Table of contents

Report

Group: japonicusdb - Dataset: japonicusdb

SUMMARY

This report generated on 2024-10-27

Header From Original Association File

!gaf-version: 2.2
!generated-by: JaponicusDB
!date-generated: 2024-10-26T04:07
!URL: https://www.japonicusdb.org
!contact: helpdesk@pombase.org

Contents

gorule-0000002

gorule-0000005

gorule-0000006

gorule-0000007

gorule-0000008

gorule-0000011

gorule-0000013

gorule-0000015

gorule-0000016

gorule-0000017

gorule-0000018

gorule-0000022

gorule-0000027

gorule-0000028

gorule-0000029

gorule-0000030

gorule-0000037

gorule-0000039

gorule-0000042

gorule-0000043

gorule-0000046

gorule-0000050

gorule-0000055

gorule-0000058

gorule-0000061

gorule-0000063

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other

MESSAGES

gorule-0000002

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

gorule-0000005

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

gorule-0000006

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

gorule-0000007

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

gorule-0000008

No annotations should be made to uninformative high level terms

Messages

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

Messages

gorule-0000015

Dual species taxon check

gorule-0000016

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

gorule-0000017

IDA annotations must not have a With/From entry

gorule-0000018

IPI annotations require a With/From entry

gorule-0000022

Check for, and filter, annotations made to retracted publications

gorule-0000027

Each identifier in GAF is valid

Messages

gorule-0000028

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

gorule-0000029

IEAs should be less than one year old.

gorule-0000030

Obsolete GO_REFs are not allowed

gorule-0000037

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

gorule-0000039

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

gorule-0000042

Qualifier: IKR evidence code requires a NOT qualifier

gorule-0000043

Check for valid combination of evidence code and GO_REF

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.

gorule-0000050

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

gorule-0000055

References should have only one ID per ID space

gorule-0000058

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

gorule-0000061

Allowed gene product to term relations (gp2term)

gorule-0000063

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

gorule-0000064

TreeGrafter IEAs should be filtered for GO reference species

other

Predictions

GO:0009785 blue light signaling pathway AnnotationPropagation P GO:0009882 blue light photoreceptor activity IMP
GO:0006744 ubiquinone biosynthetic process FoldBasedPredictor GO:0097269 all-trans-decaprenyl-diphosphate synthase activity part_of GO:0006744 ubiquinone biosynthetic process EXP
GO:0008654 phospholipid biosynthetic process FoldBasedPredictor GO:0004605 phosphatidate cytidylyltransferase activity part_of GO:0008654 phospholipid biosynthetic process EXP
GO:0006743 ubiquinone metabolic process FoldBasedPredictor GO:0097269 all-trans-decaprenyl-diphosphate synthase activity part_of GO:0006743 ubiquinone metabolic process EXP

Predictions (experimental)