Photo courtesy of Genny Anderson.
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Aplysia californica Photo courtesy of Genny Anderson. |
The Sept. 2008 Aplysia californica draft assembly (Broad Institute version Aplcal2.0) was produced by the Broad Institute, Cambridge, MA, USA. For more information about this assembly, see Aplcal2.0 in the NCBI Assembly database.
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 sea hare genome. See the User's Guide for more information.
| Request: | Genome Browser Response: | |
|---|---|---|
| scaffold_0 | Displays all of scaffold 0 | |
| scaffold_0:1-1000000 | Displays first million bases of scaffold 0 | |
| scaffold_0:1000000+2000 | Displays a region of scaffold 0 that spans 2000 bases, starting with position 1000000 | |
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| AF372526 | Displays region of mRNA with GenBank accession number AF372526 | |
| EB241582 | Displays region of EST with GenBank accession EB241582 on scaffold 0 | |
| | ||
| zinc finger | Lists many zinc finger mRNAs | |
| kruppel zinc finger | Lists only kruppel-like zinc fingers | |
| zhang | Lists mRNAs deposited by scientist named Zhang | |
| Taguchi,T. | Lists mRNAs deposited by co-author T. Taguchi | |
| Use this last format for author queries. Although GenBank requires the search format Taguchi T, internally it uses the format Taguchi,T.. | ||
The sea hare whole genome shotgun assembly was produced by the Broad Institute using the Arachne assembler. The genome has been sequenced to 9.86x coverage. Approximately 74% of the sequence has been anchored to 8766 supercontigs ranging in size from 1.7 Mb down to 5 Kb. 13.9 Mb reads created 9.5 Gb of base calls, 7.0 Gb of which were incorporated into assembly supercontigs resulting in a total genome assembly size of approximately 712 Mb. The mitochondrial sequence is also available as the virtual chromosome "chrM". For more information on the assembly, see the Broad Institute Aplysia Genome 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 sea hare browser annotation tracks were generated by UCSC and its collaborators. See the Credits page for a detailed list of the organizations and individuals who contributed to this release.