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PCR amplifying 50 bp DNA fragment - (Aug/03/2005 )

Dear all!
I am facing problems in amplifying a 50 bp single strand DNA.
After running the PCR reaction, I run a 2% agarose gel using Orange G or Syber Gold. The problems are: 1- I am not sure if what I am seeing is my fragment or primer-dimer because both are the last lane in the gel.
I thought in using acrilamide gel. Thanks in advance! Angela


PCR a nagative control without template and then run the product along with your real PCR. Then you will see the size difference of your PCR product and the primer-dimer.


non denaturing 15%acrylamide gels colored by Ethidium bromide will do the job.
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