RegulonDB RegulonDB 10.8: Operon Form
   

serC-aroA operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit       
Name: serC
Gene(s): serC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[LTED] Length of transcript experimentally determined
Reference(s): [1] Man TK., et al., 1997
Promoter
Name: serCp2
+1: 957579
Distance from start of the gene: 74
Sequence: tttgccctcaacggttttactcattgcgatgtgtgtcactgaatgataaaaccgatagccAcaggaataatgtattacctg
Note(s): serCp2 was validated experimentally in aerobic conditions Chung D,2013.
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM]
Reference(s): [2] Chung D., et al., 2013
[3] Salgado H, et al., 2012


Transcription unit          
Name: serC
Gene(s): serC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[LTED] Length of transcript experimentally determined
Reference(s): [1] Man TK., et al., 1997
Promoter
Name: serCp
+1: 957595
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 58
Sequence: ttactcattgcgatgtgtgtcactgaatgataaaaccgatagccacaggaataatgtattAcctgtggtcgcaatcgattg
                           -35                    -10       +1                   
Evidence: [TIM]
Reference(s): [4] Lim CJ., et al., 1994
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 CRP-cAMP1 repressor serCp 957498 957519 -86.0 agagattcttTTGTGTGATGCAAGCCACATTTttgccctcaa nd [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [1], [4]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote Lrp activator serCp 957454 957468 -134.0 gggtgacctgACAGTAAAAACATCGgctttttgct nd [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [1]
Note(s): 1It is important to note that the CRP site position at the serC-aroA operon is unusual for this regulator Man TK,1997.2It is important to note that the CRP site position at the serC-aroA operon is unusual for this regulator Man TK,1997.


Transcription unit          
Name: serC-aroA
Gene(s): serC, aroA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The serC-aroA operon codes for a transaminase of the PLP pathway and a synthase of the common aromatic synthesis pathway Duncan K,1986 This operon is repressed by CRP (catabolite repression regulator) Lim CJ,1994and activated by Lrp (leucine-responsive regulator) Man TK,1997 It is possibly an attenuator regulatory mechanism for the aroA gene, as a terminator sequence between serC and aroA, and a different expression level has been observed Duncan K,1986
Evidence: [BTEI] Boundaries of transcription experimentally identified
[CV(LTED/PM)] cross validation(LTED/PM)
[CV(PM)] cross validation(PM)
[LTED] Length of transcript experimentally determined
[PM] Polar mutation
Reference(s): [5] Duncan K., et al., 1986
[4] Lim CJ., et al., 1994
[1] Man TK., et al., 1997
Promoter
Name: serCp
+1: 957595
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 58
Sequence: ttactcattgcgatgtgtgtcactgaatgataaaaccgatagccacaggaataatgtattAcctgtggtcgcaatcgattg
                           -35                    -10       +1                   
Evidence: [TIM]
Reference(s): [4] Lim CJ., et al., 1994
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 CRP-cAMP1 repressor serCp 957498 957519 -86.0 agagattcttTTGTGTGATGCAAGCCACATTTttgccctcaa nd [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [1], [4]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote Lrp activator serCp 957454 957468 -134.0 gggtgacctgACAGTAAAAACATCGgctttttgct nd [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [1]
Note(s): 1It is important to note that the CRP site position at the serC-aroA operon is unusual for this regulator Man TK,1997.2It is important to note that the CRP site position at the serC-aroA operon is unusual for this regulator Man TK,1997.


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -13.5 958761 958790 ttgcttaatcCCCACAGCCAGCCTGTGGGGTTTTTATTTctgttgtaga
  anti-terminator -4.6 958728 958769 agttcgaacgCCGTCACGGTTAATGCCGAAATTTTGCTTAATCCCCACAGCcagcctgtgg
  anti-anti-terminator -12.3 958689 958744 cgctggaaggCGTTAAAGCGCTGACAGACTTCATGGTTGAGTTCGAACGCCGTCACGGTTAATGCcgaaattttg
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"





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