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Synonyms: GadX |
Summary:
The transcriptional activator GadX, for "Glutamic acid decarboxylase," is positively autoregulated and controls the transcription of pH-inducible genes, including the principal acid resistance system [2], is glutamate dependent (GAD), is also referred to as the GAD system, and its genes are involved in multidrug efflux [1, 6, 7, 8, 10]. In addition GadX also activates the transcription of the central activator involved in the acid response [12]. The physiological inducer is unknown. Richard et al. proposed that GadX can sense intracellular Na+ concentrations, but the mechanism is not known []. GadX is one of the regulators of the acid resistance system and is encoded by the unusual gadXW operon, which is located in the region called the acid fitness island [6]. Read more > |
Transcription factor | ![]() ![]() |
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TF conformation(s): |
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Evolutionary Family: | AraC/XylS | ||||||||||||
Connectivity class: | Local Regulator | ||||||||||||
Gene name: | gadX | ||||||||||||
Genome position: | 3664986-3665810 | ||||||||||||
Length: | 825 bp / 274 aa | ||||||||||||
Operon name: | gadAXW | ||||||||||||
TU(s) encoding the TF: |
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Transcription factor regulation |
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Functional conformation | Function | Promoter | Sigma factor | Central Rel-Pos | Distance to first Gene | Genes | Sequence![]() |
LeftPos | RightPos | Growth Conditions | Evidence (Confirmed, Strong, Weak) | References | |
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GadX | activator | asnBp | nd | nd | nd | asnB | nd | nd | nd | [GEA] | [3] | ||
GadX | repressor | btuBp | Sigma70 | 74.5 | -166.5 | btuB, murI |
cggtaaggaaAGGTGCGATGATTGCGTTATgcggacactg
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4163463 | 4163482 | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [4] | |
GadX | repressor | btuBp | Sigma70 | 105.5 | -135.5 | btuB, murI |
cggacactgcCATTCGGTGGGAAGTCATCAtctcttagta
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4163494 | 4163513 | nd | [BPP], [GEA] | [4] | |
GadX | repressor | btuBp | Sigma70 | 134.5 | -106.5 | btuB, murI |
atctcttagtATCTTAGATACCCCTCCAAGcccgaagacc
|
4163523 | 4163542 | nd | [BPP], [GEA] | [4] | |
GadX | activator | cadBp | Sigma70 | nd | nd | cadB, cadA | nd | nd | nd | [GEA] | [3] | ||
GadX | activator | gadAp | Sigma38, Sigma70, Sigma38, Sigma70 | -121.5 | -148.5 | gadA, gadX |
tacgataataAAGTCTGTTTTTAATATTATcatgttaaat
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3667719 | 3667738 | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [1], [2], [5], [6], [7], [8] | |
GadX | activator | gadAp | Sigma38, Sigma70, Sigma38, Sigma70 | -100.5 | -127.5 | gadA, gadX |
taatattatcATGTTAAATGTTTATATTATaaaaagtcgt
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3667698 | 3667717 | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [1], [2], [5], [6], [7], [8] | |
GadX | activator | gadAp | Sigma38, Sigma70, Sigma38, Sigma70 | -78.0 | -105.0 | gadA, gadX |
tatattataaAAAGTCGTTTTTCTGCTTAGgattttgtta
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3667676 | 3667695 | nd | [BPP], [GEA] | [1], [2], [5], [7], [8] | |
GadX | activator | gadAp | Sigma38, Sigma70, Sigma38, Sigma70 | -57.5 | -84.5 | gadA, gadX |
tctgcttaggATTTTGTTATTTAAATTAAGcctgtaatgc
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3667655 | 3667674 | nd | [BPP], [GEA] | [1], [2], [5], [7], [8] | |
GadX | activator | gadAp | Sigma38, Sigma70, Sigma38, Sigma70 | -31.5 | -58.5 | gadA, gadX |
taagcctgtaATGCCTTGCTTCCATTGCGGataaatccta
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3667629 | 3667648 | nd | [BPP], [GEA] | [1], [2], [5], [7], [8] | |
GadX | activator | gadAp | Sigma38, Sigma70, Sigma38, Sigma70 | -10.5 | -37.5 | gadA, gadX |
ccattgcggaTAAATCCTACTTTTTTATTGccttcaaata
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3667608 | 3667627 | nd | [BPP], [GEA] | [1], [2], [5], [7], [8] | |
GadX | activator | gadBp | Sigma38, Sigma70, Sigma38, Sigma70 | -268.0 | -295.0 | gadB, gadC |
ctatttttatGTAATAATTTTATAAATGCGttcaaaataa
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1572330 | 1572349 | nd | , [IHBCE], | [9] | |
GadX | activator | gadBp | Sigma38, Sigma70, Sigma38, Sigma70 | -231.5 | -258.5 | gadB, gadC |
ataataatcaAGTACTAATAGTGATATTTTaaggtctgat
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1572294 | 1572313 | nd | [APIORCISFBSCS], [BPP], , [CV(GEA)], [CV(GEA)], [GEA], [IHBCE], | [1], [6], [7], [9] | |
GadX | activator | gadBp | Sigma38, Sigma70, Sigma38, Sigma70 | -210.5 | -237.5 | gadB, gadC |
tgatattttaAGGTCTGATTTTTACGTGATaattcaggag
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1572273 | 1572292 | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [1], [6], [7] | |
GadX | activator | gadBp | Sigma38, Sigma70, Sigma38, Sigma70 | -184.0 | -211.0 | gadB, gadC |
gataattcagGAGACACAGAATGCGCATAAaaataacagc
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1572246 | 1572265 | nd | , [IHBCE], | [9] | |
GadX | activator | gadBp | Sigma38, Sigma70, Sigma38, Sigma70 | -119.5 | -146.5 | gadB, gadC |
gaatttcataTTGTATTGTTTTTCAATGAAaaaatattat
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1572182 | 1572201 | nd | [BPP], [GEA] | [1], [2], [5], [7], [8] | |
GadX | activator | gadBp | Sigma38, Sigma70, Sigma38, Sigma70 | -98.5 | -125.5 | gadB, gadC |
ttcaatgaaaAAATATTATTCGCGTAATATctcacgataa
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1572161 | 1572180 | nd | [BPP], [GEA] | [1], [2], [5], [7], [8] | |
GadX | activator | gadBp | Sigma38, Sigma70, Sigma38, Sigma70 | -39.5 | -66.5 | gadB, gadC |
atttaaacacGAGTCCTTTGCACTTGCTTActttatcgat
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1572102 | 1572121 | nd | [BPP], [GEA] | [1], [2], [5], [7], [8] | |
GadX | activator | gadBp | Sigma38, Sigma70, Sigma38, Sigma70 | -17.5 | -44.5 | gadB, gadC |
cttgcttactTTATCGATAAATCCTACTTTtttaatgcga
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1572080 | 1572099 | nd | [BPP], [GEA] | [1], [2], [5], [7], [8] | |
GadX | activator | gadEp | Sigma38 | -595.5 | -616.5 | gadE, gadF, mdtE, mdtF |
ctatggcaaaTTAGCCATTTCAAACATTATcatggctgat
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3657740 | 3657759 | nd | [APIORCISFBSCS], [CV(GEA)], [GEA] | [6], [8], [10], [11], [12] | |
GadX | activator | gadEp | Sigma38 | -574.5 | -595.5 | gadE, gadF, mdtE, mdtF |
aaacattatcATGGCTGATATTTTCCGTAGtcaggtttaa
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3657761 | 3657780 | nd | [APIORCISFBSCS], [CV(GEA)], [GEA] | [6], [8], [10], [11], [12] | |
GadX | activator | gadEp3 | Sigma70 | -50.5 | -616.5 | gadE, gadF |
ctatggcaaaTTAGCCATTTCAAACATTATcatggctgat
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3657740 | 3657759 | nd | [AIBSCS], [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [6], [8], [10], [11], [12] | |
GadX | activator | gadEp3 | Sigma70 | -29.5 | -595.5 | gadE, gadF |
aaacattatcATGGCTGATATTTTCCGTAGtcaggtttaa
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3657761 | 3657780 | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [6], [8], [10], [11], [12] | |
GadX | repressor | gadWp2 | nd | -96.5 | -259.5 | gadW |
tccctgttggCACGGGAAACTTTGTGCTCTcagtaagtta
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3664868 | 3664887 | nd | , [IHBCE], | [9] | |
GadX | repressor | gadWp2 | nd | -68.5 | -231.5 | gadW |
ctcagtaagtTAAATATAACTTTTACTGGAaataagatca
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3664840 | 3664859 | nd | , [IHBCE], | [9] | |
GadX | repressor | gadWp2 | nd | -53.5 | -216.5 | gadW |
ataacttttaCTGGAAATAAGATCAGCCATttttttataa
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3664825 | 3664844 | nd | [GEA] | [6] | |
GadX | repressor | gadWp2 | nd | -32.5 | -195.5 | gadW |
atcagccattTTTTTATAAACATAAGCTATacgctgtgcg
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3664804 | 3664823 | nd | [GEA] | [6] | |
GadX | activator | gadXp | Sigma38 | nd | nd | gadX, gadW | nd | nd | nd | [GEA] | [1], [3], [6] | ||
GadX | activator | gadYp | Sigma38 | -50.5 | -50.5 | gadY |
cgcacagcgtATAGCTTATGTTTATAAAAAaatggctgat
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3664804 | 3664823 | nd | [GEA] | [6] | |
GadX | activator | gadYp | Sigma38 | -29.5 | -29.5 | gadY |
ttataaaaaaATGGCTGATCTTATTTCCAGtaaaagttat
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3664825 | 3664844 | nd | [GEA] | [6] | |
GadX | activator | glnKp | Sigma54 | nd | nd | glnK, amtB | nd | nd | nd | [GEA] | [3] | ||
GadX | activator | glsAp | Sigma38 | 11.5 | -57.5 | glsA, ybaT |
gttaaatcagGATGCCTGAAAATCGGCACCggggtgagga
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511574 | 511593 | nd | , [CV(GEA)], [GEA], [IHBCE], | [3], [8], [9] | |
GadX | activator | hdeAp | Sigma38, Sigma70, Sigma70, Sigma38 | -126.5 | -177.5 | hdeA, hdeB, yhiD |
gcgtctaagaATGCAGTCGATTTAATAAAAatttcctaat
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3656908 | 3656927 | nd | [AIBSCS], [CV(GEA)], [GEA] | [8], [13] | |
GadX | repressor | hdeAp | Sigma38, Sigma70, Sigma70, Sigma38 | -126.5 | -177.5 | hdeA, hdeB, yhiD |
gcgtctaagaATGCAGTCGATTTAATAAAAatttcctaat
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3656908 | 3656927 | nd | [AIBSCS], [CV(GEA)], [GEA] | [8], [13] | |
GadX | activator | hdeAp | Sigma38, Sigma70, Sigma70, Sigma38 | -74.5 | -125.5 | hdeA, hdeB, yhiD |
tgcatctgtaACTCATTGTATTGAAATAAAaatatctgat
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3656856 | 3656875 | nd | [AIBSCS], [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3], [6], [8], [13] | |
GadX | repressor | hdeAp | Sigma38, Sigma70, Sigma70, Sigma38 | -74.5 | -125.5 | hdeA, hdeB, yhiD |
tgcatctgtaACTCATTGTATTGAAATAAAaatatctgat
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3656856 | 3656875 | nd | [AIBSCS], [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3], [6], [8], [13] | |
GadX | activator | hdeAp | Sigma38, Sigma70, Sigma70, Sigma38 | -53.5 | -104.5 | hdeA, hdeB, yhiD |
tgaaataaaaATATCTGATTTTGATATTTTccatcaacat
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3656835 | 3656854 | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3], [6], [8], [13] | |
GadX | repressor | hdeAp | Sigma38, Sigma70, Sigma70, Sigma38 | -53.5 | -104.5 | hdeA, hdeB, yhiD |
tgaaataaaaATATCTGATTTTGATATTTTccatcaacat
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3656835 | 3656854 | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3], [6], [8], [13] | |
GadX | activator | hdeDp | Sigma38, Sigma70 | -115.5 | -150.5 | hdeD |
atgttgatggAAAATATCAAAATCAGATATttttatttca
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3656835 | 3656854 | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3], [6], [8], [13] | |
GadX | activator | hdeDp | Sigma38, Sigma70 | -94.5 | -129.5 | hdeD |
atcagatattTTTATTTCAATACAATGAGTtacagatgca
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3656856 | 3656875 | nd | [AIBSCS], [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3], [6], [8], [13] | |
GadX | activator | hnsp | Sigma70 | nd | nd | hns | nd | nd | nd | [GEA] | [3] | ||
GadX | activator | lonp | Sigma32, Sigma70 | nd | nd | lon | nd | nd | nd | [GEA] | [3] | ||
GadX | activator | rpoSp | Sigma70 | nd | nd | rpoS | nd | nd | nd | [GEA] | [3] | ||
GadX | activator | slpp | Sigma70 | -81.5 | -106.5 | slp, dctR |
ctaaacagaaAGGATATAAACATCAGACAGgtttacgtta
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3653845 | 3653864 | nd | [APIORCISFBSCS], [BPP], , [CV(GEA)], [CV(GEA)], [GEA], [IHBCE], | [6], [8], [9] | |
GadX | activator | slpp | Sigma70 | -70.5 | -95.5 | slp, dctR |
ggatataaacATCAGACAGGTTTACGTTACtatcaggcat
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3653856 | 3653875 | nd | , [IHBCE], | [9] | |
GadX | activator | slpp | Sigma70 | -60.5 | -85.5 | slp, dctR |
atcagacaggTTTACGTTACTATCAGGCATatcacctcag
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3653866 | 3653885 | nd | [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [6], [8] | |
GadX | activator | slpp | Sigma70 | -3.0 | -28.0 | slp, dctR |
aaagaaatatCTATTATGGTTTTAATATTTgttgataagg
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3653923 | 3653942 | nd | , [IHBCE], | [9] | |
GadX | activator | slpp | Sigma70 | 17.0 | -9.0 | slp, dctR |
ttttaatattTGTTGATAAGGATAGTAACAtgaacatgac
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3653942 | 3653961 | nd | , [IHBCE], | [9] | |
GadX | repressor | tppBp | Sigma70 | -151.0 | -249.0 | dtpA |
cgttaagccaTCACCCCCCTCTCAGTGCAGtgaaaaaatc
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1712510 | 1712529 | nd | , [IHBCE], | [9] | |
GadX | activator | uspEp | nd | nd | nd | uspE | nd | nd | nd | [GEA] | [14] | ||
GadX | repressor | ydeNp | Sigma70 | -233.5 | -263.5 | ydeN, ydeM |
cacatatttaTGCACTTGCATAACCTGTTGcatgattatt
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1582778 | 1582797 | nd | , [IHBCE], | [9] | |
GadX | repressor | ydeNp | Sigma70 | -69.0 | -99.0 | ydeN, ydeM |
tttttcccttTTTTTAGCTAAATCTGCTATctctttatgt
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1582613 | 1582632 | nd | , [IHBCE], | [9] | |
GadX | repressor | ynfBp | Sigma38 | -94.5 | -193.5 | ynfB, speG |
ttaaccacaaCCAGGGCAGAAAGCATCCAAtaatttcaca
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1655605 | 1655624 | nd | , [IHBCE], | [9] |
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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GadX | activator | leuZ | gene | 110.0 |
acgacactgcTTATTGCTTTGATTTTATTCttatctttcc
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1991782 | 1991802 | 1991791.0 | [1] | [9] | ||
GadX | activator | leuZ | gene | 104.0 |
ctgcttattgCTTTGATTTTATTCTTATCTttcccatggt
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1991788 | 1991808 | 1991797.0 | [1] | [9] | ||
GadX | activator | leuZ | gene | 101.0 |
cttattgcttTGATTTTATTCTTATCTTTCccatggtacc
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1991791 | 1991811 | 1991800.0 | [1] | [9] | ||
GadX | activator | asnW | gene | -26.0 |
gaacgaggcgAATATTAGCGATGCCCACCCacaatgtcaa
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2058119 | 2058139 | 2058128.0 | [1] | [9] | ||
GadX | repressor | yfgG | gene | -39.0 |
gttgtgccttAATGTAAGTACCGTCCACAGcgtgggacat
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2629242 | 2629262 | 2629251.0 | [1] | [9] | ||
GadX | repressor | yfgG | gene | 126.0 |
tccgtcggtgCCTGGCAGCACCATCAGAGCaaaaaagaag
|
2629407 | 2629427 | 2629416.0 | [1] | [9] | ||
GadX | activator | yhiM | gene | -33.0 |
ttatcattaaTGCATATTTCAATATTAGCAgggatacctg
|
3634799 | 3634819 | 3634808.0 | [1] | [9] | ||
GadX | activator | slp | gene | -109.0 |
cctaaacagaAAGGATATAAACATCAGACAggtttacgtt
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3653843 | 3653863 | 3653852.0 | [1] | [9] | ||
GadX | activator | slp | gene | -89.0 |
acatcagacaGGTTTACGTTACTATCAGGCatatcacctc
|
3653863 | 3653883 | 3653872.0 | [1] | [9] | ||
GadX | activator | slp | gene | -57.0 |
atcacctcagAATCAGATGAAAACTATAAAgaaatatcta
|
3653895 | 3653915 | 3653904.0 | [1] | [9] | ||
GadX | activator | slp | gene | -30.0 |
aaagaaatatCTATTATGGTTTTAATATTTgttgataagg
|
3653922 | 3653942 | 3653931.0 | [1] | [9] | ||
GadX | activator | slp | gene | -4.0 |
atttgttgatAAGGATAGTAACATGAACATgacaaaaggt
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3653948 | 3653968 | 3653957.0 | [1] | [9] | ||
GadX | repressor | gadW | gene | -33.0 |
tttcatactgCGATTATTTCAATTTCAGTAtactaatgaa
|
3664642 | 3664662 | 3664651.0 | [1] | [9] | ||
GadX | repressor | gadW | gene | -196.0 |
cacagcgtatAGCTTATGTTTATAAAAAAAtggctgatct
|
3664805 | 3664825 | 3664814.0 | [1] | [9] | ||
GadX | repressor | gadW | gene | -217.0 |
ataaaaaaatGGCTGATCTTATTTCCAGTAaaagttatat
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3664826 | 3664846 | 3664835.0 | [1] | [9] | ||
GadX | repressor | gadW | gene | -290.0 |
aacagggagtGTTATAACGGTTTATTAGTCtggagacggc
|
3664899 | 3664919 | 3664908.0 | [1] | [9] |
Growth Condition |
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| C: Escherichia coli str. K-12 substr. MG1655| wild type| M9 minimal medium| glucose 0.2%| aerobiosis| 37.0 C| pH 5.5| OD600 of 0.3| mid exponential phase |
Alignment and PSSM for GadX TFBSs | ![]() |
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Aligned TFBS of GadX |
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Sequence | |
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AAATATCAAAATCAGATATTTT | |
TCACGTAAAAATCAGACCTTAA | |
TAATATTAAAAACAGACTTTAT | |
TACGGAAAATATCAGCCATGAT | |
GGATATAAACATCAGACAGGTT | |
TAACGCAATCATCGCACCTTTC | |
AAATATTAAAACCATAATAGAT | |
TAATATAAACATTTAACATGAT | |
TCATTGAAAAACAATACAATAT | |
TTACGTTACTATCAGGCATATC | |
TTATCGATAAATCCTACTTTTT | |
TTTTATAAACATAAGCTATACG | |
TGGAAATAAGATCAGCCATTTT | |
AATTAGCCATTTCAAACATTAT | |
TACTATCCTTATCAACAAATAT | |
CTAAGCAGAAAAACGACTTTTT | |
ATTTATAAAATTATTACATAAA | |
CAATAAAAAAGTAGGATTTATC | |
TATTACGCGAATAATATTTTTT | |
TGCAGTCGATTTAATAAAAATT | |
CGCAATGGAAGCAAGGCATTAC | |
TTTTAGCTAAATCTGCTATCTC | |
TTATTTCAATACAATGAGTTAC | |
CAGGGCAGAAAGCATCCAATAA | |
TAATTTAAATAACAAAATCCTA | |
TTATGCACTTGCATAACCTGTT | |
TCAAGTACTAATAGTGATATTT | |
AGATGATGACTTCCCACCGAAT | |
AGACACAGAATGCGCATAAAAA | |
TATCTTAGATACCCCTCCAAGC | |
TACTGAGAGCACAAAGTTTCCC | |
TAAAGTAAGCAAGTGCAAAGGA | |
ATGCCTGAAAATCGGCACCGGG | |
AGCCATCACCCCCCTCTCAGTG |
Position weight matrix (PWM). GadX matrix-quality result |
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A 8 15 19 6 16 5 18 20 25 16 25 4 12 19 6 19 8 17 10 8 14 6 C 4 3 6 7 2 6 7 5 2 8 1 8 20 5 4 9 18 7 2 3 2 8 G 1 7 3 2 12 4 4 7 3 1 3 2 1 5 14 5 0 1 2 8 3 3 T 21 9 6 19 4 19 5 2 4 9 5 20 1 5 10 1 8 9 20 15 15 17 |
Consensus |
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; consensus.strict taatgtaaaaatCagacatttt ; consensus.strict.rc AAAATGTCTGATTTTTACATTA ; consensus.IUPAC tratrtaramayMagmcawkwy ; consensus.IUPAC.rc RWMWTGKCTKRTKTYTAYATYA ; consensus.regexp t[ag]at[ag]ta[ag]a[ac]a[ct][AC]ag[ac]ca[at][gt][at][ct] ; consensus.regexp.rc [AG][AT][AC][AT]TG[GT]CT[GT][AG]T[GT]T[CT]TA[CT]AT[CT]A |
Evolutionary conservation of regulatory elements | ![]() |
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Reference(s) |
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