RegulonDB

Gene
Name:	sokB
Synonym(s):	ECK1414, G0-9611, b4429
Genome position(nucleotides):	1492119 --> 1492174 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	51.79
External database links:

ASAP:	ABE-0047249
ECHOBASE:	EB4289
PortEco:	sokB
COLOMBOS:	sokB

Product

Name:

SokB

Synonym(s):

antisense RNA blocking mokB and hokB translation, putative small regulatory RNA SokB

Type:

small RNA

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		3 - regulation --> 3.1 - type of regulation --> 3.1.3 - posttranscriptional --> 3.1.3.6 - antisense RNA
Gene Ontology Terms (GO)

Note(s):

Note(s): ...[more].

Evidence:

[HIFS] Human inference of function from sequence
[IDA] Inferred from direct assay

Reference(s):

External database links:

ECOCYC:

ECOLIWIKI:

Operon

Name:

sokB

Operon arrangement:

Transcription unit	Promoter
sokB	sokBp

RNA cis-regulatory element

Attenuation:	Translational

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	sokBp3	1492116		forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 5.076. P-value: 6.128e-5 Read more >	[ICWHO]	[6]
	promoter	mokBp3	1492305		reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.734. P-value: 5.845e-6 Read more >	[ICWHO]	[6]

Evidence
[ICWHO] Inferred computationally without human oversight

Reference(s)
[1] Faridani OR., Nikravesh A., Pandey DP., Gerdes K., Good L., 2006, Competitive inhibition of natural antisense Sok-RNA interactions activates Hok-mediated cell killing in Escherichia coli., Nucleic Acids Res 34(20):5915-22
[2] Kawano M., Reynolds AA., Miranda-Rios J., Storz G., 2005, Detection of 5'- and 3'-UTR-derived small RNAs and cis-encoded antisense RNAs in Escherichia coli., Nucleic Acids Res 33(3):1040-50
[3] Pedersen K., Gerdes K., 1999, Multiple hok genes on the chromosome of Escherichia coli., Mol Microbiol 32(5):1090-102
[4] Schneider D., Duperchy E., Coursange E., Lenski RE., Blot M., 2000, Long-term experimental evolution in Escherichia coli. IX. Characterization of insertion sequence-mediated mutations and rearrangements., Genetics 156(2):477-88
[5] Woods R., Schneider D., Winkworth CL., Riley MA., Lenski RE., 2006, Tests of parallel molecular evolution in a long-term experiment with Escherichia coli., Proc Natl Acad Sci U S A 103(24):9107-12
[6] 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