Gene
Name:	ybbO
Synonym(s):	ECK0487, G6269, b0493
Genome position(nucleotides):	518340 <-- 519149 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	54.32
External database links:

ASAP:	ABE-0001709
ECHOBASE:	EB3050
ECOLIHUB:	ybbO
OU-MICROARRAY:	b0493
STRING:	511145.b0493
COLOMBOS:	ybbO

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_661	518264	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_662 (cluster)	518306	reverse	For this promoter, there is a cluster of 3 transcription start sites,in the interval 518304 to 518306, where the highest frequency is at position 517529. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[1]
promoter	ybbNp2	518568	reverse	The sigma factor was determined by transcription profiling experiments and a bioinformatics approach Zhao K,2005. We assigned a putative transcriptional start site to this promoter based on the observation that the majority of the promoters, whose transcriptional start sites were determined experimentally, present a distance of 6 nucleotides between the transcriptional start site and the -10 box. Read more >	[AIPP], [ICWHO]	[2], [3]
promoter	TSS_663	518661	reverse	nd	[RS-EPT-CBR]	[1]
promoter	ybbOp4	519329	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.468. P-value: 2.188e-5 Read more >	[ICWHO]	[2]
promoter	TSS_664	519797	reverse	nd	[RS-EPT-CBR]	[1]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates
[AIPP] Automated inference of promoter position
[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
[3] Zhao K., Liu M., Burgess RR., 2005, The global transcriptional response of Escherichia coli to induced sigma 32 protein involves sigma 32 regulon activation followed by inactivation and degradation of sigma 32 in vivo., J Biol Chem 280(18):17758-68