RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: cdaR
Synonym(s): sdaR
Gene(s): cdaR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Monterrubio R., et al., 2000
[2] Sampaio MM., et al., 2004
Promoter
Name: cdaRp
+1: 182447
Distance from start of the gene: 16
Sequence: catcatcctttaggcatttgcacaatgccgtacgttacgtacttccttatgctaagccgtGcataacggaggacttatggc
Evidence: [CV(RS-EPT-CBR/TA)]
[HTIM]
[RS-EPT-CBR]
Reference(s): [3] Mendoza-Vargas A., et al., 2009
[4] Salgado H, et al., 2012
TF binding sites (TFBSs)
[CdaR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd CdaR1 activator cdaRp nd nd nd nd nd [GEA] [1], [2]
Note(s): 1CdaR responds to the inducers D-glycerate, D-galactarate, D-glucarate, and 2-D-mannosyl-glycerate.1CdaR responds to the inducers D-glycerate, D-galactarate, D-glucarate, and 2-D-mannosyl-glycerate.


Evidence    

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

 [HTIM] High-throughput transcription initiation mapping

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

 [GEA] Gene expression analysis


Reference(s)    

 [1] Monterrubio R., Baldoma L., Obradors N., Aguilar J., Badia J., 2000, A common regulator for the operons encoding the enzymes involved in D-galactarate, D-glucarate, and D-glycerate utilization in Escherichia coli., J Bacteriol 182(9):2672-4

 [2] Sampaio MM., Chevance F., Dippel R., Eppler T., Schlegel A., Boos W., Lu YJ., Rock CO., 2004, Phosphotransferase-mediated transport of the osmolyte 2-O-alpha-mannosyl-D-glycerate in Escherichia coli occurs by the product of the mngA (hrsA) gene and is regulated by the mngR (farR) gene product acting as repressor., J Biol Chem 279(7):5537-48

 [3] 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

 [4] 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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