The Mar. 2008 Caenorhabditis japonica draft assembly was produced by the Genome Sequencing Center at the Washington University in St. Louis (WUSTL) School of Medicine. The UCSC caeJap1 version corresponds to WUSTL version 3.0.2.
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. japonica genome. Note that the search results may include other organisms in addition to the current 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 | |
| | ||
| BC058916 | Displays region of human mRNA with GenBank accession number BC058916 | |
| FF131130 | Displays region of C. japonica EST with GenBank accession FF131130 | |
| | ||
| succinate-CoA | Lists succinate-CoA RefSeq Genes and mRNAs from organisms other than C. japonica | |
| zinc finger | Lists many zinc finger mRNAs | |
| kruppel zinc finger | Lists only kruppel-like zinc fingers | |
| | ||
| rand | Lists mRNAs deposited by scientist named Rand | |
| Jones,D. | Lists mRNAs deposited by co-author D. Jones | |
| Use this last format for author queries. Although GenBank requires the search format Jones D, internally it uses the format Jones,D.. | ||
This genome has been sequenced to a depth of 6.3X. The assembly is comprised of 35,273 contigs containing 129,347,181 nucleotides. These smaller contigs have been assembled into 4,657 supercontigs named Contig0 through Contig10115 that contain 151,722,573 nucleotides. The UCSC Genome Browser combines the supercontigs together into an artificial chromosome chrUn with 1,000 base gaps inserted between the supercontigs. This chrUn sequence contains 156,378,573 bases, with the artificial 1,000-base gaps covering 4,656,000 bases. For more information on this assembly, see the WUSTL assembly page.
Bulk downloads of the sequence and annotation data are available via the Genome Browser FTP server or the Downloads page. Refer to the data use policy for data use restrictions and citation information.
The C. japonica 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.