RegulonDB

Gene
Name:	ycjF
Synonym(s):	ECK1318, EG12870, b1322
Genome position(nucleotides):	1385511 --> 1386572 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	56.31
External database links:

ASAP:	ABE-0004436
ECHOBASE:	EB2711
OU-MICROARRAY:	b1322
PortEco:	ycjF
STRING:	511145.b1322
COLOMBOS:	ycjF

Product

Name:

DUF697 domain-containing inner membrane protein YcjF

Synonym(s):

YcjF

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

inner membrane

Molecular weight:

39.392

Isoelectric point:

8.814

Motif(s):

Type	Positions	Sequence
	349 -> 349	T
	70 -> 90	MVMGGLALFGASVVGQGVQWT
	100 -> 120	VALGGCAAGALIIGAGVGSVV
	183 -> 341	NDREVVSLYAHLVQPVLDAQARREISRSAAESTLMIAVSPLALVDMAFIAWRNLRLINRIATLYGIELGYYSRLRLFKLVLLNIAFAGASELVREVGMDWMSQDLAARLSTRAAQGIGAGLLTARLGIKAMELCRPLPWIDDDKPRLGDFRRQLIGQVK
	213 -> 233	ESTLMIAVSPLALVDMAFIAW

Classification:

Multifun Terms (GenProtEC)
Gene Ontology Terms (GO)
Gene Ontology Terms (GO)	cellular_component	GO:0016020 - membrane GO:0005886 - plasma membrane GO:0016021 - integral component of membrane

Note(s):

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

External database links:

DIP:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

MINT:

PANTHER:

PFAM:

PRIDE:

REFSEQ:

UNIPROT:

Operon

Name:

ycjXF-tyrR

Operon arrangement:

Transcription unit	Promoter
ycjXF-tyrR	ycjXp
tyrR	tyrRp

Transcriptional Regulation
	Display Regulation
Repressed by:	PgrR

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_1745	1383989	reverse	nd	[RS-EPT-CBR]	[1]
promoter	ycjWp2	1383991	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 5.256. P-value: 3.754e-5 Read more >	[ICWHO]	[2]
promoter	TSS_1746	1386691	forward	nd	[RS-EPT-CBR]	[1]
promoter	TSS_1747	1387697	forward	nd	[RS-EPT-CBR]	[1]

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)

[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