Table of contents

Report

Group: pseudocap - Dataset: pseudocap

SUMMARY

This report generated on 2024-12-15

Header From Original Association File

!gaf-version: 2.0

Contents

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other

MESSAGES

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GAF lines are parsed according to GAF 2.2 specifications

Messages

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No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515'

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IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations ae not allowed for direct annotations to to 'protein binding ; GO:0005515 or GO:0005488 binding''

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

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IPI should not be used with GO:0003824 catalytic activity or descendents

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No annotations should be made to uninformative high level terms

Messages

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ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND

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Taxon-appropriate annotation check

Messages

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Dual species taxon check

gorule-0000016

With/From: IC annotations require a With/From GO ID

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IDA annotations must not have a With/From entry

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IPI annotations require a With/From entry

gorule-0000020

Automatic repair of annotations to merged or obsoleted terms

Messages

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Check for, and filter, annotations made to retracted publications

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Each identifier in GAF is valid

Messages

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

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IEAs should be less than one year old.

Messages

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Obsolete GO_REFs are not allowed

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IBA annotations should ONLY be assigned_by GO_Central and have GO_REF:0000033 as a reference

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

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Qualifier: IKR evidence code requires a NOT qualifier

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Check for valid combination of evidence code and GO_REF

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The ‘with’ field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to ‘self-binding’ terms.

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Annotations to ISS, ISA and ISO should not be self-referential

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References should have only one ID per ID space

gorule-0000058

Object extensions should conform to the extensions-patterns.yaml file in metadata

gorule-0000059

GAF Version 2.0 and 2.1 are converted into GAF Version 2.2

Messages

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Allowed gene product to term relations (gp2term)

Messages

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

Messages

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TreeGrafter IEAs should be filtered for GO reference species

other

Predictions

GO:0006412 translation AnnotationPropagation P GO:0003743 translation initiation factor activity ISS
GO:0006413 translational initiation AnnotationPropagation P GO:0003743 translation initiation factor activity ISS
GO:0006417 regulation of translation AnnotationPropagation P GO:0003743 translation initiation factor activity ISS
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0004129 cytochrome-c oxidase activity IMP
GO:0098869 cellular oxidant detoxification AnnotationPropagation P GO:0004096 catalase activity ISS
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity ISS
GO:0006259 DNA metabolic process AnnotationPropagation P GO:0016888 endodeoxyribonuclease activity, producing 5'-phosphomonoesters IDA
GO:0071897 DNA biosynthetic process AnnotationPropagation P GO:0003887 DNA-directed DNA polymerase activity ISS
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0004129 cytochrome-c oxidase activity IMP
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISS
GO:0046940 nucleoside monophosphate phosphorylation AnnotationPropagation P GO:0033862 UMP kinase activity ISS
GO:0035672 oligopeptide transmembrane transport AnnotationPropagation P GO:0035673 oligopeptide transmembrane transporter activity IMP
GO:0006259 DNA metabolic process AnnotationPropagation P GO:0004530 deoxyribonuclease I activity ISS
GO:0098869 cellular oxidant detoxification AnnotationPropagation P GO:0008379 thioredoxin peroxidase activity IDA
GO:0016020 membrane AnnotationPropagation C GO:0051872 sphingosine catabolic process IDA
GO:0016020 membrane AnnotationPropagation C GO:0051872 sphingosine catabolic process IDA
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0004129 cytochrome-c oxidase activity IMP
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISS
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IGC
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IGC
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000156 phosphorelay response regulator activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0016020 membrane AnnotationPropagation C GO:1901760 beta-L-Ara4N-lipid A biosynthetic process ISS
GO:0098869 cellular oxidant detoxification AnnotationPropagation P GO:0004096 catalase activity IMP
GO:0016020 membrane AnnotationPropagation C GO:1901760 beta-L-Ara4N-lipid A biosynthetic process ISS
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity ISS
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0031459 ABC-type glycine betaine transporter activity IDA
GO:0031460 glycine betaine transport AnnotationPropagation P GO:0031459 ABC-type glycine betaine transporter activity IDA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity IDA
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity IDA
GO:0016020 membrane AnnotationPropagation C GO:0046467 membrane lipid biosynthetic process IMP
GO:0016020 membrane AnnotationPropagation C GO:0046493 lipid A metabolic process IDA
GO:2000142 regulation of DNA-templated transcription initiation AnnotationPropagation P GO:0016987 sigma factor activity IPI
GO:0006259 DNA metabolic process AnnotationPropagation P GO:0008855 exodeoxyribonuclease VII activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0015474 autotransporter activity IDA
GO:0006412 translation AnnotationPropagation P GO:0003746 translation elongation factor activity ISS
GO:0006414 translational elongation AnnotationPropagation P GO:0003746 translation elongation factor activity ISS
GO:0006417 regulation of translation AnnotationPropagation P GO:0003746 translation elongation factor activity ISS
GO:0046835 carbohydrate phosphorylation AnnotationPropagation P GO:0004340 glucokinase activity ISS
GO:0051156 glucose 6-phosphate metabolic process AnnotationPropagation P GO:0004340 glucokinase activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0016020 membrane AnnotationPropagation C GO:1901760 beta-L-Ara4N-lipid A biosynthetic process ISS
GO:0016020 membrane AnnotationPropagation C GO:0036104 Kdo2-lipid A biosynthetic process IDA
GO:0046835 carbohydrate phosphorylation AnnotationPropagation P GO:0004747 ribokinase activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IMP
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IMP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0004129 cytochrome-c oxidase activity IMP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity IDA
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity IDA
GO:0000162 tryptophan biosynthetic process AnnotationPropagation P GO:0004834 tryptophan synthase activity ISS
GO:0009086 methionine biosynthetic process AnnotationPropagation P GO:0008705 methionine synthase activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000156 phosphorelay response regulator activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity IMP
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity IMP
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity ISS
GO:2000142 regulation of DNA-templated transcription initiation AnnotationPropagation P GO:0016987 sigma factor activity ISS
GO:0035672 oligopeptide transmembrane transport AnnotationPropagation P GO:0035673 oligopeptide transmembrane transporter activity IMP
GO:0006259 DNA metabolic process AnnotationPropagation P GO:0004536 DNA nuclease activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000156 phosphorelay response regulator activity IDA
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity IPI
GO:0015813 L-glutamate transmembrane transport AnnotationPropagation P GO:0005313 L-glutamate transmembrane transporter activity ISS
GO:0016020 membrane AnnotationPropagation C GO:1901760 beta-L-Ara4N-lipid A biosynthetic process ISS
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISS
GO:0071897 DNA biosynthetic process AnnotationPropagation P GO:0034061 DNA polymerase activity ISS
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0004129 cytochrome-c oxidase activity IMP
GO:0006259 DNA metabolic process AnnotationPropagation P GO:0016888 endodeoxyribonuclease activity, producing 5'-phosphomonoesters IDA
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0004129 cytochrome-c oxidase activity IMP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0006355 regulation of DNA-templated transcription AnnotationPropagation P GO:0003700 DNA-binding transcription factor activity ISS
GO:0006412 translation AnnotationPropagation P GO:0003746 translation elongation factor activity ISS
GO:0006414 translational elongation AnnotationPropagation P GO:0003746 translation elongation factor activity ISS
GO:0006417 regulation of translation AnnotationPropagation P GO:0003746 translation elongation factor activity ISS
GO:0098869 cellular oxidant detoxification AnnotationPropagation P GO:0004130 cytochrome-c peroxidase activity IDA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISA
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISS
GO:0016020 membrane AnnotationPropagation C GO:0009245 lipid A biosynthetic process IDA
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0019344 cysteine biosynthetic process AnnotationPropagation P GO:0004124 cysteine synthase activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0016020 membrane AnnotationPropagation C GO:0051872 sphingosine catabolic process IDA
GO:0016020 membrane AnnotationPropagation C GO:0009245 lipid A biosynthetic process IDA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000156 phosphorelay response regulator activity ISS
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0015385 sodium:proton antiporter activity ISS
GO:0035725 sodium ion transmembrane transport AnnotationPropagation P GO:0015385 sodium:proton antiporter activity ISS
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0004129 cytochrome-c oxidase activity IMP
GO:0098869 cellular oxidant detoxification AnnotationPropagation P GO:0004096 catalase activity IMP
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0006259 DNA metabolic process AnnotationPropagation P GO:0008311 double-stranded DNA 3'-5' DNA exonuclease activity ISS
GO:0071897 DNA biosynthetic process AnnotationPropagation P GO:0034061 DNA polymerase activity ISS
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity IMP
GO:0006591 ornithine metabolic process AnnotationPropagation P GO:0004585 ornithine carbamoyltransferase activity IMP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0031459 ABC-type glycine betaine transporter activity ISO
GO:0031460 glycine betaine transport AnnotationPropagation P GO:0031459 ABC-type glycine betaine transporter activity ISO
GO:2000142 regulation of DNA-templated transcription initiation AnnotationPropagation P GO:0016987 sigma factor activity IDA
GO:0016020 membrane AnnotationPropagation C GO:1901760 beta-L-Ara4N-lipid A biosynthetic process ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0098869 cellular oxidant detoxification AnnotationPropagation P GO:0004096 catalase activity IDA
GO:0016020 membrane AnnotationPropagation C GO:0051872 sphingosine catabolic process IMP
GO:0035434 copper ion transmembrane transport AnnotationPropagation P GO:0005375 copper ion transmembrane transporter activity ISS
GO:0071805 potassium ion transmembrane transport AnnotationPropagation P GO:0015503 glutathione-regulated potassium exporter activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000156 phosphorelay response regulator activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IMP
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IMP
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity NAS
GO:0016020 membrane AnnotationPropagation C GO:0051872 sphingosine catabolic process IDA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000156 phosphorelay response regulator activity ISA
GO:0098869 cellular oxidant detoxification AnnotationPropagation P GO:0016691 chloride peroxidase activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0006259 DNA metabolic process AnnotationPropagation P GO:0008855 exodeoxyribonuclease VII activity ISS
GO:0035351 heme transmembrane transport AnnotationPropagation P GO:0015439 ABC-type heme transporter activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0031459 ABC-type glycine betaine transporter activity IDA
GO:0031460 glycine betaine transport AnnotationPropagation P GO:0031459 ABC-type glycine betaine transporter activity IDA
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity NAS
GO:0016020 membrane AnnotationPropagation C GO:0046467 membrane lipid biosynthetic process ISS
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity NAS
GO:0015689 molybdate ion transport AnnotationPropagation P GO:0015098 molybdate ion transmembrane transporter activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0015098 molybdate ion transmembrane transporter activity ISS
GO:0016020 membrane AnnotationPropagation C GO:0009245 lipid A biosynthetic process IDA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000156 phosphorelay response regulator activity IDA
GO:0016020 membrane AnnotationPropagation C GO:0051872 sphingosine catabolic process IDA
GO:0035672 oligopeptide transmembrane transport AnnotationPropagation P GO:0035673 oligopeptide transmembrane transporter activity IMP
GO:0016020 membrane AnnotationPropagation C GO:0009245 lipid A biosynthetic process ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0015288 porin activity IDA
GO:0000162 tryptophan biosynthetic process AnnotationPropagation P GO:0004834 tryptophan synthase activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity IMP
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0004129 cytochrome-c oxidase activity IMP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity ISS
GO:0042823 pyridoxal phosphate biosynthetic process AnnotationPropagation P GO:0004733 pyridoxamine phosphate oxidase activity ISS
GO:0071806 protein transmembrane transport AnnotationPropagation P GO:0008320 protein transmembrane transporter activity IMP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity ISS
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0015689 molybdate ion transport AnnotationPropagation P GO:0015412 ABC-type molybdate transporter activity ISS
GO:0098656 monoatomic anion transmembrane transport AnnotationPropagation P GO:0015412 ABC-type molybdate transporter activity ISS
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0042908 xenobiotic transport AnnotationPropagation P GO:0042910 xenobiotic transmembrane transporter activity IDA
GO:0000160 phosphorelay signal transduction system AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0018106 peptidyl-histidine phosphorylation AnnotationPropagation P GO:0000155 phosphorelay sensor kinase activity ISS
GO:0045892 negative regulation of DNA-templated transcription AnnotationPropagation P GO:0016989 sigma factor antagonist activity ISS

Predictions (experimental)