The TIGR Rice Genome Annotation Database and Resource is a National Science Foundation project and provides sequence and annotation data for the rice genome. Through these pages, you can view, search, and download our annotation of the rice genome. All of the data is freely available and comments on the data or improvements to these pages are welcome.

The major features of our pages are the sequence and annotation of the 12 rice chromosomes and the Genome Browser that provides an integrated display of annotation data.

The Oryza SNP Consortium would like to announce the upcoming initial release of our rice SNP dataset. The Consortium has preformed a survey for SNPs within 100 Mb of unique and low copy genomic sequence using 20 diverse rice cultivars. SNPs have been identified using the array-based resequencing method developed by Perlegen Sciences.

A presentation describing our initial analyses and a workshop for demonstrating the web access to these data will be given at the 5th International Symposium of Rice Functional Genomics (ISRFG) to be held on October 15-17, 2007, in Tsukuba, Japan. The presentation will be given by Ken McNally on 16 October at 9:00 AM. The workshop will be held on 16 October at 1:00 PM. A genome browser and other web pages describing these data will be made available to the general research community at that time through the Oryza SNP Consortium web page.

We are pleased to announce release 5 of the TIGR Rice Pseudomolecules and Genome Annotation. The official release date for this version was January 24, 2007. We have made major improvements in this release. The Pseudomolecule Information Page has more information about the Release 5 pseudomolecules. The What's New page has a summary of the updates for the TIGR Rice Genome Annotation web site and the Rice Genome Browser.

We have undertaken an effort to obtain structural and functional annotation of the rice genome from researchers in the community. We have recently completed beta testing with a small number of users and are now actively soliciting submssions. Detailed information about contributing structural and/or functional information can be found on the Community Annotation Information page. Detailed pages highlighting the annotation by gene family can be found on the Community Annotation Gene Families page. If you would like to participate in the community annotation effort or have questions/comments, please direct them to Dr. Francoise Thibaud-Nissen fthibaud@tigr.org.

The TIGR Plant Genomics Group has two new web resources that are of interest to the plant research community. The TIGR Plant Genomics Group website is a clearinghouse for all of the web-based plant resources at TIGR. One of the newest plant resources at TIGR is the TIGR Plant Transcript Assemblies. The Plant Transcript Assemblies are a collection of assemblies of ESTs, cDNAs and virtual transcripts for more than 230 plant species.

Researchers who wish to cite the TIGR Rice Genome Annotation website are encouraged to refer to our recent publications (Ouyang, S., Zhu, W., Hamilton, J., Lin H., Campbell, M., Childs, K., Thibaud-Nissen, F., Malek, R.L., Lee, Y., Zheng, L, Orvis, J., Haas, B., Wortman, J. and Buell, C.R. 2007. The TIGR Rice Genome Annotation Resource: improvements and new features. Nucleic Acids Research 35: D883-D887; Yuan, Q., Ouyang, S., Wang, A., Zhu, W., Maiti, R., Lin, H., Hamilton, J., Haas, B., Sultana, R., Cheung, F., Wortman, J., and Buell, C.R. 2005. The Institute for Genomic Research Osa1 Rice Genome Annotation Database. Plant Physiology 138: 18-26).