Gene putatively regulated by attenuation in C_caviae
Characteristics of the secondary structures
Terminator: Distance to gene:160 nt. Distance to run of Ts=2 nt. Size=20 nt. Delta G= -8.60 kcal/mol
Antiterminator: Size=68 nt. Delta G= -9.70 kcal/mol
Anti-antiterminator: Size=43 nt. Delta G= -5.76 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
acaagaaaaacttcagagacgtagattcttacatcttttgattaaaattcctagagatcttgttggatttacatgaaaaatgcgggaatcacttcttttg
ttcaaaataatctctcaaatctttgagagagcatttttataaaaacgcccaaaaatcctatttctcctcagttgcttagagtttatattttttctttgtc
tatgaaaatcaacggcataacttttggtaaagatcttgattttatacattcatgtaattagtctgtgtcaaatttaattttttaagatggaaataacccc
ATG
incA
Gene: incA GI: 29840309 BI number: CCA00550 GOG: NOG14661 Description: inclusion membrane protein
ca
t c
at
at
gc
gt
gt
c t
g t
gt t g
t t a |
tg a |
cg a |
ta at
at at
gt gc
at ta
| a a a
| c c a
| a a a
| t t t
| g ta
| a ta
| a at
| a gc
| a gt
| a t c tc
| t t t a t
g g gc at
a c ta at
tg ta cg
cg c | ta
cg ta cg
ta at ta
ta gc cg
at at ta
gcatttttataaaaacgcccaaaaatcctatttctcctcagttgcttagagtttatattttttctttgtctatgaaaatcaacggcataacttttggtaaagatcttgattttatacattcatgtaattagtctgtgtcaaatttaattttttaagatggaaataaccccATG
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