Rice Gene Index

What's in RGI?

  • 16 rice accessions, 18 annotations

  • 744,233 all genes

    • Average 33,350 gene pairs

      • 119,783 non-redundant homolog groups

      • 112,658 Ortholog Gene Indices

      • 21,418 OGI core genes

      • 51,099 OGI accession-specific genes

    • 116,640 alternative splicing events

    • 398,755 genes in the Swiss-Prot database

Ortholog Gene Index


Card image cap


Search annotation, location, and homolog of genes by gene ID.

Card image cap


Gene basic information, visualization of transcript structure, AS events and homologs.

Card image cap


Comprehensive information of accessions in Asian rice.

Card image cap


Optimal mathing genes between rice accessions.

Card image cap


Visualization of gene collinearity in macro-region between rice accessions.

Card image cap


Visualization of gene collinearity in micro-region between rice accessions.


Accession Name Subpopulations Assembly Annotation Locus Tag Prefix Genes References
Nipponbare Geng-japonica-temp IRGSP1.0 Gramene (+Isoseq) OsNPB 38,404 Yoshihiro et al., 2013
MSU LOC_Os 55,801 Yoshihiro et al., 2013
RAP-db Os 37,859 Yoshihiro et al., 2013
Azucena Geng-japonica-trop1 AzucenaRS1 Gramene (+Isoseq) OsAz 36,882 Zhou et al., 2020
KETAN NANGKA::IRGC 19961-2 Geng-japonica-trop2 Os128077RS1 Gramene (+Isoseq) OsKN 37,994 Zhou et al., 2020
CHAO MEO::IRGC 80273-1 Geng-japonica-subtrp Os132278RS1 Gramene (+Isoseq) OsCM 37,240 Zhou et al., 2020
ARC 10497::IRGC 12485-1 circum-Basmati Os117425RS1 Gramene (+Isoseq) OsArc 37,181 Zhou et al., 2020
PR 106::IRGC 53418-1 Xian-indica-1B2 Os127742RS1 Gramene (+Isoseq) OsPr 36,720 Zhou et al., 2020
Minghui 63 Xian-indica-adm MH63RS3 HZAU OsMH 59,903 Song et al., 2021
IR64 Xian-indica-1B1 OsIR64RS1 Gramene (+Isoseq) OsIR64 36,925 Zhou et al., 2020
Zhenshan 97 Xian-indica-1A ZS97RS3 HZAU OsZS 60,935 Song et al., 2021
LIMA::IRGC 81487-1 Xian-indica-3A Os127564RS1 Gramene (+Isoseq) OsLima 37,994 Zhou et al., 2020
KHAO YAI GUANG::IRGC 65972-1 Xian-indica-3B1 Os127518RS1 Gramene (+Isoseq) OsKYG 37,522 Zhou et al., 2020
GOBOL SAIL (BALAM)::IRGC 26624-2 Xian-indica-2A Os132424RS1 Gramene (+Isoseq) OsGS 36,467 Zhou et al., 2020
LIU XU::IRGC 109232-1 Xian-indica-3B2 Os125827RS1 Gramene (+Isoseq) OsLX 44,942 Zhou et al., 2020
LARHA MUGAD::IRGC 52339-1 Xian-indica-2B Os125619RS1 Gramene (+Isoseq) OsLM 37,474 Zhou et al., 2020
N22 circum-Aus1 OsN22RS2 Gramene (+Isoseq) OsN22 37,598 Stein et al., 2018
NATEL BORO::IRGC 34749-1 circum-Aus2 Os127652RS1 Gramene (+Isoseq) OsNB 36,392 Zhou et al., 2020
Powered by

© 2021 Rice Gene Index @Zhang Lab. All Rights Reserved.

National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

Any comments and suggestions, please contact us.