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Standard Name	micF
Gene Synonym(s)	ECK2208, b4439, JWR0043, stc, IS113^[1], IS113
Product Desc.	MicF RNA; antisense negative regulator of OmpF abundance^[2]^[3]
Product Synonyms(s)	regulatory sRNA^[1], MicF^[2]^[1], Stc^[2]^[1]
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): micF^[2]
Regulation/Activity
Quick Links
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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	micF
Mnemonic	mRNA interfering cRNA
Synonyms	ECK2208, b4439, JWR0043, stc, IS113^[1], IS113
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	49.81 minutes	MG1655: 2311106..2311198 <gbrowseImage> name=NC_000913:2311106..2311198 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
BW2952		NC_012759: 2196911..2197003 <gbrowseImage> name=NC_012759:2196911..2197003 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2316418..2316510 <gbrowseImage> name=NC_007779:2316418..2316510 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2402094..2402186 <gbrowseImage> name=NC_010473:2402094..2402186 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
micF1 (del)			Resistant to	lowered the resistance of wild-type bacteria to nalidixic acid, ampicillin and tetracycline	PMID:7679383
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
	Plasmid clone	Shigen	PMID:16769691 Status: Primer 1: Primer 2:
22A6	Kohara Phage	Genobase	PMID:3038334
napA722::Tn10	Linked marker	CAG12098 = CGSC7400^[4]	est. P1 cotransduction: 71% ^[5] Synonyms:zeg-722, zei-722::Tn10
atoS298::Tn10	Linked marker	CAG12177 gyrA+ = CGSC7525^[4]	est. P1 cotransduction: 74% ^[5] Synonyms:zeh-298::Tn10, zej-298::Tn10 nnnThe original CAG12177 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG30063	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG30063	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002505	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:2847742	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB4226	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0047259	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	MicF RNA
Synonyms	regulatory sRNA^[1], MicF^[2]^[1], Stc^[2]^[1]
Product description	MicF RNA; antisense negative regulator of OmpF abundance^[2]^[3]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0040033	negative regulation of translation, ncRNA-mediated	PMID:17264113	IEP: Inferred from Expression Pattern		P		complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type

Partner

Notes

References

Evidence

RNA

ompF mRNA

micF RNA is responsible for osmoregulation of OmpF in low and medium-osmolarity medium; micF RNA also negatively effects OmpF levels in the presence of procaine

PMID:7519595

PMID:11601842

PMID:2478539

when OmpF is made in micF deletion strain, the levels of procaine had little or no effect on amount of OmpF, suggesting micF RNA is needed for OmpF reduction in presence of procaine

Protein

Lrp

Lrp negatively regulates micF transcription

PMID:11601842

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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties

Type	sRNA
Sequence	GCUAUCAUCA UUAACUUUAU UUAUUACCGU CAUUCAUUUC UGAAUGUCUG UUUACCCCUA UUUCAACCGG AUGCCUCGCA UUCGGUUUUU UUU
Mol. Wt	29455.19
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	Notes	References
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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=micF taxon=562,83333 </beststructure>

Models

View models at:

PSI-PRED
Genomes TO Protein (GTOP)

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG30063	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG30063	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002505	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB4226	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0047259	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Notes	Reference(s)
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
micF
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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

micF RNA expression increases with procaine levels from 0 to 6 mM. ^[6]

micF RNA levels are inverse to concentration of nutrients in growth medium. ^[7]

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2311086..2311126 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
protein level	PMID:2478539	Levels of MicF RNA increase in response to growth at high temperatures, high osmolarity or in the presence of ethanol.
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
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Notes

Accessions Related to micF Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG30063	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB4226	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG30063	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002505	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0047259	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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<protect> See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
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Do-It-Yourself Web Tools

Notes

Families

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Database	Accession	Notes
PFAM (EcoliWiki Page)	PFAM:PF00267
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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database	Accession	Notes
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 CGSC: The Coli Genetics Stock Center
↑ ^5.0 ^5.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Ramani, N et al. (1994) micF antisense RNA has a major role in osmoregulation of OmpF in Escherichia coli. J. Bacteriol. 176 5005-10 PubMed
↑ Delihas, N & Forst, S (2001) MicF: an antisense RNA gene involved in response of Escherichia coli to global stress factors. J. Mol. Biol. 313 1-12 PubMed

micF:On One Page

Quickview

Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to micF Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Families

Notes

Links

References

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