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| Operon |  |
|---|---|
| Name: | arcA |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | arcA |
| Gene(s): | arcA Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | arcA expression is increased when the oxygen concentration is decreased Shalel-Levanon S,2005 The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur Kumar R,2011 The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis Marzan LW,2013 The expression of arcA is increased in the presence of gentamicin and decreased when nlpE is overexpressed Cudic E,2017 Based on genome-wide analysis, 472 single-gene knockouts were studied to determine their anaerobic fermentation products, based on the control of redox reactions. It was determined that the combined knockout of the guaB, pyrD, serA, fnr, arcA, and arcB genes enhanced D-lactate overproduction Kim HJ,2013 |
| Reference(s): | [1] Compan I., et al., 1994 |
| Promoter | |
| Name: | arcAp1 |
| +1: | 4640508 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 202 |
| Sequence: |
ttgggtgtccggcccctcttagcctgttatgttgctgttaaaatggttaggatgacagccGtttttgacactgtcgggtcc -35 -10 +1 |
| Note(s): | The arcAp1 promoter presents a -10 region very similar to the -10 consensus sequence (with one mismatch), but the -35 region is quite different from the -35 consensus hexamer Compan I,1994. |
| Evidence: |
[CV(RS-EPT-CBR/TA)] [CV(TA/TIM)] [HIPP] [RS-EPT-CBR] [TIM] |
| Reference(s): |
[1] Compan I., et al., 1994 [2] Salgado H, et al., 2012 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta |
| Reference(s): | [3] Drury LS., 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 | FNR1 | activator | arcAp1 | 4640584 | 4640597 | -82.5 | acaattgaacTTGATATATGTCAAcgaagcgtag | nd | [APIORCISFBSCS], [CV(GEA/ROMA)], [GEA] | [1], [4] |
| Note(s): | 1Shalel-Levanon et al. Shalel-Levanon S,2005 suggested that FNR has a minor positive effect or no effect on arcA expression under the conditions that they used.1Shalel-Levanon et al. Shalel-Levanon S,2005 suggested that FNR has a minor positive effect or no effect on arcA expression under the conditions that they used. |
| Name: | arcA |
| Gene(s): | arcA Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur Kumar R,2011 The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis Marzan LW,2013 |
| Reference(s): | [1] Compan I., et al., 1994 |
| Promoter | |
| Name: | arcAp2 |
| +1: | 4640512 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 206 |
| Sequence: |
tttattgggtgtccggcccctcttagcctgttatgttgctgttaaaatggttaggatgacAgccgtttttgacactgtcgg -35 -10 +1 |
| Note(s): | The arcAp2 promoter presents a -10 region very similar to the -10 consensus sequence (with one mismatch) but the -35 region is quite different from the -35 consensus hexamer Compan I,1994. |
| Evidence: |
[HIPP] [TIM] |
| Reference(s): | [1] Compan I., et al., 1994 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta |
| Reference(s): | [3] Drury LS., et al., 1985 |
| Name: | arcA |
| Gene(s): | arcA Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur Kumar R,2011 The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis Marzan LW,2013 |
| Reference(s): | [1] Compan I., et al., 1994 |
| Promoter | |
| Name: | arcAp3 |
| +1: | 4640535 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 229 |
| Sequence: |
gatatatgtcaacgaagcgtagttttattgggtgtccggcccctcttagcctgttatgttGctgttaaaatggttaggatg -35 -10 +1 |
| Note(s): | The arcAp3 promoter presents a -35 region with a strong similarity to the consensus sequence (with one mismatch) and a -10 region with weak similarity to the -10 consensus Compan I,1994. |
| Evidence: |
[HIPP] [TIM] |
| Reference(s): | [1] Compan I., et al., 1994 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta |
| Reference(s): | [3] Drury LS., 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 | FNR | repressor | arcAp3 | 4640584 | 4640597 | -55.5 | acaattgaacTTGATATATGTCAAcgaagcgtag | nd | [APIORCISFBSCS], [CV(GEA/ROMA)], [GEA] | [1], [4] |
| Name: | arcA |
| Gene(s): | arcA Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur Kumar R,2011 The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis Marzan LW,2013 |
| Reference(s): | [1] Compan I., et al., 1994 |
| Promoter | |
| Name: | arcAp4 |
| +1: | 4640599 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 293 |
| Sequence: |
tgacgaaagctagcatttagatacgatgatttcatcaaactgttaacgtgctacaattgaActtgatatatgtcaacgaag -35 -10 +1 |
| Note(s): | The arcAp4 promoter presents a -10 region very similar to the -10 consensus sequence (with one mismatch) but with a -35 region dissimilar to the -35 consensus hexamer. Expression of the arcA gene from this promoter appears to be constitutive Compan I,1994. |
| Evidence: |
[HIPP] [TIM] |
| Reference(s): | [1] Compan I., et al., 1994 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta |
| Reference(s): | [3] Drury LS., et al., 1985 |
| Name: | arcA |
| Gene(s): | arcA Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur Kumar R,2011 The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis Marzan LW,2013 |
| Reference(s): | [1] Compan I., et al., 1994 |
| Promoter | |
| Name: | arcAp5 |
| +1: | 4640681 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 375 |
| Sequence: |
tttataaaaaataaatctcgacaattggattcaccacgtttattagttgtatgatgcaacTagttggattattaaaataat -35 -10 +1 |
| Note(s): | The arcAp5 promoter presents a -35 region with a strong similarity to the consensus sequence (one mismatch) and a -10 region with weak similarity to the consensus. Expression of the arcA gene from the arcAp5 promoter appears to be constitutive Compan I,1994. |
| Evidence: |
[HIPP] [TIM] |
| Reference(s): | [1] Compan I., et al., 1994 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta |
| Reference(s): | [3] Drury LS., et al., 1985 |
| Name: | arcA |
| Gene(s): | arcA Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur Kumar R,2011 The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis Marzan LW,2013 |
| Reference(s): | [1] Compan I., et al., 1994 |
| Promoter | |
| Name: | arcAp6 |
| +1: | 4640688 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 382 |
| Sequence: |
ggataattttataaaaaataaatctcgacaattggattcaccacgtttattagttgtatgAtgcaactagttggattatta -35 -10 +1 |
| Note(s): | The arcAp6 promoter presents a -35 region with a strong similarity to the consensus sequence (one mismatch) and -10 region with weak similarity Compan I,1994. |
| Evidence: |
[CV(RS-EPT-CBR/TA)] [CV(TA/TIM)] [HIPP] [RS-EPT-CBR] [TIM] |
| Reference(s): |
[1] Compan I., et al., 1994 [2] Salgado H, et al., 2012 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta |
| Reference(s): | [3] Drury LS., et al., 1985 |
| Name: | arcA |
| Gene(s): | arcA Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur Kumar R,2011 The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis Marzan LW,2013 |
| Reference(s): | [1] Compan I., et al., 1994 |
| Promoter | |
| Name: | arcAp7 |
| +1: | 4640801 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 495 |
| Sequence: |
taacgtaagtcgcagaaaaagccctttacttagcttaaaaaaggctaaactatttcctgaCtgtactaacggttgagttgt -35 -10 +1 |
| Note(s): | The arcAp7 promoter presents weak homology with a promoter sequence. Expression of the arcA gene from this promoter appears to be constitutive Compan I,1994. |
| Evidence: |
[HIPP] [TIM] |
| Reference(s): | [1] Compan I., et al., 1994 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta |
| Reference(s): | [3] Drury LS., et al., 1985 |
| Reference(s) |
|
|---|---|
[CV(RS-EPT-CBR/TA)] cross validation(RS-EPT-CBR/TA)