                                                                        Gene putatively regulated by attenuation in P_marinus_MIT9313

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:171 nt.     Distance to run of Ts=2 nt.   Size=18 nt.     Delta G= -6.40 kcal/mol
Antiterminator: Size=45 nt.     Delta G= -9.00 kcal/mol
Anti-antiterminator:   Size=33 nt.     Delta G= -9.30 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

GCGGATGCTGAGTTTGCCGTCACAGTTGTCTACTTTGAGTGAGACAACTGGGTTGATC
TGCAGCTGAAACACGTTCAGGCTGGTCACTGCGTAGCTGAAGCGACCCTCACCTAGTG
GGGTAAGTTTTTCCCATTCCAGAAGAGCAGCCAGAACCCTATCCTGCTCGAGCAGGTA
AGCAGGCAGTCGCTCAGTGTTTTGCCTTACCGGCAAATTGAGGTTCTGGCAGGCTTGG
AAAGCCAGAGGCATGGCTTGCGGTTGACGCGTCATgatcctatcgacctcacttgcgatgcgcttctgATG

    pheA Gene: pheA     GI: 33864053     BI number: PMT1786     GOG: COG0077     Description: Chorismate mutase-Prephenate dehydratas            AC           C  T            TG            GC           |  G   A        GT C  C       TA A  G       CG AT        GC AT        GT GC       A  G TA       C  A CG        TA G  |       TG         T A  |       GC       C  A CG        CG        CG GC       A  A       AT T  T      C  C       CG CG       A  C      T  | TG       A  C       CG AT        AT        CG GC        GC        CG TA        TA        AT                         AAGTTTTTCCCATTCCAGAAGAGCAGCCAGAACCCTATCCTGCTCGAGCAGGTAAGCAGGCAGTCGCTCAGTGTTTTGCCTTACCGGCAAATTGAGGTTCTGGCAGGCTTGGAAAGCCAGAGGCATGGCTTGCGGTTGACGCGTCATgatcctatcgacctcacttgcgatgcgcttctgATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [E] COG0077 Prephenate dehydratase ... can be seen here     ..................................................................................................................