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Designing 3 primer reaction genotyping PCR primers

genotyping insert transgene

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#1 assembler01



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Posted 23 August 2013 - 08:11 AM

I typically use NCBI PrimerBLAST (Primer3 based) or VectorNTI or other similar programs to design various primers. I'm doing some genotyping primers now. Is there a way to input both the transgenic mouse sequence and wild type sequence and design three primers at once? Maybe I'm just missing something obvious. I usually just run it twice to design each set but it seems like there should be some easy option to do it all at once (and check the binding/mispriming against both wt and tg sequence). Actually, adding even another sequence would be great because it will be a large insert with a big piece removed by Flp and the desired exon by Cre, so I need 2 sets actually.

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