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Sec. structure in primers

Secondary structure Primers qPCR

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#1 Mad Researcher

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Posted 08 June 2015 - 09:52 AM



I seem to have very weak to weak sec. structure in some of the primers i designed. Does/Will it affect my qPCR reaction in any way? Secondly, is there any way of getting rid of the sec. structures without re-designing the primers?


Thanks :)


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#2 bob1


    Thelymitra pulchella

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Posted 08 June 2015 - 08:05 PM

Maybe is the best answer you will get with regard to secondary structure affecting your PCR.


You can use DMSO or betaine in conventional PCR to inhibit secondary structure fomation, but I don't know if this addition will affect qPCR.

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