Show enzymes with compatible ends
A third way of adding enzymes to the Side Panel and thereby displaying
them on the sequence is based on the overhang produced by
cutting with an enzyme. Right-click on a restriction site and choose to Show Enzymes
with Compatible Ends (
) to find enzymes producing a compatible overhang (figure 21.9).
Figure 21.9: Enzymes with compatible ends.
At the top you can choose whether the enzymes considered should have an exact match or not. We recommend trying Exact match first, and use All matches as an alternative if a satisfactory result cannot be achieved. Indeed, since a number of restriction enzymes have ambiguous cut patterns, there will be variations in the resulting overhangs. Choosing All matches, you cannot be 100% sure that the overhang will match, and you will need to inspect the sequence further afterwards.
Use the arrows between the two panels to select enzymes which will be displayed on the sequence and added to the Side Panel.
At the bottom of the dialog, the list of enzymes producing compatible overhangs is shown.
When you have added the relevant enzymes, click Finish, and the enzymes will be added to the Side Panel and their cut sites displayed on the sequence.
This functionality does not work for enzymes where the cut site is located outside the recognition site.