About CROP-IT

Greetings!

CROP-IT is a tool developed to assist biologists in designing CRISPR/CAS9 sgRNAs, by predicting the off-target sites and ranking them according to the chances of occurrence. We also provide feature to find CRISPR/CAS9 binding sites, given a genomic interval and PAM sequence of interest. You can access both the features as follows:

  • Select "Predict off-target sites" and click "BEGIN":
    This leads to you the "Predict off-target sites" page, where you can input the target sgRNA sequence and get the predicted off-target sites. The results are mailed to the email-ID provided by the user.

  • Select "Identify CRISPR/CAS9 sites" and click "BEGIN":
    This leads to you the "Identify CRISPR/CAS9 sites" page, where you can input the genomic interval of interest (Max. size = 250bp) and the tool outputs a list of all possible sgRNAs for a given PAM sequence. User can find potential target sequences for both Single sgRNA (ranked) and Double Nickase systems. The results are mailed to the email-ID provided by the user.
  • Citation:

      If you use CROP-IT, kindly cite the following paper: "Cas9-chromatin binding information enables more accurate CRISPR off-target prediction" (Nucleic Acid Research, 2015) [Link]

      Overview of the tool: