Unipro UGENE User Manual
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The Primer3 plugin is a port of the Primer3 tool, v. 2.6.1. It is intended to pick primers from a DNA sequence.

To use the Primer3, open a DNA sequence and select the Analyze ‣ Primer3 context menu item. The dialog will appear:

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All available parameters are the same as in the original Primer3. Move the mouse cursor to the parameter (or its name) to see a detailed description of this parameter. 

However there is one additional feature available which is not originally a part of Primer3 tool. It allows user design primers for RT-PCR experiments by choosing which exons/introns to span with the primer product. This feature is described in detailed below. When you select the parameters you can save and load settings with a help of the corresponding buttons in the right corner of the dialog.

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