Can Geneious Prime find nicking enzyme (endonuclease) sites?

The Geneious Prime "Find restriction sites" tool can be used to find and annotate sites for nicking endonucleases (https://en.wikipedia.org/wiki/Nicking_enzyme).

Import the attached .geneious file to create a list of commercially available nicking enzymes into Geneious.

You can set the list as the Candidate Enzymes: list in the Geneious Restriction Analysis Tab.  Use the Advanced button to set the enzyme types you wish to detect.

 

Screen_Shot_2021-10-23_at_09.01.17.png

 

Many thanks to REBASE for providing the list.  Please cite the Restriction Enzyme Database if you use this list: See http://rebase.neb.com.

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Comments

  • Avatar
    Dirk Becker

    most entries from the neb file (withrefm.just_nicks) are not imported by Geneious. Apparently problems in recognizing the '?' in the cut/nick position identifier....

  • Avatar
    Moreland Gibbs

    Dirk, thanks for raising this issue. I was not aware Geneious was excluding all sites with a ?
    I have revised the list to limit it to just the 15 commercially available nicking enzymes (according to http://rebase.neb.com/rebase/azlist.nick.cy.html), and removed the nick site position information for each enzyme. The revised list (attached) will allow identification and annotation of all 15 enzyme recognition sites, but the nick position will not be shown.

    Edited by Moreland Gibbs