RegulonDB RegulonDB 11.1: Gene Form
   

rseX gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yedS hchA drpB rseX terminator hchAp1 hchAp1 hchAp2 hchAp2 TSS_2278 TSS_2278 rseXp rseXp TSS_2277 TSS_2277 yedJp4 yedJp4 yedJp3 yedJp3

Gene      
Name: rseX    Texpresso search in the literature
Synonym(s): ECK4412, G0-10574, IS096, b4603
Genome position(nucleotides): 2033649 --> 2033739
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 35.16
External database links:  
ECOLIHUB:
 rseX
COLOMBOS: rseX


Product      
Name: small regulatory RNA RseX
Synonym(s): RseX
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
  3 - regulation
Gene Ontology Terms (GO)  
molecular_function GO:0005515 - protein binding
GO:1903231 - mRNA binding translation repressor activity
biological_process GO:0040033 - RNA-mediated gene silencing by inhibition of translation
GO:1900192 - positive regulation of single-species biofilm formation
GO:1902201 - negative regulation of bacterial-type flagellum-dependent cell motility
Note(s): Note(s): ...[more].
Evidence: [EXP-IDA] Inferred from direct assay
Reference(s): [1] Douchin V., et al., 2006
[2] Kim T., et al., 2015
[3] Mihailovic MK., et al., 2021
[4] Mihailovic MK., et al., 2018
External database links:  
ECOCYC:
 RNA0-327
ECOLIWIKI:
 b4603


Operon      
Name: rseX         
Operon arrangement:
Transcription unit        Promoter
rseX


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter yedJp3 2033203 reverse nd [COMP-AINF] [5]
  promoter yedJp4 2033223 reverse nd [COMP-AINF] [5]
  promoter TSS_2277 2033449 reverse nd [RS-EPT-CBR] [6]
  promoter TSS_2278 2035198 reverse nd [RS-EPT-CBR] [6]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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


Reference(s)    

 [1] Douchin V., Bohn C., Bouloc P., 2006, Down-regulation of porins by a small RNA bypasses the essentiality of the regulated intramembrane proteolysis protease RseP in Escherichia coli., J Biol Chem 281(18):12253-9

 [2] Kim T., Bak G., Lee J., Kim KS., 2015, Systematic analysis of the role of bacterial Hfq-interacting sRNAs in the response to antibiotics., J Antimicrob Chemother 70(6):1659-68

 [3] Mihailovic MK., Ekdahl AM., Chen A., Leistra AN., Li B., Gonzalez Martinez J., Law M., Ejindu C., Masse E., Freddolino PL., Contreras LM., 2021, Uncovering Transcriptional Regulators and Targets of sRNAs Using an Integrative Data-Mining Approach: H-NS-Regulated RseX as a Case Study., Front Cell Infect Microbiol 11:696533

 [4] Mihailovic MK., Vazquez-Anderson J., Li Y., Fry V., Vimalathas P., Herrera D., Lease RA., Powell WB., Contreras LM., 2018, High-throughput in vivo mapping of RNA accessible interfaces to identify functional sRNA binding sites., Nat Commun 9(1):4084

 [5] 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

 [6] 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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