Gene putatively regulated by attenuation in C_muridarum
Characteristics of the secondary structures
Terminator: Distance to gene:162 nt. Distance to run of Ts=0 nt. Size=22 nt. Delta G=-11.60 kcal/mol
Antiterminator: Size=50 nt. Delta G= -8.60 kcal/mol
Anti-antiterminator: Size=59 nt. Delta G= -9.00 kcal/mol
Nomenclature/Definitions
Bases shared by the antitermination and termination structures are shown in red
Bases shared by the anti-antitermination and antitermination structures are shown in green
The sequences of the anti-antiterminator, antiterminator and terminator
structures are underlined
Coding regions are in CAPS, non-coding regions are in lower case
TAATAAACAAAGATCCCTCTCTCGGCTCTCTAGACTTTTTAGATAGCTGTGGTGAAGA
AGGACCCGTTTCTTATCGGAATGTTTGGGGTATGCTGGTTTAGttttaaaagagaacctcttcttccg
aagaggtttttttaattacaactagattaaaaggataatcaaaaagcaaaccagaatttttgctaaggattaagcctttgagaggtttgtgaattttgga
aaaaaatattgttcgcgatagaaaagagttgtgtttaaagtatttattctggtaaattcctcccttagtcttttGGA
_v29 --- _v28
Gene: _v29 GI: tRNA-Val-2 BI number: tRNA-Val-2 GOG: ------- Description: tRNA-Val
Gene: _v28 GI: tRNA-Asp-1 BI number: tRNA-Asp-1 GOG: ------- Description: tRNA-As
AT
T C
TG
CG
TA
TA tt
| T G t
| G At
| T Ta
T T Ta
GT Ta
CG G a
CG G g
CG Ta
A G Cg
G T G a
G A T |
A T A |
A G Ta
GC Gc
AT Gc
A G Gt tc
G G Gc t c
T T T t cg
G T T t ta
G | T c ta
T | G | cg
GT T | ta
TA At cg
CG At cg
Gt Gc at
At Gc at
tttttaattacaactagattaaaaggataatcaaaaagcaaaccagaatttttgctaaggattaagcctttgagaggtttgtgaattttggaaaaaaatattgttcgcgatagaaaagagttgtgtttaaagtatttattctggtaaattcctcccttagtcttttGGA
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