RegulonDB

Gene
Name:	ypfM
Synonym(s):	ECK4415, G0-8888, b4606
Genome position(nucleotides):	2590807 <-- 2590866 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	38.33
External database links:

ASAP:	ABE-0285189
PortEco:	ypfM
STRING:	511145.b4606
COLOMBOS:	ypfM

Product

Name:

uncharacterized protein YpfM

Synonym(s):

YpfM

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

cytosol

Molecular weight:

2.408

Isoelectric point:

6.649

Classification:

Note(s):

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

External database links:

ECOCYC:

ECOLIWIKI:

PRIDE:

REFSEQ:

UNIPROT:

Operon

Name:

ypfM

Operon arrangement:

Transcription unit	Promoter
ypfM	ypfMp

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_2757 (cluster)	2590885	reverse	For this promoter, there is a cluster of 2 transcription start sites,in the interval 2590884 to 2590885, where the highest frequency is at position 2588907. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[1]
promoter	TSS_2758	2590896	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2760	2591050	reverse	nd	[RS-EPT-CBR]	[1]
promoter	ypfMp2	2591070	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.266. P-value: 3.987e-5 Read more >	[ICWHO]	[2]
promoter	TSS_2761	2591293	forward	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2762	2591337	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)