3K Rice Genomes Project

These accessions were used in 'The 3000 rice genomes project'. From this international resequencing effort, approximately 18.9 million single nucleotide polymorphisms (SNPs) in rice were discovered when aligned to the reference genome of the temperate japonica variety, Nipponbare. Phylogenetic analyses based on SNP data confirmed differentiation of the O. sativa gene pool into 5 varietal groups – indica, aus/boro, basmati/sadri, tropical japonica and temperate japonica. This data serves as a foundation for large-scale discovery of novel alleles for important rice phenotypes using various bioinformatics and/or genetic approaches. It also serves to understand the genomic diversity within O. sativa at a higher level of detail. With the release of the sequencing data, the project calls for the global rice community to take advantage of this data as a foundation for establishing a global, public rice genetic/genomic database and information platform for advancing rice breeding technology for future rice improvement.

The study was done by the 3000 Rice Genomes Project (2014) with detailed analyses published by Wang et al. (2018), 10.1186/2047-217X-3-7.

Crop
Rice
Number of accessions
2,703
Creation date
2009
Subset metadata

Subset creators


Data curator
Kenneth McNally International Rice Research Institute

Data and resources


MCPD passport data

MCPD - 27f41bd8-c98b-401c-b689-de1a411f1410.xlsx

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Accessions

List of accessions included in the subset

1. IRGC 117423Oryza sativa Linnaeus Indica • ARANG::IRGC 43322-1 • Genetic stock • Indonesia+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CN6M
2. IRGC 117425Oryza sativa Linnaeus Aromatic • ARC 10497::IRGC 12485-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CN8P
3. IRGC 117426Oryza sativa Linnaeus Aromatic • ARC 13829::IRGC 42469-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CN9Q
4. IRGC 117430Oryza sativa Linnaeus Indica • AVO::IRGC 11000-1 • Genetic stock • Madagascar+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CNDV
5. IRGC 117442Oryza sativa Linnaeus Indica • CARREON::IRGC 32575-1 • Genetic stock • Philippines+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CNS2
6. IRGC 117446Oryza sativa Linnaeus Aromatic • CHHOTE DHAN::IRGC 58930-1 • Genetic stock • Nepal+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CNX6
7. IRGC 117454Oryza sativa Linnaeus Indica • CO 39::IRGC 51231-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CP5E
8. IRGC 117466Oryza sativa Linnaeus Aromatic • DOM ZARD::IRGC 12881-1 • Genetic stock • Iran+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CPHT
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CPS$
10. IRGC 117494Oryza sativa Linnaeus Aromatic • JC 1::IRGC 9091-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CQDH
11. IRGC 117497Oryza sativa Linnaeus Aromatic • JC 149::IRGC 9070-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CQGM
12. IRGC 117498Oryza sativa Linnaeus Aromatic • JC 157::IRGC 9074-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CQHN
13. IRGC 117518Oryza sativa Linnaeus Temperate japonica • KOTOBUKI MOCHI::IRGC 2545-1 • Genetic stock • Japan+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CR54
14. IRGC 117535Oryza sativa Linnaeus Tropical japonica • NABESHI::IRGC 8269-1 • Genetic stock • Taiwan ROC+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CRPN
15. IRGC 117536Oryza sativa Linnaeus Indica • NAM SA GUI 19::IRGC 11462-1 • Genetic stock • Thailand+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CRQP
16. IRGC 117537Oryza sativa Linnaeus Temperate-tropical japonica intermediate • NEP HOA VANG::IRGC 40748-2 • Genetic stock • Vietnam+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CRRQ
17. IRGC 117543Oryza sativa Linnaeus Tropical japonica • OS 4::IRGC 11335-1 • Genetic stock • Nigeria+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CRYX
18. IRGC 117550Oryza sativa Linnaeus Indica • PAGAIYAHAN::IRGC 8267-1 • Genetic stock • Taiwan ROC+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CS5U
19. IRGC 117551Oryza sativa Linnaeus Aromatic • PANKHARI 203::IRGC 5999-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CS60
20. IRGC 117569Oryza sativa Linnaeus Temperate-tropical japonica intermediate • RIKUTO KEMOCHI::IRGC 2719-1 • Genetic stock • Japan+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CSRJ
21. IRGC 117593Oryza sativa Linnaeus Temperate-tropical japonica intermediate • YANGKUM (RED)::IRGC 32406-1 • Genetic stock • Bhutan+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CTG5
22. IRGC 117597Oryza sativa Linnaeus Tropical japonica • IR 62266-42-6-2::IRGC 117397-1 • Genetic stock • IRRI+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CTM9
23. IRGC 120876Oryza sativa Linnaeus Aus • AUS 439::IRGC 29221-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CVH1
24. IRGC 120887Oryza sativa Linnaeus Aus • BATHURI::IRGC 25838-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CVWC
25. IRGC 120894Oryza sativa Linnaeus Aus • BHADOIA 303::IRGC 6588-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CW3K
26. IRGC 120902Oryza sativa Linnaeus Indica • BPI 76 NON SENSITIVE (GREEN)::IRGC 9790-1 • Genetic stock • Philippines+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CWBV
27. IRGC 120914Oryza sativa Linnaeus Indica • CHUA DAU::IRGC 4785-1 • Genetic stock • China+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CWQ2
28. IRGC 120915Oryza sativa Linnaeus Aus • CHUNGUR BALI::IRGC 25855-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CWR3
29. IRGC 120921Oryza sativa Linnaeus Indica • CSR-90 IR-2::IRGC 117327-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CWY9
30. IRGC 120922Oryza sativa Linnaeus Indica • CT 9737-6-1-1-2-2P-M::IRGC 117330-1 • Genetic stock • Colombia+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CWZA
31. IRGC 120927Oryza sativa Linnaeus Aus • DANGAR::IRGC 76296-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CX4F
32. IRGC 120968Oryza sativa Linnaeus Aus • HODARAWALA::IRGC 67631-1 • Genetic stock • Sri Lanka+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CYDK
33. IRGC 120969Oryza sativa Linnaeus Aus • HOLOI BASH (SOLOI BASH)::IRGC 64778-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CYEM
34. IRGC 120991Oryza sativa Linnaeus Indica • IRGA 318-11-6-9-2B::IRGC 117339-1 • Genetic stock • Colombia+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CZ45
35. IRGC 120992Oryza sativa Linnaeus Indica • IRGA 346-111-2-1F::IRGC 117341-1 • Genetic stock • Colombia+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CZ56
36. IRGC 120993Oryza sativa Linnaeus Indica • IRGA 659-1-2-2-2::IRGC 117345-1 • Genetic stock • Colombia+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CZ67
37. IRGC 120996Oryza sativa Linnaeus Aus • JAMBALI::IRGC 73101-1 • Genetic stock • Pakistan+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CZ9A
38. IRGC 121003Oryza sativa Linnaeus Indica • K 479-2-3::IRGC 117346-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CZGH
39. IRGC 121005Oryza sativa Linnaeus Aus • KALIA::IRGC 34699-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5CZJK
40. IRGC 121022Oryza sativa Linnaeus Aus • KHARSU 80::IRGC 28016-1 • Genetic stock • Pakistan+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D03U
41. IRGC 121026Oryza sativa Linnaeus Aus • KOYRA::IRGC 77267-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D073
42. IRGC 121029Oryza sativa Linnaeus Aus • KURULU WEE (WHITE)::IRGC 66518-1 • Genetic stock • Sri Lanka+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D0A6
43. IRGC 121036Oryza sativa Linnaeus Aus • LALSAITA::IRGC 43915-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D0HD
44. IRGC 121038Oryza sativa Linnaeus Aus • LENJA MURALI::IRGC 66815-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D0KF
45. IRGC 121069Oryza sativa Linnaeus Aus • NOROI::IRGC 31611-1 • Genetic stock • Bangladesh+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D1J9
46. IRGC 121075Oryza sativa Linnaeus Indica • NS 252::IRGC 68878-1 • Genetic stock • Madagascar+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D1RF
47. IRGC 121103Oryza sativa Linnaeus Indica • RR 272-17-829::IRGC 117354-1 • Genetic stock • Indonesia+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D2M6
48. IRGC 121119Oryza sativa Linnaeus Indica • SICAN::IRGC 117029-1 • Genetic stock • Peru+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D34P
49. IRGC 121120Oryza sativa Linnaeus Aus • SIMUL KHURI::IRGC 35154-1 • Genetic stock • India+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D35Q
50. IRGC 121128Oryza sativa Linnaeus Aus • SUFAID 246::IRGC 28303-1 • Genetic stock • Pakistan+ Add to my list
PHL001International Rice Research Institute, Philippines • DOI: 10.18730/5D3DZ