Restriction Analyzer

COMMONLY USED ENZYMES

This is a manual selection of the most frequently used enzymes, typically those whose recognition sites are present in the multiple cloning sites region of commonly used plasmid vectors plus some other enzymes traditionally used for restriction analysis and molecular cloning.

CRITERIA-BASED SELECTION

The Restriction Analyzer application contains a list of all commercially available restriction enzymes. From these 549 enzymes, you can select a subset based on the length of recognition sites or a presence of ambiguous positions in them.

USER-PROVIDED LIST

If a specific set of restriction enzymes is to be used in the analyses, one can either enter the list (paste it in the text area in the "Enter the restriction enzyme list" dialog) or load a list of enzymes provided as a plain text file with one restriction enzyme name per line, for example:
BamHI
EcoRI
HindIII
etc.

DNA SOURCE GENOTYPE

Plasmid DNA isolated from E. coli is methylated on Dam and Dcm sites unless a dam^-/dcm^- strain has been used. DNA obtained with PCR amplification is rid of all methylation so "dam^- " and "dcm^- " should be checked in such cases.