RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit       
Name: fepDGC
Gene(s): fepC, fepG, fepD   Genome Browser M3D Gene expression COLOMBOS
Note(s): The fepDGC and entS genes are divergent operons with overlapping and opposing promoter elements.
Reference(s): [1] Shea CM., et al., 1991
Promoter
Name: fepDp2
+1: 622192
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 3
Sequence: acatgctaacatatccaaataagatcgataacgataattaatttcattatcatggaagttCgtatgtctggttctgttgcc
                        -35                     -10         +1                   
Evidence: [HIPP]
[TIM]
Reference(s): [2] Christoffersen CA., et al., 2001


Transcription unit          
Name: fepDGC
Synonym(s): OP00226
Gene(s): fepC, fepG, fepD   Genome Browser M3D Gene expression COLOMBOS
Note(s): The fepDGC and entS genes are divergent operons with overlapping and opposing promoter elements.
Reference(s): [1] Shea CM., et al., 1991
Promoter
Name: fepDp1
+1: 622234
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 45
Sequence: tgccttgccatcaaatattttaaatacctattcttaggctgcacatgctaacatatccaaAtaagatcgataacgataatt
                        -35                      -10        +1                   
Note(s): This promoter has a -10 extended box and it overlaps with the divergent entS promoters.
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM]
Reference(s): [3] Salgado H, et al., 2012
[1] Shea CM., et al., 1991
TF binding sites (TFBSs)
[Fur,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Fur-Fe2+ repressor fepDp1 622199 622217 27.0 cgataacgatAATTAATTTCATTATCATGgaagttcgta nd [APIORCISFBSCS], [BPP] [4]
proximal Fur-Fe2+ repressor fepDp1 622205 622223 21.0 taagatcgatAACGATAATTAATTTCATTatcatggaag nd [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [2], [4], [5], [6]
proximal Fur-Fe2+ repressor fepDp1 622211 622229 15.0 tccaaataagATCGATAACGATAATTAATttcattatca nd [APIORCISFBSCS], [BPP] [4]
proximal Fur-Fe2+ repressor fepDp1 622217 622235 9.0 aacatatccaAATAAGATCGATAACGATAattaatttca nd [APIORCISFBSCS], [BPP] [4]


Evidence    

 [HIPP] Human inference of promoter position

 [TIM] Transcription initiation mapping

 [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

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [BPP] Binding of purified proteins

 [CV(GEA)] cross validation(GEA)

 [GEA] Gene expression analysis


Reference(s)    

 [1] Shea CM., McIntosh MA., 1991, Nucleotide sequence and genetic organization of the ferric enterobactin transport system: homology to other periplasmic binding protein-dependent systems in Escherichia coli., Mol Microbiol 5(6):1415-28

 [2] Christoffersen CA., Brickman TJ., Hook-Barnard I., McIntosh MA., 2001, Regulatory architecture of the iron-regulated fepD-ybdA bidirectional promoter region in Escherichia coli., J Bacteriol 183(6):2059-70

 [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.

 [4] Chen Z., Lewis KA., Shultzaberger RK., Lyakhov IG., Zheng M., Doan B., Storz G., Schneider TD., 2007, Discovery of Fur binding site clusters in Escherichia coli by information theory models., Nucleic Acids Res 35(20):6762-77

 [5] Chenault SS., Earhart CF., 1991, Organization of genes encoding membrane proteins of the Escherichia coli ferrienterobactin permease., Mol Microbiol 5(6):1405-13

 [6] Lavrrar JL., Christoffersen CA., McIntosh MA., 2002, Fur-DNA interactions at the bidirectional fepDGC-entS promoter region in Escherichia coli., J Mol Biol 322(5):983-95

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