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| Operon |  |
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| Name: | ddpXABCDF |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | ddpXABCDF | |||||||||
| Gene(s): | ddpF, ddpD, ddpC, ddpB, ddpA, ddpX Genome Browser M3D Gene expression COLOMBOS | |||||||||
| Evidence: | [PAGTSBP] Products of adjacent genes in the same biological process | |||||||||
| Reference(s): |
[1] Lessard IA., et al., 1998 [2] Zimmer DP., et al., 2000 |
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| Promoter | ||||||||||
| Name: | ddpXp | |||||||||
| +1: | 1563107 | |||||||||
| Sigma Factor: | Sigma54 Sigmulon | |||||||||
| Distance from start of the gene: | 31 | |||||||||
| Sequence: |
ttaagccagcattctggcgcttatcccggcatggcatgagatctgcataagcggaaagcgCagcaatttttgtcttataca -24 -12 +1 |
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| Note(s): | This promoter was identified by microarray assays with a mutant σ54 strain and a σ54-overexpressing strain, and by σ54-related promoter element identification Zhao K,2010 We assigned a putative transcription start site to this promoter based on the observation that the majority of the σ54-dependent promoters, whose transcription start sites were determined experimentally, present a distance of 11 nucleotides between the transcription start site and the -12 box Barrios H,1999. |
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| Evidence: |
[AIPP] [HIPP] [ICWHO] [IEP] |
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| Reference(s): |
[3] Huerta AM., et al., 2003 [4] Reitzer L., et al., 2001 [5] Zhao K., et al., 2010 |
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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 | NtrC-Pasp | activator | ddpXp | 1563187 | 1563203 | -88.0 | ctgcactacgCTGCACAAATGTTGATCAaaagttaaaa | nd | [AIBSCS], [GEA] | [2] |
| remote | NtrC-Pasp | activator | ddpXp | 1563208 | 1563224 | -109.0 | acttcccctcTTGCACCAAAACTGCACTacgctgcaca | nd | [AIBSCS], [GEA] | [2] |
| Name: | ddpXABCDF |
| Gene(s): | ddpF, ddpD, ddpC, ddpB, ddpA, ddpX Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [PAGTSBP] Products of adjacent genes in the same biological process |
| Reference(s): | [1] Lessard IA., et al., 1998 |
| Promoter | |
| Name: | ddpXp2 |
| +1: | 1563201 |
| Sigma Factor: | Sigma38 Sigmulon |
| Distance from start of the gene: | 125 |
| Sequence: |
tacgattccgggagattccttccttaacttcccctcttgcaccaaaactgcactacgctgCacaaatgttgatcaaaagtt -10 +1 |
| Note(s): | We assigned a putative transcription start site to this promoter based on the observation that the majority of the promoters, whose transcription start sites were determined experimentally, present a distance of 6 nucleotides between the transcription start site and the -10 box. |
| Evidence: | [HIPP] |
| Reference(s): | [1] Lessard IA., et al., 1998 |
| Name: | ddpXABCDF |
| Gene(s): | ddpF, ddpD, ddpC, ddpB, ddpA, ddpX Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [PAGTSBP] Products of adjacent genes in the same biological process |
| Reference(s): | [1] Lessard IA., et al., 1998 |
| Promoter | |
| Name: | ddpXp3 |
| +1: | 1563249 |
| Sigma Factor: | Sigma38 Sigmulon |
| Distance from start of the gene: | 173 |
| Sequence: |
gggttttcatttaacgtgacactgtcacttaaatactgtgatttcagctacgattccgggAgattccttccttaacttccc -10 +1 |
| Note(s): | We assigned a putative transcription start site to this promoter based on the observation that the majority of the promoters, whose transcription start sites were determined experimentally, present a distance of 6 nucleotides between the transcription start site and the -10 box. |
| Evidence: | [HIPP] |
| Reference(s): | [1] Lessard IA., et al., 1998 |
| Reference(s) |
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[AIPP] Automated inference of promoter position