RegulonDB

Gene
Name:	yohC
Synonym(s):	ECK2128, EG12016, b2135
Genome position(nucleotides):	2225044 <-- 2225631 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	53.57
External database links:

ASAP:	ABE-0007053
ECHOBASE:	EB1953
ECOLIHUB:	yohC
OU-MICROARRAY:	b2135
STRING:	511145.b2135
COLOMBOS:	yohC

Product

Name:

putative inner membrane protein

Synonym(s):

YohC

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

inner membrane

Molecular weight:

21.691

Isoelectric point:

7.629

Motif(s):

Type	Positions	Sequence
	33 -> 55	VLLMAAIPVICAFIGTTQIGWNF
	170 -> 192	LAIGVLVLEVLLALTVILWGYGY
	65 -> 87	WFTGLALAVLFYGVMLAGVAVMG
	135 -> 157	VGTVALFYTGYLLYLGIPSFLNI
	5 -> 177	WGLFSHPDREMQVINRENETISHHYTHHVLLMAAIPVICAFIGTTQIGWNFGDGTILKLSWFTGLALAVLFYGVMLAGVAVMGRVIWWMARNYPQRPSLAHCMVFAGYVATPLFLSGLVALYPLVWLCALVGTVALFYTGYLLYLGIPSFLNINKEEGLSFSSSTLAIGVLVL

Classification:

Multifun Terms (GenProtEC)
Gene Ontology Terms (GO)
	cellular_component	GO:0016020 - membrane GO:0005886 - plasma membrane GO:0016021 - integral component of membrane
	biological_process	GO:0006974 - cellular response to DNA damage stimulus

Note(s):

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

External database links:

ECOCYC:

ECOLIWIKI:

INTERPRO:

PFAM:

PRIDE:

REFSEQ:

UNIPROT:

Operon

Name:

yohC

Operon arrangement:

Transcription unit	Promoter
yohC

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	pbpGp7	2224941	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 5.048. P-value: 1.637e-5 Read more >	[ICWHO]	[1]
promoter	pbpGp5	2225066	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.364. P-value: 4.495e-5 Read more >	[ICWHO]	[1]
promoter	TSS_2452	2225664	reverse	nd	[RS-EPT-CBR]	[2]
promoter	yohCp4	2225669	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.956. P-value: 7.337e-5 Read more >	[ICWHO]	[1]
promoter	yohCp3	2225679	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.4. P-value: 6.841e-5 Read more >	[ICWHO]	[1]
promoter	yohDp2	2225763	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 2.786. P-value: 4.773e-5 Read more >	[ICWHO]	[1]

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

Reference(s)
[1] 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
[2] 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.

Reference(s)