RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: yojI
Gene(s): yojI   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: yojIp
+1: 2308641
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 26
Sequence: aaaaagaataaaaataagaattattattgctgtgcgcgcgaagatgtttaaactgcgggcTgtaattcattgtccgggttt
                           -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 Harley CB, Reynolds RP,1987.
Evidence: [HIPP]
[ICWHO]
[IHBCE]
Reference(s): [1] Huerta AM., et al., 2003
[2] Socias SB., et al., 2009
TF binding sites (TFBSs)
[Lrp,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Lrp-L-leucine activator yojIp 2308679 2308690 -43.5 aaaagaataaAAATAAGAATTAttattgctgt nd [GEA], [ICWHO] [2]
proximal Lrp-L-leucine activator yojIp 2308690 2308701 -54.5 caggcaggtaAAAAAGAATAAAaataagaatt nd [GEA], [ICWHO] [2]
remote Lrp-L-leucine activator yojIp 2308830 2308841 -194.5 cgctcaaacgTTTGTTGTTGGAacatggcgat nd [GEA], [ICWHO] [2]
remote Lrp-L-leucine activator yojIp 2308876 2308887 -240.5 ggcttacccgCGATTTTTCAATttggcggcct nd [GEA], [ICWHO] [2]
remote Lrp-L-leucine activator yojIp 2308940 2308951 -304.5 actgtcgctgCATCAGGATAAAgacgaaccgg nd [GEA], [ICWHO] [2]
remote Lrp-L-leucine activator yojIp 2309048 2309059 -412.5 catgccacagAGTTTTCATAATttatgtcaac nd [GEA], [ICWHO] [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 -11.8 2308614 2308658 gcgcgcgaagATGTTTAAACTGCGGGCTGTAATTCATTGTCCGGGTTTTCTGCAtggaacttct
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

 [IHBCE] Inferred by a human based on computational evidence

 [GEA] Gene expression analysis


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] Socias SB., Vincent PA., Salomon RA., 2009, The leucine-responsive regulatory protein, Lrp, modulates microcin J25 intrinsic resistance in Escherichia coli by regulating expression of the YojI microcin exporter., J Bacteriol 191(4):1343-8

 [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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