RegulonDB RegulonDB 11.2: Operon Form
   

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




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


Transcription unit          
Name: pgi
Gene(s): pgi   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] Inferred computationally without human oversight
Promoter
Name: pgip
+1: 4233722
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 36
Sequence: acattacgctaacggcactaaaaccatcacatttttctgtgactggcgctacaatcttccAaagtcacaattctcaaaatc
                          -35                     -10       +1                   
Note(s): The pgip promoter has been studied, along with other promoters, for use in synthetic biology and metabolic engineering. It appears to be stronger than the lac-inducible promoter Guo J, Feng S, Cheng X,2020.
Evidence: [COMP-AINF]
[COMP-HINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Froman BE., et al., 1989
[2] Huerta AM., et al., 2003
[3] Olvera L., et al., 2009
TF binding sites (TFBSs)
[SoxS,+] 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 SoxS activator pgip 4233673 4233693 -39.5 cattacgctaACGGCACTAAAACCATCACATttttctgtga nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [4], [5]


Transcription unit          
Name: pgi
Gene(s): pgi   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] Inferred computationally without human oversight
Promoter
Name: pgip2
+1: 4233722
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 36
Sequence: acattacgctaacggcactaaaaccatcacatttttctgtgactggcgctacaatcttccAaagtcacaattctcaaaatc
                            -35              -10            +1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Froman BE., et al., 1989
[2] Huerta AM., et al., 2003
[3] Olvera L., et al., 2009
TF binding sites (TFBSs)
[SoxS,+] 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 SoxS activator pgip2 4233673 4233693 -39.5 cattacgctaACGGCACTAAAACCATCACATttttctgtga nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [4], [5]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP] High-throughput transcription initiation mapping

 [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] Froman BE., Tait RC., Gottlieb LD., 1989, Isolation and characterization of the phosphoglucose isomerase gene from Escherichia coli., Mol Gen Genet 217(1):126-31

 [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] Olvera L., Mendoza-Vargas A., Flores N., Olvera M., Sigala JC., Gosset G., Morett E., Bolivar F., 2009, Transcription analysis of central metabolism genes in Escherichia coli. Possible roles of sigma38 in their expression, as a response to carbon limitation., PLoS One 4(10):e7466

 [4] Martin RG., Rosner JL., 2002, Genomics of the marA/soxS/rob regulon of Escherichia coli: identification of directly activated promoters by application of molecular genetics and informatics to microarray data., Mol Microbiol 44(6):1611-24

 [5] Rungrassamee W., Liu X., Pomposiello PJ., 2008, Activation of glucose transport under oxidative stress in Escherichia coli., Arch Microbiol 190(1):41-9

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