Rice Information GateWay (RIGW)
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Our manually checked MH63RS3 annotation can be downloaded now! (2024-1-31)
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Rice is a major food for the world's population and serves as a model plant in cereal genome research. The Rice Information GateWay (RIGW) was upgraded to Version 3.0 with the release of GAP-FREE reference genome assemblies, ZS97RS3 and MH63RS3. Designed as a basic platform for xian/indica rice study, RIGW presents the sequenced genomes and related information in systematic and graphical ways for the convenience of in-depth comparative studies.
Table 1. Characteristics of the ZS97RS3 and MH63RS3 genomes
| MH63RS3 | ZS97RS3 | |
|---|---|---|
| Total size of assembled chromesome/contigs (bp) | 395,765,488 | 391,084,178 |
| Numbers of gene models/transcripts | 59,903/102,911 | 60,935/100,974 |
| Number of non-TE gene loci | 39,406 | 39,258 |
References
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2. Song JM, Lei Y, Shu CC, Ding YD, Xing F, Liu H, Wang J, Xie WB, Zhang J*, Chen LL*. Rice Information GateWay (RIGW): A Comprehensive Bioinformatics Platform for Indica Rice Genomes. Molecular Plant. 2018, 11(3): 505-507. doi: 10.1016/j.molp.2017.10.003.
3. Zhang J#, Chen LL#, Xing F#, Kudrna DA, Yao W, Copetti D, Mu T, Li W, Song JM, Xie W, Lee S, Talag J, Shao L, An Y, Zhang CL, Ouyang Y, Sun S, Jiao WB, Lv F, Du B, Luo M, Maldonado CE, Goicoechea JL, Xiong L, Wu C, Xing Y, Zhou DX, Yu S, Zhao Y, Wang G, Yu Y, Luo Y, Zhou ZW, Hurtado BE, Danowitz A, Wing RA*, Zhang Q*. Extensive sequence divergence between the reference genomes of two elite indica rice varieties Zhenshan 97 and Minghui 63. Proc Natl Acad Sci U S A. 2016, 113(35): E5163-71. doi: 10.1073/pnas.1611012113.
4. Zhang J#, Chen LL#, Sun S, Kudrna D, Copetti D, Li W, Mu T, Jiao WB, Xing F, Lee S, Talag J, Song JM, Du B, Xie W, Luo M, Maldonado CE, Goicoechea JL, Xiong L, Wu C, Xing Y, Zhou DX, Yu S, Zhao Y, Wang G, Yu Y, Luo Y, Hurtado BE, Danowitz A, Wing RA*, Zhang Q*. Building two indica rice reference genomes with PacBio long-read and Illumina paired-end sequencing data. Sci Data. 2016, 3:160076. doi: 10.1038/sdata.2016.76.