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. Author manuscript; available in PMC: 2022 Jun 29.
Published in final edited form as: Biochemistry. 2021 Jun 14;60(25):1971–1982. doi: 10.1021/acs.biochem.1c00270

Figure 1: SHAPE-JuMP overview.

Figure 1:

RNA is treated with a bivalent SHAPE crosslinker (red), which covalently links proximal nucleotides. Reverse transcription using an engineered jumping, or crosslink-traversing, polymerase records the crosslinked site as a deletion in the cDNA (blue). The cDNA is sequenced and aligned to the reference RNA sequence to identify deletion sites and, thereby, crosslinked nucleotides.