RegulonDB RegulonDB 11.1: Operon Form
   

yadV-htrE operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit          
Name: yadV-htrE
Synonym(s): ecpD, htrE
Gene(s): htrE, yadV   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Raina S., et al., 1993
Promoter
Name: yadVp3
+1: 156214
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 13
Sequence: atgaatatacagggaataataatttctattttatattattccctgttttaattaactctaTcagggatggtttatgttttt
                            -35                       -10   +1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Raina S., et al., 1993
TF binding sites (TFBSs)
[IHF,+] 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
nd IHF activator yadVp3 nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS] W [1]


Transcription unit          
Name: yadV-htrE
Synonym(s): ecpD, htrE
Gene(s): htrE, yadV   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Raina S., et al., 1993
Promoter
Name: yadVp2
+1: 156224
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 23
Sequence: aattgattgaatgaatatacagggaataataatttctattttatattattccctgttttaAttaactctatcagggatggt
                           -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] Raina S., et al., 1993
TF binding sites (TFBSs)
[IHF,+] 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
nd IHF activator yadVp2 nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS] W [1]


Transcription unit          
Name: yadV-htrE
Synonym(s): ecpD, htrE
Gene(s): htrE, yadV   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Raina S., et al., 1993
Promoter
Name: yadVp1
+1: 156235
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 34
Sequence: ttcaccagttaaattgattgaatgaatatacagggaataataatttctattttatattatTccctgttttaattaactcta
                                 -35                        +10                  
Evidence: [COMP-AINF]
[COMP-HINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Raina S., et al., 1993
TF binding sites (TFBSs)
[IHF,+] 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
nd IHF activator yadVp1 nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS] W [1]


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

 [EXP-IMP] Inferred from mutant phenotype


Reference(s)    

 [1] Raina S., Missiakas D., Baird L., Kumar S., Georgopoulos C., 1993, Identification and transcriptional analysis of the Escherichia coli htrE operon which is homologous to pap and related pilin operons., J Bacteriol 175(16):5009-21

 [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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