Central
    GORULE:0000005-IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations are not allowed for direct annotations to protein binding ; GO:0005515 or GO:0005488 binding
  • Line 83 – UniProtKB O76187 darA enables GO:0005515 PMID:9802899 ISO UniProtKB:P34149 F GORULE_TEST:0000005-2 Darlin darA protein taxon:44689 20100205 GO_Central
    GORULE:0000005-IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations are not allowed for direct annotations to protein binding ; GO:0005515 or GO:0005488 binding
  • Line 85 – UniProtKB O76187 darA enables GO:0005515 GO_REF:0000033 IBA UniProtKB:P34149 F GORULE_TEST:0000005-3 Darlin darA protein taxon:44689 20100205 GO_Central
    GORULE:0000005-IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations are not allowed for direct annotations to protein binding ; GO:0005515 or GO:0005488 binding

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

  • Total Violations: 4
  • Line 87 – GeneDB PF3D7_0507500 SUB1 enables GO:0004672 PMID:12764150 IEP F GORULE_TEST:0000006-1 subtilisin-like protease 1 gene NCBITaxon:36329 20090624 GO_Central
    GORULE:0000006-IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC
  • Line 89 – GeneDB PF3D7_0507500 SUB1 enables GO:0004672 PMID:12764150 HEP F GORULE_TEST:0000006-2 subtilisin-like protease 1 gene NCBITaxon:36329 20090624 GO_Central
    GORULE:0000006-IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC
  • Line 91 – GeneDB PF3D7_0507500 SUB1 enables GO:0005634 PMID:12764150 IEP C GORULE_TEST:0000006-3 subtilisin-like protease 1 gene NCBITaxon:36329 20090624 GO_Central
    GORULE:0000006-IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC
  • Line 93 – GeneDB PF3D7_0507500 SUB1 enables GO:0004672 PMID:12764150 IEP F GORULE_TEST:0000006-4 subtilisin-like protease 1 gene NCBITaxon:36329 20090624 GOC
    GORULE:0000006-IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC

⛔️ GORULE:0000007-IPI should not be used with GO:0003824 catalytic activity or descendants

  • Total Violations: 1
  • Line 97 – UniProtKB A0A078CGE6 M3KE1 enables GO:0004674 PMID:11489177 IPI UniProtKB:A0A078FEZ9 F GORULE_TEST:0000007-1 protein taxon:3708 20150115 GO_Central
    GORULE:0000007-IPI should not be used with GO:0003824 catalytic activity or descendants

⛔️ GORULE:0000008-No annotations should be made to uninformative high level terms

  • Total Violations: 2
  • Line 99 – UniProtKB Q9DGE2 mapk14a is_active_in GO:0005622 PMID:10995439 IDA C GORULE_TEST:0000008-1 Mitogen-activated protein kinase 14A mapk14a|mapk14 protein taxon:7955 20180129 GO_Central
    GORULE:0000008-No annotations should be made to uninformative high level terms
  • Line 101 – UniProtKB Q9WVH3 Foxo4 involved_in GO:0007049 PMID:12048180 IDA P GORULE_TEST:0000008-2 Forkhead box protein O4 Foxo4|Afx|Afx1 protein taxon:10090 20110425 GO_Central
    GORULE:0000008-No annotations should be made to uninformative high level terms

⛔️ GORULE:0000011-ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND

  • Total Violations: 2
  • Line 103 – UniProtKB Q4KA26 PFL_3807 is_active_in GO:0016020 GO_REF:0000015 ND C GORULE_TEST:0000011-1 Putative membrane protein PFL_3807 protein taxon:220664 20090717 GO_Central
    GORULE:0000011-ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND
  • Line 105 – UniProtKB Q4KA26 PFL_3807 is_active_in GO:0005575 GO_REF:0000015 IDA C GORULE_TEST:0000011-2 Putative membrane protein PFL_3807 protein taxon:220664 20090717 GO_Central
    GORULE:0000011-ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND

⚠️ GORULE:0000013-Taxon-appropriate annotation check

  • Total Violations: 27
  • Line 29 – ZFIN ZDB-GENE-070117-1552 obj_symbol acts_upstream_of_or_within GO:0045601 PMID:17531218 IMP ZFIN:ZDB-GENO-080318-17 P GORULE_TEST:0000001-8 gene_product taxon:0 20080326 PomBase
    GORULE:0000013-Taxon-appropriate annotation check-GO:0045601 annotated to taxon:0 violated in_taxon 7742
  • Line 31 – ZFIN ZDB-GENE-070117-1552 obj_symbol acts_upstream_of_or_within GO:0045601 PMID:17531218 IMP ZFIN:ZDB-GENO-080318-17 P GORULE_TEST:0000001-9 gene_product taxon:12v!89 20080326 PomBase
    GORULE:0000013-Taxon-appropriate annotation check-GO:0045601 annotated to taxon:12v!89 violated in_taxon 7742
  • Line 41 – UniProtKB A1B2F4 aztD "acts_upstream_of,_positive_effect" GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-14 protein taxon:318586 20230427 PomBase
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 43 – UniProtKB A1B2F4 aztD acts_upstream_of_,positive_effect GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-15 protein taxon:318586 20230427 PomBase
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 45 – UniProtKB A1B2F4 aztD "acts_upstream_of_or_within,_positive_effect" GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-16 protein taxon:318586 20230427 PomBase
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 47 – UniProtKB A1B2F4 aztD "acts_upstream_of_or_within,_negative_effect" GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-17 protein taxon:318586 20230427 PomBase
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 49 – UniProtKB A1B2F4 azt|D acts_upstream_of_or_within_negative_effect GO:0005634 PMID:26468286 IDA C GORULE_TEST:0000001-18 protein taxon:318586 20230427 PomBase
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 113 – UniProtKB A0A0K2S4Q6 CD300H involved_in GO:0030593 PMID:26221034 IDA P GORULE_TEST:0000015-2 Protein CD300H CD300H protein taxon:9606|taxon:55511 20160428 GO_Central
    GORULE:0000013-Taxon-appropriate annotation check-GO:0030593 annotated to taxon:55511 violated in_taxon 7742
  • Line 119 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0010363 annotated to taxon:55511 violated in_taxon 3398
  • Line 155 – UniProtKB O76187 darA involved_in GO:0017015 PMID:37278189 IDA F GORULE_TEST:0000022-1 protein taxon:44689 20230513 GO_Central
    GORULE:0000013-Taxon-appropriate annotation check-GO:0017015 annotated to taxon:44689 violated in_taxon 33511
  • Line 265 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 267 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 283 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 285 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 287 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 289 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 291 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 293 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 295 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 313 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0000124 annotated to taxon:318586 violated in_taxon 2759
  • Line 319 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 321 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005634 annotated to taxon:318586 violated in_taxon 2759
  • Line 323 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0009504 annotated to taxon:318586 violated in_taxon 33090
  • Line 325 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0005739 annotated to taxon:318586 violated in_taxon 2759
  • Line 327 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0044423 annotated to taxon:318586 violated never_in_taxon 131567
  • Line 329 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0098030 annotated to taxon:318586 violated never_in_taxon 131567
  • Line 331 –
    GORULE:0000013-Taxon-appropriate annotation check-GO:0009504 annotated to taxon:318586 violated in_taxon 33090

⛔️ GORULE:0000015-Dual species taxon check

  • Total Violations: 3
  • Line 111 – UniProtKB O56786 hol187 is_active_in GO:0005886 PMID:10419939 IDA C GORULE_TEST:0000015-1 Holin protein Hol187 hol187 protein taxon:55511|taxon:9696 20170423 GO_Central
    GORULE:0000015-Dual species taxon check
  • Line 113 – UniProtKB A0A0K2S4Q6 CD300H involved_in GO:0030593 PMID:26221034 IDA P GORULE_TEST:0000015-2 Protein CD300H CD300H protein taxon:9606|taxon:55511 20160428 GO_Central
    GORULE:0000015-Dual species taxon check
  • Line 115 – UniProtKB O56786 hol187 is_active_in GO:0018995 PMID:10419939 IDA C GORULE_TEST:0000015-3 Holin protein Hol187 hol187 protein taxon:9606|taxon:9606 20170423 GO_Central
    GORULE:0000015-Dual species taxon check

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

  • Total Violations: 3
  • Line 125 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 GO_REF:0000036 IC P GORULE_TEST:0000016-1 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000016-With/From: IC annotations require a With/From GO ID
  • Line 127 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 GO_REF:0000036 IC UBERON:0002048 P GORULE_TEST:0000016-2 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000016-With/From: IC annotations require a With/From GO ID-column (with/from) is has a non-GOID
  • Line 129 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 GO_REF:0000036 IC GO:0006921 P GORULE_TEST:0000016-3 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000016-With/From: IC annotations require a With/From GO ID- column (with/from) is the same GOID

⛔️ GORULE:0000017-IDA annotations must not have a With/From entry

  • Total Violations: 2
  • Line 59 – UniProtKB O76187 darA NOT|enables GO:0005509 PMID:9802899 IDA GO0005634 F GORULE_TEST:0000001-23 Darlin darA protein taxon:44689 20100205 PomBase
    GORULE:0000017-IDA annotations must not have a With/From entry
  • Line 133 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 GO_REF:0000036 IDA GO:0004198|GO:0008092 P GORULE_TEST:0000017-1 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000017-IDA annotations must not have a With/From entry

⛔️ GORULE:0000018-IPI annotations require a With/From entry

  • Total Violations: 3
  • Line 135 – UniProtKB A0A0K3AV08 mlk-1 enables GO:0005080 PMID:23072806 IPI F GORULE_TEST:0000018-1 Mitogen-activated protein kinase kinase kinase mlk-1 mlk-1,K11D12.10 protein taxon:6239 20170322 GO_Central
    GORULE:0000018-IPI annotations require a With/From entry
  • Line 137 – UniProtKB A0A0K3AV08 mlk-1 enables GO:0005080 PMID:23072806 IPI F GORULE_TEST:0000018-2 Mitogen-activated protein kinase kinase kinase mlk-1 mlk-1,K11D12.10 protein taxon:6239 20170322 GO_Central
    GORULE:0000018-IPI annotations require a With/From entry
  • Line 139 – UniProtKB O76187 darA enables GO:0005488 PMID:9802899 IPI F GORULE_TEST:0000018-3 protein taxon:44689 20230513 GO_Central
    GORULE:0000018-IPI annotations require a With/From entry

⛔️ GORULE:0000020-Automatic repair of annotations to merged or obsoleted terms

  • Total Violations: 8
  • Line 141 – UniProtKB P04995 sbcB involved_in GO:0090503 PMID:18952608 IDA P GORULE_TEST:0000020-1 Exodeoxyribonuclease I sbcB|cpeA|xonA|JW1993|b2011 protein taxon:83333 20230509 GO_Central
    GORULE:0000020-Automatic repair of annotations to merged or obsoleted terms
  • Line 145 – MGI:1100518 Smad7 bla involved_in GO:0017015 MGI:MGI:3836072|PMID:18952608 IC GO:0060389 P GORULE_TEST:0000020-3 SMAD protein_coding_gene taxon:10090 20090211 GO_Central
    GORULE:0000020-Automatic repair of annotations to merged or obsoleted terms-Consider: GO:0004672|GO:0060391|GO:0060395
  • Line 147 – UniProtKB O76187 darA enables GO:0004672 PMID:9802899 IDA F GORULE_TEST:0000020-4 Darlin darA protein taxon:44689 20100205 GO_Central involved_in(GO:0090503)
    GORULE:0000020-Automatic repair of annotations to merged or obsoleted terms

⛔️ GORULE:0000022-Check for, and filter, annotations made to retracted publications

  • Total Violations: 1
  • Line 155 – UniProtKB O76187 darA involved_in GO:0017015 PMID:37278189 IDA F GORULE_TEST:0000022-1 protein taxon:44689 20230513 GO_Central
    GORULE:0000022-Check for, and filter, annotations made to retracted publications-PMID:37278189 is a retracted publication

⛔️ GORULE:0000027-Each identifier in GAF is valid

  • Total Violations: 29
  • Line 15 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-1 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase part_of
    GORULE:0000027-Each identifier in GAF is valid-Bad CURIE syntax 'part_of'
  • Line 17 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-2 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase part_of(x)
    GORULE:0000027-Each identifier in GAF is valid-Bad CURIE syntax 'x'
  • Line 19 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-3 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase part_of(X:9 X:8)
    GORULE:0000027-Each identifier in GAF is valid-Prefix not found in db-xrefs: X
  • Line 21 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000001-4 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase "part_of(X:9 X:8),part_of(X:1)"
    GORULE:0000027-Each identifier in GAF is valid-Prefix not found in db-xrefs: X
  • Line 23 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 MADEUP SGD:S000001583 C GORULE_TEST:0000001-5 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20150305 PomBase part_of(X:1)
    GORULE:0000027-Each identifier in GAF is valid-Prefix not found in db-xrefs: X
  • Line 51 – UniProtKB A0A078CGE6 M3KE1 enables GO:0005515 PMID:11489177 IPI A0A078FEZ9 F GORULE_TEST:0000001-19 protein taxon:3708 20150115 PomBase
    GORULE:0000027-Each identifier in GAF is valid-Bad CURIE syntax 'A0A078FEZ9'
  • Line 59 – UniProtKB O76187 darA NOT|enables GO:0005509 PMID:9802899 IDA GO0005634 F GORULE_TEST:0000001-23 Darlin darA protein taxon:44689 20100205 PomBase
    GORULE:0000027-Each identifier in GAF is valid-Bad CURIE syntax 'GO0005634'
  • Line 61 – UniProtKB A0A078CGE6 M3KE1 enables GO:0005515 PMID:11489177 IPI A0A078FEZ9 F GORULE_TEST:0000001-24 protein taxon:3708 20150115 PomBase involved_in(GO0090503)
    GORULE:0000027-Each identifier in GAF is valid-Bad CURIE syntax 'A0A078FEZ9'
  • Line 61 – UniProtKB A0A078CGE6 M3KE1 enables GO:0005515 PMID:11489177 IPI A0A078FEZ9 F GORULE_TEST:0000001-24 protein taxon:3708 20150115 PomBase involved_in(GO0090503)
    GORULE:0000027-Each identifier in GAF is valid-Bad CURIE syntax 'GO0090503'
  • Line 71 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 PMID: IDA P GORULE_TEST:0000001-29 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for PMID:
  • Line 73 – UniProtKB Q6UW15 REG3G involved_in GO:0006401 PMID:16931762 IGI UniProtKB:P77335|A0A0K3AV08 P GORULE_TEST:0000001-30 Regenerating islet-derived protein 3-gamma REG3G|PAP1B|UNQ429/PRO162 protein taxon:9606 20220606 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad CURIE syntax 'A0A0K3AV08'
  • Line 75 – FB FBgn0024811 Crk involved_in GO:0048010 FB:FBrf0180198 PMID:15457211 IMP P GORULE_TEST:0000001-31 Crk oncogene CED-2|CG1587|CRK|D-CRK|D-Crk|DCrk|Dcrk|crk|dCRK|dCrk protein taxon:7227 20180912 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for FB:FBrf0180198 PMID:15457211
  • Line 145 – MGI:1100518 Smad7 bla involved_in GO:0017015 MGI:MGI:3836072|PMID:18952608 IC GO:0060389 P GORULE_TEST:0000020-3 SMAD protein_coding_gene taxon:10090 20090211 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-DB not found in dbrefs
  • Line 157 – UniPotKB Q9HC96 CAPN10 involved_in GO:0006921 PMID:23072806 IDA P GORULE_TEST:0000027-1 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-DB not found in dbrefs
  • Line 159 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 PMID:23072806 IDA P GORULE_TEST:0000027-2 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 SGDDB
    GORULE:0000027-Each identifier in GAF is valid-SGDDB Assigned by not found in groups.yaml
  • Line 161 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 PMID:PMID:14561399 IDA P GORULE_TEST:0000027-3 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for PMID:PMID:14561399
  • Line 163 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 PMID:unpublished IDA P GORULE_TEST:0000027-4 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for PMID:unpublished
  • Line 165 – UniProtKB Q9HC96 CAPN10 involved_in GO:0006921 PMID:0. IDA P GORULE_TEST:0000027-5 Calpain-10 CAPN10,KIAA1845 protein taxon:9606 20140213 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for PMID:0.
  • Line 169 – WB WBGene0000002 aat-1 part_of GO:1990184 PMID:14668347 IPI WB:WBGene00000225 C GORULE_TEST:0000027-7 F27C8.1 gene taxon:6239 20131022 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-WBGene0000002 has invalid syntax
  • Line 171 – WB WBGene00000002|WBGene00000003 aat-1 part_of GO:1990184 PMID:14668347 IPI WB:WBGene00000225 C GORULE_TEST:0000027-8 F27C8.1 gene taxon:6239 20131022 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-WBGene00000002|WBGene00000003 has invalid syntax
  • Line 177 – UniProtKB Q6UW15 REG3G involved_in GO:0006401 PMID:16931762 IGI UniPotKB:P77335 P GORULE_TEST:0000027-12 Regenerating islet-derived protein 3-gamma REG3G|PAP1B|UNQ429/PRO162 protein taxon:9606 20220606 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Prefix not found in db-xrefs: UniPotKB
  • Line 181 – FB FBgn0020238 14-3-3epsilon involved_in GO:0006401 PMID:16931762 IGI FB:FBgn10004907 P GORULE_TEST:0000027-14 14-3-3epsilon 14-3-3|14-3-3 epsilon|14-3-3 protein epsilon protein taxon:7227 20220606 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for FB:FBgn10004907
  • Line 185 – FB FBgn0024811 Crk involved_in GO:0048010 FB:FBrf0180198|PMID:1545721X IMP P GORULE_TEST:0000027-17 Crk oncogene CED-2|CG1587|CRK|D-CRK|D-Crk|DCrk|Dcrk|crk|dCRK|dCrk protein taxon:7227 20180912 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for PMID:1545721X
  • Line 189 – UniProtKB Q6UW15 REG3G involved_in GO:0006401 PMID:16931762 IDA P GORULE_TEST:0000027-19 Regenerating islet-derived protein 3-gamma REG3G|PAP1B|UNQ429/PRO162 protein taxon:9606 20220606 PO
    GORULE:0000027-Each identifier in GAF is valid-PO Assigned by not found in groups.yaml
  • Line 191 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO SGD:S000001583 C GORULE_TEST:0000027-20 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20180912 PomBase part_of(X:1)
    GORULE:0000027-Each identifier in GAF is valid-Prefix not found in db-xrefs: X
  • Line 211 – UniProtKB P77335 hlyE located_in GO:0020002 MGI:2154458|GO_REF:0000008 ISS FB:FBgn0032677 C GORULE_TEST:0000030-3 protein taxon:83333 20230607 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for MGI:2154458
  • Line 213 – UniProtKB P77335 hlyE located_in GO:0020002 MGI:2154458 ISS FB:FBgn0032677 C GORULE_TEST:0000030-4 protein taxon:83333 20230607 GO_Central
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for MGI:2154458
  • Line 229 – UniProtKB P05067 APP enables GO:0042803 PMID:15447668 IPI UniProtKB:P05067-PRO_0000000092 F GORULE_TEST:0000046-3 protein taxon:9606 20230314 GO_Central UniProtKB:P05067-PRO_0000000092 `
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for UniProtKB:P05067-PRO_0000000092 `

⚠️ GORULE:0000030-Obsolete GO_REFs are not allowed

  • Total Violations: 1
  • Line 207 – UniProtKB P77335 hlyE located_in GO:0020002 GO_REF:0000045 ISS UniProtKB-SubCell:SL-0375 C GORULE_TEST:0000030-1 protein taxon:83333 20240707 GO_Central
    GORULE:0000030-Obsolete GO_REFs are not allowed-GO_REF:0000045 reference is not allowed

⛔️ GORULE:0000033-Group-specific Reference IDs are not allowed, only public reference IDs (PMID, doi, or GO_REF)

  • Total Violations: 1
  • Line 207 – UniProtKB P77335 hlyE located_in GO:0020002 GO_REF:0000045 ISS UniProtKB-SubCell:SL-0375 C GORULE_TEST:0000030-1 protein taxon:83333 20240707 GO_Central
    GORULE:0000033-Group-specific Reference IDs are not allowed, only public reference IDs (PMID, doi, or GO_REF)-GO_REF:0000045 reference is not allowed

⛔️ GORULE:0000039-Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants

  • Total Violations: 2
  • Line 219 – ComplexPortal CPX-102 dapk-calm_human part_of GO:0032991 PMID:10629061 IMP C GORULE_TEST:0000039-1 protein_complex taxon:9606 20200218 GO_Central
    GORULE:0000039-Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants
  • Line 221 – ComplexPortal CPX-102 dapk-calm_human part_of GO:0043020 PMID:10629061 IMP C GORULE_TEST:0000039-2 protein_complex taxon:9606 20200218 GO_Central
    GORULE:0000039-Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants

⛔️ GORULE:0000042-Qualifier: IKR evidence code requires a NOT qualifier

  • Total Violations: 1
  • Line 223 – UniProtKB A0A0B4JCV5 CG9898 enables GO:0004252 PMID:30367934 IKR F GORULE_TEST:0000042-1 protein taxon:7227 20190311 GO_Central
    GORULE:0000042-Qualifier: IKR evidence code requires a NOT qualifier

✅ GORULE:0000043-Check for valid combination of evidence code and GO_REF

  • All checks passed - 0 violations

⛔️ 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 Violations: 3
  • Line 225 – UniProtKB A4D126 CRPPA enables GO:0042803 PMID:26687144 IDA F GORULE_TEST:0000046-1 protein taxon:9606 20170627 GO_Central
    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.
  • Line 227 – UniProtKB A4D126 CRPPA enables GO:0042803 PMID:26687144 IPI UniProtKB:P35555 F GORULE_TEST:0000046-2 protein taxon:9606 20170627 GO_Central
    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.
  • Line 229 – UniProtKB P05067 APP enables GO:0042803 PMID:15447668 IPI UniProtKB:P05067-PRO_0000000092 F GORULE_TEST:0000046-3 protein taxon:9606 20230314 GO_Central UniProtKB:P05067-PRO_0000000092 `
    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:0000050-Annotations to ISS, ISA and ISO should not be self-referential

  • Total Violations: 3
  • Line 231 – UniProtKB F1N2N9 ODAD1 part_of GO:0120228 PMID:34715025 ISS UniProtKB:F1N2N9 C GORULE_TEST:0000050-1 Outer dynein arm-docking complex subunit 1 ODAD1|CCDC114 protein taxon:9913 20220422 GO_Central
    GORULE:0000050-Annotations to ISS, ISA and ISO should not be self-referential
  • Line 233 – UniProtKB F1N2N9 ODAD1 part_of GO:0120228 PMID:34715025 ISO UniProtKB:F1N2N9 C GORULE_TEST:0000050-2 Outer dynein arm-docking complex subunit 1 ODAD1|CCDC114 protein taxon:9913 20220422 GO_Central
    GORULE:0000050-Annotations to ISS, ISA and ISO should not be self-referential
  • Line 235 – UniProtKB F1N2N9 ODAD1 part_of GO:0120228 PMID:34715025 ISA UniProtKB:F1N2N9 C GORULE_TEST:0000050-3 Outer dynein arm-docking complex subunit 1 ODAD1|CCDC114 protein taxon:9913 20220422 GO_Central
    GORULE:0000050-Annotations to ISS, ISA and ISO should not be self-referential

✅ GORULE:0000053-'NOT' annotation should not have extension

  • All checks passed - 0 violations

⛔️ GORULE:0000055-References should have only one ID per ID space

  • Total Violations: 2
  • Line 241 – PlasmoDB PF3D7_0200400 PF3D7_0200400 is_active_in GO:0020036 PMID:12477793|PMID:15961998 IDA C GORULE_TEST:0000055-1 stevor protein taxon:4896 20131007 GO_Central
    GORULE:0000055-References should have only one ID per ID space
  • Line 243 – PlasmoDB PF3D7_0200400 PF3D7_0200400 is_active_in GO:0020036 GO_REF:0000044|GO_REF:0000003 IDA C GORULE_TEST:0000055-2 stevor protein taxon:4896 20131007 GO_Central
    GORULE:0000055-References should have only one ID per ID space

⛔️ GORULE:0000063-Annotations using ISS/ISA/ISO evidence should refer to a gene product (in the 'with' column)

  • Total Violations: 1
  • Line 335 – PomBase SPAC25B8.17 ypf1 is_active_in GO:0005634 GO_REF:0000024 ISO C GORULE_TEST:0000063-2 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted) ppp81 protein taxon:4896 20230427 GO_Central
    GORULE:0000063-Annotations using ISS/ISA/ISO evidence should refer to a gene product (in the 'with' column)

⚠️ GORULE:0000065-Term candidate for obsoletion

  • Total Violations: 2
  • Line 99 – UniProtKB Q9DGE2 mapk14a is_active_in GO:0005622 PMID:10995439 IDA C GORULE_TEST:0000008-1 Mitogen-activated protein kinase 14A mapk14a|mapk14 protein taxon:7955 20180129 GO_Central
    GORULE:0000065-Term candidate for obsoletion-Obsolete term GO:0005622
  • Line 101 – UniProtKB Q9WVH3 Foxo4 involved_in GO:0007049 PMID:12048180 IDA P GORULE_TEST:0000008-2 Forkhead box protein O4 Foxo4|Afx|Afx1 protein taxon:10090 20110425 GO_Central
    GORULE:0000065-Term candidate for obsoletion-Obsolete term GO:0007049