                                                                        Gene putatively regulated by attenuation in L_monocytogenes_4b_F2365

This operon is putativelly rgulated by Glycine_cleavage

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:154 nt.    Distance to gene:25 nt.     Distance to run of Ts=0 nt.   Size=25 nt.     Delta G= -9.50 kcal/mol
Antiterminator:    Distance from promoter:128 nt. Size=30 nt.     Delta G= -7.10 kcal/mol
Anti-antiterminator:    Distance from promoter:90 nt.    Size=50 nt.     Delta G= -5.90 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: ttgccg-taagct. It has a score value of 68.94 and is shown in blue
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

ttgccgaacaatacaactcatgataagctatagaaaaggcaaatacataatagaattagcgggtgaatgtaagcagagagactgcgaaaagcggcgccga
cggggaaagcatgtattatgtgaaactctcaggcaaaaggatgtttacgggacgcaactctggagtcatttttgtgttacgacagggcttatgaaccata
taagcctttttgttatgtgaaaaaggaggatataattATG

    gcvT --- gcvP1 --- gcvP2 Gene: gcvT     GI: 46907574     BI number: LMOf2365_1365     GOG: COG0404     Description: glycine cleavage system T protein Gene: gcvP1     GI: 46907575     BI number: LMOf2365_1366     GOG: COG0403     Description: glycine cleavage system P protein, subunit 1 Gene: gcvP2     GI: 46907576     BI number: LMOf2365_1367     GOG: COG1003,COG0403     Description: glycine cleavage system P protein, subunit   c a  g t  g tg ta gc tg |  c a  a g  a gc at a  | a  | a  |       tt c  |      t  t g  |       tg gc        at         c at        cg       a  c cg       |  t      a  a t  |      |  t       gt cg        ta        ta ta        gc        at cg       a  g       ta a  |      g  a       ta a  |       gc        cg at        ta        gc gc        cg        gc ta        tg        gt gt        cg        at                         tttgttatgtgaaaaaggaggatataattATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [E] COG0404 Glycine cleavage system T protein (aminomethyltransferase) ... can be seen here [E] COG0403 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain ... can be seen here [E] COG1003 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain ... can be seen here [E] COG0403 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain ... can be seen here                                                                         Genes that have a predicted attenuator with a riboswitch: Glycine_cleavage sequence ... can be seen here     ..................................................................................................................