RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: cynTSX
Synonym(s): OP00193
Gene(s): cynT, cynS, cynX   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Anderson PM., et al., 1990
[2] Lamblin AF., et al., 1994
[3] Sung YC., et al., 1988
Promoter
Name: cynTp
+1: 358773
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 26
Sequence: atggaactcatcataaatgagacttttaccttatgacaatcggcgagtagtctgcctctcAttccagagacagacagaggt
                          -35                   -10         +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [4] Huerta AM., et al., 2003
[5] Lamblin AF., et al., 1993
[3] Sung YC., et al., 1988
Terminator(s)
Type: rho-independent
Sequence: gaacttgtagGCCTGATAAGCGCAGCGTATCAGGCaatttttata
Reference(s): [3] Sung YC., et al., 1988
TF binding sites (TFBSs)
[CynR,+] 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 CynR-cyanate activator cynTp 358700 358708 -69.0 ttcgcaacctATAAGTAAAtccaatggaa nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [2]
proximal CynR-cyanate activator cynTp 358738 358746 -31.0 aatgagacttTTACCTTATgacaatcggc nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] nd [2]


Transcription unit          
Name: cynTS
Gene(s): cynT, cynS   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [3] Sung YC., et al., 1988
Promoter
Name: cynTp
+1: 358773
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 26
Sequence: atggaactcatcataaatgagacttttaccttatgacaatcggcgagtagtctgcctctcAttccagagacagacagaggt
                          -35                   -10         +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [4] Huerta AM., et al., 2003
[5] Lamblin AF., et al., 1993
[3] Sung YC., et al., 1988
Terminator(s)
Type: rho-independent
Sequence: ttacccgcaaAGTGCGCTGCTGCTTAGCAGCGCACTgcttggtggg
Reference(s): [3] Sung YC., et al., 1988
TF binding sites (TFBSs)
[CynR,+] 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 CynR-cyanate activator cynTp 358700 358708 -69.0 ttcgcaacctATAAGTAAAtccaatggaa nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [2]
proximal CynR-cyanate activator cynTp 358738 358746 -31.0 aatgagacttTTACCTTATgacaatcggc nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] nd [2]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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

 [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.

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins


Reference(s)    

 [1] Anderson PM., Sung YC., Fuchs JA., 1990, The cyanase operon and cyanate metabolism., FEMS Microbiol Rev 7(3-4):247-52

 [2] Lamblin AF., Fuchs JA., 1994, Functional analysis of the Escherichia coli K-12 cyn operon transcriptional regulation., J Bacteriol 176(21):6613-22

 [3] Sung YC., Fuchs JA., 1988, Characterization of the cyn operon in Escherichia coli K12., J Biol Chem 263(29):14769-75

 [4] 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

 [5] Lamblin AF., Fuchs JA., 1993, Expression and purification of the cynR regulatory gene product: CynR is a DNA-binding protein., J Bacteriol 175(24):7990-9

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