RNASeq analysis of indica rice

A multiple number of cultivated or wild rice genomes, including the doners of CSSLs developed so far at our institute, are resequenced in depth (average coverage=56X) by using the NGS technology. In order to constuct a new rice reference sequence for extensive comparison of genomic sequences, whole genome de novo assembly of the genome from an indica rice cultivar Naba is performed. RNA-seq analysis of the Naba genome is also carried out which provide the data of expressed sequences for gene annotation. The Naba genome sequence is used for the effective sequence comparison especially between rice cultivars from the indiac suvspecies which can be viewed through a genome browser of TASUKE.