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sRNA Annotations

2nd structure
(RNAfold)
sRNAG0022Get Sequence
Gene Name micF
Synonyms ECK2208;stc;b4439;
Position 2311106.....2311198
Length 93 bp
Strand forward
Gene Class MicF RNA; antisense negative regulator of OmpF abundance
Species Escherichia coli K12 MG1655
Evidence Inferred from experiment;
Source regulonDB

Genome position Promoter site

Structural RNA alignment
(RNALogo)
Get alignment sequences

Descriptions


    "The MicF RNA (Andersen J,1987) is an antisense regulator of the translation of OmpF porin (Andersen J,1989) and the stability of OmpF mRNA (Andersen J,1989. Deighan P,2000). MicF binds to OmpF mRNA (Andersen J,1990) and represses production of OmpF in response to environmental and/or stress conditions, including conditions of high osmolarity (Aiba H,1987. Andersen J,1989), low or moderate osmolarity (Ramani N,1994), heat (Andersen J,1989), ethanol (Andersen J,1989), salicylate (Rosner JL,1991. Ramani N,2001), paraquat (Chou JH,1993), and memb.....

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References

Andersen J, Delihas N, Ikenaka K, Green PJ, Pines O, Ilercil O, and Inouye M (1987) "The isolation and characterization of RNA coded by the micF gene in Escherichia coli." Nucleic Acids Res 15 (5)  PubMed
Painbeni E, Caroff M, and Rouviere-Yaniv J (1997) "Alterations of the outer membrane composition in Escherichia coli lacking the histone-like protein HU." Proc Natl Acad Sci U S A 94 (13)  PubMed
Dukan S, Dadon S, Smulski DR, and Belkin S (1996) "Hypochlorous acid activates the heat shock and soxRS systems of Escherichia coli." Appl Environ Microbiol 62 (11)  PubMed
Li Z, and Demple B (1996) "Sequence specificity for DNA binding by Escherichia coli SoxS and Rob proteins." Mol Microbiol 20 (5)  PubMed
Suzuki T, Ueguchi C, and Mizuno T (1996) "H-NS regulates OmpF expression through micF antisense RNA in Escherichia coli." J Bacteriol 178 (12)  PubMed
more..

Literature Records


Species Conditions Experiment Type Regulation PMID
Escherichia coli Cu2+   induce PubMed
Escherichia coli hypochlorous acid   induce PubMed
Escherichia coli ethanol   induce PubMed
Escherichia coli bile salts   induce PubMed
Escherichia coli phage infection   induce PubMed
Escherichia coli weak acid   induce PubMed
Escherichia coli antibiotics   induce PubMed
Escherichia coli nutrients   induce PubMed
Escherichia coli osmolarity increase   induce PubMed
Escherichia coli hydrogen peroxide   induce PubMed
Escherichia coli oxidative stress   induce PubMed
Escherichia coli cationic antimicrobial peptides   induce PubMed
Escherichia coli "grown in Luria broth without NaCl and with 0, 1, 2, and 4 mM salicylate." nortern blot induce PubMed

Computational Records


Gene NameStartEndStrand
IS113 2310947 2311201 forward

score promoter_score=58.227;terminator_score=-7.89
Note GenBank_annotation:micF sRNA gene (6S micF)
Methods "profile-based search method(profile search program, pftools2.2) to identify putative promoters in the E. coli genome."
Species Escherichia coli K12 MG1655
Sequence Get Sequence
PMID PubMed

Comparative Genomics by UCSC Genome Browser

Network Visualization

Regulators/sRNAs


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sRNAs/Targets


sRNA Expression Profiles

TitleF plasmid induced changes in expression levels in E. coli
Citation(s)16432259;16981998;SeriesGSE1154
Samples
1:MG1655_replicate12:MG1655_replicate23:MG1655F_replicate1
4:MG1655F_replicate25:DH5alpha_replicate16:DH5alpha_replicate2
7:DH5alphaF_replicate18:DH5alphaF_replicate2
IG_1448_2302414_2311507_fwd_st
more

External Database Connections

ECK120002505
EB4226
2847742
ABE-0047259
JWR0043
EG30063
EG30063
b4439
RF00033


Department of Biological Science and Technology,

Institute of Bioinformatics National Chiao Tung University, Hsinchu, Taiwan

Contact with: bryan@mail.NCTU.edu.tw