RegulonDB

Gene
Name:	ybcN
Synonym(s):	ECK0538, G6303, b0547
Genome position(nucleotides):	572466 --> 572921 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	50.44
External database links:

ASAP:	ABE-0001874
ECHOBASE:	EB3395
OU-MICROARRAY:	b0547
PortEco:	ybcN
STRING:	511145.b0547
COLOMBOS:	ybcN

Product

Name:

DLP12 prophage; DNA base-flipping protein

Synonym(s):

YbcN

Sequence:

Get amino acid sequence Fasta Format

Molecular weight:

17.433

Isoelectric point:

7.497

Classification:

Multifun Terms (GenProtEC)
		2 - information transfer --> 2.1 - DNA related --> 2.1.4 - DNA repair
		8 - extrachromosomal --> 8.1 - prophage genes and phage related functions
Gene Ontology Terms (GO)
	molecular_function	GO:0003697 - single-stranded DNA binding GO:0005515 - protein binding GO:0000405 - bubble DNA binding
	biological_process	GO:0006298 - mismatch repair

External database links:

ECOCYC:

ECOLIWIKI:

INTERPRO:

PRIDE:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

Operon arrangement:

Transcription unit	Promoter

RNA cis-regulatory element

Attenuation:	Translational

Elements in the selected gene context region unrelated to any object in RegulonDB

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_683	571937	forward	nd	[RS-EPT-CBR]	[1]
promoter	ybcNp6	572314	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 5.893. P-value: 6.979e-5 Read more >	[ICWHO]	[2]
promoter	ybcNp5	572319	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.846. P-value: 5.119e-5 Read more >	[ICWHO]	[2]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates
[ICWHO] Inferred computationally without human oversight

Reference(s)
[1] 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.
[2] 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

Reference(s)