RegulonDB RegulonDB 10.9: Operon Form
   

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




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


Transcription unit       
Name: tpiA
Gene(s): tpiA   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: tpiAp1
+1: 4111524
Distance from start of the gene: 17
Sequence: tctatactgtttcacagacctgctgccctgcggggcggccatcttcctttattcgcttatAagcgtggagaattaaaatgc
Evidence: [HIPP]
Reference(s): [1] Pichersky E., et al., 1984


Transcription unit          
Name: tpiA
Gene(s): tpiA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IC] Inferred by curator
Promoter
Name: tpiAp2
+1: 4111569
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 62
Sequence: ggtttgaataaatgacaaaaagcaaagcctttgtgccgatgaatctctatactgtttcacAgacctgctgccctgcggggc
                                               -10          +1                   
Evidence: [HTTIM]
[RS-EPT-CBR]
Reference(s): [2] Mendoza-Vargas A., et al., 2009
[3] Olvera L., et al., 2009
[4] Salgado H, et al., 2012
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Cra repressor tpiAp2 4111652 4111669 -91.5 ctgaccttcgCTGTTGAACCGATTAAGCTggcgctatct nd [AIBSCS], [GEA] [5]


Transcription unit          
Name: tpiA
Gene(s): tpiA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IC] Inferred by curator
Promoter
Name: tpiAp
+1: 4111569
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 62
Sequence: ggtttgaataaatgacaaaaagcaaagcctttgtgccgatgaatctctatactgtttcacAgacctgctgccctgcggggc
                                               -10          +1                   
Evidence: [HTTIM]
[RS-EPT-CBR]
Reference(s): [2] Mendoza-Vargas A., et al., 2009
[3] Olvera L., et al., 2009
[4] Salgado H, et al., 2012
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Cra repressor tpiAp 4111652 4111669 -91.5 ctgaccttcgCTGTTGAACCGATTAAGCTggcgctatct nd [AIBSCS], [GEA] [5]




Reference(s)    

 [1] Pichersky E., Gottlieb LD., Hess JF., 1984, Nucleotide sequence of the triose phosphate isomerase gene of Escherichia coli., Mol Gen Genet 195(1-2):314-20

 [2] 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

 [3] Olvera L., Mendoza-Vargas A., Flores N., Olvera M., Sigala JC., Gosset G., Morett E., Bolivar F., 2009, Transcription analysis of central metabolism genes in Escherichia coli. Possible roles of sigma38 in their expression, as a response to carbon limitation., PLoS One 4(10):e7466

 [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.

 [5] Shimada T., Yamamoto K., Ishihama A., 2011, Novel members of the Cra regulon involved in carbon metabolism in Escherichia coli., J Bacteriol 193(3):649-59


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