Oryza Sativa Japonica

The first commercially important plant to have its genome sequenced. This feat, completed early in 2001, is particularly important because rice is a staple food for a large portion of the population of the world. With the rice sequence, genes can be located to improve yields and make rice more nutritious. Rice was the second plant to have its genome sequenced. The first was arabidopsis, a mustard-like weed that is "the laboratory mouse of the plant world." The rice genome has about 430 million base pairs. Arabidopsis has a much smaller genome with about 125 million base pairs. By comparison, the human genome is about 3.1 billion base pairs long.


EST-deriverd SSRs(Estimated Sequence tags- Simple sequence Repeats)has been shown to be less polymorphic than those derived from genomic sequences, they have some intrinsic advantages: they can be quickly obtained by electronic sorting, are unbiased in their repeat type, are present in gene rich regions of genome and are abundant. Since they represent tanscribed part of the genome, EST based SSR markers lead to mapping of genes.


ARE-R is an online resource for the investigation of AU-rich elements (ARE) in oryza sativa japonica mRNA UTR sequences hosted at the CCSHAU,Bioinformatics Section, Hisar, Haryana. AREs are one of the most prominent cis-acting regulatory elements found in 3' vertebrate, untranslated regions of mRNAs. Various ARE-binding proteins that possess RNA stabilizing or destabilizing functions are recruited by sequence-specific motifs. This online resource allows detailed investigation of these functional elements by analysis of the phylogentic conservation and the structural context these motifs are embedded in. Moreover, AREsite provides information about experimentally validated targets from extensive literature search.