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URL: http://RiceGAAS.dna.affrc.go.jp/
Proper Citation: RiceGAAS (RRID:SCR_007896)
Description: A rice genome automated annotation system. This system integrates programs for prediction and analysis of protein-coding gene structure. Integrated softwares are coding region prediction programs ( GENSCAN, RiceHMM, FGENESH, MZEF ), splice site prediction programs (SplicePredictor ), homology search analysis programs ( Blast, HMMER, ProfileScan, MOTIF ), tRNA gene prediction program ( tRNAscan-SE ), repetitive DNA analysis programs ( RepeatMasker, Printrepeats ), signal scan search program ( Signal Scan ), protein localization site prediction program ( PSORT ), and program of classification and secondary structure prediction of membrane proteins ( SOSUI ). Blast against full-length cDNA sequences of japonica rice is integrated. The full-length rice cDNA sequence is provided by KOME database. Interpretation of the coding region is fully automated and gene prediction is accomplished without manual evaluation and modification. Therefore some differences exist between the predicted genes by the system and the manually predicted genes included in the GenBank entries. Please see "comparison table of gene prediction", http://RiceGAAS.dna.affrc.go.jp/rga-bin/col_accur.pl in detail. Further, a unique function is automatically assigned for predicted gene by GFSelector based on the protein homology of the gene. Additionally, the keyword search from the functions predicted by GFSelector is provided.
Synonyms: RiceGAAS
Resource Type: database, data or information resource
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