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Resource:Rice Genome Annotation

Name: Resource:Rice Genome Annotation
Description: Database and resource that provides sequence and annotation data for the rice genome. This website provides genome sequence from the Nipponbare subspecies of rice and annotation of the 12 rice chromosomes. All structural and functional annotation is viewable through our Rice Genome Browser which currently supports 75 tracks of annotation. Enhanced data access is available through web interfaces, FTP downloads and a Data Extractor tool developed in order to support discrete dataset downloads.

Rice is a model species for the monocotyledonous plants and the cereals which are the greatest source of food for the world's population. While rice genome sequence is available through multiple sequencing projects, high quality, uniform annotation is required in order for genome sequence data to be fully utilized by researchers. The existence of a common gene set and uniform annotation allows researchers within the rice community to work from a common resource so that their results can be more easily interpreted by other scientists.

The objective of this project has always been to provide high quality annotation for the rice genome. They generated, refined and updated gene models for the estimated 40,000-60,000 total rice genes, provided standardized annotation for each model, linked each model to functional annotation including expression data, gene ontologies, and tagged lines.

They have provided a resource to extend the annotation of the rice genome to other plant species by providing comparative alignments to other plant species.

Analysis/Tools are available including: BLAST, Locus Name Search, Functional Term Search, Protein Domain Search, Anatomy Expression Viewer, Highly Expressed Genes
Other Name(s): Rice Genome Annotation Project, MSU Rice Genome Annotation Project Database and Resource
Parent Organization: Michigan State University; Michigan; USA
Supporting Agency: NSF
Related to: Resource:OMICtools
Resource Type(s): Database, Data analysis service
Keywords: rice, Oryza sativa, maize, corn, Zea mays, wheat, Triticum aestivum, gene, genome, annotation
Grant: DBI-0321538, DBI-0834043
Abbreviation: Osa1
Resource: Resource
URL: http://rice.plantbiology.msu.edu/
PMID: PMID 17145706
Availability: Acknowledgement requested
Id: nif-0000-31459
Organism: Rice
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Curated

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Notes

This page uses this default form:Resource

Xref: OMICS_01563

Alt. URL: http://rice.tigr.org
Old URL: http://rice.plantbiology.msu.edu/pseudomolecules/info.shtml

Contributors

Aarnaud, Ccdbuser, Nifbot2, Zaidaziz



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Facts about Resource:Rice Genome AnnotationRDF feed
AbbrevOsa1  +
AvailabilityAcknowledgement requested  +
CurationStatuscurated  +
DefiningCitationhttp://rice.plantbiology.msu.edu/  +
DefinitionDatabase and resource that provides sequen Database and resource that provides sequence and annotation data for the rice genome. This website provides genome sequence from the Nipponbare subspecies of rice and annotation of the 12 rice chromosomes. All structural and functional annotation is viewable through our Rice Genome Browser which currently supports 75 tracks of annotation. Enhanced data access is available through web interfaces, FTP downloads and a Data Extractor tool developed in order to support discrete dataset downloads.

Rice is a model species for the monocotyledonous plants and the cereals which are the greatest source of food for the world's population. While rice genome sequence is available through multiple sequencing projects, high quality, uniform annotation is required in order for genome sequence data to be fully utilized by researchers. The existence of a common gene set and uniform annotation allows researchers within the rice community to work from a common resource so that their results can be more easily interpreted by other scientists.

The objective of this project has always been to provide high quality annotation for the rice genome. They generated, refined and updated gene models for the estimated 40,000-60,000 total rice genes, provided standardized annotation for each model, linked each model to functional annotation including expression data, gene ontologies, and tagged lines.

They have provided a resource to extend the annotation of the rice genome to other plant species by providing comparative alignments to other plant species.

Analysis/Tools are available including: BLAST, Locus Name Search, Functional Term Search, Protein Domain Search, Anatomy Expression Viewer, Highly Expressed Genes
Expression Viewer, Highly Expressed Genes
GrantCategory:DBI-0321538   +, and Category:DBI-0834043   +
Has default formThis property is a special property in this wiki.Resource  +
Has roleDatabase  +, and Data analysis service  +
Idnif-0000-31459  +
Is part ofMichigan State University; Michigan; USA  +
KeywordsRice  +, Oryza sativa  +, Maize  +, Corn  +, Zea mays  +, Wheat  +, Triticum aestivum  +, Gene  +, Genome  +, and Annotation  +
LabelResource:Rice Genome Annotation  +
ModifiedDate8 February 2014  +
PMID17145706  +
Page has default formThis property is a special property in this wiki.Resource  +
RelatedToResource:OMICtools  +
SpeciesRice  +
SuperCategoryResource  +
SynonymRice Genome Annotation Project  +, and MSU Rice Genome Annotation Project Database and Resource  +