RegulonDB RegulonDB 11.1: Operon Form
   

yajG-ampG operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit       
Name: yajG-ampG
Gene(s): ampG, yajG   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
[EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Lindquist S., et al., 1993
Promoter
Name: yajGp
+1: 454210
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 43
Sequence: catgatgaatttacatgccttacccacttcccctcgccgttggcaatgttatgatggcggGaatttttaccaaacacgctt
                                 -35                   -10  +1                   
Evidence: [COMP-HINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[RS-EPT-CBR]
Reference(s): [1] Lindquist S., et al., 1993
[2] Salgado H, et al., 2012


Transcription unit       
Name: yajG
Gene(s): yajG   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] Inferred computationally without human oversight
[EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Lindquist S., et al., 1993
Promoter
Name: yajGp
+1: 454210
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 43
Sequence: catgatgaatttacatgccttacccacttcccctcgccgttggcaatgttatgatggcggGaatttttaccaaacacgctt
                                 -35                   -10  +1                   
Evidence: [COMP-HINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[RS-EPT-CBR]
Reference(s): [1] Lindquist S., et al., 1993
[2] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: ggcgtctacaGGCCCGGCTTGCACCGGGCCagagggcaga
Reference(s): [1] Lindquist S., et al., 1993


Transcription unit       
Name: ampG
Gene(s): ampG   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] Inferred computationally without human oversight


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -11.2 454202 454243 ccttacccacTTCCCCTCGCCGTTGGCAATGTTATGATGGCGGGAATTTTTaccaaacacg
  anti-terminator -15.89 454228 454292 gtttcttttaCCAGGGGCGATTATTTCGTCAACATGATGAATTTACATGCCTTACCCACTTCCCCTCGCCGTTGgcaatgttat
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-HINF] Inferred by a human based on computational evidence

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

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates


Reference(s)    

 [1] Lindquist S., Weston-Hafer K., Schmidt H., Pul C., Korfmann G., Erickson J., Sanders C., Martin HH., Normark S., 1993, AmpG, a signal transducer in chromosomal beta-lactamase induction., Mol Microbiol 9(4):703-15

 [2] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

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