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. 2021 Aug 17;49(16):9574–9593. doi: 10.1093/nar/gkab703

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© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 10. — Autoradiogram and summary of chemical probing analysis. (A) Structure probing using DEPC to probe accessibility of N-7 positions of Hoogsteen edges of A and G residues. Lanes: 1 and 10 are ‘OH⁻’: alkali hydrolysis step ladder of U2G/C12A hairpin, 2 is 'A > G'- Maxam-Gilbert sequencing reaction, 3 is non-reacted (‘NR’) U2G/C12A RNA, treated with aniline as control; NATIVE 4,5 and 6 are RNAs U2G/C12A, U2G/G9A/C12A, and U2G/A6C/C12A - samples treated with DEPC under native conditions (80mM NaCB buffer pH 6.94, 100mM KCl, 10 mM MgCl₂, 0.5 mM EDTA); SEMI-DENATURING 7, 8 and 9 are RNAs U2G/C12A, U2G/G9A/C12A and U2G/A6C/C12A -samples treated with DEPC under semi-denaturing condition (80mM NaCB buffer pH 6.94, 100 mM KCl, 0.5 mM EDTA). (B) Summary of DEPC sensitivity given by legend on the top of the 2D structures.