Rattus norvegicus (NHGRI Press Photos)

The January 2003 rat (Rattus norvegicus) genome assembly corresponds to the Version 2.1 Jan. 2003 update produced by the Atlas group at Baylor Human Genome Sequencing Center (HGSC) as part of the Rat Genome Sequencing Consortium.

### Sample position queries

A genome position can be specified by the accession number of a sequenced genomic clone, an mRNA or EST or STS marker, a chromosomal coordinate range, or keywords from the GenBank description of an mRNA. The following list shows examples of valid position queries for the rat genome. See the User's Guide for more information.

Request: | Genome Browser Response:
chr16 |  | Displays all of chromosome 16
chr16:1-5000000 |  | Displays first 5 million bases of chr 16
RNOR03233282;RNOR03233294 |  | Displays region between Assembly IDs RNOR03233282 and RNOR03233294
AI501130 |  | Displays region of EST with GenBank accession AI501130
AF199335 |  | Displays region of mRNA with GenBank accession AF199335
apoe |  | Displays region of genome with gene identifier apoE
NM_145881 |  | Displays region of genome with RefSeq identifier NM_145881
25728 |  | Displays region of genome with Entrez Gene identifier 25728
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
Jones,R. |  | Lists mRNAs deposited by co-author R. Jones
Use this last format for author queries. Although GenBank requires the search format Jones R, internally it uses the format Jones,R..

### Assembly details

The rn2 update corrects duplications that were assembly artifacts in the previous version and improves the linking of bactigs to create larger "ultrabactigs". Compared with the previous rat assembly, sequence mapped to specific chromosomal coordinates has been reduced by about 1.6 percent. Loosely mapped and unmapped sequence has been reduced by 17 percent.

Sequence and annotation downloads are available from the Genome Browser FTP server or Downloads page. These data are made available with specific conditions for use.

Thanks to the Atlas group at Baylor HGSC and the Rat Genome Sequencing Consortium for providing the sequence data and assembly for this release. The annotation tracks displayed in the Genome Browser 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.