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Finding restriction sites

Mar Albà

Genome Biology 2000, 1:reports2048  doi:10.1186/gb-2000-1-2-reports2048

The electronic version of this article is the complete one and can be found online at:

Received:9 June 2000
Published:19 July 2000

© 2000 BioMed Central Ltd


Webcutter provides a free and easy-to-use interface for the analysis of restriction sites in any sequence. You can cut-and-paste your sequence or upload a sequence file. Lots of options are provided for selecting and visualizing restriction sites. In addition, it is possible to detect sites introduced by silent mutagenesis, to treat the sequence as circular, and to search for the sequence in GenBank using the accession number. There is a link to REBASE, the restriction enzyme database, and information on ordering restriction enzymes. The list of restriction enzymes is exhaustive and covers all those commonly used.


Navigation is straightforward, with input and options all on the same page.

Reporter's comments


The current version is the Webcutter 2.0, released in 1997.

Best feature

This site is very easy to use. Restriction-site analysis is one of the most common computational tasks that molecular biologists need to perform, and this website provides an excellent platform to search for sites easily and quickly.

Related websites

Pattern search will search your sequence for a specified restriction site or binding site.

Table of links

Assumptions made about all sites unless otherwise specified:
The site is free, in English and no registration is required. It is relatively quick to download, can be navigated by an 'intermediate' user, and no problems with connection were found. The site does not stipulate that any particular browser be used and no special software/plug-ins are required to view the site. There are relatively few gratuitous images and each page has its own URL, allowing it to be bookmarked.