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How to check if primers will work?

About microscopic forms of life, including Bacteria, Archea, protozoans, algae and fungi. Topics relating to viruses, viroids and prions also belong here.

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How to check if primers will work?

Postby MissMicropipette » Thu Nov 03, 2011 10:07 pm

Hello

I have a DNA extraction product that I want to amplify for archaeal 16S DNA using PCR.

I have the sequence of the archaea I am interested in and a few universal PCR primers.

How can I check (in silico) whether these primers will actually work on amplifying the correct sequences?

I am a total noob so please keep jargon to a low!

thank you!
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Postby JackBean » Fri Nov 04, 2011 10:10 am

if are they complementary to your sequence, the best way ho to find out is to try it quae manu
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
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Postby aptitude » Sun Nov 06, 2011 3:26 am

On Ubuntu Linux, you can use PerlPrimer.
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Postby JackBean » Sun Nov 06, 2011 9:40 am

you can use Perl on any PC
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
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