Fig. 6: SHARC-exo, PARIS, and eCLIP reveal compact folding of the 7SK RNA. | Nature Communications

Fig. 6: SHARC-exo, PARIS, and eCLIP reveal compact folding of the 7SK RNA.

From: Chemical reversible crosslinking enables measurement of RNA 3D distances and alternative conformations in cells

Fig. 6

a Secondary structure model of the human 7SK RNA (Marz 2009, helices M1-M8 and single-stranded regions SS1–4) and 15 SHARC-exo derived spatial constraints (thick black lines). HEXIM and LARP7 binding sites are labeled. b SHARC-exo derived tertiary proximities between M3 and M7. c Marz 2009 secondary structure model of 7SK in arc format. d eCLIP and PARIS captures long-range contacts among M1, M3, and M7. Each track shows the coverage of one DG connecting two regions. e PARIS two-gap (3-segment) reads that support long-range contacts in the compact 7SK RNA. The 5 vertical dash lines align the major peaks interacting with each other. f Comparison of long-range contacts derived from SHARC-exo, PARIS 2-segment, eCLIP 2-segment, and PARIS 3-segment reads. g Model of spatial proximity between M3 and M7 as determined by all 3 methods.

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