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Name: | rutABCDEFG | ||||||||||
Gene(s): | rutG, rutF, rutE, rutD, rutC, rutB, rutA 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] Loh KD., et al., 2006 [2] Zimmer DP., et al., 2000 |
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Promoter | |||||||||||
Name: | rutAp | ||||||||||
+1: | 1074026 | ||||||||||
Sigma Factor: | Sigma54 Sigmulon | ||||||||||
Distance from start of the gene: | 15 | ||||||||||
Sequence: |
aacagattaataacattaactttttaaaaactggcatccgctttgcaaacaagccaatacGcggctgaaaaggatatgcag -24 -12 +1 |
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Note(s): | This promoter was identified by microarray and ChIP 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 | ||||||||
remote | ArcA-phosphorylated | activator | rutAp | 1074116 | 1074130 | -97.0 | ctgttttgacCGTTTAGTCCACTTTttaccagata | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
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 | ||||||||
remote | NtrC-phosphorylated | activator | rutAp | 1074142 | 1074158 | -124.0 | cgcgcacagaTGCATGTTTTATGTGCAactgttttga | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [2] |
remote | NtrC-phosphorylated | activator | rutAp | 1074163 | 1074179 | -145.0 | ctcgaccttcTGCACTCTCATCGCGCAcagatgcatg | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [2] |
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 | ||||||||
remote | PhoP-phosphorylated | activator | rutAp | 1074125 | 1074140 | -106.0 | ttatgtgcaaCTGTTTTGACCGTTTAgtccactttt | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [6] |
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 | ||||||||
remote | RutR | repressor | rutAp | 1074120 | 1074138 | -102.5 | atgtgcaactGTTTTGACCGTTTAGTCCActttttacca | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [7], [8] |
Reference(s) |
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