Gel electrophoresis
CLC Main 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 using the Restriction Site Analysis tool, available under the Tools menu, 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)
- Ordinary sequence view
- Graphical view of sequence lists
- Cloning editor
- 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 23.52).
Figure 23.52: A sequence list shown as a gel.
Subsections