I want to perform dna polymerase stop assay for my g quadruplex forming oligo.Does anyone has a good protocol for that.
I have a protocol but I am not abe to understand following parts-
{Prepare reaction mixtures (20 μL) containing water, DNA
polymerase buffer (1×), DNA template plus primer (5–10 nM),
200 μM dNTP, and Taq DNA polymerase (1 U), and incubate
at 37 °C for 30 min in a water bath.}
In this case,before this I have the partially labelled double stranded dna. but what primers I have to order for this step.
I am not able to understand the final figure or diagram of poymerase stop assay (full length/pause site and specially dideoxysequencing reactions with the same template as a size marker for the precise arrest sites,)