A Resource for Comparative Grass Genomics

Release #30

News

• Job openings at Gramene
  Gramene is hiring a Programmer/Analyst and a Database Biologist at Cornell University! Please see...
• Gramene at PAG 2010
  Gramene will be present at the Plant and Animal Genome (PAG) conference in San Diego, California...
• Job opening at UMass Amherst
  The Department of Biochemistry and Molecular Biology at UMass Amherst announces a faculty search for...

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Quick Start

• GENOMES: Browse assembled genomes for Oryza sativa indica and japonica, O. glaberrima, O. rufipogon, O. barthii , O. brachyantha, O. nivara, Zea mays, Sorghum bicolor, Arabidopsis thaliana, Arabidopsis lyrata, Vitis vinifera, Populus trichocarpa, and Brachypodium distachyon. Look for rice/maize synteny. Narrow your search with GrameneMart. Search for sequence alignment with BLAST. Search by Gene Ontology.
• PROTEINS: Search by PFam or ProSite or Browse by Gene Ontology using GO Slim.
• COMPARATIVE MAPS: Browse genetic or physical maps for Wild Rice (Oryza sp. from OMAP), Rice, Maize, Wheat, Barley, Oats, Sorghum, and other grasses, or use the Comparative Map Viewer (CMap) to compare maps of different types and species. View map detail information
• MARKERS: Search for Genetic markers (RFLPs, SSRs, etc.), DNA Probes (Primers, Overgos, etc.), Genomic Regions (Clones, FPContigs, etc.), and Sequences (GSSs, ESTs, etc.). Search by species such as Sorghum, by type such as RFLP, or by species and type such as Rice SSR. Use the Simple Sequence Repeat Identification Tool (SSRIT).
• TRAITS: Search the Genes or QTL database for important phenotype-releated loci such as Rice Genes, Rice QTL, Maize QTL. Don't forget to explore traits in Ontologies.
• GENETIC DIVERSITY: Search for SNP and SSR allelic variation on loci of rice, maize, arabidopsis, wheat and sorghum germplasms.
• BIOCHEMICAL PATHWAYS: Search for a gene, protein, or pathway. Search for rice pathways associated with known reactions (e.g., starch biosynthesis) or get an overview of the metabolic network.
• LITERATURE: Search the literature for your friends and topics of interest.
• SPECIES PAGES provide overview information, pictures, and links to Gramene data for Oryza, Zea, Triticum, Hordeum, Avena, Setaria, Pennisetum, Secale, Sorghum, Zizania, and Brachypodium.
• WEB SERVICES: Gramene offers many useful web services like distributed annotation services (DAS) for our genomes and genes, the GDPC for our diversity data, and semantic web services for our QTLs.

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