primer design for DNA through mRNA sequence

[ss_kalve]

Hi,
Can anybody tell that through availability of mRNA sequence can we design primer for genomic DNA. which kind of software we can use?

[Cat]

Yes, any. ❓

[biznatch]

Yes you can use the mRNA sequence to design gDNA primers. If the primers happen to span an intron (one on each side of the intron) the product from gDNA will be larger then from mRNA and if the intron is very big you might not be able to span its length by PCR. I use Primer3 (http://fokker.wi.mit.edu/cgi-bin/primer … r3_www.cgi) for designing primers.

[Author]

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