RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit       
Name: hemB
Gene(s): hemB   Genome Browser M3D Gene expression COLOMBOS
Note(s): A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for hemB . This structure could regulate the expression of the gene, as observed for hemL gene expression 31964733.
Evidence: [BTEI] Boundaries of transcription experimentally identified
[ICWHO] Inferred computationally without human oversight
Reference(s): [1] Echelard Y., et al., 1988
Promoter
Name: hemBp
+1: 389754
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 27
Sequence: tgtcaacatcgcgacaactttcgtaaaacatccctaccctgcttcaggtatactatgcccCtcgattccacaaacatcagg
                       -35                       -10        +1                   
Note(s): The -10 box of hemB (TATACT) shows a typical Pribnow box, differing only by 1 nucleotide (TATAAT). On the other hand, the -35 sequence, GTAAAA, is atypical, compared with the consensus sequence, TTGACA, for this box Echelard Y,1988. The authors suggested that mutation/deletion studies will allow better definition of its position Echelard Y,1988.
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Echelard Y., et al., 1988
[2] Salgado H, et al., 2012


Evidence    

 [CV(RS-EPT-CBR)] cross validation(RS-EPT-CBR)

 [CV(TIM)] cross validation(TIM)

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

 [TIM] Transcription initiation mapping


Reference(s)    

 [1] Echelard Y., Dymetryszyn J., Drolet M., Sasarman A., 1988, Nucleotide sequence of the hemB gene of Escherichia coli K12., Mol Gen Genet 214(3):503-8

 [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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