Oryza rufipogon (OR_W1943)

About Oryza rufipogon

Oryza rufipogon (AA genome type) is a wild rice, perennial, tufted, and scrambling grass with nodal tillering; plant height variable (1-5 m) depending on the depth of water; panicles open; spikelets usually 4.5-10.6 mm long and 1.6-3.5 mm wide with awns usually 4-10 cm long; anthers >3 mm reaching 7.4 mm long.

Chromosome number: 2n=2x=24

Genome: AA

Distribution: Australia, Bangladesh, China, India, Indonesia, Laos, Malaysia, Myanmar, Nepal, Papua New Guinea, Philippines, Sri Lanka, Thailand, and Vietnam.

Habitat: Found in swamps and marshes, in open ditches, swampy grassland, ponds, along river banks, at the edges of lakes, and in or at the margins of rice fields, commonly found in deep water areas (0.2-4m). Grows in clay/loam soil and black soil, in full sun.

Taxonomy ID 4529

Data source Oryza Genome Evolution Project

More information and statistics

Genome assembly: OR_W1943

More information and statistics

Download DNA sequence (FASTA)

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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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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)


This species currently has no variation database. However you can process your own variants using the Variant Effect Predictor:

Variant Effect Predictor


What can I find? Microarray annotations.

More about the Ensembl Plants microarray annotation strategy

Gramene/Ensembl Genomes Annotation

Additional annotations generated by the Gramene and Ensembl Plants project include:

  • Gene phylogenetic trees with other other Gramene species, see example.
  • Mapping to the genome of multiple sequence-based feature sets using gramene blat pipeline, see example.
  • Identification of various repeat features by programs such as RepeatMasker with MIPS and AGI repeat libraries, and Dust, TRF.