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Name: | dinB-yafNOP | ||||||||||
Gene(s): | dinB, yafN, yafO, yafP Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Evidence: | [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined [EXP-IMP-POLAR-MUTATION] Polar mutation |
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Reference(s): | [1] McKenzie GJ., et al., 2003 | ||||||||||
Promoter | |||||||||||
Name: | dinBp | ||||||||||
+1: | 250880 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 18 | ||||||||||
Sequence: |
cgcgttaaatgctgaatctttacgcatttctcaaaccctgaaatcactgtatactttaccAgtgttgagaggtgagcaatg -35 -10 +1 |
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Evidence: |
[COMP-AINF] [COMP-AINF-POSITIONAL-IDENTIFICATION] [EXP-IEP] |
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Reference(s): |
[2] Huerta AM., et al., 2003 [3] Layton JC., et al., 2003 |
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 | LexA | repressor | dinBp | 250864 | 250883 | -6.5 | accctgaaatCACTGTATACTTTACCAGTGttgagaggtg | nd | [COMP-AINF], [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | nd | [4], [5] |
Name: | dinB-yafNOP | ||||||||||
Gene(s): | dinB, yafN, yafO, yafP Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Evidence: | [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined [EXP-IMP-POLAR-MUTATION] Polar mutation |
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Reference(s): | [1] McKenzie GJ., et al., 2003 | ||||||||||
Promoter | |||||||||||
Name: | dinBp2 | ||||||||||
+1: | 250880 | ||||||||||
Sigma Factor: | Sigma38 Sigmulon | ||||||||||
Distance from start of the gene: | 18 | ||||||||||
Sequence: |
cgcgttaaatgctgaatctttacgcatttctcaaaccctgaaatcactgtatactttaccAgtgttgagaggtgagcaatg -35 -10 +1 |
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Evidence: |
[COMP-AINF] [COMP-AINF-POSITIONAL-IDENTIFICATION] [EXP-IEP] |
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Reference(s): |
[2] Huerta AM., et al., 2003 [3] Layton JC., et al., 2003 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | LexA | repressor | dinBp2 | 250864 | 250883 | -6.5 | accctgaaatCACTGTATACTTTACCAGTGttgagaggtg | nd | [COMP-AINF], [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | nd | [4], [5] |
Name: | yafNOP | ||||||||||
Gene(s): | yafN, yafO, yafP Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Evidence: | [COMP-AINF] Inferred computationally without human oversight | ||||||||||
Promoter | |||||||||||
Name: | yafNp | ||||||||||
+1: | 251969 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 36 | ||||||||||
Sequence: |
ttgcttgacccgcaaatggaaagacaactggtgctgggattatgatgtatactattatgtAtattctggtgtgcattatta -35 -10 +1 |
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Note(s): | Zaslaver et al. demonstrated in 2006, by means of a library of fluorescent transcription fusions, that this promoter can be transcribed in vitro Zaslaver A,2006. There are two transcription start sites (TSSs) for the yafN promoter. Here we associated the TTS more upstream to this promoter. In addition, Christensen-Dalsgaard et al. (2009) showed -10 and -35 boxes which are far from the normal position Bury-Moné S, Nomane Y, Reymond N, Barbet R, Jacquet E, Imbeaud S, Jacq A, Bouloc P,2009 However, the -10 box associated with the yafN promoter also shows an unusual distance Christensen-Dalsgaard M,2010 |
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Evidence: |
[COMP-AINF] [COMP-HINF] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP] |
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Reference(s): |
[6] Christensen-Dalsgaard M., et al., 2010 [2] Huerta AM., et al., 2003 [7] Zaslaver A., et al., 2006 |
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 | LexA | repressor | yafNp | 251958 | 251977 | -1.5 | ttatgatgtaTACTATTATGTATATTCTGGtgtgcattat | nd | [COMP-HINF-SIMILAR-TO-CONSENSUS] | nd | [6] |
Reference(s) |
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