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During PAGE electrophoresis, why don't Oligo DNAs of exactly the same length migrate to the same position?
The composition of A, G, C, T differs, leading to different electrophoretic mobilities.The secondary structures of the DNA differ, leading to different electrophoretic mobilities.This phenomenon is more likely to occur with shorter Oligo DNAs; the differences between long-chain Oligo DNAs are smaller.
When analyzing synthetic Oligo DNA products using 3% Agarose gel electrophoresis, many bands are observed, Why?
Denaturing PAGE electrophoresis must be used for Oligo DNA. Oligo DNA is single-stranded and prone to forming complex secondary structures. Therefore, during Agarose gel electrophoresis, multiple bands often appear (and Agarose gel electrophoresis cannot be used for quantification).