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Secondary RNA structures play an important role in transposition, in particular, in RNA recognition by transposon proteins. Previously, we found a conserved structure at the 3′-end of human transposons and proposed a hypothesis about the role of this structure in transposition. Although there is no similarity at the sequence level, the conserved position of this structure points to the fact that structural...
In this study, we performed a simulation of stretching dynamics in double-stranded DNA fragments in a high-gradient liquid flow in the neighborhood of collapsing cavitation bubbles. We used calculated profiles of elastic tension along the polymer fragment model to determine the rates of mechanochemical cleavage at different positions in DNA restriction fragments. The obtained cleavage rate curves...
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