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Name: | ddpXABCDF | ||||||||||
Gene(s): | ddpF, ddpD, ddpC, ddpB, ddpA, ddpX Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Evidence: | [IC-ADJ-GENES-SAME-BIO-PROCESS] 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: | ddpXp1 | ||||||||||
+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: |
[COMP-AINF] [COMP-AINF-POSITIONAL-IDENTIFICATION] [COMP-AINF-SIMILAR-TO-CONSENSUS] [COMP-HINF] [COMP-HINF-POSITIONAL-IDENTIFICATION] [EXP-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 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | NtrC-phosphorylated | activator | ddpXp1 | 1563187 | 1563203 | -88.0 | tgcactacgcTGCACAAATGTTGATCAaaagttaaaa | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [2] |
remote | NtrC-phosphorylated | activator | ddpXp1 | 1563208 | 1563224 | -109.0 | cttcccctctTGCACCAAAACTGCACTacgctgcaca | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [2] |
Name: | ddpXABCDF |
Gene(s): | ddpF, ddpD, ddpC, ddpB, ddpA, ddpX Genome Browser M3D Gene expression COLOMBOS |
Evidence: | [IC-ADJ-GENES-SAME-BIO-PROCESS] 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 |
Evidence: |
[COMP-HINF] [COMP-HINF-POSITIONAL-IDENTIFICATION] [EXP-IEP] |
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: | [IC-ADJ-GENES-SAME-BIO-PROCESS] 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 |
Evidence: |
[COMP-HINF] [COMP-HINF-POSITIONAL-IDENTIFICATION] [EXP-IEP] |
Reference(s): | [1] Lessard IA., et al., 1998 |
Reference(s) |
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