RGKbase

Rice Genome Knowledgebase (RGKbase): an annotation database for rice comparative genomics and evolutionary biology

Rice phylogenetic tree
Note: this phylogeny tree was built on the protein sequences from five genomes and using CVtree webserver.

Rice is the first genome sequenced crop in the world and its improvement of harvest and trait can significantly benefit to humans.

Over the past decade, a lot of efforts make that a large of genome and biology data are available. Now it has a great opportunity for us to build a comparative rice genome database, which included the five lines of rice genomes (Oryza brachyantha, Oryza glaberrima, Oryza sativa L. ssp. Japonica Nipponbare, Oryza sativa L. ssp. Indica 93-11, and PA64s).

Furthermore, we carried out the parallel intricate gene annotation pipelines and integrated microarray, RNA-Seq and population data of 1000 rice genomes.

We not only pay attention on the gene structure, repetitive elements, alternatively-splicing events, transcriptome, proteomics and phenotype, but also study the evolutionary polymorphism variations within and between species (chromosomes, genes and segments combination and separation).

We tried to carry out the studies on specific subspecies of rice genome in a precise scope and hope that this database can help the biology scientists understand the essential evolution mechanisms of rice lineages, and facilitate the breeding and cultivation.

93_Ni.circus

Update


RGKbase is available online on 2012/6/28.

We strongly recommend visiting RGKbase using "Google Chrome Browser" for the compatibility.

Please cite the following paper when using the RGKbase.

Dapeng Wang, Yan Xia, Xinna Li, Lixia Hou, and Jun Yu. The Rice Genome Knowledgebase (RGKbase): an annotation database for rice comparative genomics and evolutionary biology. Nucl. Acids Res. first published online November 28, 2012 doi:10.1093/nar/gks1225.