Secondary structures of RatA, txpA, and the RatA/txpA hybrid.
Stem-loop (SL) structures and transcription terminators (ter) are labeled. Strong RNase III cleavages sites are shown as thick red arrows and minor sites as thin red arrows. Strong RNase Y cleavage sites are shown as black arrows and minor sites as grey arrows. The main degradation pathway in vivo is represented by RNase Y cleavage (blue scissors), followed by degradation of the upstream and downstream fragments by PNPase (green Pacman symbol) and RNase J1 (orange Pacman symbol), respectively. (A) Secondary structure of RatA. (B) Secondary structure of txpA (C) Secondary structure of RatA/txpA hybrid.