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Nucleic Acids Res. 2016 Jul 8;44(W1):W267-71. doi: 10.1093/nar/gkw407. Epub 2016 May 10.

Breaking-Cas-interactive design of guide RNAs for CRISPR-Cas experiments for ENSEMBL genomes.

Author information

1
National Centre for Biotechnology (CNB-CSIC), c/ Darwin 3, 28049 Madrid, Spain.
2
National Centre for Biotechnology (CNB-CSIC), c/ Darwin 3, 28049 Madrid, Spain CIBERER, ISCIII, Madrid, Spain.
3
National Centre for Biotechnology (CNB-CSIC), c/ Darwin 3, 28049 Madrid, Spain pazos@cnb.csic.es.

Abstract

The CRISPR/Cas technology is enabling targeted genome editing in multiple organisms with unprecedented accuracy and specificity by using RNA-guided nucleases. A critical point when planning a CRISPR/Cas experiment is the design of the guide RNA (gRNA), which directs the nuclease and associated machinery to the desired genomic location. This gRNA has to fulfil the requirements of the nuclease and lack homology with other genome sites that could lead to off-target effects. Here we introduce the Breaking-Cas system for the design of gRNAs for CRISPR/Cas experiments, including those based in the Cas9 nuclease as well as others recently introduced. The server has unique features not available in other tools, including the possibility of using all eukaryotic genomes available in ENSEMBL (currently around 700), placing variable PAM sequences at 5' or 3' and setting the guide RNA length and the scores per nucleotides. It can be freely accessed at: http://bioinfogp.cnb.csic.es/tools/breakingcas, and the code is available upon request.

PMID:
27166368
PMCID:
PMC4987939
DOI:
10.1093/nar/gkw407
[Indexed for MEDLINE]
Free PMC Article

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