Figure S5

Abstract

In vitro transcribed STMV RNA runs as a single band on a native gel. STMV RNA is run on a 1% agarose gel. No sample was loaded in lanes 2 or 4. Lanes 1 and 3 contain STMV RNA in SHAPE probing buffer without Mg2+ (50 mM HEPES pH 8.0, 200 mM sodium acetate pH 8.0) and lane 5 contains STMV RNA in 100 mM Tris-HCl pH 8.0. All samples were heated to 90°C for 2 min. Samples in lanes 1 and 5 were snap-cooled by chilling on ice, while the one in lane 3 was allowed to slow-cool to room temperature. The samples were then loaded on the gel using 6X native gel loading dye (New England Biolabs) and stained with SYBR Gold nucleic acid gel stain (Invitrogen). Lanes 1, 3 and 5 contain a single band, indicating a single dominant conformation.
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