Interpreting the Gene Ontology Classifications Report

This help document answers questions about the top, middle, and bottom sections of the Gene Ontology Classifications report and describes the fields in the linked GO Annotations in Tabular Form page. Access to this report is from an MGI Gene Detail page or from a reference's Curated Data Functional annotations (GO) link.

Top	Symbol of the mouse genetic marker, linked to its detail page Name of the gene/marker/genome feature ID: MGI accession identifier.
Middle	GO Annotations Summary Text - details about the gene/marker/genome feature with links to related MGI gene, sequence, Gene Ontology Browser Term detail, and/or reference pages which place this feature in a variety of contexts. Tabular View - A link to this data in table format. GO evidence code abbreviations are defined at the bottom of this page. GO Graph - A link to GO Annotations in graphical format, for visualizing this data.
Bottom	GO annotation of the gene record in tabular form, sorted first by category (molecular function, cellular component, biological process), second by classification term, and finally by evidence code. Links to the Gene Ontology Browser term detail pages (from the Classification Term column). If a gene record is annotated with multiple terms, browse the GO vocabulary from this section to narrow the selection. Links from Ref(s) column to MGI Reference Detail about the annotation Link (back) to summary text in middle section Link to GO Graph, for visualizing this the data The ability to Export the table in Text (.txt) or Spreadsheet (.xlsx) formats.

Field Descriptions: GO Annotations in Tabular Form

Depending upon how you accessed this page, the following fields may be present. You can Filter the results by Aspect, Category and Evidence Code and Export the table in Text (.txt) or Spreadsheet (.xlsx) formats.

Field	Description
Proteoform	Isoforms of the protein. These may be different proteins of a gene derived by alternative splicing, alternative start site, modified protein forms, functional protein fragments and combinations of the above.
Aspect	One of three major groups into which all GO terms are organized: Molecular Function, Cellular Component, Biological Process.
Category	The categories are from a subset of the Gene Ontologies (a "GO slim") and each category provides an overview of a section of the ontology.
Classification Term	Specific GO term used to describe the given gene, linked to the GO Browser. Not can appear before a term from any of the three ontologies. Curators use it to note explicitly that the gene product is not associated with the GO term. colocalizes with appears only with cellular component terms. Curators use it: to annotate gene products transiently or peripherally associated with an organelle or complex to the relevant cellular component term; in cases where the resolution of an assay is not accurate enough to say that the gene product is a bona fide component member. As an example, colocalizes with would appear when light microscope evidence localizes a gene product to i.e., a cellular complex, but there is no evidence that the gene product is a part of that complex. contributes to appears only with molecular function terms. Curators use this annotation when a gene product contributes to a molecular function, but is not in itself sufficient for the function. Annotating individual gene products according to attributes of a complex is especially useful for molecular function annotations in cases where a complex has an activity, but not all of the individual subunits do. As an example, there may be a known catalytic subunit and one or more additional subunits, or the activity may only be present when the complex is assembled. Not colocalizes with/Not contributes to implies that a gene product is expected to colocalize with/contribute to a cellular component/molecular function but is found not to do so by one of the GO evidence criteria. For more details, see the Gene Ontology Annotation Conventions notes on qualifiers.
Context	Adds value to the classification term by detailing the conditions or refining the tissue used in the experiment.
Evidence	Criteria that justify the annotation. GO evidence codes appearing on the MGI Gene Ontology Classifications and how they are used are listed below. For additional details, see the Guide to GO Evidence Codes at the Gene Ontology web site. EXP Inferred from Experiment IAS Inferred from Ancestral Sequence HDA inferred from high throughput direct assay HEP inferred from high throughput expression pattern HGI inferred from high throughput genetic interaction HMP inferred from high throughput mutant phenotype IAS Inferred from Ancestral Sequence IBA Inferred from Biological aspect of Ancestor IBD Inferred from Biological aspect of Descendant IC Inferred by Curator IDA Inferred from Direct Assay IEA Inferred from Electronic Annotation IEP Inferred from Expression Pattern IGI Inferred From Genetic Interaction IKR Inferred from Key Residues IMP Inferred from Mutant Phenotype IMR Inferred from Missing Residues IPI Inferred from Physical Interaction IRD Inferred from Rapid Divergence ISA Inferred from Sequence Alignment ISM Inferred from Sequence Model ISO Inferred from Sequence Orthology ISS Inferred from Sequence Or Structural Similarity NAS Non-traceable Author Statement ND No biological Data available RCA Inferred from Reviewed Computational Analysis TAS Traceable Author Statement
Inferred From	GenBank, UniProt, RefSeq, or MGI Gene or Allele Accession ID.
Reference(s)	J number (every reference stored in MGI has a number with the format J:nnnnnn) of the supporting reference for the classification, linked to a References Query Results -- Details page. Note: If there are more than 3 references, that numeral replaces the J number, and the link goes to the References Query Results -- Summary page.

Top