Oryza glumipatula (Oryza_glumaepatula_v1.5)

About Oryza glumipatula

Oryza glumipatula is a wild rice from South America, one of the rice species included in the OMAP project. It belongs to the AA genome group and has 12 chromosomes with a nuclear genome size of 464 Mb (flow cytometry). It is found in deep and sometimes flowing water. This work was part of the Oryza Genome Evolution project funded by NSF Award #1026200 and in collaboration with Antonio Oliveira (Brazil).

Taxonomy ID 40148

Data source Oryza Genome Evolution Project

More information and statistics

Genome assembly: Oryza_glumaepatula_v1.5

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)

Variation

What can I find? Short sequence variants.

More about variation in Ensembl Plants

Download all variants - GVF - VCF - VEP

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.