Gramene Activities @ PAG
Gramene is pleased to be at the Plant and Animal Genome Conference in San Diego, January 10-14, 2009...

National Plant Genome Initiative Workshop
Gramene would like to highlight a new to a Wiki site that describes a summary of a recent workshop...

2009 Maize Genetics Conference
The 51st Annual Maize Genetics Conference will be held March 12-15, 2009 in Pheasant Run, St. Charles...

Quick Start

GENOMES: Browse assembled genomes for Oryza sativa indica and japonica, O. glaberrima, O. rufipogon, Zea mays, Sorghum bicolor, Arabidopsis thaliana, Vitis vinifera, and Populus trichocarpa. 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 SSR Primer Pair, 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, and wheat 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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Presentation Materials

Gramene Tip:

The rice genome assembly is still being finalized and therefore marker and clone positions along pseudomolecules may change with a Gramene build. Each successive build brings improvements. Previous Gramene builds are archived.

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Gramene is a curated, open-source, data resource for comparative genome analysis in the grasses. Our goal is to facilitate the study of cross-species homology relationships using information derived from public projects involved in genomic and EST sequencing, protein structure and function analysis, genetic and physical mapping, interpretation of biochemical pathways, gene and QTL localization and descriptions of phenotypic characters and mutations.

A Resource for Comparative Grass Genomics

Release #28

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