| Entry | T01015 |
| Org code | osa |
| Name | Oryza sativa ssp. japonica cultivar Nipponbare (Japanese rice) |
| Category | Reference genome |
| Annotation | yes |
| Taxonomy | TAX: 39947 |
| Lineage | Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliopsida; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa |
| Brite | KEGG organisms [BR:br08601]
KEGG organisms in the NCBI taxonomy [BR:br08610]
KEGG organisms in taxonomic ranks [BR:br08611]
KEGG organisms: plants [BR:br08613] |
| Data source | RefSeq (Assembly: GCF_034140825.1 Complete Genome)
BioProject: 1123306 |
| Keywords | Photosynthesis |
| Chromosome | 1 |
| Sequence | RS: NC_089035 |
| Length | 43929697 |
| Chromosome | 2 |
| Sequence | RS: NC_089036 |
| Length | 36447916 |
| Chromosome | 3 |
| Sequence | RS: NC_089037 |
| Length | 37399924 |
| Chromosome | 4 |
| Sequence | RS: NC_089038 |
| Length | 36078568 |
| Chromosome | 5 |
| Sequence | RS: NC_089039 |
| Length | 30400764 |
| Chromosome | 6 |
| Sequence | RS: NC_089040 |
| Length | 32122276 |
| Chromosome | 7 |
| Sequence | RS: NC_089041 |
| Length | 29936421 |
| Chromosome | 8 |
| Sequence | RS: NC_089042 |
| Length | 28605474 |
| Chromosome | 9 |
| Sequence | RS: NC_089043 |
| Length | 27474823 |
| Chromosome | 10 |
| Sequence | RS: NC_089044 |
| Length | 23931887 |
| Chromosome | 11 |
| Sequence | RS: NC_089045 |
| Length | 31111469 |
| Chromosome | 12 |
| Sequence | RS: NC_089046 |
| Length | 28271460 |
| Chromosome | MT |
| Sequence | RS: NC_011033 |
| Length | 490520 |
| Chromosome | Pltd; Circular |
| Sequence | RS: NC_001320 |
| Length | 134525 |
| Plasmid | B1; Circular |
| Sequence | RS: NC_001751 |
| Length | 2135 |
| Statistics | Number of nucleotides: 386337859
Number of protein genes: 29429
Number of RNA genes: 3149
|
| Created | 2003 |
| Reference | PMID: 37553831 |
| Authors | Shang L, He W, Wang T, Yang Y, Xu Q, Zhao X, Yang L, Zhang H, Li X, Lv Y, et al. |
| Title | A complete assembly of the rice Nipponbare reference genome. |
| Journal | Mol Plant 16:1232-1236 (2023)
DOI: 10.1016/j.molp.2023.08.003 |
| Reference | PMID: 16100779 |
| Authors | International Rice Genome Sequencing Project. |
| Title | The map-based sequence of the rice genome. |
| Journal | Nature 436:793-800 (2005)
DOI: 10.1038/nature03895 |
| Reference | PMID: 12447438 (chromosome 1) |
| Authors | Sasaki T, Matsumoto T, Yamamoto K, Sakata K, Baba T, Katayose Y, Wu J, Niimura Y, Cheng Z, Nagamura Y, et al. |
| Title | The genome sequence and structure of rice chromosome 1. |
| Journal | Nature 420:312-316 (2002)
DOI: 10.1038/nature01184 |
| Reference | PMID: 16109971 (chromosome 3) |
| Authors | Buell CR, Yuan Q, Ouyang S, Liu J, Zhu W, Wang A, Maiti R, Haas B, Wortman J, Pertea M, et al. |
| Title | Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species. |
| Journal | Genome Res 15:1284-91 (2005)
DOI: 10.1101/gr.3869505 |
| Reference | PMID: 12447439 (chromosome 4) |
| Authors | Feng Q, Zhang Y, Hao P, Wang S, Fu G, Huang Y, Li Y, Zhu J, Liu Y, Hu X, et al. |
| Title | Sequence and analysis of rice chromosome 4. |
| Journal | Nature 420:316-320 (2002)
DOI: 10.1038/nature01183 |
| Reference | PMID: 12791992 (chromosome 10) |
| Authors | Rice Chromosome 10 Sequencing Consortium. |
| Title | In-depth view of structure, activity, and evolution of rice chromosome 10. |
| Journal | Science 300:1566-9 (2003)
DOI: 10.1126/science.1083523 |
| Reference | PMID: 16188032 (chromosomes 11 and 12) |
| Authors | Rice Chromosomes 11 and 12 Sequencing Consortia. |
| Title | The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications. |
| Journal | BMC Biol 3:20 (2005)
DOI: 10.1186/1741-7007-3-20 |
Oryza sativa japonica (Japanese rice)