RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: fadR
Gene(s): fadR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] DiRusso CC. 1988
Promoter
Name: fadRp1
+1: 1234905
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 33
Sequence: atccctttttcttctttttgtctgctatcagcgtagttagccctctggtatgatgagtccAactttgttttgctgtgttat
                      -35                        -10        +1                   
Evidence: [ICWHO]
[IHBCE]
[TIM]
Reference(s): [1] DiRusso CC. 1988
[2] Huerta AM., et al., 2003
Terminator(s)
Type: rho-independent
Sequence: tttaaagagcAAACCCCTCAAACGAGGGGTTTtttgttgttt
Reference(s): [1] DiRusso CC. 1988
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-an acyl-CoA activator fadRp1 1234887 1234904 -10.0 gtagttagccCTCTGGTATGATGAGTCCaactttgttt nd [AIBSCS] [3]
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  DksA-ppGpp inhibition fadRp1 nd   [GEA] [4]
Evidence: [GEA] Gene expression analysis
Reference(s): [4] My L., et al., 2013


Transcription unit       
Name: fadR
Gene(s): fadR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [AISGDTU] Automated inference that a single-gene directon is a transcription unit
[BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] DiRusso CC. 1988
Promoter
Name: fadRp2
+1: 1234916
Distance from start of the gene: 22
Sequence: ttctttttgtctgctatcagcgtagttagccctctggtatgatgagtccaactttgttttGctgtgttatggaaatctcac
Evidence: [HTTIM]
Reference(s): [5] Mendoza-Vargas A., et al., 2009
Terminator(s)
Type: rho-independent
Sequence: tttaaagagcAAACCCCTCAAACGAGGGGTTTtttgttgttt
Reference(s): [1] DiRusso CC. 1988


Evidence    

 [ICWHO] Inferred computationally without human oversight

 [IHBCE] Inferred by a human based on computational evidence

 [TIM] Transcription initiation mapping

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [HTTIM] High-throughput transcription initiation mapping


Reference(s)    

 [1] DiRusso CC., 1988, Nucleotide sequence of the fadR gene, a multifunctional regulator of fatty acid metabolism in Escherichia coli., Nucleic Acids Res 16(16):7995-8009

 [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] Zhang F., Ouellet M., Batth TS., Adams PD., Petzold CJ., Mukhopadhyay A., Keasling JD., 2012, Enhancing fatty acid production by the expression of the regulatory transcription factor FadR., Metab Eng 14(6):653-60

 [4] My L., Rekoske B., Lemke JJ., Viala JP., Gourse RL., Bouveret E., 2013, Transcription of the Escherichia coli Fatty Acid Synthesis Operon fabHDG Is Directly Activated by FadR and Inhibited by ppGpp., J Bacteriol 195(16):3784-95

 [5] Mendoza-Vargas A., Olvera L., Olvera M., Grande R., Vega-Alvarado L., Taboada B., Jimenez-Jacinto V., Salgado H., Juarez K., Contreras-Moreira B., Huerta AM., Collado-Vides J., Morett E., 2009, Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli., PLoS One 4(10):e7526

 [6] Madikonda AK., Shaikh A., Khanra S., Yakkala H., Yellaboina S., Lin-Chao S., Siddavattam D., 2020, Metabolic remodeling in Escherichia coli MG1655. A prophage e14-encoded small RNA, co293, post-transcriptionally regulates transcription factors HcaR and FadR., FEBS J 287(21):4767-4782

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