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RiceGAAS specifications

Information


Unique identifier OMICS_03283
Name RiceGAAS
Alternative name Rice Genome Automated Annotation System
Restrictions to use None
Maintained No

Taxon


  • Plants and Fungi
    • Oryza sativa

Maintainer


This tool is not available anymore.

Publication for Rice Genome Automated Annotation System

RiceGAAS citations

 (7)
call_split

OsCNGC13 promotes seed setting rate by facilitating pollen tube growth in stylar tissues

2017
PLoS Genet
PMCID: 5533464
PMID: 28708858
DOI: 10.1371/journal.pgen.1006906
call_split See protocol

[…] Gene prediction was performed using the Rice Genome Automated Annotation System (http://ricegaas.dna.affrc.go.jp/). Sequence analysis of OsCNGC13 and OsCNGC13-D was performed using the SOSUI program (http://bp.nuap.nagoyau.ac.jp/sosui/). Am […]

library_books

Are PECTIN ESTERASE INHIBITOR Genes Involved in Mediating Resistance to Rhynchosporium commune in Barley?

2016
PLoS One
PMCID: 4777559
PMID: 26937960
DOI: 10.1371/journal.pone.0150485

[…] tp://webblast.ipk-gatersleben.de/barley/viroblast.php), applying default BLAST parameter settings []. The second approach was based on a software application, an automated annotation system for rice: RiceGAAS ([]; http://ricegaas.dna.affrc.go.jp/), which possesses programs for gene prediction as well as BLAST search options for identification of homologous sequences and gene ontology predictions. […]

library_books

Haplotype divergence and multiple candidate genes at Rphq2, a partial resistance QTL of barley to Puccinia hordei

2015
PMCID: 4733143
PMID: 26542283
DOI: 10.1007/s00122-015-2627-5

[…] The pipeline TriAnnot_v3.5 (Leroy et al. ) predicted 12 genes on both Vada and SusPtrit contigs. The RiceGAAS pipeline predicted 33 genes for the Vada contig and 50 for the SusPtrit contig. Among the 33 predicted genes for Vada, 22 hit a barley EST in TIGR Gene Indices database above a threshold e va […]

library_books

BAC and RNA sequencing reveal the brown planthopper resistance gene BPH15 in a recombination cold spot that mediates a unique defense mechanism

2014
BMC Genomics
PMCID: 4148935
PMID: 25109872
DOI: 10.1186/1471-2164-15-674

[…] cted in RT-PCR. The majority of transposon protein and retrotransposon protein predicted genes were also detected in a few raw fragments. We then detected all potentially expressed genes (FGENESH and RiceGAAS predicted genes) and found that no other genes were expressed. Note that the four jacalin-related lectin genes showed similar BLASTp results in the Nipponbare genome, and the corresponding ge […]

library_books

Development in Rice Genome Research Based on Accurate Genome Sequence

2008
Int J Plant Genomics
PMCID: 2430989
PMID: 18584031
DOI: 10.1155/2008/348621

[…] the most efficient ways to characterize the structure and function of the genome. RGP constructed an annotation system that facilitates gene detection of the genome sequence in a timely manner. The Rice Genome Automated Annotation System, or RiceGAAS (http://ricegaas.dna.affrc.go.jp []), was designed as a fully automated system for annotating rice genome sequences. It retrieves rice sequences fr […]

library_books

Rice Molecular Breeding Laboratories in the Genomics Era: Current Status and Future Considerations

2008
Int J Plant Genomics
PMCID: 2408710
PMID: 18528527
DOI: 10.1155/2008/524847

[…] nown, functional annotation relies primarily on bioinformatics evidence to assign gene function []. To systematically and efficiently annotate the rice genome, an automated system and database called rice genome automated annotation system (RiceGAAS) was developed. This system automatically searches for rice genome sequences from GenBank, and processes them based on gene prediction and homology se […]

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RiceGAAS institution(s)
National Institute of Agrobiological Sciences, Tsukuba, Ibaraki, Japan

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