Description

Oryza sativa is much the more common of the two rice species cultivated as a cereal, the other species being O. glaberrima, African rice. It was first domesticated in the Yangtze River basin in China 13,500 to 8,200 years ago.

Oryza sativa belongs to the genus Oryza and the BOP clade in the grass family Poaceae. With a genome consisting of 430 Mbp across 12 chromosomes, it is renowned for being easy to genetically modify and is a model organism for the study of the biology of cereals and monocots.

Whole Genomes

Whole Genome Sequences & Annotations for Oryza sativa

• Oryza sativa MSU7.0

S genes

Oryza sativa MSU7.0 S genes

Query	Chromosome	Size(bp)	Coordinates	tBLASTn Hit	tBLASTn %ID	Domain
DUF247I-SΨ	Chr5	29958434	6058829-6059311	LpSDUF247-I_chromosome1	76	DUF247
DUF247II-S	Chr5	29958434	6046665-6048326	LpSDUF247-II_chromosome1	68	DUF247
HPS10-S	Chr5	29958434	6050205-6050364, 6050467-6050603	LpsS_contig11029	38	-
DUF247I-ZΨ	Chr4	35502694	32941990-32942343	AatlanticaDUF247I-Z	74	DUF247
DUF247II-ZΨ	Chr4	35502694	32949311-32950072	Psupina Chr4 7	72	DUF247
HPS10-Z	Chr4	35502694	32946909-32947006, 32947136-32947307	AerianthaHPS10-Z	35	-

Downloads

The Oryza sativa S gene sequences are available in FASTA format.

CDS and Protein (FASTA file)

S-gene_Oryza_sativa

Publications

Kawahara Y, de la Bastide M, Hamilton JP, Kanamori H, McCombie WR, Ouyang S, Schwartz DC, Tanaka T, Wu J, Zhou S, Childs KL, Davidson RM, Lin H, Quesada-Ocampo L, Vaillancourt B, Sakai H, Lee SS, Kim J, Numa H, Itoh T, Buell CR, Matsumoto T. Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data. Rice (N Y). 2013 Feb 6;6(1):4. doi: 10.1186/1939-8433-6-4.

Yu J, Hu S, Wang J, Wong GK, Li S, Liu B, Deng Y, Dai L, Zhou Y, Zhang X, Cao M, Liu J, Sun J, Tang J, Chen Y, Huang X, Lin W, Ye C, Tong W, Cong L, Geng J, Han Y, Li L, Li W, Hu G, Huang X, Li W, Li J, Liu Z, Li L, Liu J, Qi Q, Liu J, Li L, Li T, Wang X, Lu H, Wu T, Zhu M, Ni P, Han H, Dong W, Ren X, Feng X, Cui P, Li X, Wang H, Xu X, Zhai W, Xu Z, Zhang J, He S, Zhang J, Xu J, Zhang K, Zheng X, Dong J, Zeng W, Tao L, Ye J, Tan J, Ren X, Chen X, He J, Liu D, Tian W, Tian C, Xia H, Bao Q, Li G, Gao H, Cao T, Wang J, Zhao W, Li P, Chen W, Wang X, Zhang Y, Hu J, Wang J, Liu S, Yang J, Zhang G, Xiong Y, Li Z, Mao L, Zhou C, Zhu Z, Chen R, Hao B, Zheng W, Chen S, Guo W, Li G, Liu S, Tao M, Wang J, Zhu L, Yuan L, Yang H. A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science. 2002 Apr 5;296(5565):79-92. doi: 10.1126/science.1068037.

Goff SA, Ricke D, Lan TH, Presting G, Wang R, Dunn M, Glazebrook J, Sessions A, Oeller P, Varma H, Hadley D, Hutchison D, Martin C, Katagiri F, Lange BM, Moughamer T, Xia Y, Budworth P, Zhong J, Miguel T, Paszkowski U, Zhang S, Colbert M, Sun WL, Chen L, Cooper B, Park S, Wood TC, Mao L, Quail P, Wing R, Dean R, Yu Y, Zharkikh A, Shen R, Sahasrabudhe S, Thomas A, Cannings R, Gutin A, Pruss D, Reid J, Tavtigian S, Mitchell J, Eldredge G, Scholl T, Miller RM, Bhatnagar S, Adey N, Rubano T, Tusneem N, Robinson R, Feldhaus J, Macalma T, Oliphant A, Briggs S. A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science. 2002 Apr 5;296(5565):92-100. doi: 10.1126/science.1068275.

Jain R, Jenkins J, Shu S, Chern M, Martin JA, Copetti D, Duong PQ, Pham NT, Kudrna DA, Talag J, Schackwitz WS, Lipzen AM, Dilworth D, Bauer D, Grimwood J, Nelson CR, Xing F, Xie W, Barry KW, Wing RA, Schmutz J, Li G, Ronald PC. Genome sequence of the model rice variety KitaakeX. BMC Genomics. 2019 Nov 27;20(1):905. doi: 10.1186/s12864-019-6262-4.