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Primer Design for RNA probes


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#1 hogthehedge

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Posted 06 May 2014 - 05:47 PM

Hi! Can anyone help me design a primer for a PCR product that will include a specific 5'UTR region? I am trying to make a probe for an in situ hybridisation experiment.

Thanks!



#2 hogthehedge

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Posted 06 May 2014 - 05:48 PM

(I've got the sequence and am trying PRIMER BLAST, but I'm not sure how to make it include the region I want. How do I get the Forward From: to and Reverse From: To: to work?)



#3 Trof

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Posted 07 May 2014 - 03:43 AM

Try the original Primer3, you can specify target regions of excluded regions by marking the sequences with < > [ ] characters. 

 

PrimerBLAST uses the same algorithm, but doesn't support this. You can check selected primers in PrimerBLAST later.


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