Table of contents
Summary
GAF summary
Found 34908 annotations in 34927 lines.
GAF Validation Summary
Errors are reported first.
For rule GO_AR:0000005 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000005)
No ISS or ISS-related annotations to 'protein binding ; GO:0005515', there is one violation with type Error.
For rule GO_AR:0000014 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000014)
Valid GO term ID, there are 12 violations with type Error.
For rule GO_AR:0000003 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000003)
Annotations to 'binding ; GO:0005488' and 'protein binding ; GO:0005515' should be made with IPI and an interactor in the 'with' field, there is one violation with type Warning.
GAF Prediction Summary
Found 6 predictions, see prediction file for details.
Used Ontology Summary
go/extensions/go-gaf go/releases/2019-06-08/extensions/go-gaf.owl
Report
SUMMARY
This report generated on 2019-06-09
- Associations: 34908
- Lines in file (incl headers): 43829
- Lines skipped: 8909
!gaf-version: 2.1
!
!The set of protein accessions included in this file is based on UniProt complete proteomes, which may provide more than one protein per gene.
!They include all Swiss-Prot entries for the species plus any TrEMBL entries that have an Ensembl DR line. The TrEMBL entries are likely to overlap with the Swiss-Prot entries or their isoforms.
!If a particular protein accession is not annotated with GO, then it will not appear in this file.
!
!Note that the annotation set in this file is filtered in order to reduce redundancy; the full, unfiltered set can be found in
!ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_all.gaf.gz
!
!Generated: 2019-06-03 16:55
!GO-version: http://purl.obolibrary.org/obo/go/releases/2019-06-02/extensions/go-plus.owl
!
Contents
gorule-0000020
other
MESSAGES
gorule-0000020
Automatic repair of annotations to merged or obsoleted terms
Messages
- WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0035068) --
UniProtKB A0A3Q1M249 EIF2C3 GO:0035068 GO_REF:0000104 IEA UniRule:UR000107558 C Protein argonaute-3 EIF2C3|AGO3 protein taxon:9913 20190601 UniProt UniProtKB:F1MG44
- WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0050880) --
UniProtKB A0A3Q1MN33 GCLC GO:0050880 GO_REF:0000024 ISS UniProtKB:P48506 P Glutamate-cysteine ligase catalytic subunit GCLC protein taxon:9913 20070103 UniProt UniProtKB:Q32S38
- WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0035068) --
UniProtKB B0JYP5 AGO2 GO:0035068 GO_REF:0000104 IEA UniRule:UR000107560 C Protein argonaute-2 AGO2|EIF2C2 protein taxon:9913 20190601 UniProt UniProtKB:A0A3Q1MDA1
- WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0035068) --
UniProtKB B0JYP5 AGO2 GO:0035068 GO_REF:0000104 IEA UniRule:UR000107560 C Protein argonaute-2 AGO2|EIF2C2 protein taxon:9913 20190601 UniProt UniProtKB:A0A3Q1MM22
- WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0050880) --
UniProtKB P55206 NPPC GO:0050880 GO_REF:0000038 IEA UniProtKB-KW:KW-0838 P C-type natriuretic peptide NPPC protein taxon:9913 20190601 UniProt UniProtKB:A0A452DJ99
- WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0035068) --
UniProtKB Q28141 DHX9 GO:0035068 GO_REF:0000107 IEA UniProtKB:Q08211|ensembl:ENSP00000356520 C ATP-dependent RNA helicase A DHX9 protein taxon:9913 20190601 Ensembl UniProtKB:G5E5N3
other
OWLTools check
#Line number RuleID ViolationType Message Line
#------------
#------------
# Validation for #34908 annotations in 34927 lines
#------------
#Line number RuleID ViolationType Message Line
#------------
# GO_AR:0000005 No ISS or ISS-related annotations to 'protein binding ; GO:0005515' Error count: 1
13014 GO_AR:0000005 Error No ISS or ISS-related annotations to 'protein binding ; GO:0005515' UniProtKB A0A3Q1N449 TGFB1 GO:0005515 GO_REF:0000024 ISS UniProtKB:P01137 F Transforming growth factor beta TGFB1 protein taxon:9913 20141202 AgBase UniProtKB:E1BNK3
#------------
# GO_AR:0000014 Valid GO term ID Error count: 12
4487 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0010867 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001013),has_agent(UBERON:0002107),occurs_in(UBERON:0001911) UniProtKB:B0FPG4
4487 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0010867 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001013),has_agent(UBERON:0002107),occurs_in(UBERON:0001911) UniProtKB:B0FPG4
4494 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0045542 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001013),has_agent(UBERON:0002107),occurs_in(UBERON:0001911) UniProtKB:B0FPG4
4494 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0045542 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001013),has_agent(UBERON:0002107),occurs_in(UBERON:0001911) UniProtKB:B0FPG4
4496 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0045723 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001911),has_agent(UBERON:0002107),occurs_in(UBERON:0001013) UniProtKB:B0FPG4
4496 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0045723 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001911),has_agent(UBERON:0002107),occurs_in(UBERON:0001013) UniProtKB:B0FPG4
4497 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0045723 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001013),has_agent(UBERON:0002107),occurs_in(UBERON:0001911) UniProtKB:B0FPG4
4497 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0045723 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001013),has_agent(UBERON:0002107),occurs_in(UBERON:0001911) UniProtKB:B0FPG4
4501 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0071073 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001911),has_agent(UBERON:0002107),occurs_in(UBERON:0001013) UniProtKB:B0FPG4
4501 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:0071073 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001911),has_agent(UBERON:0002107),occurs_in(UBERON:0001013) UniProtKB:B0FPG4
4502 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:1900482 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001013),has_agent(UBERON:0002107),occurs_in(UBERON:0001911) UniProtKB:B0FPG4
4502 GO_AR:0000014 Error The relation 'has_agent' in the c16 annotation extension is an obsolete relation UniProtKB A0A3Q1LZG1 GH1 GO:1900482 PMID:2731415 IDA P Growth hormone GH1 protein taxon:9913 20150522 AgBase happens_during(GO:0007595),has_agent(UBERON:0001013),has_agent(UBERON:0002107),occurs_in(UBERON:0001911) UniProtKB:B0FPG4
#------------
# GO_AR:0000003 Annotations to 'binding ; GO:0005488' and 'protein binding ; GO:0005515' should be made with IPI and an interactor in the 'with' field Warning count: 1
13014 GO_AR:0000003 Warning Annotations to 'binding' (GO:0005488) and 'protein binding' (GO:0005515) should be made with an IPI evidence code and the interactor in the 'with' field UniProtKB A0A3Q1N449 TGFB1 GO:0005515 GO_REF:0000024 ISS UniProtKB:P01137 F Transforming growth factor beta TGFB1 protein taxon:9913 20141202 AgBase UniProtKB:E1BNK3
#------------
Predictions
GO:0009967 positive regulation of signal transduction AnnotationPropagation P GO:0030160 GKAP/Homer scaffold activity ISS
GO:0005623 cell AnnotationPropagation C GO:0030970 retrograde protein transport, ER to cytosol ISS
GO:0005737 cytoplasm AnnotationPropagation C GO:0030970 retrograde protein transport, ER to cytosol ISS
GO:0005623 cell AnnotationPropagation C GO:0032596 protein transport into membrane raft IMP
GO:0016020 membrane AnnotationPropagation C GO:0032596 protein transport into membrane raft IMP
GO:0005623 cell AnnotationPropagation C GO:0097277 cellular urea homeostasis ISS
Predictions (experimental)