An annotation jamboree was held in Japan with the aim of annotating and manually curating all the genes in the rice genome. Here we present the Rice Annotation Project Database (RAP-DB), which has been developed to provide access to the annotation data. The RAP-DB has two different types ...
The International Rice Genome Sequencing Project (IRGSP) involves researchers from ten countries who are working to completely and accurately sequence the rice genome within a short period. Sequencing uses a map-based clone-by-clone shotgun strategy; shared bacterial artificial chromosome/ P1-derived ...
International Rice Genome Sequencing Project; MCL, Markov clustering; QTL, quantitative trait locus; RAP, Rice Annotation Project; RPKM, reads per kilobase per million reads; S-RAB, Short-Read Assembly Browser; SNP, single nucleotide polymorphism; SSR, simple sequence repeat; ...
The information of OsSIP1 (LOC_Os01g08660) and OsSIP2 (LOC_Os03g20410) CDS sequence and protein sequence was downloaded from the Rice Genome Annotation Project(http://rice.plantbiology.msu.edu/). For subcellular localization, the coding sequences of OsSIP1 and OsSIP2 were cloned into the...
Transposable element (TE)-related genes comprise a significant portion of the gene catalog of grasses, although their functions are insufficiently characterized. The recent availability of TE-related gene annotation from the complete genome sequence of r
genomeinformationhavebeendeveloped(1–3).After thecompletionofthegenomesequencingofthejaponica ricecultivarNipponbare(4),theRiceAnnotation Project(RAP)wasorganizedtocreateannotationdata withhighaccuracyandreliability(5).Toprovidetherice genomeannotation,wehavecreatedtheRAP-DB(6), whichisaportalsiteforvarioustypes...
Also referred to as a reference sequence (RefSeq). A genome assembly that is used to represent the full genome sequence of a given organism. Ideally, a RefSeq will be gap-free and have zero sequence errors. However, genome assemblies can potentially be missing up to 50% of the full genome...
The MSU Rice Genome Annotation Project (http://rice.plantbiology.msu.edu) provides high quality annotation of the rice genome to the international rice research community. The rice pseudomolecules for the current annotation (Release 7) have been reconstructed using an optical-map based optimal BAC...
SLS, PDR, and AJB coordinated and oversaw the project. SLS and PDR managed all genomic sequencing. DP and MCS did the initial assembly of the genome. DR directed the sequence finishing and gap closure activities. MCS, AMP, and ALD created the final assembly. RM was in charge of the ...
Genomic selection: Genome-wide prediction in plant improvement Trends Plant Sci., 19 (2014), pp. 592-601 View PDFView articleView in ScopusGoogle Scholar [3] T.H. Meuwissen, B.J. Hayes, M.E. Goddard Prediction of total genetic value using genome-wide dense marker maps Genetics, 157 (...