Gel electrophoresis
CLC Genomics Workbench enables the user to simulate the separation of nucleotide sequences on a gel. This feature is useful when designing an experiment which will allow the differentiation of a successful and an unsuccessful cloning experiment on the basis of a restriction map.
There are several ways to simulate gel separation of nucleotide sequences:
- When performing the Restriction Site Analysis from the Toolbox, you can choose to create a restriction map which can be shown as a gel (see Restriction Site Analysis).
- From all the graphical views of sequences, you can right-click the name of the sequence and choose Digest and Create Restriction Map (
). The sequence
will be digested with the enzymes that are selected in the Side Panel. The views
where this option is available are listed below:
- Circular view (see Circular view view).
- Ordinary sequence view (see View sequence).
- Graphical view of sequence lists (see Sequence lists).
- Cloning editor (see Cloning editor).
- Primer designer (see Primer designer).
- Separate sequences on gel: To separate sequences without
restriction enzyme digestion, first create a sequence list of the
sequences in question, then click the Gel
button () at the bottom of the view of the sequence list (figure 21.47).
Subsections