Sulfolobus solfataricus sRNA Annotation

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.