RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: ykgR
Gene(s): ykgR   Genome Browser M3D Gene expression COLOMBOS
Note(s): ykgR gene expression is induced upon heat shock Hemm MR,2010
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Hemm MR., et al., 2010
Promoter
Name: ykgRp
+1: 313285
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 43
Sequence: ctattcaaatttgtgatacatgtcaaaaaattggttgaccaaactcgttatttatataagGgcacttacgaagtgcactct
                                    -35                   -1+1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Hemm MR., et al., 2010
[2] Huerta AM., et al., 2003
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 ykgRp 313316 313338 -41.5 catctattcaAATTTGTGATACATGTCAAAAAAttggttgacc nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [1]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF] Inferred by a human based on computational evidence

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

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

 [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.


Reference(s)    

 [1] Hemm MR., Paul BJ., Miranda-Rios J., Zhang A., Soltanzad N., Storz G., 2010, Small stress response proteins in Escherichia coli: proteins missed by classical proteomic studies., J Bacteriol 192(1):46-58

 [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

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