Photo courtesy of Eric Haag, All Rights Reserved.
The Mar. 2006 Caenorhabditis remanei draft assembly was produced by the Washington University in St. Louis (WUSTL) School of Medicine Genome Sequencing Center. The UCSC caeRem2 version corresponds to WUSTL version 1.0.
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 C. remanei genome. See the User's Guide for more information.
|Request:||Genome Browser Response:|
|chrUn:1-1000000||Displays first million bases of chrUn|
|chrUn:1000000+2000||Displays a region of chrUn that spans 2000 bases, starting with position 1000000|
|EU183219||Displays region of mRNA with GenBank accession number EU183219|
|DR775696||Displays region of EST with GenBank accession DR775696|
|kin-1||Displays regions of kin-1 mRNAs|
|homeobox caudal||Lists mRNAs for caudal homeobox genes|
|zinc finger||Lists many zinc finger mRNAs|
|kruppel zinc finger||Lists only kruppel-like zinc fingers|
|nemeroff||Lists mRNAs deposited by scientist named Nemeroff|
|Hamilton,K.||Lists mRNAs deposited by co-author K. Hamilton|
|Use this last format for author queries. Although GenBank requires the search format Hamilton K, internally it uses the format Hamilton,K..|
The C. remanei genome was sequenced to a depth of 9X using whole-genome shotgun plasmid and fosmid libraries made from DNA extracted from a mixture of larvae and adult males and females. Coverage was based on an expected genome size of 100 Mb. The whole-genome shotgun plasmid and fosmid paired end reads were assembled using PCAP and submitted to GenBank under the accession number AAGD00000000.
The UCSC Genome Browser displays the 9,660 scaffolds as a single artificial chromosome, chrUn. The sequence contains 161,944,676 bases and 15,046,237 Ns in gaps. For more information on this assembly, see the WUSTL C. remanei project page.
Bulk downloads of the sequence and annotation data are available via the Genome Browser FTP server or the Downloads page. These data have specific conditions for use.
The C. remanei 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.