RegulonDB RegulonDB 10.9: Operon Form
   

dicB-ydfDE-insD7-intQ operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: dicB-ydfDE-insD7-intQ
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: dicB-ydfDE-insD-intQ
Gene(s): dicB, ydfD, ydfE, insD7, intQ   Genome Browser M3D Gene expression COLOMBOS
Note(s): The dicB gene of this operon (dicB-ydfDE-insD-intD) is clearly involved in the replication process Cam K,1988. Bejar S,1985, but for the other genes further studies are needed to prove their participation in the same replication process Cam K,1988. This operon expression is coupled to the replication by the DicA and DicC regulatory effects Bejar S,1985. 6343351.
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Cam K., et al., 1988
Promoter
Name: dicBp
+1: 1649597
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 12
Sequence: attgttaactggttaacgtcacctggaggcaccaggcactgcatcacaaaattcattgttGaggacgcgataatgaaaacg
                       -35                     -10          +1                   
Note(s): We assigned a putative transcriptional start site to this promoter based on
the observation that the majority of the promoters, whose transcriptional
start sites were determined experimentally, present a distance of 6
nucleotides between the transcriptional start site and the -10 box.
Evidence: [HIPP]
[ICWHO]
[TASES]
Reference(s): [1] Cam K., et al., 1988
[2] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[DicA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd DicA repressor dicBp nd nd nd nd nd [BPP], [GEA], [IGI] [3]


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: forward
Evidence: [ICA] Inferred by computational analysis
Reference(s): [4] Merino E, et al., 2005
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -14.6 1649397 1649440 gtgacgtttgGCGGTATCAGTTTTACTCCGTGACTGCTCTGCCGCCCTTTTTAaagtgaattt
  anti-terminator -12.4 1649365 1649400 ccgctgcaacGCCCTCTGTTATCAATTTTCTGGTGACGTTTGGCGgtatcagttt
  anti-anti-terminator -5.4 1649328 1649383 cgggttgtcaGGTTGACCATACGCTTAAGTGACAACCCCGCTGCAACGCCCTCTGTTATCAATTTtctggtgacg
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    

 [HIPP] Human inference of promoter position

 [ICWHO] Inferred computationally without human oversight

 [TASES] Traceable author statement to experimental support

 [BPP] Binding of purified proteins

 [GEA] Gene expression analysis

 [IGI] Inferred from genetic interaction


Reference(s)    

 [1] Cam K., Bejar S., Gil D., Bouche JP., 1988, Identification and sequence of gene dicB: translation of the division inhibitor from an in-phase internal start., Nucleic Acids Res 16(14A):6327-38

 [2] 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

 [3] Bejar S., Bouche JP., 1985, A new dispensable genetic locus of the terminus region involved in control of cell division in Escherichia coli., Mol Gen Genet 201(2):146-50

 [4] 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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