I have a, maybe stupid, question.
When working with real time PCR you use a molecular beacon to detect how many pcr products have been produced yet, but I was wondering: when working with a molecular beacon like a scorpion loop, when this binds to the template, is this template then "blocked" by this beacon so that it can not be used by the polymerase enzyme?
When using a taqman probe there is no problem since the taq polymerase cuts off the beacon, but what with other beacons like a scorpion beacon?
Would this beacon interupt the pcr and thus reducing the overalproduct that can be made?
Or are those beacons some how removed during the annealing after the binded to the template?
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question on molecular beacon
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