"Twilight" - Equus caballus
Photo courtesy of NHGRI (press photos)

The Jan. 2007 Equus caballus draft assembly EquCab1 (UCSC version equCab1) was produced by The Broad Institute.

Sample position queries

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

Request:   Genome Browser Response:
chr13   Displays all of chromosome 13
chr13:1-1000000   Displays first million bases of chromosome 13
chr13:1000000+20000 Displays a region of chr 13 that spans 20,000 bases, starting with position 1,000,000
AF506972   Displays region of mRNA with GenBank accession number AF506972
BM734875   Displays region of EST with GenBank accession BM734875 on chr chr11
pseudogene mRNA   Lists transcribed pseudogenes, but not cDNAs
zinc finger   Lists many zinc finger mRNAs
kruppel zinc finger   Lists only kruppel-like zinc fingers
smith   Lists mRNAs deposited by scientist named Smith
Collins,M.E.   Lists mRNAs deposited by co-author M.E. Collins
Use this last format for author queries. Although GenBank requires the search format Collins ME, internally it uses the format Collins,M.E..

Assembly details

The genome has been sequenced to 6.8X coverage. Approximately 84% of the sequence has been anchored to chromosomes, which include autosomes 1-31 and the sex chromosome X. Unanchored contigs that could not be localized to a chromosome have been concatenated into the virtual chromosome "chrUn" separated by gaps of 1,000 bp. The mitochondrial sequence is also available in the Genome Browser as the virtual chromosome "chrM". For more details about the assembly, see the Broad Institute Horse Genome Project page.

Bulk downloads of the sequence and annotation data are available via the Genome Browser FTP server or Downloads page. These data have specific conditions for use. The Horse browser annotation tracks were generated by UCSC and collaborators worldwide. See the Credits page for a detailed list of the organizations and individuals who contributed to this release.

GenBank Pipeline Details

For the purposes of the GenBank alignment pipeline, this assembly is considered to be: well-ordered.