Dear all,
I am amplifying a target sequence of 65 bases, which is a cDNA sequence now. For some reasons, my PCR primer can only bind to the target sequence with 11 bases in the first PCR cycle. Can anyone please tell me how I should set the annealing temperature for the first cycle? My enzyme is Hot start Taq DNA polymerase from NEB(M0495S). The optimal amplification temperature is: 95C denaturation, 45-68C annealing, 68C extension.
Thanks
Binbin Cui