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Name: | cvpA-purF-ubiX | ||||||||||||
Gene(s): | ubiX, purF, cvpA Genome Browser M3D Gene expression COLOMBOS | ||||||||||||
Evidence: | [PM] Polar mutation | ||||||||||||
Reference(s): | [1] Makaroff CA., et al., 1985 | ||||||||||||
Promoter | |||||||||||||
Name: | cvpAp2 | ||||||||||||
+1: | 2430770 | ||||||||||||
Distance from start of the gene: | 7 | ||||||||||||
Sequence: |
Evidence: |
[HTTIM] |
[TIM] Reference(s): |
[2] Maciag A., et al., 2011 |
[1] Makaroff CA., et al., 1985 Terminator(s) |
| Type: |
rho-independent |
Sequence: |
ggttgcaaaaTTGCCCTGAAACAGGGCAAcagcggagtt |
Reference(s): |
[3] Nonet ML., et al., 1987
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Name: | cvpA-purF-ubiX | |||||||||
Gene(s): | ubiX, purF, cvpA Genome Browser M3D Gene expression COLOMBOS | |||||||||
Evidence: | [BTEI] Boundaries of transcription experimentally identified | |||||||||
Reference(s): | [4] Meng LM., et al., 1990 | |||||||||
Promoter | ||||||||||
Name: | cvpAp1 | |||||||||
+1: | 2430800 | |||||||||
Sigma Factor: | Sigma70 Sigmulon | |||||||||
Distance from start of the gene: | 37 | |||||||||
Sequence: |
attgatgcgcgggaaggaaatccctacgcaaacgttttctttttctgttagaatgcgcccCgaacaggatgacagggcgta -35 -10 +1 |
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Note(s): | 554 promoter regions from Escherichia coli were aligned in order to analyze their sequence similarities. Mitchell et al. (2003) Mitchell JE,2003 focused on conservation, patterns, similarities, and differences between promoters with or without an extended -10 5'-TG-3' element and other conserved elements. They experimentally showed that, for several naturally occurring extended -10 promoters, the 5'-TRTG-3' motif is an important determinant for promoter activity. Eleven promoters were selected for further experimental study. Of those, the seven most active (aroF > ompF > envA > purFp1 > purEF > purMN > gyrA) were investigated about the contribution of the extended -10 motif by changing the 5'-TG-3'. Promoters with poor matches to the -10 and -35 consensus hexamers are more dependent on the 5'-TG-3' motif, and this plays a similar role on different promoters. The dinucleotide at -17 and -16 in aroFp results in similar patterns of activity, suggesting that these bases play a similar role on different promoters Mitchell JE,2003. | |||||||||
Evidence: |
[HIPP] [HTTIM] [ICWHO] [IHBCE] [TIM] |
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Reference(s): |
[5] Huerta AM., et al., 2003 [2] Maciag A., et al., 2011 [1] Makaroff CA., et al., 1985 [3] Nonet ML., et al., 1987 |
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Terminator(s) | ||||||||||
Type: | rho-independent | |||||||||
Sequence: | ggttgcaaaaTTGCCCTGAAACAGGGCAAcagcggagtt | |||||||||
Reference(s): | [3] Nonet ML., et al., 1987 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
proximal | PurR-hypoxanthine | repressor | cvpAp1 | 2430821 | 2430836 | -28.5 | aggaaatcccTACGCAAACGTTTTCTttttctgtta | nd | [GEA], [APIORCISFBSCS], [BCE], [BPP], [SM] | [4], [6], [7], [8], [9] |
Name: | ubiX |
Gene(s): | ubiX Genome Browser M3D Gene expression COLOMBOS |
Evidence: | [BTEI] Boundaries of transcription experimentally identified |
Reference(s): | [10] Zaslaver A., et al., 2006 |
Promoter | |
Name: | ubiXp |
+1: | Unknown |
Evidence: | [IEP] |
Reference(s): | [10] Zaslaver A., et al., 2006 |
Terminator(s) | |
Type: | rho-independent |
Sequence: | ggttgcaaaaTTGCCCTGAAACAGGGCAAcagcggagtt |
Reference(s): | [3] Nonet ML., et al., 1987 |
RNA cis-regulatory element | ![]() |
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Regulation, transcriptional elongation | |
Attenuator type: | Transcriptional |
Strand: | reverse |
Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
---|---|---|---|---|---|
terminator | -17.3 | 2430858 | 2430893 | ataaaaagtcGATGGCGTTGAATATTTTTTCAGCGCCATTTTTATtgatgcgcgg | |
terminator | -7.6 | 2428631 | 2428659 | aatcctgcaaAGTCTGCCTGCAAGTCTGACAGGGCAACtatttatgaa | |
anti-terminator | -10.7 | 2430887 | 2430927 | gcatccgacaCGCATTGCCCGATGCCGCAAAGGCATAAAAAGTCGATGGCgttgaatatt |
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos" |
Reference(s) |
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