RegulonDB RegulonDB 10.9: Operon Form
   

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




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


Transcription unit       
Name: gspCDEFGHIJKLMO
Gene(s): gspC, gspD, gspE, gspF, gspG, gspH, gspI, gspJ, gspK, gspL, gspM, gspO   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: gspCp1
+1: 3455482
Distance from start of the gene: 96
Sequence: attatccttaatcataaaaataatgtatgtatttattaattaaatacatattactaatatAaataaattttgcttgattca
Evidence: [TIM]
Reference(s): [1] Francetic O., et al., 2000


Transcription unit          
Name: gspCDEFGHIJKLMO
Gene(s): gspC, gspD, gspE, gspF, gspG, gspH, gspI, gspJ, gspK, gspL, gspM, gspO   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: gspCp2
+1: 3455527
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 51
Sequence: acatattactaatataaataaattttgcttgattcatgcaagcggcattaatactatttaTactaacgtcaatatacaacc
                             -35                    -10     +1                   
Evidence: [HIPP]
[ICWHO]
[TIM]
Reference(s): [1] Francetic O., et al., 2000
[2] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[H-NS,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd H-NS repressor gspCp2 nd nd nd nd nd [BPP], [GEA], [IGI] [1]
[SlyA,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal SlyA activator gspCp2 3455478 3455477 -49.5 catattactaAtataaataaa nd [AIBSCS], [BPP], [GEA] [3]


Transcription unit          
Name: gspCDEFGHIJKLMO
Gene(s): gspC, gspD, gspE, gspF, gspG, gspH, gspI, gspJ, gspK, gspL, gspM, gspO   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: gspCp3
+1: 3455531
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 47
Sequence: attactaatataaataaattttgcttgattcatgcaagcggcattaatactatttatactAacgtcaatatacaacccacc
                                -35                    -10  +1                   
Evidence: [HIPP]
[ICWHO]
[TIM]
Reference(s): [1] Francetic O., et al., 2000
[2] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[Fur,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote Fur-Fe2+ repressor gspCp3 3455677 3455695 156.0 gattatttttAATGTGAATTATTTCCATACaactatagtt nd [APIORCISFBSCS], [BPP] [4]
[H-NS,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd H-NS repressor gspCp3 nd nd nd nd nd [BPP], [GEA], [IGI] [1]


Evidence    

 [TIM] Transcription initiation mapping

 [HIPP] Human inference of promoter position

 [ICWHO] Inferred computationally without human oversight

 [BPP] Binding of purified proteins

 [GEA] Gene expression analysis

 [IGI] Inferred from genetic interaction

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.


Reference(s)    

 [1] Francetic O., Belin D., Badaut C., Pugsley AP., 2000, Expression of the endogenous type II secretion pathway in Escherichia coli leads to chitinase secretion., EMBO J 19(24):6697-703

 [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] Curran TD., Abacha F., Hibberd SP., Rolfe MD., Lacey MM., Green J., 2017, Identification of new members of the Escherichia coli K-12 MG1655 SlyA regulon., Microbiology 163(3):400-409

 [4] Chen Z., Lewis KA., Shultzaberger RK., Lyakhov IG., Zheng M., Doan B., Storz G., Schneider TD., 2007, Discovery of Fur binding site clusters in Escherichia coli by information theory models., Nucleic Acids Res 35(20):6762-77

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