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Name: | ompR-envZ | ||||||||||
Gene(s): | envZ, ompR Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | The expression of the ompR-envZ operon is affected by antibiotic pressure. An increase in the expression of this operon is maintained during exposure to increasing concentrations of tetracycline Viveiros M, Dupont M, Rodrigues L, Couto I, Davin-Regli A, Martins M, Pagès JM, Amaral L,2007 The expression of this operon is increased by PhoB under acidic growth conditions Marzan LW,2013 but it is not known which promoter, of four transcribing the operon, is affected by PhoB. |
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Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified | ||||||||||
Reference(s): |
[1] Comeau DE., et al., 1985 [2] Matsuyama S., et al., 1986 [3] Mizuno T., et al., 1987 |
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Promoter | |||||||||||
Name: | ompRp3 | ||||||||||
+1: | 3536639 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 55 | ||||||||||
Sequence: |
atatgctttgtaacaatttaggctgaaattcataccagatttagctggtgacgaacgtgaGcttttttaagaatacacgct -35 -1+1 |
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Evidence: |
[COMP-AINF] [COMP-HINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
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Reference(s): |
[4] Huang L., et al., 1992 [5] Huerta AM., et al., 2003 |
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Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | tatccagtatCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTtgtcgtgccc | ||||||||||
Reference(s): |
[6] Feng CQ., et al., 2019 [7] Lesnik EA., et al., 2001 |
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 | ||||||||
remote | CRP-cyclic-AMP | activator | ompRp3 | 3536749 | 3536770 | -121.0 | cgcacattggGTATAACGTGATCATATCAACAgaatcaataa | nd | [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [4] |
Name: | ompR-envZ | ||||||||||
Synonym(s): | OP00246, ompB | ||||||||||
Gene(s): | envZ, ompR Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | The expression of the ompR-envZ operon is affected by antibiotic pressure. An increase in the expression of this operon is maintained during exposure to increasing concentrations of tetracycline Viveiros M, Dupont M, Rodrigues L, Couto I, Davin-Regli A, Martins M, Pagès JM, Amaral L,2007 The expression of this operon is increased by PhoB under acidic growth conditions Marzan LW,2013 but it is not known which promoter, of four transcribing the operon, is affected by PhoB. |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified | ||||||||||
Reference(s): |
[1] Comeau DE., et al., 1985 [2] Matsuyama S., et al., 1986 [3] Mizuno T., et al., 1987 |
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Promoter | |||||||||||
Name: | ompRp2 | ||||||||||
+1: | 3536685 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 101 | ||||||||||
Sequence: |
tcaataatgtttcgccgaataaattgtatacttaagctgctgtttaatatgctttgtaacAatttaggctgaaattcatac -35 -10 +1 |
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Evidence: |
[COMP-AINF] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [RS-EPT-CBR] |
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Reference(s): |
[4] Huang L., et al., 1992 [5] Huerta AM., et al., 2003 [8] Salgado H, et al., 2012 [9] Tsui P., et al., 1991 |
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Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | tatccagtatCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTtgtcgtgccc | ||||||||||
Reference(s): |
[6] Feng CQ., et al., 2019 [7] Lesnik EA., et al., 2001 |
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 | CRP-cyclic-AMP | activator | ompRp2 | 3536749 | 3536770 | -75.0 | cgcacattggGTATAACGTGATCATATCAACAgaatcaataa | nd | [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [4] |
Name: | ompR-envZ | ||||||||||
Gene(s): | envZ, ompR Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | The expression of the ompR-envZ operon is affected by antibiotic pressure. An increase in the expression of this operon is maintained during exposure to increasing concentrations of tetracycline Viveiros M, Dupont M, Rodrigues L, Couto I, Davin-Regli A, Martins M, Pagès JM, Amaral L,2007 The expression of this operon is increased by PhoB under acidic growth conditions Marzan LW,2013 but it is not known which promoter, of four transcribing the operon, is affected by PhoB. |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified | ||||||||||
Reference(s): |
[1] Comeau DE., et al., 1985 [2] Matsuyama S., et al., 1986 [3] Mizuno T., et al., 1987 |
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Promoter | |||||||||||
Name: | ompRp1 | ||||||||||
+1: | 3536707 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 123 | ||||||||||
Sequence: |
taacgtgatcatatcaacagaatcaataatgtttcgccgaataaattgtatacttaagctGctgtttaatatgctttgtaa -35 -10 +1 |
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Evidence: |
[COMP-AINF] [COMP-HINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
||||||||||
Reference(s): |
[4] Huang L., et al., 1992 [5] Huerta AM., et al., 2003 [9] Tsui P., et al., 1991 |
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Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | tatccagtatCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTtgtcgtgccc | ||||||||||
Reference(s): |
[6] Feng CQ., et al., 2019 [7] Lesnik EA., et al., 2001 |
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 | CRP-cyclic-AMP | repressor | ompRp1 | 3536749 | 3536770 | -53.0 | cgcacattggGTATAACGTGATCATATCAACAgaatcaataa | nd | [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [4] |
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 | IHF | repressor | ompRp1 | 3536694 | 3536706 | 8.0 | acttaagctgCTGTTTAATATGCtttgtaacaa | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [9] |
proximal | IHF | repressor | ompRp1 | 3536738 | 3536750 | -37.0 | atcatatcaaCAGAATCAATAATgtttcgccga | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [9] |
remote | IHF | repressor | ompRp1 | 3536803 | 3536815 | -102.0 | aggggcgtttTCATCTCGTTGATtccctttgtc | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [9] |
Name: | ompR-envZ | ||||||||||
Gene(s): | envZ, ompR Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | The expression of the ompR-envZ operon is affected by antibiotic pressure. An increase in the expression of this operon is maintained during exposure to increasing concentrations of tetracycline Viveiros M, Dupont M, Rodrigues L, Couto I, Davin-Regli A, Martins M, Pagès JM, Amaral L,2007 The expression of this operon is increased by PhoB under acidic growth conditions Marzan LW,2013 but it is not known which promoter, of four transcribing the operon, is affected by PhoB. |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified | ||||||||||
Reference(s): |
[1] Comeau DE., et al., 1985 [2] Matsuyama S., et al., 1986 [3] Mizuno T., et al., 1987 |
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Promoter | |||||||||||
Name: | ompRp4 | ||||||||||
+1: | 3536755 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 171 | ||||||||||
Sequence: |
tcatctcgttgattccctttgtctgtttgataatgcgcacattgggtataacgtgatcatAtcaacagaatcaataatgtt -35 -10 +1 |
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Evidence: |
[COMP-AINF] [COMP-HINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
||||||||||
Reference(s): |
[4] Huang L., et al., 1992 [5] Huerta AM., et al., 2003 |
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Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | tatccagtatCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTtgtcgtgccc | ||||||||||
Reference(s): |
[6] Feng CQ., et al., 2019 [7] Lesnik EA., et al., 2001 |
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 | CRP-cyclic-AMP | repressor | ompRp4 | 3536749 | 3536770 | -5.0 | cgcacattggGTATAACGTGATCATATCAACAgaatcaataa | nd | [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [4] |
Reference(s) |
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