RegulonDB RegulonDB 10.8: Operon Form
   

accA operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: accA
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: accA
Gene(s): accA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Li SJ., et al., 1993
Promoter
Name: accAp2
+1: 208326
Distance from start of the gene: 295
Sequence: acttatcgtcagcggacaggtcagctttgatgacttcagcggtgggcttaaaatgaccgcTcgcgaagtgatggatattga
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM]
Reference(s): [2] My L., et al., 2015
[3] Salgado H, et al., 2012
TF binding sites (TFBSs)
[FadR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FadR activator accAp2 208280 208296 -38.0 atcgtcagcgGACAGGTCAGCTTTGATgacttcagcg nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [2]


Transcription unit       
Name: accA
Gene(s): accA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The accA gene is located at min 4.3 in a complex gene cluster. The messages observed may not be primary transcription products (the presence of 5'-triphosphates was not demonstrated); however, each of the 5' ends lies downstream of a reasonable -10 promoter element, strongly suggesting that nucleotide processing of the 5' ends occurrs.
The accAp promoter identified by 5´-RACE by My et al. My L,2015is 1 bp upstream from a promoter identified previously Li SJ,1993
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Li SJ., et al., 1993
Promoter
Name: accAp
+1: 208411
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 210
Sequence: gcccgggaaaaatatgctcgcgggcttgctatctcgctgacggacaggcaaattgatgacCagcttttaaaccgactccgt
                          -35                    -10        +1                   
Note(s): accA transcription starts within the coding sequence of the upstream polC gene (which encodes the DNA polymerase III catalytic subunit), suggesting that additional regulatory mechanisms exist. The length of the accA gene is initiated at the putative promoter sequence identified here and ends at a strong tetra loop transcriptional terminator structure found in the downstream region of the accA gene.
Evidence: [TIM]
Reference(s): [1] Li SJ., et al., 1993
[2] My L., et al., 2015


Evidence    

 [CV(RS-EPT-CBR)] cross validation(RS-EPT-CBR)

 [CV(TIM)] cross validation(TIM)

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

 [TIM] Transcription initiation mapping

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BPP] Binding of purified proteins

 [CV(GEA)] cross validation(GEA)

 [GEA] Gene expression analysis


Reference(s)    

 [1] Li SJ., Cronan JE., 1993, Growth rate regulation of Escherichia coli acetyl coenzyme A carboxylase, which catalyzes the first committed step of lipid biosynthesis., J Bacteriol 175(2):332-40

 [2] My L., Ghandour Achkar N., Viala JP., Bouveret E., 2015, Reassessment of the Genetic Regulation of Fatty Acid Synthesis in Escherichia coli: Global Positive Control by the Dual Functional Regulator FadR., J Bacteriol 197(11):1862-72

 [3] 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.

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