RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: ansB
Synonym(s): OP00102
Gene(s): ansB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
Reference(s): [1] Bonthron DT. 1990
[2] Jennings MP., et al., 1990
[3] Scott S., et al., 1995
Promoter
Name: ansBp2
+1: 3100751
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 23
Sequence: tcacgttgtaaattgtttaacgtcaaatttcccatacagagctaagggataatgcgtagcGttcacgtaactggaggaatg
                           -35                       -10    +1                   
Evidence: [COMP-AINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[RS-EPT-CBR]
Reference(s): [4] Huerta AM., et al., 2003
[5] Jennings MP., et al., 1993
[6] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: aagtgaaaaaGCCCCGGCACGATACCGGGGCgaggcgatta
Reference(s): [2] Jennings MP., et al., 1990
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP activator ansBp2 3100832 3100853 -91.5 taattcttcgTTTTGTTACCTGCCTCTAACTTtgtagatctc nd [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS], [EXP-IMP-SITE-MUTATION] nd nd
[FNR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FNR activator ansBp2 3100786 3100799 -41.5 acgttgtaaaTTGTTTAACGTCAAatttcccata nd [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS], [EXP-IMP-SITE-MUTATION] nd nd


Transcription unit          
Name: ansB
Gene(s): ansB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
Reference(s): [2] Jennings MP., et al., 1990
Promoter
Name: ansBp1
+1: 3100790
Distance from start of the gene: 62
Sequence: tgttacctgcctctaactttgtagatctccaaaatatattcacgttgtaaattgtttaacGtcaaatttcccatacagagc
Evidence: [EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Jennings MP., et al., 1990
Terminator(s)
Type: rho-independent
Sequence: aagtgaaaaaGCCCCGGCACGATACCGGGGCgaggcgatta
Reference(s): [2] Jennings MP., et al., 1990
TF binding sites (TFBSs)
[Fis,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Fis repressor ansBp1 3100810 3100824 -27.0 ctttgtagatCTCCAAAATATATTCacgttgtaaa nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] W [7]
proximal Fis repressor ansBp1 3100852 3100866 -69.0 tttttatgccGTTTAATTCTTCGTTttgttacctg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] W [7]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

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

 [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] Binding of cellular extracts

 [EXP-IMP-SITE-MUTATION] Site mutation

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis

 [COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences


Reference(s)    

 [1] Bonthron DT., 1990, L-asparaginase II of Escherichia coli K-12: cloning, mapping and sequencing of the ansB gene., Gene 91(1):101-5

 [2] Jennings MP., Beacham IR., 1990, Analysis of the Escherichia coli gene encoding L-asparaginase II, ansB, and its regulation by cyclic AMP receptor and FNR proteins., J Bacteriol 172(3):1491-8

 [3] Scott S., Busby S., Beacham I., 1995, Transcriptional co-activation at the ansB promoters: involvement of the activating regions of CRP and FNR when bound in tandem., Mol Microbiol 18(3):521-31

 [4] 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

 [5] Jennings MP., Beacham IR., 1993, Co-dependent positive regulation of the ansB promoter of Escherichia coli by CRP and the FNR protein: a molecular analysis., Mol Microbiol 9(1):155-64

 [6] 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.

 [7] Bradley MD., Beach MB., de Koning AP., Pratt TS., Osuna R., 2007, Effects of Fis on Escherichia coli gene expression during different growth stages., Microbiology 153(Pt 9):2922-40

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