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Synonyms: GlaR, GlaR-glutarate |
Summary:
The transcription factor CsiR, for "Carbon starvation induced Regulator," was initially identified as a repressor that controls the transcription of genes involved in the degradation and transport of 4-aminobutyrate (GABA) for utilization as a source of nitrogen [4, 6]. However, CsiR does not appear to respond directly to the presence of GABA [4], and later reports suggested that it does not affect expression of gabDTP [6, 7]. CsiR represses transcription from the csiD promoter during stationary phase [6]. Currently, no DNA-binding sites for this regulator have been reported in the literature [6]. csiR expression is induced at stationary phase, but is not autoregulated and not dependent on σS [6]. A csiR mutant (gabC1) has the ability to utilize γ-aminobutyrate (GABA) as the sole source of nitrogen [4]. In an experiment using directed cell evolution of a ΔpanD mutant (containing a damaged CoA biosynthesis pathway), a pathway for β-alanine biosynthesis via uracil degradation emerged. Read more > |
Transcription factor | ![]() ![]() |
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TF conformation(s): |
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Evolutionary Family: | GntR | ||||||||||||||||||
Connectivity class: | Local Regulator | ||||||||||||||||||
Gene name: | glaR | ||||||||||||||||||
Genome position: | 2795674-2796336 | ||||||||||||||||||
Length: | 663 bp / 220 aa | ||||||||||||||||||
Operon name: | glaR | ||||||||||||||||||
TU(s) encoding the TF: |
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Regulon |
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Regulated gene(s) | gabD, gabP, gabT, glaH, lhgD | ||||||
Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
aminobutyrate catabolism (2)
putrescine catabolism (2)
amino acids (2)
carbon compounds (1)
Porters (Uni-, Sym- and Antiporters) (1)
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Regulated operon(s) | glaH-lhgD-gabDTP | ||||||
First gene in the operon(s) | glaH | ||||||
Simple and complex regulons | CRP,GlaR,H-NS,Lrp,ppGpp | ||||||
Simple and complex regulatory phrases | Regulatory phrase (List of promoters regulated by the phrase) |
Transcription factor regulation |
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Functional conformation | Function | Promoter | Sigma factor | Central Rel-Pos | Distance to first Gene | Genes | Sequence | LeftPos | RightPos | Evidence (Confirmed, Strong, Weak) | References | |
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GlaR | repressor | csiDp | Sigma38 | -32.0 | -90.0 | glaH, lhgD, gabD, gabT, gabP |
tatgtcgcttTTGTGCGCATTTTTcagaaatgta
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2788889 | 2788902 | [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA], [IEP] | [2], [6] | |
GlaR | repressor | csiDp | Sigma38 | -13.0 | -71.0 | glaH, lhgD, gabD, gabT, gabP |
tttttcagaaATGTAGATATTTTTagattatggc
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2788908 | 2788921 | [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA], [IEP] | [2], [6] |
Functional conformation | Function | Object name | Object type | Distance to first Gene | Sequence | LeftPos | RightPos | Center Position | Growth Condition | Evidence (Confirmed, Strong, Weak) | References | |
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GlaR | activator | nd | tu | nd |
gaaagcggcgAATATCGATATTTAAtggcgctaac
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3877705 | 3877720 | 3877712.0 | nd | , , | [1] | |
GlaR | activator | nd | tu | nd |
tgaagcgattGAAAATATCGACAACattcagcctg
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3225803 | 3225818 | 3225810.0 | nd | , , | [1] | |
GlaR | activator | nd | tu | nd |
agcaaagcccCTAAATATATACAATttagcgatca
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2041850 | 2041865 | 2041857.0 | nd | , , | [1] | |
GlaR | activator | yadN | tu | nd |
ttatattgcgAATATAAATATTTTCtgaaaatcat
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157223 | 157238 | 157230.0 | nd | , , | [1] | |
GlaR | activator | nd | tu | nd |
ccctgatgggCAAAACATCTATGATacacgcaatt
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4391540 | 4391555 | 4391547.0 | nd | , , | [1] | |
GlaR | activator | smg | tu | nd |
gttttgagcgAGAAGATATCTACAAtgccctgcta
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3432340 | 3432355 | 3432347.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
cctttggtttTATTATCGTCATTATggcccgccag
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2465606 | 2465621 | 2465613.0 | nd | , , | [1] | |
GlaR | repressor | chaBC | tu | nd |
cgtctcatgcCCAGGATATCTATAAagaagcgttc
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1272181 | 1272196 | 1272188.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
cgtggcgtggTTTGTCTATATTGTGctgctgtggg
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2748613 | 2748628 | 2748620.0 | nd | , , | [1] | |
GlaR | repressor | ydcK | tu | nd |
aaacgctatgCGCAAATATCGTCTAagtgaagaac
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1500432 | 1500447 | 1500439.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
acctgacactGGATGTAAACATTATcgatttccca
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3169200 | 3169215 | 3169207.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
gataaaaactGTTATCTATGTATACttttaaaccc
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1434613 | 1434628 | 1434620.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
aagtaacaatGAAAAAAATTGCTATtgtgggtgcc
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1747133 | 1747148 | 1747140.0 | nd | , , | [1] | |
GlaR | repressor | yqhC | tu | nd |
ggttgcgtctCAATGTCGATATTTTgcagttacag
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3154845 | 3154860 | 3154852.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
accaaaaatgAATATCGATGTTTTTtgctttttct
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1256356 | 1256371 | 1256363.0 | nd | , , | [1] | |
GlaR | repressor | yjfY | tu | nd |
accaccaggcCAGAAATATGGACGAtgtgcaaagc
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4424691 | 4424706 | 4424698.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
tattgattaaATGAATGTCTATCTTcgtttccatc
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4101601 | 4101616 | 4101608.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
tgtttattacCGGTGTCGCTATTTTgaacatccag
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1217378 | 1217393 | 1217385.0 | nd | , , | [1] | |
GlaR | repressor | yccU | tu | nd |
tcatacttacTAACATATAGACATAtttcccgctt
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1027840 | 1027855 | 1027847.0 | nd | , , | [1] | |
GlaR | repressor | chaA | tu | nd |
cgtctcatgcCCAGGATATCTATAAagaagcgttc
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1272181 | 1272196 | 1272188.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
atggtttggcAGCTATCTACGTTTCtggcagaaac
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491053 | 491068 | 491060.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
tcctgaatggATTGACTTTTTTATCcaaccacact
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2782942 | 2782957 | 2782949.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
ccctgatgggCAAAACATCTATGATacacgcaatt
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4391540 | 4391555 | 4391547.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
gctttctatcATTGTAGATAAAAGCtatgccccga
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1631374 | 1631389 | 1631381.0 | nd | , , | [1] | |
GlaR | repressor | nd | tu | nd |
ggcgatcaatATCGTCGGCATTTAAttccagggcc
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4473760 | 4473775 | 4473767.0 | nd | , , | [1] |
Evolutionary conservation of regulatory elements | ![]() |
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Reference(s) |
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