The length of the priming RNA is limited to eight to 14 bases. Apparently, DNA polymerase III is responsible for displacing the primase.

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#Unit 13. Methods in Biology

 A gel mobility shift assay detects interaction between a protein and DNA by the reduction of the electrophoretic mobility of a small DNA that occurs on binding to a protein.

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#Unit 13. Methods in Biology

A gel mobility shift assay, is a method for detecting DNA–protein interaction relies on the fact that a small DNA has a much higher mobility in gel electrophoresis than the same DNA does when it is bound to a protein. 

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#Unit 13. Methods in Biology

Lane 3 depicts the behavior of the same DNA bound to two proteins. The mobility is reduced still further because of the greater mass of protein clinging to the DNA. This is 

called a supershift. 

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#Unit 13. Methods in Biology

You want to study the potential interaction between nucleosome-bound DNA and a specific histone deacetylase. You decide to perform an electrophoretic mobility shift assay (EMSA).

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#Unit 13. Methods in Biology

Footprinting is a method for detecting protein–DNA interactions that can tell where the target site lies on the DNA and even which bases are involved in protein binding.

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#Unit 13. Methods in Biology

Several methods are available, but three are very popular: DNase, dimethylsulfate (DMS), and hydroxyl radical footprinting.