(Photo courtesy of The Jackson Laboratory)
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Mus musculus (Photo courtesy of The Jackson Laboratory) |
The Feb. 2003 mouse (Mus musculus) genome assembly is based on NCBI Build 30.
A genome position can be specified by the accession number of a sequenced genomic clone, an mRNA or EST or STS marker, or a cytological band, a chromosomal coordinate range, or keywords from the GenBank description of an mRNA. The following list provides examples of various types of position queries for the mouse genome. See the User's Guide for more information.
| Request: |
Genome Browser Response: |
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| chr16 | Displays all of chromosome 16 | |
| chr16:1-5000000 | Displays first 5 million bases of chr 16 | |
| D16Mit120 | Displays region around STS marker DMit16120 from the MGI consensus genetic map. Includes 100,000 bases on each side as well. | |
| D16Mit203;D16Mit70 | Displays region between STS markers D16Mit203 and D16Mit70. Includes 100,000 bases on each side as well. | |
| AW045217 | Displays region of EST with GenBank accession AW045217 | |
| Ncam2 | Displays region of genome with official MGI mouse genetic nomenclature Ncam2 | |
| pseudogene mRNA | Lists transcribed pseudogenes but not cDNAs | |
| zinc finger | Lists many zinc finger mRNAs | |
| kruppel zinc finger | Lists only kruppel-like zinc fingers | |
| huntington | Lists candidate genes associated with Huntington's disease | |
| Xu,C.S. | Lists mRNAs deposited by co-author C.S. Xu | |
| Use this last format for author queries. Although GenBank requires the search format Xu CS, internally it uses the format Xu,C.S.. | ||
This assembly is a composite version constructed using with the MGSCv3 Whole Genome Shotgun assembly and high throughput genomic sequence (HTGS). The UCSC mm3 assembly contains only the reference strain C57BL/6J.
Build 30 includes 705 megabases of finished sequence, compared with 96 megabases of finished sequence in the previous assembly. For more information about this version, see the NCBI assembly notes and Build 30 statistics.
The mm3 sequence and annotation data may be downloaded from the UCSC Genome Browser FTP server or Downloads page.
Many people in the Mouse Genome Sequencing Consortium contributed to this assembly. The Sanger Institute in particular contributed a large amount of finished sequence. Richa Agarwala, Deanna Church, and coworkers at NCBI layered the finished clones on top of the Arachne whole genome shotgun assembly. Arian Smit constructed a new RepeatMasker library. The mm3 tracks were generated by UCSC and collaborators worldwide. See the Credits page for a detailed list of the organizations and individuals who contributed to the success of this release.