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Name: | ptsHI-crr | ||||||||||
Gene(s): | ptsH, ptsI, crr Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | By making use of microarray analyses, it was concluded that FNR represses crr gene expression under anaerobiosis, although it is still not known which promoter is affected by FNR. Two putative FNR-binding sites were found: one of them is located upstream of the crr gene and the other one is located upstream of the ptsH gene, which is the first gene of the operon Salmon K,2003. Jeong et al. (2004) demonstrated experimentally that ArcA as well CRP regulate ptsH expression Jeong JY,2004 However, the authors did not mention the promoter that these regulators regulate (ptsH has five promoters). In addition, they did not mention the position or the effect exerted by these regulators. Under nitrogen-rich growth conditions, the expression of the ptsH gene increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants for two transcriptional regulators, Fnr and Fur. However, under nitrogen-limited growth conditions, gene expression was decreased. It is unknown if the effects of the transcriptional regulators act directly on gene expression; also, it is unknown which of the five promoters that transcribe the gene could be regulated by the regulators Kumar R,2011 The expression of the gene ptsH is increased under acidic growth conditions in aerobiosis but not in microaerobiosis Marzan LW,2013 The increased expression of this gene is in agreement with the increased specific glucose consumption rate observed under acidic conditions Marzan LW,2013 |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
||||||||||
Reference(s): |
[1] De Reuse H., et al., 1988 [2] Ryu S., et al., 1995 [3] Saffen DW., et al., 1987 |
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Promoter | |||||||||||
Name: | ptsHp5 | ||||||||||
+1: | 2533498 | ||||||||||
Sigma Factor: | Sigma32 Sigmulon | ||||||||||
Distance from start of the gene: | 266 | ||||||||||
Sequence: |
gcttcaaactttcgcccctcctggcattgattcagcctgtcggaactggtatttaaccagActaattattttgatgcgcga |
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Note(s): | The half-life of mRNA produced by ptsHp5 (P0) is 4.4 and 11 min in the presence and absence of oxygen, respectively Shin D, Cho N, Kim YJ, Seok YJ, Ryu S,2008 The ptsHp5 (ptsOb) promoter is activated during growth in the presence of glucose Ryu S.,1998 |
||||||||||
Evidence: |
[EXP-IDA] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
||||||||||
Reference(s): |
[1] De Reuse H., et al., 1988 [4] Ryu S. 1998 [2] Ryu S., et al., 1995 |
||||||||||
Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | cagtgaaaaaTGGCGCCCATCGGCGCCAtttttttatg | ||||||||||
Reference(s): | [1] De Reuse H., et al., 1988 |
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 | CRP-cyclic-AMP | activator | ptsHp5 | 2533427 | 2533448 | -60.5 | ttaggtgcttTTTTGTGGCCTGCTTCAAACTTtcgcccctcc | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [5] |
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 | NagC | repressor | ptsHp5 | 2533502 | 2533524 | 16.0 | aaccagactaATTATTTTGATGCGCGAAATTAAtcgttacagg | nd | [COMP-AINF-SIMILAR-TO-CONSENSUS] | nd | nd |
Name: | ptsHI-crr | ||||||||||
Gene(s): | ptsH, ptsI, crr Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | By making use of microarray analyses, it was concluded that FNR represses crr gene expression under anaerobiosis, although it is still not known which promoter is affected by FNR. Two putative FNR-binding sites were found: one of them is located upstream of the crr gene and the other one is located upstream of the ptsH gene, which is the first gene of the operon Salmon K,2003. Jeong et al. (2004) demonstrated experimentally that ArcA as well CRP regulate ptsH expression Jeong JY,2004 However, the authors did not mention the promoter that these regulators regulate (ptsH has five promoters). In addition, they did not mention the position or the effect exerted by these regulators. Under nitrogen-rich growth conditions, the expression of the ptsH gene increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants for two transcriptional regulators, Fnr and Fur. However, under nitrogen-limited growth conditions, gene expression was decreased. It is unknown if the effects of the transcriptional regulators act directly on gene expression; also, it is unknown which of the five promoters that transcribe the gene could be regulated by the regulators Kumar R,2011 The expression of the gene ptsH is increased under acidic growth conditions in aerobiosis but not in microaerobiosis Marzan LW,2013 The increased expression of this gene is in agreement with the increased specific glucose consumption rate observed under acidic conditions Marzan LW,2013 |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
||||||||||
Reference(s): |
[1] De Reuse H., et al., 1988 [2] Ryu S., et al., 1995 [3] Saffen DW., et al., 1987 |
||||||||||
Promoter | |||||||||||
Name: | ptsHp | ||||||||||
+1: | 2533501 | ||||||||||
Sigma Factor: | Sigma32 Sigmulon | ||||||||||
Distance from start of the gene: | 263 | ||||||||||
Sequence: |
tcaaactttcgcccctcctggcattgattcagcctgtcggaactggtatttaaccagactAattattttgatgcgcgaaat -35 -10 +1 |
||||||||||
Note(s): | The ptsHp4 (ptsOa) promoter is activated during growth in the presence of glucose Ryu S.,1998 | ||||||||||
Evidence: |
[COMP-HINF] [COMP-HINF-POSITIONAL-IDENTIFICATION] [EXP-IDA] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [RS-EPT-CBR] |
||||||||||
Reference(s): |
[6] Plumbridge J. 1999 [4] Ryu S. 1998 [7] Ryu S., et al., 1994 [2] Ryu S., et al., 1995 [8] Salgado H, et al., 2012 |
||||||||||
Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | cagtgaaaaaTGGCGCCCATCGGCGCCAtttttttatg | ||||||||||
Reference(s): | [1] De Reuse H., et al., 1988 |
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 | CRP-cyclic-AMP | activator | ptsHp | 2533427 | 2533448 | -63.5 | ttaggtgcttTTTTGTGGCCTGCTTCAAACTTtcgcccctcc | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [2], [5], [9] |
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 | Mlc | repressor | ptsHp | 2533502 | 2533524 | 13.0 | aaccagactaATTATTTTGATGCGCGAAATTAAtcgttacagg | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [5], [9] |
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 | NagC | repressor | ptsHp | 2533502 | 2533524 | 13.0 | aaccagactaATTATTTTGATGCGCGAAATTAAtcgttacagg | nd | [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [10] |
Name: | ptsHI-crr | ||||||||||
Gene(s): | ptsH, ptsI, crr Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | By making use of microarray analyses, it was concluded that FNR represses crr gene expression under anaerobiosis, although it is still not known which promoter is affected by FNR. Two putative FNR-binding sites were found: one of them is located upstream of the crr gene and the other one is located upstream of the ptsH gene, which is the first gene of the operon Salmon K,2003. Jeong et al. (2004) demonstrated experimentally that ArcA as well CRP regulate ptsH expression Jeong JY,2004 However, the authors did not mention the promoter that these regulators regulate (ptsH has five promoters). In addition, they did not mention the position or the effect exerted by these regulators. Under nitrogen-rich growth conditions, the expression of the ptsH gene increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants for two transcriptional regulators, Fnr and Fur. However, under nitrogen-limited growth conditions, gene expression was decreased. It is unknown if the effects of the transcriptional regulators act directly on gene expression; also, it is unknown which of the five promoters that transcribe the gene could be regulated by the regulators Kumar R,2011 The expression of the gene ptsH is increased under acidic growth conditions in aerobiosis but not in microaerobiosis Marzan LW,2013 The increased expression of this gene is in agreement with the increased specific glucose consumption rate observed under acidic conditions Marzan LW,2013 |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
||||||||||
Reference(s): |
[1] De Reuse H., et al., 1988 [2] Ryu S., et al., 1995 [3] Saffen DW., et al., 1987 |
||||||||||
Promoter | |||||||||||
Name: | ptsHp4 | ||||||||||
+1: | 2533501 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 263 | ||||||||||
Sequence: |
tcaaactttcgcccctcctggcattgattcagcctgtcggaactggtatttaaccagactAattattttgatgcgcgaaat -35 -10 +1 |
||||||||||
Note(s): | The ptsHp4 (ptsOa) promoter is activated during growth in the presence of glucose Ryu S.,1998 | ||||||||||
Evidence: |
[COMP-AINF] [COMP-HINF] [COMP-HINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [RS-EPT-CBR] |
||||||||||
Reference(s): |
[11] Huerta AM., et al., 2003 [6] Plumbridge J. 1999 [4] Ryu S. 1998 [7] Ryu S., et al., 1994 [2] Ryu S., et al., 1995 [8] Salgado H, et al., 2012 |
||||||||||
Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | cagtgaaaaaTGGCGCCCATCGGCGCCAtttttttatg | ||||||||||
Reference(s): | [1] De Reuse H., et al., 1988 |
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 | CRP-cyclic-AMP | activator | ptsHp4 | 2533427 | 2533448 | -63.5 | ttaggtgcttTTTTGTGGCCTGCTTCAAACTTtcgcccctcc | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [2], [5], [9] |
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 | Mlc | repressor | ptsHp4 | 2533502 | 2533524 | 13.0 | aaccagactaATTATTTTGATGCGCGAAATTAAtcgttacagg | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [5], [9] |
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 | NagC | repressor | ptsHp4 | 2533502 | 2533524 | 13.0 | aaccagactaATTATTTTGATGCGCGAAATTAAtcgttacagg | nd | [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [10] |
Name: | ptsHI-crr | ||||||||||
Gene(s): | ptsH, ptsI, crr Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | By making use of microarray analyses, it was concluded that FNR represses crr gene expression under anaerobiosis, although it is still not known which promoter is affected by FNR. Two putative FNR-binding sites were found: one of them is located upstream of the crr gene and the other one is located upstream of the ptsH gene, which is the first gene of the operon Salmon K,2003. Jeong et al. (2004) demonstrated experimentally that ArcA as well CRP regulate ptsH expression Jeong JY,2004 However, the authors did not mention the promoter that these regulators regulate (ptsH has five promoters). In addition, they did not mention the position or the effect exerted by these regulators. Under nitrogen-rich growth conditions, the expression of the ptsH gene increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants for two transcriptional regulators, Fnr and Fur. However, under nitrogen-limited growth conditions, gene expression was decreased. It is unknown if the effects of the transcriptional regulators act directly on gene expression; also, it is unknown which of the five promoters that transcribe the gene could be regulated by the regulators Kumar R,2011 The expression of the gene ptsH is increased under acidic growth conditions in aerobiosis but not in microaerobiosis Marzan LW,2013 The increased expression of this gene is in agreement with the increased specific glucose consumption rate observed under acidic conditions Marzan LW,2013 |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
||||||||||
Reference(s): |
[1] De Reuse H., et al., 1988 [2] Ryu S., et al., 1995 [3] Saffen DW., et al., 1987 |
||||||||||
Promoter | |||||||||||
Name: | ptsHp3 | ||||||||||
+1: | 2533507 | ||||||||||
Distance from start of the gene: | 257 | ||||||||||
Sequence: |
tttcgcccctcctggcattgattcagcctgtcggaactggtatttaaccagactaattatTttgatgcgcgaaattaatcg |
||||||||||
Evidence: |
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [RS-EPT-CBR] |
||||||||||
Reference(s): |
[7] Ryu S., et al., 1994 [8] Salgado H, et al., 2012 |
||||||||||
Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | cagtgaaaaaTGGCGCCCATCGGCGCCAtttttttatg | ||||||||||
Reference(s): | [1] De Reuse H., et al., 1988 |
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 | NagC | repressor | ptsHp3 | 2533502 | 2533524 | 7.0 | aaccagactaATTATTTTGATGCGCGAAATTAAtcgttacagg | nd | [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [10] |
Name: | ptsHI-crr | ||||||||||
Gene(s): | ptsH, ptsI, crr Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | By making use of microarray analyses, it was concluded that FNR represses crr gene expression under anaerobiosis, although it is still not known which promoter is affected by FNR. Two putative FNR-binding sites were found: one of them is located upstream of the crr gene and the other one is located upstream of the ptsH gene, which is the first gene of the operon Salmon K,2003. Jeong et al. (2004) demonstrated experimentally that ArcA as well CRP regulate ptsH expression Jeong JY,2004 However, the authors did not mention the promoter that these regulators regulate (ptsH has five promoters). In addition, they did not mention the position or the effect exerted by these regulators. Under nitrogen-rich growth conditions, the expression of the ptsH gene increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants for two transcriptional regulators, Fnr and Fur. However, under nitrogen-limited growth conditions, gene expression was decreased. It is unknown if the effects of the transcriptional regulators act directly on gene expression; also, it is unknown which of the five promoters that transcribe the gene could be regulated by the regulators Kumar R,2011 The expression of the gene ptsH is increased under acidic growth conditions in aerobiosis but not in microaerobiosis Marzan LW,2013 The increased expression of this gene is in agreement with the increased specific glucose consumption rate observed under acidic conditions Marzan LW,2013 |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
||||||||||
Reference(s): |
[1] De Reuse H., et al., 1988 [2] Ryu S., et al., 1995 [3] Saffen DW., et al., 1987 |
||||||||||
Promoter | |||||||||||
Name: | ptsHp2 | ||||||||||
+1: | 2533601 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 163 | ||||||||||
Sequence: |
caaagctgaatcgattttatgatttggttcaattcttcctttagcggcataatgtttaatGacgtacgaaacgtcagcggt -35 -10 +1 |
||||||||||
Evidence: |
[COMP-AINF] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
||||||||||
Reference(s): |
[1] De Reuse H., et al., 1988 [12] De Reuse H., et al., 1992 [11] Huerta AM., et al., 2003 [6] Plumbridge J. 1999 [7] Ryu S., et al., 1994 [2] Ryu S., et al., 1995 |
||||||||||
Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | cagtgaaaaaTGGCGCCCATCGGCGCCAtttttttatg | ||||||||||
Reference(s): | [1] De Reuse H., et al., 1988 |
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 | CRP-cyclic-AMP | repressor | ptsHp2 | 2533555 | 2533576 | -35.5 | gctgaatcgaTTTTATGATTTGGTTCAATTCTtcctttagcg | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [1], [14] |
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 | Cra | activator | ptsHp2 | 2533544 | 2533561 | -48.5 | gaaaagccaaAGCTGAATCGATTTTATGatttggttca | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [13] |
Name: | ptsHI-crr | ||||||||||
Gene(s): | ptsH, ptsI, crr Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | By making use of microarray analyses, it was concluded that FNR represses crr gene expression under anaerobiosis, although it is still not known which promoter is affected by FNR. Two putative FNR-binding sites were found: one of them is located upstream of the crr gene and the other one is located upstream of the ptsH gene, which is the first gene of the operon Salmon K,2003. Jeong et al. (2004) demonstrated experimentally that ArcA as well CRP regulate ptsH expression Jeong JY,2004 However, the authors did not mention the promoter that these regulators regulate (ptsH has five promoters). In addition, they did not mention the position or the effect exerted by these regulators. Under nitrogen-rich growth conditions, the expression of the ptsH gene increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants for two transcriptional regulators, Fnr and Fur. However, under nitrogen-limited growth conditions, gene expression was decreased. It is unknown if the effects of the transcriptional regulators act directly on gene expression; also, it is unknown which of the five promoters that transcribe the gene could be regulated by the regulators Kumar R,2011 The expression of the gene ptsH is increased under acidic growth conditions in aerobiosis but not in microaerobiosis Marzan LW,2013 The increased expression of this gene is in agreement with the increased specific glucose consumption rate observed under acidic conditions Marzan LW,2013 |
||||||||||
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
||||||||||
Reference(s): |
[1] De Reuse H., et al., 1988 [2] Ryu S., et al., 1995 [3] Saffen DW., et al., 1987 |
||||||||||
Promoter | |||||||||||
Name: | ptsHp1 | ||||||||||
+1: | 2533608 | ||||||||||
Distance from start of the gene: | 156 | ||||||||||
Sequence: |
gaatcgattttatgatttggttcaattcttcctttagcggcataatgtttaatgacgtacGaaacgtcagcggtcaacacc |
||||||||||
Evidence: |
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [RS-EPT-CBR] |
||||||||||
Reference(s): |
[7] Ryu S., et al., 1994 [2] Ryu S., et al., 1995 [8] Salgado H, et al., 2012 |
||||||||||
Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | cagtgaaaaaTGGCGCCCATCGGCGCCAtttttttatg | ||||||||||
Reference(s): | [1] De Reuse H., et al., 1988 |
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 | CRP-cyclic-AMP | activator | ptsHp1 | 2533555 | 2533576 | -42.5 | gctgaatcgaTTTTATGATTTGGTTCAATTCTtcctttagcg | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [1], [14] |
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 | Cra | repressor | ptsHp1 | 2533544 | 2533561 | -55.5 | gaaaagccaaAGCTGAATCGATTTTATGatttggttca | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [13] |
Name: | crr |
Gene(s): | crr Genome Browser M3D Gene expression COLOMBOS |
Note(s): | Using microarray analyses, it was concluded that under anaerobiosis FNR repress crr gene expression, but it is not known which promoter is affected by FNR. Two putative FNR-binding sites were found; one of them is located upstream of the crr gene and the other one is located upstream of the ptsH gene, which is the first gene of the operon Salmon K,2003. |
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
Reference(s): | [1] De Reuse H., et al., 1988 |
Promoter | |
Name: | crrp2 |
+1: | 2535480 |
Distance from start of the gene: | 354 |
Sequence: |
gcaccaatgatttaacgcagtacactctggcagttgaccgtggtaatgatatgatttcacAcctttaccagccaatgtcac |
Evidence: | [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
Reference(s): | [1] De Reuse H., et al., 1988 |
Terminator(s) | |
Type: | rho-independent |
Sequence: | cagtgaaaaaTGGCGCCCATCGGCGCCAtttttttatg |
Reference(s): | [1] De Reuse H., et al., 1988 |
Name: | crr |
Gene(s): | crr Genome Browser M3D Gene expression COLOMBOS |
Note(s): | Using microarray analyses, it was concluded that under anaerobiosis FNR repress crr gene expression, but it is not known which promoter is affected by FNR. Two putative FNR-binding sites were found; one of them is located upstream of the crr gene and the other one is located upstream of the ptsH gene, which is the first gene of the operon Salmon K,2003. |
Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
Reference(s): | [1] De Reuse H., et al., 1988 |
Promoter | |
Name: | crrpI |
+1: | 2535610 |
Sigma Factor: | Sigma38 Sigmulon |
Distance from start of the gene: | 224 |
Sequence: |
aggcaaatggactggcatgtgtggtgagcttgctggcgatgaacgtgctacacttctgttGctggggatgggtctggacga |
Evidence: |
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP] |
Reference(s): |
[1] De Reuse H., et al., 1988 [15] Lelong C., et al., 2007 |
Terminator(s) | |
Type: | rho-independent |
Sequence: | cagtgaaaaaTGGCGCCCATCGGCGCCAtttttttatg |
Reference(s): | [1] De Reuse H., et al., 1988 |
Reference(s) |
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