FAQ: How can I generate a restriction enzyme site map for my sequence?

NEBcutter®, a computer program for restriction enzyme site mapping is available on the NEB web site in the sidebar under "Favorite Tools". The program accepts sequences retrieved from a local file or GenBank. It also accepts an input sequence pasted into a designated field. When presented with a sequence, NEBcutter will find the largest open reading frames within the sequence and indicate those restriction enzymes that could be used to excise the gene. It also locates the positions of all restriction enzymes that cut only once within the sequence chosen. NEBcutter is also fully aware of the information on the methylation sensitivity of restriction enzymes and alerts a user to overlapping methylation by dam, dcm, etc.