RegulonDB RegulonDB 10.9: Gene Form
   

micC gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ydbK ompN micC TSS_1786 TSS_1786 TSS_1785 TSS_1785 TSS_1784 TSS_1784 micCp micCp ompNp3 ompNp3 ompNp6 ompNp6 ompNp ompNp ompNp4 ompNp4

Gene      
Name: micC    Texpresso search in the literature
Synonym(s): ECK1373, G0-8901, IS063, b4427, tke8
Genome position(nucleotides): 1437121 --> 1437231 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
37.84
External database links:  
ASAP:
ABE-0047248
ECHOBASE:
EB4512
ECOLIHUB:
micC
COLOMBOS: micC


Product      
Name: small regulatory RNA MicC
Synonym(s): IS063, MicC, Tke8
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:0048027 - mRNA 5'-UTR binding
biological_process GO:0045947 - negative regulation of translational initiation
GO:0040033 - negative regulation of translation, ncRNA-mediated
GO:1902201 - negative regulation of bacterial-type flagellum-dependent cell motility
Note(s): Note(s): ...[more].
Evidence: [IEP] Inferred from expression pattern
[IGI] Inferred from genetic interaction
Reference(s): [1] Chen S., et al., 2002
[2] Chen S., et al., 2004
[3] De la Cruz MA., et al., 2010
[4] Urban JH., et al., 2007
External database links:  
ECOCYC:
TKE8-RNA
ECOLIWIKI:
b4427


Operon      
Name: micC         
Operon arrangement:
Transcription unit        Promoter
micC


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 ompNp4 1436984 reverse Similarity to the consensus
Read more >
[ICWHO] [5]
  promoter ompNp6 1437058 reverse Similarity to the consensus
Read more >
[ICWHO] [5]
  promoter ompNp3 1437079 reverse Similarity to the consensus
Read more >
[ICWHO] [5]
  promoter TSS_1784 1438596 reverse nd [RS-EPT-CBR] [6]
  promoter TSS_1785 1438744 reverse nd [RS-EPT-CBR] [6]
  promoter TSS_1786 1438759 reverse nd [RS-EPT-CBR] [6]


Evidence    

 [ICWHO] Inferred computationally without human oversight

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



Reference(s)    

 [1] Chen S., Lesnik EA., Hall TA., Sampath R., Griffey RH., Ecker DJ., Blyn LB., 2002, A bioinformatics based approach to discover small RNA genes in the Escherichia coli genome., Biosystems 65(2-3):157-77

 [2] Chen S., Zhang A., Blyn LB., Storz G., 2004, MicC, a second small-RNA regulator of Omp protein expression in Escherichia coli., J Bacteriol 186(20):6689-97

 [3] De la Cruz MA., Calva E., 2010, The complexities of porin genetic regulation., J Mol Microbiol Biotechnol 18(1):24-36

 [4] Urban JH., Vogel J., 2007, Translational control and target recognition by Escherichia coli small RNAs in vivo., Nucleic Acids Res 35(3):1018-37

 [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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