Welcome to SSC - Sequence Scan for CRISPR

Step 1: Input your DNA sequence (format: raw or fasta; sequence length < 10000bp):
Click here for an example of input sequence
Click here to reformat your own sequence

Step 2: Select the type of experiment:

CRISPR knockout CRISPR inhibition or activation

Step 3: Select the length of spacer:

19nt 20nt

Step 4: Click the button below to scan for sgRNA spacer (spacers with higher scores are predicted to be more efficient):

Step 5: Click the button below to save your result in tab-delimited text file:

Reference:
Han Xu, Tengfei Xiao, Chen-Hao Chen, Wei Li, Cliff Meyer, Di Wu, Le Cong, Feng Zhang, Jun S. Liu, Myles Brown, X. Shirley Liu
"Sequence determinants of improved CRISPR sgRNA design". Submitted.

Contact: hanxu@jimmy.harvard.edu; xsliu@jimmy.harvard.edu