RegulonDB RegulonDB 11.1: Operon Form
   

leuX operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: leuX
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: leuX
Gene(s): leuX   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
Promoter
Name: leuXp
+1: 4496386
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 19
Sequence: cgaggtgcgagcaagctggcgcttgcatggtggcgtgcgacaggtataatccacaacgttTtccgcatacctcttcagtgc
                       -35                   -10            +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
Reference(s): [1] Huerta AM., et al., 2003
Terminator(s)
Type: rho-independent
Sequence: gcaccaaaagTATGTAAATAGACCTCAACTGAGGTCTTTTTTTATGcctgaaatcc
Reference(s): [2] Peters JM., et al., 2009
[3] Zuker M. 2003
TF binding sites (TFBSs)
[Fis,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Fis activator leuXp 4496304 4496318 -75.0 ctgtatgcaaTGCTGAAAATTTCAGcacttagcga nd [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] nd nd
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  ppGpp inhibition leuXp nd   [EXP-IEP] [4]
Evidence: [EXP-IEP] Inferred from expression pattern
Reference(s): [4] Rowley KB., et al., 1993


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -8.4 4496163 4496200 taaacttccaGTTCGCCGCCCGCTTCTTTTGCGGCATAGCTTTTTATcatcgacatt
  anti-terminator -6.9 4496140 4496175 tcagctcaccGGGATCGTACTCATAAACTTCCAGTTCGCCGCCCGcttcttttgc
  anti-anti-terminator -7.3 4496104 4496139 cgcagtaatcCACCTGCACTTCAACATCTTGTGGCCTCAGCTCACcgggatcgta
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] Binding of cellular extracts


Reference(s)    

 [1] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [2] Peters JM., Mooney RA., Kuan PF., Rowland JL., Keles S., Landick R., 2009, Rho directs widespread termination of intragenic and stable RNA transcription., Proc Natl Acad Sci U S A 106(36):15406-11

 [3] Zuker M., 2003, Mfold web server for nucleic acid folding and hybridization prediction., Nucleic Acids Res 31(13):3406-15

 [4] Rowley KB., Elford RM., Roberts I., Holmes WM., 1993, In vivo regulatory responses of four Escherichia coli operons which encode leucyl-tRNAs., J Bacteriol 175(5):1309-15

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