Name | PE Conf | Guide Box | Target RNA | Target Position | Match/Mismatch | Notes |
sR1 | + | D' | 16S | U605 | 10/0 | |
D' | 16S | U33 | 8/0 | |||
D | 16S | U52 | 10/0 | CDP, Mod | ||
sR2 | + | D | 16S | G1372 | 10/0 | Mod |
sR3 | + | D | 16S | C1490 | 10/0 | Mod |
sR4 | + | D' | 23S | G894 | 10/1 | |
D | 16S | C277 | 9/1 | CDP | ||
sR5 | + | D' | 23S | A1183 | 13/0 | |
D | 23S | A685 | 10/0 | |||
sR6 | + | D' | 23S | G2127 | 9/0 | |
D | 23S | G2094 | 10/0 | CDP | ||
sR7 | + | D' | 23S | A2425 | 10/0 | |
D | 16S | C481 | 10/0 | CDP | ||
sR8 | + | D | 16S | U477 | 9/0 | No Pause |
sR9 | + | D' | 23S | A682 | 11/0 | |
D' | 16S | A1282 | 10/1 | |||
D | 23S | A1461 | 10/1 | No Pause | ||
D | 23S | A54 | 9/1 | |||
sR10 | + | D | 23S | A2082 | 11/0 | |
sR11 | D' | tRNA Gln-YTG | G18 | 10/0 | ||
sR12 | D' | 16S | U1344 | 12/0 | ||
sR13 | D' | 16S | G1018 | 11/0 | Mod |
PE Conf: the presence of the sRNA in total cellular RNA was verified
by primer extension. Guide Box: the position of the guide within
the sRNA (D or D' box associated). Target RNA: predicted target
of methylation. Target Position: predicted nucleotide postion of
methylation. Match/Mismatch: the number of Watson-Crick and G-U
matches / mismatches within the sRNA-target RNA duplex. Notes: "CDP",
dNTP concentration-dependent primer extension pause observed at the predicted
site of methylation, indicating a likely 2'-O-ribose methyl; "No Pause",
no pause was detected at either high or low dNTP concentrations; "Mod",
known site of nucleotide modification of unknown type in S. acidocaldarius
16S rRNA. Guides without notation were not experimentally examined.