This section provides information on the functional annotation of the Arabidopsis thaliana genome, ontologies used in the annotation effort, and sites for data retrieval.
Ontologies
Information about the ontologies available for describing biological data, with emphasis on those used at TAIR for describing genes.
Gene Ontology
TAIR is a member of the Gene Ontology Consortium and actively contributes to the development of the three ontologies aimed at describing genes: biological process, molecular function, and cellular component.
TAIR annotates Arabidopsis genes using GO terms. To learn about Gene Ontology development and gene annotation at TAIR see Gene Ontology Annotations (TO DO).
To learn how to find genes using GO terms and how to functionally classify gene sets, read the TAIR GO Tutorial.(TO DO)
Plant Ontology
TAIR contributed heavily to the initial development of ontologies for plant structures and plant growth and developmental stages. TAIR annotates Arabidopsis genes and microarray experiment data using PO terms.
Other Ontology Resources
National Center for Biomedical Ontologies BioPortal
TAIR Gene Search
update link
Find Arabidopsis genes using Gene Ontology and Plant Ontology terms.
Search TAIR Keywords
update link
A TAIR tool useful for searching all types of gene annotations done at TAIR, including gene ontology and plant ontology annotations.
TAIR GO Annotation Download
update link and instructions
A TAIR tool useful for downloading Arabidopsis GO annotations for a list of genes.
Search/Browse Gene Ontology Database
The Gene Ontology website, providing tools for searching and browsing gene functional annotation for several organisms.
Search/Browse Plant Ontology at Planteome
The Plant Ontology website, providing tools for searching and browsing plant structure and developmental stages terms.
Submit Functional Annotation to TAIR
Information on how to submit functional information about your genes to TAIR.
FTP Downloads
Links to ftp directories in TAIR containing downloadable files with gene functional annotation data done at TAIR.