CRISPRFinder -- A web tool to identify clustered regularly interspaced short palindromic repeats
What you can do:
Extract with precision and further analyze CRISPRs from genomic sequences.
Highlights:
- Clustered regularly interspaced short palindromic repeats (CRISPRs) constitute a particular family of tandem repeats found in a wide range of prokaryotic genomes (half of eubacteria and almost all archaea).
- They consist of a succession of highly conserved regions (DR) varying in size from 23 to 47 bp, separated by similarly sized unique sequences (spacer) of usually viral origin.
- A CRISPR cluster is flanked on one side by an AT-rich sequence called the leader and assumed to be a transcriptional promoter. Recent studies suggest that this structure represents a putative RNA-interference-based immune system.
- CRISPRFinder is a web service offering tools to (i) detect CRISPRs including the shortest ones (one or two motifs); (ii) define DRs and extract spacers; (iii) get the flanking sequences to determine the leader; (iv) blast spacers against Genbank database and (v) check if the DR is found elsewhere in prokaryotic sequenced genomes.
Keywords:
- Algorithms
- Chromosome Mapping/*methods
- Computational Biology/*methods
- DNA, Intergenic/*genetics
- Database Management Systems
- Databases, Genetic
- Genome, Archaeal/*genetics
- Genome, Bacterial/*genetics
- Repetitive Sequences, Nucleic Acid/*genetics
- User-Computer Interface
Literature & Tutorials:
This record last updated: 10-02-2007