I've performed an EMSA assay. I have run a biotinylated free probe and my samples with the protein. In all the lanes I observe shifts, also in the control lane.
I suspect that in the control lane there is the formation of a quadruplex that would have a weight roughly of 36000 Da. The alleged protein-dna complex has a weight of about 33000 Da. So is it possible that I can't discriminate the shift due to the formation of a quadruplex from the one due to the protein- dna complex?