Question: Designing Primers For Multiplex Pcr
gravatar for rob
4.5 years ago by
rob30 wrote:

I have a 2kb region of DNA, and I need to design five non-overlapping primer pairs to any location within this same stretch of DNA. I need to use all of these primers together in the same PCR reaction, so they must be multiplex compatible (e.g. not have any complementarity to each other). Does anyone know of any software that can do this automatically? Or of rules for filtering a whole load of Primer3 output primers to select the top five that might work in a multiplex pcr?

Thanks for the help!

primer pcr • 5.8k views
ADD COMMENTlink modified 12 months ago by Felix Francis430 • written 4.5 years ago by rob30
gravatar for Dan D
4.5 years ago by
Dan D6.4k
Dan D6.4k wrote:

I think PCRTiler can do what you need.

ADD COMMENTlink written 4.5 years ago by Dan D6.4k

Yes, that looks like it will do exactly what I want - thanks!

ADD REPLYlink written 4.4 years ago by rob30
gravatar for Felix Francis
12 months ago by
Felix Francis430
United States/University of Delaware
Felix Francis430 wrote:

ThermoAlign is a primer design tool for tiled amplicon sequencing (includes multiplexing) using highly specific primers:


ADD COMMENTlink written 12 months ago by Felix Francis430
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