RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: polB
Synonym(s): dinA
Gene(s): polB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The polB gene could be belong to the araBAD operon, because it was observed that the RNAP reads through the terminator downstream of araD Stringer AM,2014
Promoter
Name: polBp
+1: 65803
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 23
Sequence: gggcagtaatgactgtataaaaccacagccaatcaaacgaaaccaggctatactcaagccTggttttttgatggattttca
                           -35                   -10        +1                   
Note(s): We assigned a putative transcription start site to this promoter based on the observation that the majority of the promoters, whose transcription start sites were determined experimentally, present a distance of 6 nucleotides between the transcription start site and the -10 box. Lewis LK,1992predicted a potential polB promoter site (-35 and -10 regions) using three different computational search programs.
Evidence: [AIPP]
[ICWHO]
Reference(s): [1] Huerta AM., et al., 2003
[2] Lewis LK., et al., 1992
TF binding sites (TFBSs)
[LexA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal LexA repressor polBp 65834 65853 -40.5 gggcagtaatGACTGTATAAAACCACAGCCaatcaaacga nd [GEA], [AIBSCS], [BPP] [2]


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Translational
Strand: reverse
Evidence: [ICA] Inferred by computational analysis
Reference(s): [3] Merino E, et al., 2005
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -15.7 65797 65825 ccaatcaaacGAAACCAGGCTATACTCAAGCCTGGTTTtttgatggat
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"


Evidence    

 [AIPP] Automated inference of promoter position

 [ICWHO] Inferred computationally without human oversight

 [GEA] Gene expression analysis

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BPP] Binding of purified proteins


Reference(s)    

 [1] 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

 [2] Lewis LK., Jenkins ME., Mount DW., 1992, Isolation of DNA damage-inducible promoters in Escherichia coli: regulation of polB (dinA), dinG, and dinH by LexA repressor., J Bacteriol 174(10):3377-85

 [3] Merino E, Yanofsky C., 2005, Transcription attenuation: a highly conserved regulatory strategy used by bacteria., Trends Genet. 2005 May;21(5):260-4.

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