Simulate a Restriction Digest

To create a gel simulation, click menu Tools → Simulate Agarose Gel....

Alternatively, to start the gel with selected inputs, select the input files in the Project side panel and click Simulate Agarose gel....

Use the dialog to add sequences to the gel simulation.

Enter a name for the new gel, then click OK.

Initially, all lanes are shown as uncut DNA. Circular sequences will show the predicted supercoiled DNA migration distance, for more details see How does SnapGene estimate supercoiled DNA migration rates in an agarose gel simulation?.

1. Select a lane header or fragment , or select the lane in the list.
2. If required, set the Lane to "cut with".
3. Type enzymes names into the fields provided, or use the dropdown menus to specify up to 4 restrictions enzymes.
4. Predicted migration of all restriction fragments will be shown in the gel.
5. A list of predicted fragments and their sizes will be shown in the list.
6. Hover over a fragment in the list, or a band in the gel, to see a tooltip detailing the fragment size,  cut sites and cut site coordinates.

To simulate the digestion of multiple sequences with the same enzyme(s), set the sites for a selected lane, then click the Apply Enzymes to All Lanes button.

To simulate a restriction digest, open a DNA file, select one or more enzyme sites, then click Tools → Simulate Agarose Gel.  

The resulting gel will show digestion fragments generated with the selected enzymes.