GORULE Violations Assigned by FlyBase

Generated by GOA at EMBL-EBI logo - 2026-07-25 08:02:52.826448

Total Lines

339896

FlyBase

2794

Valid Lines

2758 (98.71%)

Total Problems Detected

36

File Header

!gpa-version: 1.2
!collation date: 2026-07-22
RuleDescriptionCount
✅GORULE:0000001 GAF lines are parsed according to GAF 2.2 specifications 0
✅GORULE:0000002 No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515' 0
✅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 0
✅GORULE:0000006 IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC 0
✅GORULE:0000007 IPI should not be used with GO:0003824 catalytic activity or descendants 0
✅GORULE:0000008 No annotations should be made to uninformative high level terms 0
⛔️GORULE:0000011 ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND 35
✅GORULE:0000013 Taxon-appropriate annotation check 0
✅GORULE:0000015 Dual species taxon check 0
✅GORULE:0000016 With/From: IC annotations require a With/From GO ID 0
✅GORULE:0000017 IDA annotations must not have a With/From entry 0
✅GORULE:0000018 IPI annotations require a With/From entry 0
✅GORULE:0000020 Automatic repair of annotations to merged or obsoleted terms 0
✅GORULE:0000022 Check for, and filter, annotations made to retracted publications 0
⛔️GORULE:0000027 Each identifier in GAF is valid 1
✅GORULE:0000030 Obsolete GO_REFs are not allowed 0
✅GORULE:0000033 Group-specific Reference IDs are not allowed, only public reference IDs (PMID, doi, or GO_REF) 0
✅GORULE:0000039 Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants 0
✅GORULE:0000042 Qualifier: IKR evidence code requires a NOT qualifier 0
✅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. 0
✅GORULE:0000050 Annotations to ISS, ISA and ISO should not be self-referential 0
✅GORULE:0000053 'NOT' annotation should not have extension 0
✅GORULE:0000055 References should have only one ID per ID space 0
✅GORULE:0000063 Annotations using ISS/ISA/ISO evidence should refer to a gene product (in the 'with' column) 0
✅GORULE:0000065 Term candidate for obsoletion 0

Messages

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

✅ 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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

⛔️ 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: 35
  • Line 9227 – FB FBgn0004650 enables GO:0003674 GO_REF:0000015 ECO:0000307 20240227 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:60d5209a00000521
    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 9251 – FB FBgn0005390 enables GO:0003674 GO_REF:0000015 ECO:0000307 20240227 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:60d5209a00000521
    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 9268 – FB FBgn0261016 enables GO:0003674 GO_REF:0000015 ECO:0000307 20240227 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:60d5209a00000521
    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 9269 – FB FBgn0003867 enables GO:0003674 GO_REF:0000015 ECO:0000307 20240227 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:60d5209a00000521
    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 29124 – FB FBgn0266848 enables GO:0003674 GO_REF:0000015 ECO:0000307 20240227 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:65039e8700001164
    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 29129 – FB FBgn0001995 enables GO:0003674 GO_REF:0000015 ECO:0000307 20240227 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:65039e8700001164
    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 44447 – FB FBgn0037610 enables GO:0003674 GO_REF:0000015 ECO:0000307 20250131 FlyBase directly_positively_regulates(GO:0051539) model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:6796b94c00000657
    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 48965 – FB FBgn0064115 enables GO:0003674 GO_REF:0000015 ECO:0000307 20250718 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:67f85f2b00003626
    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 51140 – FB FBgn0064115 enables GO:0003674 GO_REF:0000015 ECO:0000307 20250718 FlyBase noctua-model-id=gomodel:685de18700000512|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 57385 – FB FBgn0032033 enables GO:0003674 GO_REF:0000015 ECO:0000307 20251119 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:6918f23700000689
    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 57513 – FB FBgn0083953 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260511 FlyBase model-state=production|contributor=https://orcid.org/0000-0003-3212-6364|noctua-model-id=gomodel:6918f23700002838
    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 57525 – FB FBgn0035039 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260410 FlyBase noctua-model-id=gomodel:6918f23700003117|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 57529 – FB FBgn0038400 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260410 FlyBase noctua-model-id=gomodel:6918f23700003117|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 57540 – FB FBgn0036726 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260410 FlyBase noctua-model-id=gomodel:6918f23700003117|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 57542 – FB FBgn0019960 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260410 FlyBase noctua-model-id=gomodel:6918f23700003117|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 57549 – FB FBgn0010808 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260410 FlyBase noctua-model-id=gomodel:6918f23700003117|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59520 – FB FBgn0033357 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260128 FlyBase noctua-model-id=gomodel:69729a3800002581|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59525 – FB FBgn0037710 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260128 FlyBase noctua-model-id=gomodel:69729a3800002581|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59543 – FB FBgn0085229 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260128 FlyBase noctua-model-id=gomodel:69729a3800002581|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59549 – FB FBgn0036920 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260128 FlyBase noctua-model-id=gomodel:69729a3800002581|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59553 – FB FBgn0052267 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260128 FlyBase noctua-model-id=gomodel:69729a3800002581|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59606 – FB FBgn0052267 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260128 FlyBase noctua-model-id=gomodel:69729a3800002828|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59640 – FB FBgn0085229 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260128 FlyBase noctua-model-id=gomodel:69729a3800002828|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59661 – FB FBgn0033235 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260410 FlyBase noctua-model-id=gomodel:69729a3800002828|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 59669 – FB FBgn0033357 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260128 FlyBase noctua-model-id=gomodel:69729a3800002828|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 60944 – FB FBgn0085229 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260218 FlyBase noctua-model-id=gomodel:6994852c00000205|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 60956 – FB FBgn0052267 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260218 FlyBase noctua-model-id=gomodel:6994852c00000205|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 60960 – FB FBgn0033357 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260218 FlyBase noctua-model-id=gomodel:6994852c00000205|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 61222 – FB FBgn0085229 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260225 FlyBase noctua-model-id=gomodel:6994852c00003678|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 61223 – FB FBgn0033357 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260225 FlyBase noctua-model-id=gomodel:6994852c00003678|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 61226 – FB FBgn0031708 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260511 FlyBase noctua-model-id=gomodel:6994852c00003678|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 61259 – FB FBgn0052267 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260225 FlyBase noctua-model-id=gomodel:6994852c00003678|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 61959 – FB FBgn0052267 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260313 FlyBase noctua-model-id=gomodel:69b3372b00000249|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 61981 – FB FBgn0085229 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260313 FlyBase noctua-model-id=gomodel:69b3372b00000249|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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 61995 – FB FBgn0033357 enables GO:0003674 GO_REF:0000015 ECO:0000307 20260313 FlyBase noctua-model-id=gomodel:69b3372b00000249|model-state=production|contributor=https://orcid.org/0000-0003-3212-6364
    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

  • All checks passed - 0 violations

✅ GORULE:0000015-Dual species taxon check

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

⛔️ GORULE:0000027-Each identifier in GAF is valid

  • Total Violations: 1
  • Line 59192 – FB FBgn0037024 involved_in GO:0051596 GO_REF:0000024 ECO:0000250 UniProtKB:Q99KB8cytosol 20260119 FlyBase noctua-model-id=gomodel:696022cd00002295|model-state=production|contributor=https://orcid.org/0000-0002-3358-4423
    GORULE:0000027-Each identifier in GAF is valid-Bad id syntax for UniProtKB:Q99KB8cytosol

✅ GORULE:0000030-Obsolete GO_REFs are not allowed

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

✅ 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.

  • All checks passed - 0 violations

✅ GORULE:0000050-Annotations to ISS, ISA and ISO should not be self-referential

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

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

  • All checks passed - 0 violations

✅ GORULE:0000065-Term candidate for obsoletion

  • All checks passed - 0 violations