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| Operon |  |
|---|---|
| Name: | ivbL-ilvBN-uhpABC |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | uhpB |
| Gene(s): | uhpB Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [IEP] Inferred from expression pattern |
| Reference(s): | [1] Li Z., et al., 2019 |
| Promoter | |
| Name: | uhpBp |
| +1: | 3850294 |
| Distance from start of the gene: | 158 |
| Sequence: |
gatattgccattaaactggcatccggtcgtcaggacccgctaaccaaacgtgaacgccagGtggcggaaaaactggcgcaa |
| Evidence: |
[RSE] [TIM] |
| Reference(s): | [1] Li Z., et al., 2019 |
| Name: | ivbL | |||||||||
| Gene(s): | ivbL Genome Browser M3D Gene expression COLOMBOS | |||||||||
| Evidence: | [BTEI] Boundaries of transcription experimentally identified | |||||||||
| Reference(s): |
[2] Friden P., et al., 1982 [3] Hauser CA., et al., 1985 |
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| Promoter | ||||||||||
| Name: | ivbLp | |||||||||
| +1: | 3853023 | |||||||||
| Sigma Factor: | Sigma70 Sigmulon | |||||||||
| Distance from start of the gene: | 35 | |||||||||
| Sequence: |
cctcaattttcccttgctgaaaaattttccattgtctcccctgtaaagctgtgcttgtatAaatattgttaaacacaaaac -35 -10 +1 |
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| Evidence: |
[HIPP] [ICWHO] [TIM] |
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| Reference(s): |
[2] Friden P., et al., 1982 [4] Huerta AM., et al., 2003 |
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| Terminator(s) | ||||||||||
| Type: | rho-independent | |||||||||
| Sequence: | cttaaacgaaAAACCCCGCCCGGTTTGCGCCGGCGGGGTTTTGGAATCGTGTGTTGTTCCAGTCCCTACGGCGCATTGCCGACGACCACCACCACACGCACGACGACCACTGCGGCGGATGGCGCAGTTGGTAGTAGTTTTGCGTTGAGCATGGAAGTagtcattggg | |||||||||
| Reference(s): | [3] Hauser CA., et al., 1985 | |||||||||
| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| proximal | CRP-cyclic-AMP | activator | ivbLp | 3853076 | 3853097 | -64.0 | attcagtacaAAACGTGATCAACCCCTCAATTttcccttgct | nd | [APIORCISFBSCS], [BPP] | [2] |
| Evidence: | [GEA] Gene expression analysis |
| Reference(s): | [5] Durfee T., et al., 2008 |
| Name: | ivbL-ilvBN | |||||||||
| Synonym(s): | OP00040, ilvB, ilvBN, w3608-ilvBN | |||||||||
| Gene(s): | ilvN, ilvB, ivbL Genome Browser M3D Gene expression COLOMBOS | |||||||||
| Note(s): | The ilvLBN operon, which codes for one of the enzymes involved in isoleucine and valine biosynthesis, is thought to be subject to transcriptional regulation by two mechanisms. The primary mechanism appears to be attenuation mediated by valine and leucine availability. This mode of regulation is presumed to exist based on the presence of the ivbL leader region and the folllowing terminator. Transcription is also positively regulated by the binding of CRP at the promoter, modulated by the abundance of alarmone and ppGpp Friden P,1982. Friden P,1984. |
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| Evidence: | [BTEI] Boundaries of transcription experimentally identified [ITCR] Inferred through co-regulation [LTED] Length of transcript experimentally determined |
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| Reference(s): |
[6] Friden P., et al., 1985 [7] Tsui P., et al., 1990 |
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| Promoter | ||||||||||
| Name: | ivbLp | |||||||||
| +1: | 3853023 | |||||||||
| Sigma Factor: | Sigma70 Sigmulon | |||||||||
| Distance from start of the gene: | 35 | |||||||||
| Sequence: |
cctcaattttcccttgctgaaaaattttccattgtctcccctgtaaagctgtgcttgtatAaatattgttaaacacaaaac -35 -10 +1 |
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| Evidence: |
[HIPP] [ICWHO] [TIM] |
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| Reference(s): |
[2] Friden P., et al., 1982 [4] Huerta AM., et al., 2003 |
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| Terminator(s) | ||||||||||
| Type: | rho-independent | |||||||||
| Sequence: | ctggcgggtaAAAAAAATACGCGCTTACCTTAACGATAAGCGCGatgttgttca | |||||||||
| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| proximal | CRP-cyclic-AMP | activator | ivbLp | 3853076 | 3853097 | -64.0 | attcagtacaAAACGTGATCAACCCCTCAATTttcccttgct | nd | [APIORCISFBSCS], [BPP] | [2] |
| Evidence: | [GEA] Gene expression analysis |
| Reference(s): | [5] Durfee T., et al., 2008 |
| Name: | ivbL-ilvBN-uhpABC |
| Gene(s): | uhpC, uhpB, uhpA, ilvN, ilvB, ivbL Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [ITCR] Inferred through co-regulation |
| Reference(s): | [8] Park JH., et al., 2007 |
| Name: | uhpABC |
| Gene(s): | uhpC, uhpB, uhpA Genome Browser M3D Gene expression COLOMBOS |
| Reference(s): |
[9] Merkel TJ., et al., 1992 [10] Weston LA., et al., 1987 [11] Weston LA., et al., 1988 |
| RNA cis-regulatory element | |
|---|
| Regulation, transcriptional elongation | |
| Attenuator type: | Transcriptional |
| Strand: | reverse |
| Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| terminator | -15.4 | 3850744 | 3850779 | tgaacaacatCGCGCTTATCGTTAAGGTAAGCGCGTATTTTTTTTacccgccagg | |
| terminator | -16.6 | 3852832 | 3852862 | gattccaaaaCCCCGCCGGCGCAAACCGGGCGGGGTTTTTcgtttaagca | |
| terminator | -12.4 | 3853115 | 3853142 | gcgactgacgAAACCTCGCTCCGGCGGGGTTTTTTGTtatctgcaat | |
| anti-terminator | -21.2 | 3850769 | 3850844 | gtaatcagtcCGATCCGACGATGTTTAACAAGATCGCGGTGTTTTTTCAGTAACCGCTCAAGGCTTGAACAACATCGCGCTTATCgttaaggtaa | |
| anti-terminator | -21.5 | 3852850 | 3852899 | tcgtcggcaaTGCGCCGTAGGGACTGGAACAACACACGATTCCAAAACCCCGCCGGCGCaaaccgggcg | |
| anti-terminator | -18.25 | 3853133 | 3853195 | gtatactttcAGTGTTGACATAATACAGTGTGCTTTGCGGTTACCAGCCGCAGGCGACTGACGAAACCTCGCtccggcgggg | |
| anti-anti-terminator | -12.4 | 3852885 | 3852932 | ccgccgcagtGGTCGTCGTGCGTGTGGTGGTGGTCGTCGGCAATGCGCCGTAGGGACtggaacaaca | |
| anti-anti-terminator | -12.4 | 3853166 | 3853218 | attgcgcgttCTGCGCGGAACACGTATACTTTCAGTGTTGACATAATACAGTGTGCTTTGCGgttaccagcc |
| 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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|---|---|
[RSE] RNA-seq evidence