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| Operon |  |
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| Name: | osmC |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | osmC | |||||||||
| Gene(s): | osmC Genome Browser M3D Gene expression COLOMBOS | |||||||||
| Note(s): | The osmC gene is upregulated by long-term (8 to 12 h) exposure of E. coli to some biocides 32385082. The osmC gene is upregulated at 1.25 M MgSO4 (Magnesium Sulfate); this upregulatioin may arise from increased production of RpoS and the transcription of osmC from osmCp2, or in a RpoS-independent way from osmCp1 during the exponential growth phase. Another possibility is the downregulation of H-NS and LrP or decreased binding affinities to both promoters 32349403 A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for osmC . This structure could regulate the expression of the gene, as observed for hemL gene expression 31964733. |
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| Evidence: | [AISGDTU] Automated inference that a single-gene directon is a transcription unit | |||||||||
| Promoter | ||||||||||
| Name: | osmCp1 | |||||||||
| +1: | 1556596 | |||||||||
| Sigma Factor: | Sigma70 Sigmulon | |||||||||
| Distance from start of the gene: | 29 | |||||||||
| Sequence: |
gccggattttattcggaatatcctgcttatcctcgtgctgtttctcacgtagtctataatTtcctttttaagcccacagga -35 -10 +1 |
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| Note(s): | The osmCp1 activity is normally independent of σS and it leads to a basal level of expression during exponential phase. osmCp1 and osmCp2 overlap, but they appear to be independent of one another. The two promoters are both growth phase and osmotically regulated. They are sensitive to the action of the global regulators H-NS and Lrp, but the H-NS negative effect on these promoters could be indirect, because there are no putative binding sites of H-NS in the promoter region. | |||||||||
| Evidence: |
[HIPP] [ICWHO] [RS-EPT-CBR] [TIM] |
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| Reference(s): |
[1] Bouvier J., et al., 1998 [2] Gordia S., et al., 1996 [3] Gutierrez C., et al., 1991 [4] Huerta AM., et al., 2003 [5] Salgado H, et al., 2012 |
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| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| proximal | Lrp1 | repressor | osmCp1 | 1556537 | 1556551 | -52.0 | aatattttcgCCGGATTTTATTCGGAatatcctgct | nd | [APIORCISFBSCS], [BPP], [GEA], [SM] | [1] |
| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| proximal | RcsB-Pasp56 | activator | osmCp1 | 1556548 | 1556561 | -41.5 | cggattttatTCGGAATATCCTGCTtatcctcgtg | nd | [BPP], [GEA], [SM] | [8], [9] |
| Note(s): |
1Bouvier J,1998mentioned that they do not know if the inhibitory effect of H-NS on transcription from osmCp1 is direct or indirect. The effect on osmCp1 was independent of σS.1Lrp affected the expression of osmCp1 since it repressed the transcription of osmCp1. This regulator hampers E-sigma S action on osmCp1. Lrp is an important factor in the shift of the effect on the transcription by E-sigma S of osmCp1 (repressor) and osmCp2 (activator) Bouvier J,19981Lrp affected the expression of osmCp1 since it repressed the transcription of osmCp1. This regulator hampers E-sigma S action on osmCp1. Lrp is an important factor in the shift of the effect on the transcription by E-sigma S of osmCp1 (repressor) and osmCp2 (activator) Bouvier J,1998 4Bouvier J,1998mentioned that they do not know if the inhibitory effect of H-NS on transcription from osmCp1 is direct or indirect. The effect on osmCp1 was independent of σS. |
| Name: | osmC | |||||||||
| Gene(s): | osmC Genome Browser M3D Gene expression COLOMBOS | |||||||||
| Note(s): | The osmC gene is upregulated by long-term (8 to 12 h) exposure of E. coli to some biocides 32385082. The osmC gene is upregulated at 1.25 M MgSO4 (Magnesium Sulfate); this upregulatioin may arise from increased production of RpoS and the transcription of osmC from osmCp2, or in a RpoS-independent way from osmCp1 during the exponential growth phase. Another possibility is the downregulation of H-NS and LrP or decreased binding affinities to both promoters 32349403 A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for osmC . This structure could regulate the expression of the gene, as observed for hemL gene expression 31964733. |
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| Evidence: | [AISGDTU] Automated inference that a single-gene directon is a transcription unit | |||||||||
| Promoter | ||||||||||
| Name: | osmCp2 | |||||||||
| +1: | 1556606 | |||||||||
| Sigma Factor: | Sigma38 Sigmulon | |||||||||
| Distance from start of the gene: | 19 | |||||||||
| Sequence: |
attcggaatatcctgcttatcctcgtgctgtttctcacgtagtctataatttcctttttaAgcccacaggagagcaacaat -35 -10 +1 |
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| Note(s): | This promoter is induced during the decelerating phase. osmCp1 and osmCp2 overlap, but they appear to be independent of one another. The two promoters are both growth-phase and osmotically regulated. They are sensitive to the action of the global regulators H-NS and Lrp, but the H-NS negative effect on these promoters could be indirect, because there are no putative binding sites of H-NS in the promoter region. | |||||||||
| Evidence: |
[HIPP] [ICWHO] [TIM] |
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| Reference(s): |
[10] Bordes P., et al., 2000 [1] Bouvier J., et al., 1998 [2] Gordia S., et al., 1996 [3] Gutierrez C., et al., 1991 [4] Huerta AM., et al., 2003 |
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| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| proximal | Lrp1 | activator | osmCp2 | 1556537 | 1556551 | -62.0 | aatattttcgCCGGATTTTATTCGGAatatcctgct | nd | [APIORCISFBSCS], [BPP], [GEA], [SM] | [1] |
| Note(s): |
1When H-NS was absent, transcription from osmCp2 was stimulated but remained totally σS dependent. 1Lrp affected the expression of osmCp2 since it activated the transcription of osmCp2. Lrp is an important factor in the shift of the effect on the transcription by E-sigma S of osmCp1 (repressor) and osmCp2 (activator) Bouvier J,19981Lrp affected the expression of osmCp2 since it activated the transcription of osmCp2. Lrp is an important factor in the shift of the effect on the transcription by E-sigma S of osmCp1 (repressor) and osmCp2 (activator) Bouvier J,1998 2When H-NS was absent, transcription from osmCp2 was stimulated but remained totally σS dependent. |
| Reference(s) |
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|---|---|
[HIPP] Human inference of promoter position