The Sanger Institute is using a two-pronged approach to sequencing the mouse genome:

• whole genome shotgun sequencing as part of the Mouse Sequencing Consortium project

• clone based sequencing of whole chromosomes or region specific mapping on a collaborative basis

To view the current assembly status diagrammatically for each chromosome please see below

Mouse Sequencing Consortium

The Sanger Institute is a member of the Mouse Genome Sequencing Consortium (MGSC), a public-private partnership of insitutes involved in sequencing and genomics. Modeled after the SNP consortium the MGSC aims to accelerate, facilitate and coordinate global mouse genomic sequencing efforts. Funding for the MGSC is provided by the National Institutes of Health, the Wellcome Trust, GlaxoSmithKline, the Merck Genome Research Institute and Affymetrix Inc. Our sequencing partners are the Whitehead Institute for Biomedical Research and Washington University School of Medicine.

The MGSC has met its aim to obtain an initial overall coverage of 5x of the genome of mouse strain C57BL/6J using the shotgun sequencing approach. Raw sequence data is publically available, free of charge, in the form of traces at the Ensembl Trace Server (http://trace.ensembl.org/).

Data Availability

Sequence and annotation is accessible from various sources. In addition to the Trace Server mentioned earlier, finished and unfinished sequence and submitted nucleotide database files can be found on, and downloaded from, our ftp site: ftp://ftp.sanger.ac.uk/pub/sequences/mouse. Please visit mouse Ensembl to view genes and features in both internal and external mapping and sequencing projects.

MICER resources - The aim of this resource is to provide vector sequences and information on using MICER vectors for generating knockout mice, and for chromosome engineering.

23rd Oct 2007

Mouse Genome Assembly NCBI m37

Ensembl Mouse is based on the NCBI m37 mouse assembly (April 2007, strain C57BL/6J). For release 47 the gene annotation ...

Clone sequencing

Our parallel strategy for producing mouse genomic sequence relies upon clone based maps that have been generated by collaborators or constructed of entire mouse chromosomes at the Sanger Institute or Baylor College of Medicine.

Collaborative projects with the MRC UK Mouse Genome Centre and Mammalian Genetics Unit at the Harwell Laboratory and the MRC Human Genetics Unit in Edinburgh are funded by the UK Medical Research Council (MRC) as part of the MRC mouse sequencing initiative. Sequencing of these regions is being carried out at the Sanger Institute and the RFCGC. Whole chromosome projects, 2 and 4, and additional collaborative regions listed below are funded by the Wellcome Trust. The whole X chromsome project is jointly funded by the Wellcome Trust and the UK MRC

The aim of the Sanger Institute mouse sequencing program is to contribute to the generation of 5X whole genome shotgun sequence (now complete) and in excess of 20% of finished mouse genome sequence. Funding to attain this goal is provided by the Wellcome Trust and Medical Research Council as well as other contributors to the MGSC.