Agarose Gel

The Agarose Gel tool allows you to quickly and easily create simulated agarose gels of your sequences cut with any combination of restriction enzymes. You can use this feature to identify site(s) that will generate unique patterns to differentiate successful clones, or to determine if fragments are sufficiently different in size to separate under particular gel conditions.

Agarose Gels appear in separate document-based windows (meaning they can be saved and re-opened) with a realistic appearance.

You can select different sets of markers, or define your own. As you mouse-over different bands the status bar updates with details of the fragment(s) under the pointer. The percentage of agarose in the gel and the relative run time can be adjusted as well as the realism of the display. You can optionally view the sizes of the fragments directly on the gel.

To create an Agarose Gel.

• Choose File | New | Agarose Gel menu item.
• Add lanes to the gel by simply dragging one or more restriction enzymes from the Map tab of a Nucleic Acid Sequence Window, or from the Restriction Enzyme Analysis Results Map tab, and onto the gel.
• For double digests make sure you use SHIFT when selecting the second enzyme site.
• To change markers click the ADD MARKER button.

Related Topics.

How to use the Agarose Gel tool to check the orientation of a ligated fragment.

How do I? - videos

Restriction enzyme

Automatic Restriction Enzyme Analysis

Searching for restriction sites

Editing enzyme files

Click Cloning

Cloning Clipboard