Primers and multimapping ?
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29 days ago
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Hi,

I am trying design primer using primer3.

Maybe a stupid question but I was wondering if the forward primer map in multiple location on the genome but the reverse map in one uniq location, will I still got a pcr product ?

primer3 • 184 views
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unrelated to bioninformatics. You'll get any PCR product if any of the multiple location of the foward is close to the revere on the same chromosome on the complementary strand.

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If you want to design primers properly in this regard use PrimerBLAST which extends Primer3 by BLASTing hits against a genome to avoid exactly what you describe.

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