                                                                        Gene putatively regulated by attenuation in A_tumefaciens_C58_UWash_linear

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:138 nt.     Distance to run of Ts=0 nt.   Size=30 nt.     Delta G= -8.50 kcal/mol
Antiterminator: Size=33 nt.     Delta G= -3.90 kcal/mol
Anti-antiterminator:   Size=46 nt.     Delta G=-13.00 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

GTGACGCTCGATGCGAGACTTGCCGGAAAAGCTTTCAGACACTATCTGAACACGCATA
TGCGTCTCGCCCGTGCCTGTCATATCCGGCTGGTGGCCAGCATGCATCCGGCTTTCAT
CGACAACCCTCAGGCGTTCCGGCGAAAAGCTCTGCCGAAGCTTTGTTTCTATGCGTTC
TCGCAGGGACATgcagagggctccatttctgttttcggtctttaaaaggggctacctaaaagcctgtaacattccgctttgtcaattcttg
ttgtgcggcttttcgcaccccataatcagggcatcATG

    dnaJ Gene: dnaJ     GI: 17937330     BI number: Atu3623     GOG: COG2214     Description: molecular chaperone, DnaJ famil GC A  A C  T CG GC G  A        C T  T      T  A GC        CG        AG GC        CG       A  C TG       |  C      A  T CG        CG       A  C GC        AT        GT GT        AT        CG C  T      C  C       GC C  T      A  |       GC T  C       GC        CG A  A       CG       C  A T  T      T  G      T  A A  C      A  C      T  | CG        CG       G  | TA        TA        CG GC        TA        GC TA        TA        GT                         TTGTTTCTATGCGTTCTCGCAGGGACATgcagagggctccatttctgttttcggtctttaaaaggggctacctaaaagcctgtaacattccgctttgtcaattcttgttgtgcggcttttcgcaccccataatcagggcatcATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [O] COG2214 DnaJ-class molecular chaperone ... can be seen here     ..................................................................................................................