Fig. 5

Structural requirement of Type II stem-loops for RNA cleavage. a Analysis of the structural conservation of Type II stem-loops located in IR2 and IR7, in which there is a 6-GC-pair region in their stems. b, c Effect of replacement of the 6-GC-pair region of IR2-SL with UA-pairs in the dual-fluorescence reporter system, as analyzed by Northern blotting (b) and qRT-PCR (c). d–f Stem-loop of Types II was designed (d) and its function was analyzed by Northern blotting (e) and qRT-PCR (f). Black arrows highlight the positions of bands that correspond to transcripts as indicated on the right side of the panel of Northern blotting results. 16S rRNA was used as a loading control. Error bars indicate the standard deviation of the mean from experiments done in triplicate