RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit       
Name: ybjX
Gene(s): ybjX   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the ybjX gene appears to be indirectly regulated by the transcription factor PhoP in avian pathogenic E. coli (APEC) Song X,2019.
The transcription of the ybjX gene is repressed during the first 24 h after the induction of nitrogen starvation Switzer A, Burchell L, McQuail J, Wigneshweraraj S,2020.
Evidence: [COMP-AINF-SINGLE-DIRECTON] Automated inference that a single-gene directon is a transcription unit
Promoter
Name: ybjXp
+1: 919103
Distance from start of the gene: -17
Sequence: ttacgttagtaatcacactattgatgtttggttaagatacgcaatggtgaaatcgacgccAtgtataaccattgatttcat
Evidence: [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP]
[RS-EPT-CBR]
Reference(s): [1] Mendoza-Vargas A., et al., 2009
[2] Salgado H, et al., 2012


Evidence    

 [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP] High-throughput transcription initiation mapping

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


Reference(s)    

 [1] Mendoza-Vargas A., Olvera L., Olvera M., Grande R., Vega-Alvarado L., Taboada B., Jimenez-Jacinto V., Salgado H., Juarez K., Contreras-Moreira B., Huerta AM., Collado-Vides J., Morett E., 2009, Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli., PLoS One 4(10):e7526

 [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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