Non-Coding RNA (Sep 2022)

A Tool to Design Bridging Oligos Used to Detect Pseudouridylation Sites on RNA after CMC Treatment

  • Baptiste Bogard,
  • Gilles Tellier,
  • Claire Francastel,
  • Florent Hubé

DOI
https://doi.org/10.3390/ncrna8050063
Journal volume & issue
Vol. 8, no. 5
p. 63

Abstract

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Pseudouridylation is one of the most abundant modifications found in RNAs. To identify the Pseudouridylation sites (Psi) in RNAs, several techniques have been developed, but the most common and robust is the CMC (N-cyclohexyl-N′-(2-morpholinoethyl)carbodiimide) treatment, which consists in the addition of an adduct on Psi that inhibits the reverse transcription. Here, we describe a turnkey method and a tool to design the bridging oligo (DBO), which is somewhat difficult to design. Finally, we propose a trouble-shooting guide to help users.

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