What's New

23/Mar/2026NEW 5/Feb/2026NEW 21/Jan/2026 19/Mar/2025
  • We have updated CGSNL annotation and manual curation data (see update_2025-03-19.txt).
  • "Known functional alleles & mutations” data and RNA-Seq data have been updated.
12/Jul/2024
  • We have updated CGSNL annotation and manual curation data (see update_2024-07-12.txt).
  • QTL annotation in Q-TARO (QTL Annotation Rice Online database) is now available in the JBrowse ("Other rice annotations" -> "Q-TARO").
11/Jan/2024 07/Sep/2023
  • We have updated CGSNL annotation and manual curation data (see update_2023-09-07.txt).
  • "Known functional alleles & mutations” data and RNA-Seq data have been updated.
15/Mar/2023 01/Sep/2022 24/Mar/2022
  • Presentation slides for the DB Workshop in the 63rd JSPP meeting are now available on the "Publications" page.
11/Mar/2022
  • We have updated CGSNL annotation and manual curation data (see update_2022-03-11.txt).
  • We have started to provide the new user interface of locus/transcript annotation page (RAP-DB beta). Please click the banner at the top of the current annotation pages.
  • Transcriptome information previously provided from TENOR, RiceXPro and RiceFREND has been integrated into RAP-DB beta. In addition, publicly available RNA-Seq data of 565 experiments can be viewed. See the "Expression (TENOR) ", "Expression (RiceXpro)" and "CoExp Network" section in RAP-DB beta (e.g. Os06t0133000-01, Os06g0133000). RNA-Seq data is also available in JBrowse
  • Genome-wide variation data among 685 rice varieties is available in the latest version of TASUKE+ (Browser > TASUKE+ (685 varieties)).
  • The list of "Agronomically important genes" has been updated (Documents > Agri. Genes). In addition, we have started to provide known functional alleles and mutations for the agronomically important genes (see the "Diversity" section of transcript annotation pages in RAP-DB beta, e.g., Os05t0158500-01).
11/Nov/2021
  • We have updated CGSNL annotation and manual curation data (see update_2021-11-11.txt).
  • New track for IsoSeq was added to JBrowse and GBrowse.
10/May/2021
  • We have updated CGSNL annotation and manual curation data (see update_2021-05-10.txt).
  • Gene expression profiles and co-expression networks in RiceXPro and RiceFREND can now be displayed in the “Expression” and “CoExp Network” tabs for each transcript.
  • Gene annotations of the rice SDRLK gene subfamily have been updated based on the information reported in Naithani et al. 2021.
02/Dec/2020
  • We have updated CGSNL annotation and manual curation data (see update_2020-12-02.txt).
  • “FAQ” is now available. (Documents > FAQ)
09/Sep/2020
  • We have updated CGSNL annotation and manual curation data (see update_2020-09-09.txt).
  • "Experimentally confirmed subcellular location" was added to the “DB references” tab in annotation pages.
  • A search by Transcript evidence, Literature PMID or Oryzabase ID was newly allowed in the "Advanced keyword search”.
03/Jun/2020 24/Mar/2020 17/Dec/2019 29/Aug/2019
  • The list of "Agronomically important genes" has been published (Documents > Agri. Genes).
  • Genome-wide variation data among >500 rice accessions is available in TASUKE+ (Browser > TASUKE).
  • Gene annotation data has been updated (see update_2019-08-29.txt).
26/June/2019 22/March/2019 26/November/2018 29/March/2018 16/Nov/2017
  • We’ve just started Twitter. Please follow @rapdb.
15/Nov/2017
  • Genotype data (SNPs/InDels called against the Nipponbare IRGSP-1.0 reference genome) for 333 rice varieties are available in the TASUKE multiple genome browser. User can access to the TASUKE from top navigation menu (Browser->TASUKE) and each transcript view page.
04/Aug/2017
  • We have updated CGSNL annotation and manual curation data (see update_2017-08-04.txt).
  • miRNA data from miRBase and FST data of the Taiwan Rice Insertional Mutant (TRIM) have been updated.
14/Apr/2017 05/Aug/2016 09/Mar/2016 21/Dec/2015
  • We are pleased to announce that RAP-DB has been reopened. We apologize for a long period of maintenance. Please note that RAP-DB legacy site (http://rapdblegacy.dna.affrc.go.jp) has been closed and integrated into the current version. Users may want to refer to the previous data on GBrowse by selecting from the 'Data Source' pull-down menu, or download the data listed at the bottom of the 'Download' page.
31/Mar/2015NEW 25/Jun/2014
  • We have updated CGSNL annotation and corrected the annotation of three genes (see update_2014-06-25.txt).
01/Apr/2014
  • Kasalath chromosome sequences in separate FASTA files have been added to the download data.
05/Mar/2014
  • RAP-DB has reopened with a new design!
  • We have updated CGSNL annotation and manual curation data (see update_2014-03-05.txt).
  • Chromosome sequences of the aus rice cultivar 'Kasalath' are available at Download site.
24/Apr/2013 19/Mar/2013 07/Feb/2013
  • New RAP-DB and related papers have been published!! When using the data obtained from the RAP-DB, kindly acknowledge the RAP project contribution by citing the following papers:
  • 1. Sakai, H., et al. "Rice Annotation Project Database (RAP-DB): An integrative and interactive database for rice genomics"
  • 2. Kawahara, Y., et al. "Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data"

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