CRISPR RGEN Tools

Cas-Designer

A bulge-allowed quick guide-RNA designer for CRISPR/Cas derived RGENs.

Cas-Designer provides all possible RGEN targets in the given input sequence (e.g. exon), with the useful information including potential off-target numbers within 2nt mismatches and optional 3nt bulge via Cas-OFFinder, and out-of-frame scores via Microhomology-predictor. If you want to search with more mismatch numbers or bigger bulge size, then you can download and use a standalone edition of Cas-Designer.

Citation info:

For Microhomology-based target selection:

Bae S. et al. Microhomology-based choice of Cas9 nuclease target sites. Nature Methods 11, 705-706 (2014).

Submit a new job, or download a standalone edition of Cas-Designer here.

Job title (Optional):

E-mail (Optional):

* The result will be notified by e-mail (searching job is working in sequence for many input data, therefore it would be convenient to receive the results by e-mail).

Target Sequence

Insert any sequence(s) where you want to search for RGEN targets (raw sequence or FASTA format, maximum 1000 chars):

Or, upload a FASTA-formatted file containing target sequence(s) (maximum 1 KiB):

crRNA length
(length of target without PAM)

(Optional) Target searching range (e.g. Exon)[?]:

Usage:
[start_position1]-[end_position1];[start_position2]-[end_position2];...

Example:
10-30;34-39;48-60

Submit