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Oryza sativa Japonica Group (IRGSP-1.0) ▼

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About Oryza sativa Japonica

Oryza sativa Japonica (rice) is the staple food for 2.5 billion people. It is the grain with the second highest worldwide production after Zea mays. In addition to its agronomic importance, rice is an important model species for monocot plants and cereals such as maize, wheat, barley and sorghum. O. sativa has a compact diploid genome of approximately 500 Mb (n=12) compared with the multi-gigabase genomes of maize, wheat and barley.

Taxonomy ID 39947

Data source RAP-DB

More information and statistics

View karyotypeExample region

Genome assembly: IRGSP-1.0

More information and statistics

Download DNA sequence (FASTA)

Convert your data to IRGSP-1.0 coordinates

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Example geneExample transcript

Gene annotation

What can I find? Protein-coding and non-coding genes, splice variants, cDNA and protein sequences, non-coding RNAs.

More about this genebuild

Download genes, cDNAs, ncRNA, proteins - FASTA - GFF3

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Example gene tree Pan-taxonomic tree

Comparative genomics

What can I find? Homologues, gene trees, and whole genome alignments across multiple species.

More about comparative analyses

Phylogenetic overview of gene families

Download alignments (EMF)

Genomic alignments [70] [Show»«Hide
Oryza sativa Japonica Group : Actinidia chinensisLASTZ_NET | stats
Oryza sativa Japonica Group : Aegilops tauschiiLASTZ_NET | stats
Oryza sativa Japonica Group : Amborella trichopodaLASTZ_NET | stats
Oryza sativa Japonica Group : Arabidopsis halleriLASTZ_NET | stats
Oryza sativa Japonica Group : Arabidopsis lyrataLASTZ_NET | stats
Oryza sativa Japonica Group : Arabidopsis thalianaLASTZ_NET | stats
Oryza sativa Japonica Group : Beta vulgarisLASTZ_NET | stats
Oryza sativa Japonica Group : Brachypodium distachyonLASTZ_NET | stats
Oryza sativa Japonica Group : Brassica napusLASTZ_NET | stats
Oryza sativa Japonica Group : Brassica oleraceaLASTZ_NET | stats
Oryza sativa Japonica Group : Brassica rapaLASTZ_NET | stats
Oryza sativa Japonica Group : Capsicum annuumLASTZ_NET | stats
Oryza sativa Japonica Group : Chlamydomonas reinhardtiiLASTZ_NET | stats
Oryza sativa Japonica Group : Chondrus crispusLASTZ_NET | stats
Oryza sativa Japonica Group : Citrus clementinaLASTZ_NET | stats
Oryza sativa Japonica Group : Coffea canephoraLASTZ_NET | stats
Oryza sativa Japonica Group : Corchorus capsularisLASTZ_NET | stats
Oryza sativa Japonica Group : Cucumis sativusLASTZ_NET | stats
Oryza sativa Japonica Group : Cyanidioschyzon merolaeLASTZ_NET | stats
Oryza sativa Japonica Group : Cynara cardunculusLASTZ_NET | stats
Oryza sativa Japonica Group : Daucus carotaLASTZ_NET | stats
Oryza sativa Japonica Group : Dioscorea rotundataLASTZ_NET | stats
Oryza sativa Japonica Group : Eragrostis tefLASTZ_NET | stats
Oryza sativa Japonica Group : Galdieria sulphurariaLASTZ_NET | stats
Oryza sativa Japonica Group : Glycine maxLASTZ_NET | stats
Oryza sativa Japonica Group : Gossypium raimondiiLASTZ_NET | stats
Oryza sativa Japonica Group : Helianthus annuusLASTZ_NET | stats
Oryza sativa Japonica Group : Hordeum vulgareLASTZ_NET | stats
Oryza sativa Japonica Group : Ipomoea trilobaLASTZ_NET | stats
Oryza sativa Japonica Group : Leersia perrieriLASTZ_NET | stats
Oryza sativa Japonica Group : Lupinus angustifoliusLASTZ_NET | stats
Oryza sativa Japonica Group : Manihot esculentaLASTZ_NET | stats
Oryza sativa Japonica Group : Marchantia polymorphaLASTZ_NET | stats
Oryza sativa Japonica Group : Medicago truncatulaLASTZ_NET | stats
Oryza sativa Japonica Group : Musa acuminataLASTZ_NET | stats
Oryza sativa Japonica Group : Nicotiana attenuataLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza barthiiLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza brachyanthaLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza glaberrimaLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza glumipatulaLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza longistaminataLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza meridionalisLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza nivaraLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza punctataLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza rufipogonLASTZ_NET | stats
Oryza sativa Japonica Group : Oryza sativa Indica GroupLASTZ_NET | stats
Oryza sativa Japonica Group : Ostreococcus lucimarinusLASTZ_NET | stats
Oryza sativa Japonica Group : Panicum hallii FIL2LASTZ_NET | stats
Oryza sativa Japonica Group : Panicum hallii HAL2LASTZ_NET | stats
Oryza sativa Japonica Group : Phaseolus vulgarisLASTZ_NET | stats
Oryza sativa Japonica Group : Physcomitrella patensLASTZ_NET | stats
Oryza sativa Japonica Group : Populus trichocarpaLASTZ_NET | stats
Oryza sativa Japonica Group : Prunus aviumLASTZ_NET | stats
Oryza sativa Japonica Group : Prunus persicaLASTZ_NET | stats
Oryza sativa Japonica Group : Saccharum spontaneumLASTZ_NET | stats
Oryza sativa Japonica Group : Selaginella moellendorffiiLASTZ_NET | stats
Oryza sativa Japonica Group : Setaria italicaLASTZ_NET | stats
Oryza sativa Japonica Group : Solanum lycopersicumLASTZ_NET | stats
Oryza sativa Japonica Group : Solanum tuberosumLASTZ_NET | stats
Oryza sativa Japonica Group : Sorghum bicolorLASTZ_NET | stats
Oryza sativa Japonica Group : Theobroma cacaoLASTZ_NET | stats
Oryza sativa Japonica Group : Trifolium pratenseLASTZ_NET | stats
Oryza sativa Japonica Group : Triticum aestivumLASTZ_NET | stats
Oryza sativa Japonica Group : Triticum dicoccoidesLASTZ_NET | stats
Oryza sativa Japonica Group : Triticum turgidumLASTZ_NET | stats
Oryza sativa Japonica Group : Triticum urartuLASTZ_NET | stats
Oryza sativa Japonica Group : Vigna angularisLASTZ_NET | stats
Oryza sativa Japonica Group : Vigna radiataLASTZ_NET | stats
Oryza sativa Japonica Group : Vitis viniferaLASTZ_NET | stats
Oryza sativa Japonica Group : Zea maysLASTZ_NET | stats
]

Syntenies [18] [Show»«Hide
Oryza sativa Japonica Group : Arabidopsis thaliana | stats
Oryza sativa Japonica Group : Brachypodium distachyon | stats
Oryza sativa Japonica Group : Leersia perrieri | stats
Oryza sativa Japonica Group : Musa acuminata | stats
Oryza sativa Japonica Group : Oryza barthii | stats
Oryza sativa Japonica Group : Oryza brachyantha | stats
Oryza sativa Japonica Group : Oryza glaberrima | stats
Oryza sativa Japonica Group : Oryza glumipatula | stats
Oryza sativa Japonica Group : Oryza nivara | stats
Oryza sativa Japonica Group : Oryza punctata | stats
Oryza sativa Japonica Group : Oryza rufipogon | stats
Oryza sativa Japonica Group : Oryza sativa Indica Group | stats
Oryza sativa Japonica Group : Panicum hallii FIL2 | stats
Oryza sativa Japonica Group : Panicum hallii HAL2 | stats
Oryza sativa Japonica Group : Setaria italica | stats
Oryza sativa Japonica Group : Sorghum bicolor | stats
Oryza sativa Japonica Group : Vitis vinifera | stats
Oryza sativa Japonica Group : Zea mays | stats
]

Example variant

Variation

What can I find? Short sequence variants and longer structural variants.

More about variation in Oryza sativa Japonica Group

More about variation in Ensembl Plants

Download all variants - GVF - VCF - VEP

Variant Effect Predictor

Regulation

What can I find? Microarray annotations.

More about regulation in Oryza sativa Japonica Group

More about the Ensembl Plants microarray annotation strategy

Links

About this species