Table of contents

Report

Group: genedb - Dataset: genedb_tbrucei

SUMMARY

This report generated on 2024-11-03

Header From Original Association File

!gaf-version: 1.0

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

Messages

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Taxon-appropriate annotation check

Messages

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Dual species taxon check

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

Messages

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IDA annotations must not have a With/From entry

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IPI annotations require a With/From entry

Messages

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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.

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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.

Messages

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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

Messages

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

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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:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity ISM
GO:0005634 nucleus AnnotationPropagation C GO:1902969 mitotic DNA replication IMP
GO:0030001 metal ion transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0098655 monoatomic cation transmembrane transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0005739 mitochondrion AnnotationPropagation C GO:0097250 mitochondrial respirasome assembly IMP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity ISM
GO:0030001 metal ion transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0098655 monoatomic cation transmembrane transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0005739 mitochondrion AnnotationPropagation C GO:0080156 mitochondrial mRNA modification IMP
GO:0006338 chromatin remodeling AnnotationPropagation P GO:0010485 histone H4 acetyltransferase activity IDA
GO:0005739 mitochondrion AnnotationPropagation C GO:0034982 mitochondrial protein processing IMP
GO:0005737 cytoplasm AnnotationPropagation C GO:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport ISA
GO:0005739 mitochondrion AnnotationPropagation C GO:0034982 mitochondrial protein processing IMP
GO:0031167 rRNA methylation AnnotationPropagation P GO:0008649 rRNA methyltransferase activity ISM
GO:0030001 metal ion transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISA
GO:0098655 monoatomic cation transmembrane transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISA
GO:0006338 chromatin remodeling AnnotationPropagation P GO:0042054 histone methyltransferase activity ISA
GO:0005739 mitochondrion AnnotationPropagation C GO:1900864 mitochondrial RNA modification IMP
GO:0005829 cytosol AnnotationPropagation C GO:0042147 retrograde transport, endosome to Golgi ISM
GO:0031167 rRNA methylation AnnotationPropagation P GO:0008649 rRNA methyltransferase activity ISM
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISM
GO:1903352 L-ornithine transmembrane transport AnnotationPropagation P GO:0097627 high-affinity L-ornithine transmembrane transporter activity IDA
GO:0005929 cilium AnnotationPropagation C GO:0035735 intraciliary transport involved in cilium assembly IMP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity ISM
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISM
GO:0005739 mitochondrion AnnotationPropagation C GO:0090616 mitochondrial mRNA 3'-end processing IMP
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IPI
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IC
GO:0034204 lipid translocation AnnotationPropagation P GO:0090556 phosphatidylserine floppase activity ISO
GO:0015914 phospholipid transport AnnotationPropagation P GO:0090556 phosphatidylserine floppase activity ISO
GO:0034219 carbohydrate transmembrane transport AnnotationPropagation P GO:0051119 sugar transmembrane transporter activity ISA
GO:0015789 UDP-N-acetylgalactosamine transmembrane transport AnnotationPropagation P GO:0005463 UDP-N-acetylgalactosamine transmembrane transporter activity IDA
GO:0016020 membrane AnnotationPropagation C GO:0006506 GPI anchor biosynthetic process IMP
GO:0005739 mitochondrion AnnotationPropagation C GO:0032979 protein insertion into mitochondrial inner membrane from matrix ISA
GO:0005739 mitochondrion AnnotationPropagation C GO:0034982 mitochondrial protein processing IMP
GO:0005739 mitochondrion AnnotationPropagation C GO:0097222 mitochondrial mRNA polyadenylation IDA
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity ISM
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046933 proton-transporting ATP synthase activity, rotational mechanism ISM
GO:0015986 proton motive force-driven ATP synthesis AnnotationPropagation P GO:0046933 proton-transporting ATP synthase activity, rotational mechanism ISM
GO:0016020 membrane AnnotationPropagation C GO:0006643 membrane lipid metabolic process EXP
GO:0055085 transmembrane transport AnnotationPropagation P GO:0005315 phosphate transmembrane transporter activity ISA
GO:0015698 inorganic anion transport AnnotationPropagation P GO:0005315 phosphate transmembrane transporter activity ISA
GO:0042350 GDP-L-fucose biosynthetic process AnnotationPropagation P GO:0050577 GDP-L-fucose synthase activity IDA
GO:0051726 regulation of cell cycle AnnotationPropagation P GO:0097472 cyclin-dependent protein kinase activity ISO
GO:0006417 regulation of translation AnnotationPropagation P GO:0045182 translation regulator activity ISO
GO:0032508 DNA duplex unwinding AnnotationPropagation P GO:0017116 single-stranded DNA helicase activity ISO
GO:0055085 transmembrane transport AnnotationPropagation P GO:0005315 phosphate transmembrane transporter activity ISA
GO:0015698 inorganic anion transport AnnotationPropagation P GO:0005315 phosphate transmembrane transporter activity ISA
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IPI
GO:0032218 riboflavin transport AnnotationPropagation P GO:0032217 riboflavin transmembrane transporter activity IDA
GO:0035461 vitamin transmembrane transport AnnotationPropagation P GO:0032217 riboflavin transmembrane transporter activity IDA
GO:0032508 DNA duplex unwinding AnnotationPropagation P GO:0043139 5'-3' DNA helicase activity ISA
GO:0055085 transmembrane transport AnnotationPropagation P GO:0042626 ATPase-coupled transmembrane transporter activity ISM
GO:0005739 mitochondrion AnnotationPropagation C GO:0034551 mitochondrial respiratory chain complex III assembly IMP
GO:0098869 cellular oxidant detoxification AnnotationPropagation P GO:0004362 glutathione-disulfide reductase (NADPH) activity ISS
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IPI
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0015317 phosphate:proton symporter activity ISA
GO:0030001 metal ion transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0098655 monoatomic cation transmembrane transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0005929 cilium AnnotationPropagation C GO:0035721 intraciliary retrograde transport IMP
GO:0005929 cilium AnnotationPropagation C GO:0035735 intraciliary transport involved in cilium assembly IMP
GO:0106004 tRNA (guanine-N7)-methylation AnnotationPropagation P GO:0008176 tRNA (guanine(46)-N7)-methyltransferase activity ISM
GO:0030001 metal ion transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0098655 monoatomic cation transmembrane transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISM
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IPI
GO:0006457 protein folding AnnotationPropagation P GO:0044183 protein folding chaperone IDA
GO:0016020 membrane AnnotationPropagation C GO:0006506 GPI anchor biosynthetic process IGI
GO:0005929 cilium AnnotationPropagation C GO:0035735 intraciliary transport involved in cilium assembly IMP
GO:0005929 cilium AnnotationPropagation C GO:0035735 intraciliary transport involved in cilium assembly IMP
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IC
GO:0006412 translation AnnotationPropagation P GO:0008135 translation factor activity, RNA binding ISM
GO:0006417 regulation of translation AnnotationPropagation P GO:0008135 translation factor activity, RNA binding ISM
GO:1902600 proton transmembrane transport AnnotationPropagation P GO:0046961 proton-transporting ATPase activity, rotational mechanism ISM
GO:0005739 mitochondrion AnnotationPropagation C GO:0090616 mitochondrial mRNA 3'-end processing IMP
GO:0006338 chromatin remodeling AnnotationPropagation P GO:0035175 histone H3S10 kinase activity IDA
GO:0032508 DNA duplex unwinding AnnotationPropagation P GO:0043139 5'-3' DNA helicase activity IDA
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IC
GO:0031167 rRNA methylation AnnotationPropagation P GO:0008649 rRNA methyltransferase activity ISM
GO:0044650 adhesion of symbiont to host cell AnnotationPropagation P GO:0046789 host cell surface receptor binding TAS
GO:0005929 cilium AnnotationPropagation C GO:0035735 intraciliary transport involved in cilium assembly IMP
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IC
GO:0005739 mitochondrion AnnotationPropagation C GO:0032543 mitochondrial translation IMP
GO:0005739 mitochondrion AnnotationPropagation C GO:1900864 mitochondrial RNA modification IMP
GO:0005739 mitochondrion AnnotationPropagation C GO:0034551 mitochondrial respiratory chain complex III assembly IMP
GO:0098793 presynapse AnnotationPropagation C GO:0016079 synaptic vesicle exocytosis ISA
GO:0045202 synapse AnnotationPropagation C GO:0016079 synaptic vesicle exocytosis ISA
GO:0030001 metal ion transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0098655 monoatomic cation transmembrane transport AnnotationPropagation P GO:0046873 metal ion transmembrane transporter activity ISM
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IMP
GO:0044650 adhesion of symbiont to host cell AnnotationPropagation P GO:0046789 host cell surface receptor binding TAS
GO:0051726 regulation of cell cycle AnnotationPropagation P GO:0097472 cyclin-dependent protein kinase activity ISO
GO:0005739 mitochondrion AnnotationPropagation C GO:0090615 mitochondrial mRNA processing IC
GO:1903352 L-ornithine transmembrane transport AnnotationPropagation P GO:0097627 high-affinity L-ornithine transmembrane transporter activity IDA
GO:0036261 7-methylguanosine cap hypermethylation AnnotationPropagation P GO:0071164 RNA cap trimethylguanosine synthase activity IMP
GO:0005929 cilium AnnotationPropagation C GO:0035735 intraciliary transport involved in cilium assembly IMP

Predictions (experimental)