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Rat

Rattus norvegicus

Annotation progress

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chromosome 1 chromosome 2 chromosome 3 chromosome 4 chromosome 5 chromosome 6 chromosome 7 chromosome 8 chromosome 9 chromosome 10 chromosome 11 chromosome 12 chromosome 13 chromosome 14 chromosome 15 chromosome 16 chromosome 17 chromosome 18 chromosome 19 chromosome 20 chromosome X chromosome Y Karyotype selector

Shading indicates unannotated regions

This Release

Release Date 14 June 2016
Datafreeze Date 26 January 2016
Havana Update Date 18 October 2016
As used in Ensembl 85 genebuild
Assembly Rnor6.0 (July 2014, mixed sex strain made from pooled female animals of strain BN/SsNHsdMCW plus one male of strain SHR (also known as SHR-Akr))
Source Rat Genome Sequencing Consortium
Annotation Method Manual Annotation

The Project and your involvement

The Norway Rat (Rattus norvegicus) is widely used as a model organism for pharmacology and toxicology and is the most relevant model organism for the study of multifactorial human disease. We have recently been funded by the BBSRC to improve the reference genome annotation and build community engagement in collaboration with Ensembl. In March 2013 we organised a Rat Annotation Jamboree at the Wellcome Trust Sanger Institute. This meeting brought together community experts, RGD faculty, Havana manual annotators and Ensembl developers to discuss methods to improve rat gene annotation. Regions of interest have been initially targeted for manual annotation and are now visible within Vega and will be subsequently merged into the Ensembl gene set. To nominate a region to be manually annotated please contact us at rat-annotation@sanger.ac.uk

Rat MHC

In Rat the MHC complex, termed RT1, has been annotated on chromosome 20 of the Rnor6.0 reference assembly. The Rnor6.0 genome assembly is a mixed sex strain made from pooled female animals of strain BN/SsNHsdMCW plus one male of a Spontaneously hypertensive rat strain (SHR, also known as SHR-Akr).

Comparative Analysis

Region Available species / haplotypes / strains Examples
MHC dog, chimpanzee, gorilla, human (ref. plus 7 haplotypes), mouse (ref. plus 2 NOD strains), pig (Duroc & Large White), rat (mixed sex strain), tasmanian devil, wallaby example

Havana Update

The Havana Update gene set presents updates to annotation outside of the regular release schedule.

About this species