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Oryza meridionalis (Oryza_meridionalis_v1.3) ▼

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About Oryza meridionalis

Oryza meridionalis is a wild rice found in Australia, one of the wild rice species included in the OMAP project. It belongs to the AA genome group. It has 12 chromosomes with a nuclear genome size of 435 Mb (flow cytometry). It is found at edges of freshwater lagoons, temporary pools, and swamps in 15-20 cm of water and grows in black, clay soil in open habitats. This work was part of the Oryza Genome Evolution project funded by NSF Award #1026200 and in collaboration with Olivier Panaud and Robert Henry.

Taxonomy ID 40149

Data source Oryza Genome Evolution Project

More information and statistics

View karyotypeExample region

Genome assembly: Oryza_meridionalis_v1.3

More information and statistics

Download DNA sequence (FASTA)

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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

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)

Variation

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