RegulonDB RegulonDB 10.8: Gene Form
   

micA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

gshA luxS micA CyaR terminator anti-terminator anti-anti-terminator TSS_3000 TSS_3000 TSS_2999 TSS_2999 TSS_2998 TSS_2998 luxSp1 luxSp1 luxSp2 luxSp2 micAp micAp

Gene      
Name: micA    Texpresso search in the literature
Synonym(s): ECK2682, G0-8866, b4442, psrA10, sraD
Genome position(nucleotides): 2814802 --> 2814873 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
43.06
Reference(s): [1] Argaman L., et al., 2001
External database links:  
ASAP:
ABE-0047262
ECHOBASE:
EB4528
PortEco:
micA
COLOMBOS: micA


Product      
Name: MicA
Synonym(s): PsrA10, SraD, micA, psrA10, small regulatory RNA MicA, sraD
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related --> 2.2.7 - antisense RNA
  3 - regulation --> 3.1 - type of regulation --> 3.1.3 - posttranscriptional --> 3.1.3.6 - antisense RNA
Gene Ontology Terms (GO)  
molecular_function GO:0005515 - protein binding
GO:0003729 - mRNA binding
biological_process GO:0006950 - response to stress
GO:0040033 - negative regulation of translation, ncRNA-mediated
GO:1902021 - regulation of bacterial-type flagellum-dependent cell motility
Note(s): Note(s): ...[more].
Evidence: [IDA] Inferred from direct assay
[IMP] Inferred from mutant phenotype
Reference(s): [2] Guo MS., et al., 2014
[3] Hammann P., et al., 2014
[4] Mihailovic MK., et al., 2018
[5] Moores A., et al., 2014
[6] Nagamitsu H., et al., 2013
[7] Rasmussen AA., et al., 2005
[8] Udekwu KI. 2010
[9] Udekwu KI., et al., 2005
[10] Vincent HA., et al., 2013
[11] Zhang S., et al., 2018
External database links:  
ECOCYC:
SRAD-RNA
ECOLIWIKI:
b4442


Operon      
Name: micA         
Operon arrangement:
Transcription unit        Promoter
micA


RNA cis-regulatory element    
Attenuation: Transcriptional


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 TSS_2998 2815236 reverse nd [RS-EPT-CBR] [12]
  promoter TSS_2999 2815242 reverse nd [RS-EPT-CBR] [12]
  promoter TSS_3000 2816260 reverse nd [RS-EPT-CBR] [12]


Evidence    

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



Reference(s)    

 [1] Argaman L., Hershberg R., Vogel J., Bejerano G., Wagner EG., Margalit H., Altuvia S., 2001, Novel small RNA-encoding genes in the intergenic regions of Escherichia coli., Curr Biol 11(12):941-50

 [2] Guo MS., Updegrove TB., Gogol EB., Shabalina SA., Gross CA., Storz G., 2014, MicL, a new σE-dependent sRNA, combats envelope stress by repressing synthesis of Lpp, the major outer membrane lipoprotein., Genes Dev 28(14):1620-34

 [3] Hammann P., Parmentier D., Cerciat M., Reimegard J., Helfer AC., Boisset S., Guillier M., Vandenesch F., Wagner EG., Romby P., Fechter P., 2014, A method to map changes in bacterial surface composition induced by regulatory RNAs in Escherichia coli and Staphylococcus aureus., Biochimie 106:175-9

 [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] Moores A., Chipper-Keating S., Sun L., McVicker G., Wales L., Gashi K., Blomfield IC., 2014, RfaH Suppresses Small RNA MicA Inhibition of fimB Expression in Escherichia coli K-12., J Bacteriol 196(1):148-56

 [6] Nagamitsu H., Murata M., Kosaka T., Kawaguchi J., Mori H., Yamada M., 2013, Crucial roles of MicA and RybB as vital factors for σ-dependent cell lysis in Escherichia coli long-term stationary phase., J Mol Microbiol Biotechnol 23(3):227-32

 [7] Rasmussen AA., Eriksen M., Gilany K., Udesen C., Franch T., Petersen C., Valentin-Hansen P., 2005, Regulation of ompA mRNA stability: the role of a small regulatory RNA in growth phase-dependent control., Mol Microbiol 58(5):1421-9

 [8] Udekwu KI., 2010, Transcriptional and post-transcriptional regulation of the Escherichia coli luxS mRNA; involvement of the sRNA MicA., PLoS One 5(10):e13449

 [9] Udekwu KI., Darfeuille F., Vogel J., Reimegard J., Holmqvist E., Wagner EG., 2005, Hfq-dependent regulation of OmpA synthesis is mediated by an antisense RNA., Genes Dev 19(19):2355-66

 [10] Vincent HA., Phillips JO., Henderson CA., Roberts AJ., Stone CM., Mardle CE., Butt LE., Gowers DM., Pickford AR., Callaghan AJ., 2013, An improved method for surface immobilisation of RNA: application to small non-coding RNA-mRNA pairing., PLoS One 8(11):e79142

 [11] Zhang S., Liu S., Wu N., Yuan Y., Zhang W., Zhang Y., 2018, Small Non-coding RNA RyhB Mediates Persistence to Multiple Antibiotics and Stresses in Uropathogenic Escherichia coli by Reducing Cellular Metabolism., Front Microbiol 9:136

 [12] 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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