Ensembl Mouse

Karyotype

Click on a chromosome for a closer view

About the Mouse genome

Assembly

Ensembl Mouse is based on the NCBI m36 mouse assembly (April 2006, strain C57BL/6J).

The Mouse Genome Sequencing Consortium is a joint project between The Whitehead Institute/MIT Center for Genome Research, The Washington University Genome Sequencing Center, The Wellcome Trust Sanger Institute and EMBL - EBI to provide the Mouse genome sequence to the world. We work closely with other Mouse groups to provide an integrated resource (see below for credits).

Annotation

This site provides a full Ensembl gene build for the above assembly. There are some major changes in the assembly; for more details see the NCBI build statistics .

Modifications to the systems have further improved the gene set. 96% of the known genes and 60% of the novel genes from build m35 retain the same Ensembl gene ids in this release.

What's New in Ensembl 45

Mus musculus News

• CAGE data
  New human CAGE ditags and updated mouse CAGE ditags have been added to Ensembl 45.
• Overlapping assembly entries
  Some overlapping entries in the mappings between NCBI35 and NCBI36 (on human) and NCBIm35 and NCBIm36 (on mouse) have been removed from Ensembl 45.

General News

• Removal of viral genes
  Viral genes have been removed from all species with Ensembl genebuilds (i.e.
  Read more...
• Schema changes
  

  Only minor changes to the database schema this release:

  • An index has been added to marker.display_marker_synonym_id
  • The "NOT NULL" constraint on external_db.db_release has been removed
• 
  

More news...

Links

• Mouse sequencing project credits
• Additional mouse resources
• The mouse physical map has been published in Nature

Statistics

* Total number of base pairs = sum of lengths of DNA table

** Reference assembly (Golden path) length = sum of non-redundant top level seq regions