RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: tpx
Gene(s): tpx   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Kim HK., et al., 1996
Promoter
Name: tpxp
+1: 1388844
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 33
Sequence: ctgcggattaagcgcaaatagcgtttgctgtgttattgacagttagcataaactaggtgtGacgttaactatatgtaaaca
                              -35                     -10   +1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[EXP-IMP]
Reference(s): [2] Huerta AM., et al., 2003
[1] Kim HK., et al., 1996
TF binding sites (TFBSs)
[ArcA,-] 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 ArcA-phosphorylated repressor tpxp 1388859 1388873 -22.0 cgtttgctgtGTTATTGACAGTTAGcataaactag nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [3]
[FNR,-] 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 FNR repressor tpxp 1388856 1388869 -18.5 tgctgtgttaTTGACAGTTAGCATaaactaggtg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [3]


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-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [EXP-IMP] Inferred from mutant phenotype

 [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] Kim HK., Kim SJ., Lee JW., Lee JW., Cha MK., Kim IH., 1996, Identification of promoter in the 5'-flanking region of the E. coli thioredoxin-linked thiol peroxidase gene: evidence for the existence of oxygen-related transcriptional regulatory protein., Biochem Biophys Res Commun 221(3):641-6

 [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] Kim SJ., Han YH., Kim IH., Kim HK., 1999, Involvement of ArcA and Fnr in expression of Escherichia coli thiol peroxidase gene., IUBMB Life 48(2):215-8

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