Annotation data on Os-Nipponbare-Reference-IRGSP-1.0


Genome sequences

  • Genome sequence (Os-Nipponbare-Reference-IRGSP-1.0)
    Genome assemblies (12 chromosomes)*    [DOWNLOAD] (gz file, 116MB, MD5 checksum)
    Unanchored sequences*   [DOWNLOAD] (gz file, 356KB, MD5 checksum)

      (*) Sequences are masked by Censor with MIPS and MSU repeat data. The masked regions are replaced by lowercase letters.

  • Chromosome sequences of the aus rice cultivar 'Kasalath'.
    [DOWNLOAD] (gz file, 209MB)

Gene set (genes supported by FL-cDNAs, ESTs or proteins)

  • Gene structure and function information in GFF format.
    [DOWNLOAD] (gz file, 12.4MB)
  • Gene sequences (CDS + UTRs + introns) in FASTA format.
    [DOWNLOAD] (gz file, 38.5MB)
  • Transcript sequences (CDS + UTRs) in FASTA format.
    [DOWNLOAD] (gz file, 20.2MB)
  • CDS sequences in FASTA format.
    [DOWNLOAD] (gz file, 12.1MB)
  • Protein sequences (translated CDSs) in FASTA format.
    [DOWNLOAD] (gz file, 7.5MB)
  • 1 kb upstream sequences of genes in FASTA format.
    [DOWNLOAD] (gz file, 13.4MB)
  • 2 kb upstream sequences of genes in FASTA format.
    [DOWNLOAD] (gz file, 26.2MB)
  • 3 kb upstream sequences of genes in FASTA format.
    [DOWNLOAD] (gz file, 38.5MB)
  • 1 kb downstream sequences of genes in FASTA format.
    [DOWNLOAD] (gz file, 13.2MB)
  • 2 kb downstream sequences of genes in FASTA format.
    [DOWNLOAD] (gz file, 25.8MB)
  • 3 kb downstream sequences of genes in FASTA format.
    [DOWNLOAD] (gz file, 37.9MB)

Gene set (computationally predicted genes)

  • Gene structure information in GFF format.
    [DOWNLOAD] (gz file, 482KB)
  • CDS sequences in FASTA format.
    [DOWNLOAD] (gz file, 1.3MB)
  • Protein sequences (translated CDSs) in FASTA format.
    [DOWNLOAD] (gz file, 864KB)

Miscs

  • Table of RAP and MSU's LOC_Os IDs in tab-delimited format.
    [DOWNLOAD] (gz file, 323KB)
  • Table of transcript-IDs and corresponding accession number and species name of transcript evidences in tab-delimited format.
    [DOWNLOAD] (gz file, 340KB)
  • Vegetative and reproductive stage specific sRNAs detected by Meng et al. of Hangzhou Normal University.
    [DOWNLOAD] (zip file, 8.1MB)