Table of contents

Summary

GAF summary

Found 124831 annotations in 124847 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 are 3 violations 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 28 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 are 3 violations with type Warning.

GAF Prediction Summary

Found 44 predictions, see prediction file for details.

Used Ontology Summary

go/extensions/go-gaf

Report

SUMMARY

STATISTICS

MESSAGES

ERROR

WARNING

OWLTools check

#Line number RuleID ViolationType Message Line
#------------
#------------
# Validation for #124831 annotations in 124847 lines
#------------
#Line number RuleID ViolationType Message Line
#------------
# GO_AR:0000005 No ISS or ISS-related annotations to 'protein binding ; GO:0005515' Error count: 3
65761 GO_AR:0000005 Error No ISS or ISS-related annotations to 'protein binding ; GO:0005515' UniProtKB F1PI70 B9D2 GO:0005515 GO_REF:0000024 ISS UniProtKB:P01137 F Transforming growth factor beta-1 precursor B9D2 protein taxon:9615 20141202 AgBase
118659 GO_AR:0000005 Error No ISS or ISS-related annotations to 'protein binding ; GO:0005515' UniProtKB P54831 TGFB1 GO:0005515 GO_REF:0000024 ISS UniProtKB:P01137 F Transforming growth factor beta-1 TGFB1 protein taxon:9615 20141202 AgBase
120137 GO_AR:0000005 Error No ISS or ISS-related annotations to 'protein binding ; GO:0005515' UniProtKB Q28295 VWF GO:0005515 GO_REF:0000024 ISS UniProtKB:P04275 F von Willebrand factor VWF|F8VWF protein taxon:9615 20070328 UniProt
#------------
# GO_AR:0000014 Valid GO term ID Error count: 28
6486 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB E2QWQ1 CREB1 GO:0001190 GO_REF:0000107 IEA UniProtKB:P16220|ensembl:ENSP00000387699 F cAMP responsive element binding protein 1 CREB1 protein taxon:9615 20180714 Ensembl
16332 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB E2R4Z4 NFE2L1 GO:0001190 GO_REF:0000107 IEA UniProtKB:Q61985|ensembl:ENSMUSP00000080467 F Nuclear factor, erythroid 2 like 1 NFE2L1 protein taxon:9615 20180714 Ensembl
22769 GO_AR:0000014 Error The id 'GO:0001191' in the annotation is an obsolete class UniProtKB E2RAN6 FBP1 GO:0001191 GO_REF:0000107 IEA UniProtKB:P09467|ensembl:ENSP00000408025 F Fructose-bisphosphatase 1 FBP1 protein taxon:9615 20180714 Ensembl
23618 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB E2RBA6 WWP2 GO:0001190 GO_REF:0000107 IEA UniProtKB:Q9DBH0|ensembl:ENSMUSP00000132224 F E3 ubiquitin-protein ligase WWP2 protein taxon:9615 20180714 Ensembl
24592 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB E2RC01 GBX2 GO:0001190 GO_REF:0000107 IEA UniProtKB:P48031|ensembl:ENSMUSP00000048508 F Gastrulation brain homeobox 2 GBX2 protein taxon:9615 20180714 Ensembl
25261 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB E2RCF6 NR1H4 GO:0001190 GO_REF:0000107 IEA UniProtKB:Q96RI1|ensembl:ENSP00000447149 F Nuclear receptor subfamily 1 group H member 4 NR1H4 protein taxon:9615 20180714 Ensembl
26268 GO_AR:0000014 Error The id 'GO:0001191' in the annotation is an obsolete class UniProtKB E2RD59 RIOX2 GO:0001191 GO_REF:0000107 IEA UniProtKB:Q8CD15|ensembl:ENSMUSP00000125297 F Ribosomal oxygenase 2 RIOX2 protein taxon:9615 20180714 Ensembl
27564 GO_AR:0000014 Error The id 'GO:0001191' in the annotation is an obsolete class UniProtKB E2RE12 BHLHE40 GO:0001191 GO_REF:0000107 IEA UniProtKB:O14503|ensembl:ENSP00000256495 F Basic helix-loop-helix family member e40 BHLHE40 protein taxon:9615 20180714 Ensembl
31606 GO_AR:0000014 Error The id 'GO:0000989' in the annotation is an obsolete class UniProtKB E2RH17 LDB1 GO:0000989 GO_REF:0000107 IEA UniProtKB:P70662|ensembl:ENSMUSP00000139562 F LIM domain binding 1 LDB1 protein taxon:9615 20180714 Ensembl
32079 GO_AR:0000014 Error The id 'GO:0001076' in the annotation is an obsolete class UniProtKB E2RHD1 ZNF296 GO:0001076 GO_REF:0000107 IEA UniProtKB:E9Q6W4|ensembl:ENSMUSP00000104093 F Zinc finger protein 296 ZNF296 protein taxon:9615 20180714 Ensembl
41805 GO_AR:0000014 Error The id 'GO:0001076' in the annotation is an obsolete class UniProtKB E2RPC3 LHX2 GO:0001076 GO_REF:0000107 IEA UniProtKB:Q9Z0S2|ensembl:ENSMUSP00000000253 F LIM homeobox 2 LHX2 protein taxon:9615 20180714 Ensembl
45218 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB E2RRT5 MED12 GO:0001190 GO_REF:0000107 IEA UniProtKB:A2AGH6|ensembl:ENSMUSP00000085260 F Mediator complex subunit 12 MED12 protein taxon:9615 20180714 Ensembl
52221 GO_AR:0000014 Error The id 'GO:0001076' in the annotation is an obsolete class UniProtKB F1P8W9 MAMSTR GO:0001076 GO_REF:0000107 IEA UniProtKB:Q0ZCJ7|ensembl:ENSMUSP00000114686 F MEF2 activating motif and SAP domain containing transcriptional regulator MAMSTR protein taxon:9615 20180714 Ensembl
56148 GO_AR:0000014 Error The id 'GO:0001076' in the annotation is an obsolete class UniProtKB F1PBA2 MYOCD GO:0001076 GO_REF:0000107 IEA UniProtKB:Q8VIM5|ensembl:ENSMUSP00000104335 F Myocardin MYOCD protein taxon:9615 20180714 Ensembl
58771 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB F1PDC7 NOTCH1 GO:0001190 GO_REF:0000107 IEA UniProtKB:Q01705|ensembl:ENSMUSP00000028288 F Notch 1 NOTCH1 protein taxon:9615 20180714 Ensembl
64179 GO_AR:0000014 Error The id 'GO:0001076' in the annotation is an obsolete class UniProtKB F1PH12 SRF GO:0001076 GO_REF:0000107 IEA UniProtKB:Q9JM73|ensembl:ENSMUSP00000015749 F Serum response factor SRF protein taxon:9615 20180714 Ensembl
68796 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB F1PKL3 LMO2 GO:0001190 GO_REF:0000107 IEA UniProtKB:P25791|ensembl:ENSP00000257818 F LIM domain only 2 LMO2 protein taxon:9615 20180714 Ensembl
77896 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB F1PSD8 CLOCK GO:0001190 GO_REF:0000107 IEA UniProtKB:O08785|ensembl:ENSMUSP00000143939 F Clock circadian regulator CLOCK protein taxon:9615 20180714 Ensembl
85053 GO_AR:0000014 Error The id 'GO:0001191' in the annotation is an obsolete class UniProtKB F1PY87 CREBBP GO:0001191 GO_REF:0000107 IEA UniProtKB:Q92793|ensembl:ENSP00000262367 F CREB binding protein CREBBP protein taxon:9615 20180714 Ensembl
91066 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB F1Q3T1 KLF4 GO:0001190 GO_REF:0000107 IEA UniProtKB:O43474|ensembl:ENSP00000363804 F Uncharacterized protein KLF4 protein taxon:9615 20180714 Ensembl
93893 GO_AR:0000014 Error The id 'GO:0001191' in the annotation is an obsolete class UniProtKB F6UYW9 TBX6 GO:0001191 GO_REF:0000107 IEA UniProtKB:P70327|ensembl:ENSMUSP00000091579 F T-box 6 TBX6 protein taxon:9615 20180714 Ensembl
101399 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB J9NTT7 ARNTL GO:0001190 GO_REF:0000107 IEA UniProtKB:Q9WTL8|ensembl:ENSMUSP00000147989 F Aryl hydrocarbon receptor nuclear translocator like ARNTL protein taxon:9615 20180714 Ensembl
106376 GO_AR:0000014 Error The id 'GO:0001076' in the annotation is an obsolete class UniProtKB J9NZR2 YAP1 GO:0001076 GO_REF:0000107 IEA UniProtKB:P46938|ensembl:ENSMUSP00000069554 F Yes associated protein 1 YAP1 protein taxon:9615 20180714 Ensembl
113416 GO_AR:0000014 Error The id 'GO:0001191' in the annotation is an obsolete class UniProtKB J9P8S1 EOMES GO:0001191 GO_REF:0000107 IEA UniProtKB:O54839|ensembl:ENSMUSP00000035020 F Eomesodermin EOMES protein taxon:9615 20180714 Ensembl
121308 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB Q5J2F2 NKX2-5 GO:0001190 GO_REF:0000107 IEA UniProtKB:P42582|ensembl:ENSMUSP00000015723 F NK2 homeobox 5 NKX2-5|NKX2.5 protein taxon:9615 20180714 Ensembl
123721 GO_AR:0000014 Error The id 'GO:0001190' in the annotation is an obsolete class UniProtKB Q95N78 PPARA GO:0001190 GO_REF:0000107 IEA UniProtKB:P23204|ensembl:ENSMUSP00000105049 F Peroxisome proliferator-activated receptor alpha PPARA|NR1C1 protein taxon:9615 20180714 Ensembl
123856 GO_AR:0000014 Error The id 'GO:0000989' in the annotation is an obsolete class UniProtKB Q9GK08 MSX2 GO:0000989 GO_REF:0000107 IEA UniProtKB:Q03358|ensembl:ENSMUSP00000021922 F Homeobox protein MSX-2 MSX2 protein taxon:9615 20180714 Ensembl
123972 GO_AR:0000014 Error The id 'GO:0001191' in the annotation is an obsolete class UniProtKB Q9GL27 T GO:0001191 GO_REF:0000107 IEA UniProtKB:P20293|ensembl:ENSMUSP00000074236 F Brachyury protein T protein taxon:9615 20180714 Ensembl
#------------
# 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: 3
65761 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 F1PI70 B9D2 GO:0005515 GO_REF:0000024 ISS UniProtKB:P01137 F Transforming growth factor beta-1 precursor B9D2 protein taxon:9615 20141202 AgBase
118659 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 P54831 TGFB1 GO:0005515 GO_REF:0000024 ISS UniProtKB:P01137 F Transforming growth factor beta-1 TGFB1 protein taxon:9615 20141202 AgBase
120137 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 Q28295 VWF GO:0005515 GO_REF:0000024 ISS UniProtKB:P04275 F von Willebrand factor VWF|F8VWF protein taxon:9615 20070328 UniProt
#------------

Predictions

GO:0005623 cell AnnotationPropagation C GO:0030644 cellular chloride ion homeostasis ISS
GO:0005622 intracellular AnnotationPropagation C GO:0042147 retrograde transport, endosome to Golgi ISS
GO:0005623 cell AnnotationPropagation C GO:0042147 retrograde transport, endosome to Golgi ISS
GO:0005829 cytosol AnnotationPropagation C GO:0042147 retrograde transport, endosome to Golgi ISS
GO:0005622 intracellular AnnotationPropagation C GO:0097193 intrinsic apoptotic signaling pathway ISS
GO:0005622 intracellular AnnotationPropagation C GO:0070059 intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress ISS
GO:0005623 cell AnnotationPropagation C GO:0051480 regulation of cytosolic calcium ion concentration IDA
GO:0005622 intracellular AnnotationPropagation C GO:0071880 adenylate cyclase-activating adrenergic receptor signaling pathway ISS
GO:0070588 calcium ion transmembrane transport AnnotationPropagation P GO:1905060 calcium:cation antiporter activity involved in regulation of postsynaptic cytosolic calcium ion concentration EXP
GO:0099566 regulation of postsynaptic cytosolic calcium ion concentration AnnotationPropagation P GO:1905060 calcium:cation antiporter activity involved in regulation of postsynaptic cytosolic calcium ion concentration EXP
GO:0005622 intracellular AnnotationPropagation C GO:0061502 early endosome to recycling endosome transport IDA
GO:0005623 cell AnnotationPropagation C GO:0061502 early endosome to recycling endosome transport IDA
GO:0005829 cytosol AnnotationPropagation C GO:0061502 early endosome to recycling endosome transport IDA
GO:0005622 intracellular AnnotationPropagation C GO:0045047 protein targeting to ER IDA
GO:0005623 cell AnnotationPropagation C GO:0045047 protein targeting to ER IDA
GO:0055114 oxidation-reduction process AnnotationPropagation P GO:0070330 aromatase activity ISS
GO:0005623 cell AnnotationPropagation C GO:0097553 calcium ion transmembrane import into cytosol ISS
GO:0005623 cell AnnotationPropagation C GO:0097277 cellular urea homeostasis ISS
GO:0006508 proteolysis AnnotationPropagation P GO:0097199 cysteine-type endopeptidase activity involved in apoptotic signaling pathway ISS
GO:0006915 apoptotic process AnnotationPropagation P GO:0097199 cysteine-type endopeptidase activity involved in apoptotic signaling pathway ISS
GO:0097190 apoptotic signaling pathway AnnotationPropagation P GO:0097199 cysteine-type endopeptidase activity involved in apoptotic signaling pathway ISS
GO:0005622 intracellular AnnotationPropagation C GO:0047496 vesicle transport along microtubule ISS
GO:0005623 cell AnnotationPropagation C GO:0047496 vesicle transport along microtubule ISS
GO:0036065 fucosylation AnnotationPropagation P GO:0046920 alpha-(1->3)-fucosyltransferase activity ISS
GO:0005623 cell AnnotationPropagation C GO:0051482 positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway ISS
GO:0005622 intracellular AnnotationPropagation C GO:0097193 intrinsic apoptotic signaling pathway ISS
GO:0010452 histone H3-K36 methylation AnnotationPropagation P GO:0046975 histone methyltransferase activity (H3-K36 specific) ISS
GO:0005623 cell AnnotationPropagation C GO:0035356 cellular triglyceride homeostasis ISS
GO:0005622 intracellular AnnotationPropagation C GO:0071880 adenylate cyclase-activating adrenergic receptor signaling pathway ISS
GO:0005623 cell AnnotationPropagation C GO:0051209 release of sequestered calcium ion into cytosol ISS
GO:0005622 intracellular AnnotationPropagation C GO:0072431 signal transduction involved in mitotic G1 DNA damage checkpoint ISS
GO:0010452 histone H3-K36 methylation AnnotationPropagation P GO:0046975 histone methyltransferase activity (H3-K36 specific) ISS
GO:0008202 steroid metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA
GO:0042445 hormone metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA
GO:0042180 cellular ketone metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA
GO:0008202 steroid metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA
GO:0042445 hormone metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA
GO:0042180 cellular ketone metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA
GO:0097458 neuron part FoldBasedPredictor GO:0015630 microtubule cytoskeleton part_of CL:0000540 neuron ISS
GO:0005789 endoplasmic reticulum membrane FoldBasedPredictor GO:0051117 ATPase binding occurs_in GO:0005789 endoplasmic reticulum membrane IPI
GO:0005789 endoplasmic reticulum membrane FoldBasedPredictor GO:1990381 ubiquitin-specific protease binding occurs_in GO:0005789 endoplasmic reticulum membrane IPI
GO:0008202 steroid metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA
GO:0042445 hormone metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA
GO:0042180 cellular ketone metabolic process FoldBasedPredictor GO:1901615 organic hydroxy compound metabolic process has_direct_input CHEBI:17347 testosterone IDA

Predictions (experimental)