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Background
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The genome of Ixodes scapularis Wikel strain has been sequenced to approximately 6x coverage in a joint effort by the Broad Institute and the J. Craig Venter Institute (JCVI) and funded by the National Institute of Allergy and Infectious Diseases, National Institutes of Health. Assembly was performed at JCVI and consists of 369,492 scaffolds built from 570,637 contigs with an estimated 3.8x coverage of the assembly. The first public assembly is deposited as JCVI_ISG_i3_1.0 and has the VectorBase designation IscaW1. Additional information about the Ixodes scapularis sequencing project and assembly can be found at JCVI.
The WGS project has been deposited at GenBank under the project accession ABJB010000000 (consisting of contig accessions ABJB010000001-ABJB011141594 and supercontig accessions DS611849-DS981340). Files can also be downloaded from VectorBase with the assembly contigs and supercontigs in FASTA format and with the assembly described in agp format. The supercontigs, as well as the raw traces, are also available for BLAST searches.
The annotation for this assembly was produced in a joint effort between JCVI and VectorBase with support from The Broad Institute of Harvard/MIT. A total of 18,385 scaffolds were annotated, containing 20,486 protein coding genes, and 4,439 non-coding RNA genes. Computational annotation methods were optimized with respect to training data sets resulting in a high confidence set of predicted gene models making extensive use of protein and/or EST supporting evidence. Long-term curation of the sequence and subsequent annotation updates will be the responsibility of VectorBase.
None of the supercontigs have been assigned to a chromosome, so the assembly is only viewable as individual supercontigs. To browse the annotation, enter either a gene or a supercontig identifier and, optionally, a pair of base pair coordinates in the Entry Points section below. Alternatively, use VectorBase BLAST to search against the Ixodes genome and view the results directly in the VectorBase Genome Browser.
Please note that many gene models span, or are adjacent to, sequencing gaps and may be missing exons.
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Genome Statistics
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Organism strain
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Wikel
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Current Assembly
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Current Genebuild
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Ixodes scapularis @ VectorBase.org
Content Coordinator: Catherine Hill
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