Oryza punctata (Oryza_punctata_v1.2)

About Oryza punctata

Oryza punctata is a wild rice species native to Africa. Breeders are interested because of demonstrated resistance to bacterial blight and brown plant hoppers. O. punctata, a diploid, belongs to the O. officinalis complex within the Oryzeae genome groups, and belongs to the BB genome type. It can be found in open or semi-open habitats such as forest margins, grassland and thickets, scrub lands, open bush or shifting cultivation fields, and rice fields. It has 12 chromosomes and a nuclear genome size of 423Mb (flow cytometry). This work was part of the OGE project funded by NSF Award #1026200.

Taxonomy ID 4537

Data source Oryza Genome Evolution Project

More information and statistics

Genome assembly: Oryza_punctata_v1.2

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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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Variation

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

Variant Effect Predictor

Regulation

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 Gramene species.
  • LastZ Whole Genome Alignment to Arabidopsis thaliana, Oryza sativa Japonica (IRGSP v1) and other Oryza AA genomes.
  • Orthologue based DAGchainer synteny detection against other AA genomes.
  • Mapping to the genome of multiple sequence-based feature sets using Gramene BLAT pipeline.
  • Identification of various repeat features by programs such as RepeatMasker with MIPS and AGI repeat libraries, and Dust, TRF.

About this species