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Name: | Sigma54      |
Synonyms: | RpoN |
Gene name: | rpoN |
Sigmulon regulators: | |
Sigmulon Genes: |
![]() acrD, actP, amtB, argT, aslB, astA, astB, astC, astD, astE, atoA, atoB, atoD, atoE, chaC, dcuD, ddpA, ddpB, ddpC, ddpD,
ddpF, ddpX, emrD, fdhF, fhlA, flhC, flhD, focB, glmY, glnA, glnG, glnH, glnK, glnL, glnP, glnQ, glpQ, gltI, gltJ, gltK, gltL, gnsA, hisJ, hisM, hisP, hisQ, htpG, hycA, hycB, hycC, hycD, hycE, hycF, hycG, hycH, hycI, hydN, hyfA, hyfB, hyfC, hyfD, hyfE, hyfF, hyfG, hyfH, hyfI, hyfJ, hyfR, hypA, hypB, hypC, hypD, hypE, hypF, ibpB, nac, nikA, nikB, nikC, nikD, nikE, nikR, norV, norW, potF, potG, potH, potI, prpB, prpC, prpD, prpE, pspA, pspB, pspC, pspD, pspE, pspG, puuP, radD, |
Transcribed promoters | ![]() |
---|
Promoter Name | TSS Position | Transcribed Gene(s) | Distance from TSS to gene |
Promoter Sequence |
Box (-12) |
Box (-24) |
Evidence Code(s) | Reference(s) | |
---|---|---|---|---|---|---|---|---|---|
acrDp2 | 2587550 | acrD | 45 | atttacattaactcctttttttctccacgattggctcgtaccttgccgctacagtgaagcAagtcaagcctacaacgatac -24 -12 +1 |
TGCCG | TGGCTC | [HIPP] [IEP] |
[1] | |
actPp | 4284935 | actP | 33 | gatctcctttgttctcaccggtatctacatctggcgggcgaacggcgaattcgaccgtctTaataatgaagtcctgcatga -24 -12 +1 |
GGCGA | TGGCGG | [HIPP] [IEP] |
[1] | |
argTp | 2427849 | hisP, hisM, hisQ, hisJ, argT | 58 | tatttaacgttgaatgttactgttgtcgtcaagatggcataagacctgcatgaaagagccTgcaaacacacaacacaatac -24 -12 +1 |
TGCAT | TGGCAT | [AIPP] | [2] [3] [4] |
|
aslBp | 3982781 | aslB | 177 | aaaaagcagtatttcggcgagtagcgcagcttggtagcgcaactggtttgggaccagtggGtcggaggttcgaatcctctc -24 -12 +1 |
TGGTT | TGGTAG | [AIPP] [IEP] |
[1] | |
astCp2 | 1832044 | astE, astB, astD, astA, astC | 62 | tagcctccgccgtttatgcacttttatcactggctggcacgaaccctgcaatctacatttAcagcgcaaacattacttatt -24 -12 +1 |
TGCAA | TGGCAC | [CV(RPF)] [CV(RPF/TIM)] [CV(TIM)] [HIPP] [RPF] [TIM] |
[5] [6] |
|
atoDp | 2323412 | atoD, atoA, atoE, atoB | 35 | attagttaaataactaaatccaataatctcattctggcactccccttgctattgcctgacTgtacccacaacggtgtatgc -24 -12 +1 |
TGCTA | TGGCAC | [AIPP] [IMP] |
[7] [3] |
|
chaCp | 1272422 | chaC | 85 | agttaaagctattcgtgcggtgttgccttgcaagtggtccgtggattgcatattgtcccgTtagtggtttcaaaatgagca -24 -12 +1 |
TGCAT | TGGTCC | [AIPP] [IEP] |
[3] [8] |
|
dcuDp2 | 3374583 | dcuD | 286 | acatcctatcacaggattgaaagtaggggaaaatggcagggttttctctttgtgcctcatCattaccataattaacggaat -24 -12 +1 |
CTCTT | TGGCAG | [HIPP] | [9] | |
ddpXp | 1563107 | ddpF, ddpD, ddpC, ddpB, ddpA, ddpX | 31 | ttaagccagcattctggcgcttatcccggcatggcatgagatctgcataagcggaaagcgCagcaatttttgtcttataca -24 -12 +1 |
TGCAT | TGGCAT | [AIPP] [HIPP] [IEP] |
[3] [1] |
|
emrDp | 3853845 | emrD | 77 | catattctgccgctaaacaattccccattcctggcgtatatctggctaacattcatcaatGtgatagattcctctcccgca -24 -12 +1 |
GGCTA | TGGCGT | [HIPP] [IEP] |
[1] | |
fdhFp | 4299407 | fdhF | 41 | cccgtaatatcagggaatgaccccacataaaatgtggcataaaagatgcatactgtagtcGagagcgcgtatgcgtgattt -24 -12 +1 |
TGCAT | TGGCAT | [TIM] | [10] [11] |
|
flhDp2 | 1978577 | flhC, flhD | 380 | aacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaaTcggtggagctgcatgacaaa -24 -12 +1 |
CGCTG | TGGGAC | [HIPP] [IEP] |
[1] | |
glmYp1 | 2691340 | glmY | 0 | ataatcagtacgttaccaaactattttctttattggcacagttactgcataatagtaaccAgtggctcattcaccgactta -24 -12 +1 |
TGCAT | TGGCAC | [CV(RS-EPT-CBR)] [CV(TIM)] [HIPP] [RS-EPT-CBR] [TIM] |
[12] [13] [14] |
|
glnAp2 | 4058107 | glnG, glnL, glnA | 73 | gcatgataacgccttttaggggcaatttaaaagttggcacagatttcgctttatctttttTacggcgacacggccaaaata -24 -12 +1 |
CGCTT | TGGCAC | [TIM] | [15] [16] [17] |
|
glnHp2 | 848047 | glnQ, glnP, glnH | 43 | gccgcatctcgaaaaatcaaggagttgcaaaactggcacgattttttcatatatgtgaatGtcacgcaggggatcgtcccg -24 -12 +1 |
TTCAT | TGGCAC | [CV(RS-EPT-CBR)] [CV(TIM)] [RS-EPT-CBR] [TIM] |
[18] [13] |
|
glnKp | 472556 | glnK, amtB | 42 | ttaacttcctgctctctttctcgtttttcatttctggcacaccgcttgcaataccttcttCgtgtagcagaaccattaccg -24 -12 +1 |
TGCAA | TGGCAC | [AIPP] [HIPP] |
[3] [19] |
|
glpQp | 2351124 | glpQ | 113 | ggtggcggcgagcgcgattgttggctacaccgtggacttcttcggctgggatggcggcttTatggtaatgattggcggcag -24 -12 +1 |
GCTGG | TGGACT | [RE] [TIM] |
[20] | |
gltIp | null | gltL, gltK, gltJ, sroC, gltI | [AIPP] | [3] | |||||
gnsAp | 1052004 | gnsA | 63 | ataacctgttgattattgaatctttcggggagatggcttataacatttcttacctgaccaGggtaccgggaaccaacacct -24 -12 +1 |
TTTCT | TGGCTT | [RE] [TIM] |
[20] | |
htpGp3 | 494817 | htpG | 303 | tcggtccggatgatatcgggcttgatcgtctggaacagcgtctggcagaggaaaaaatcaCtgaagtgatcctcgccacca -24 -12 +1 |
GGCAG | TGGAAC | [HIPP] [IEP] |
[1] | |
hycAp | 2850461 | hycI, hycH, hycG, hycF, hycE, hycD, hycC, hycB, hycA | 26 | ttaaaaatctctttaataacaataaattaaaagttggcacaaaaaatgcttaaagctggcAtctctgttaaacgggtaacc -24 -12 +1 |
TGCTT | TGGCAC | [CV(RS-EPT-CBR)] [CV(TIM)] [RS-EPT-CBR] [TIM] |
[21] [13] |
|
hydNp | 2838132 | hypF, hydN | 27 | aattaatttccttaaataacagtaaattaaaaactggcatgatttgtgaatgtatcggcgCattaactgtcattgctggag -24 -12 +1 |
TGAAT | TGGCAT | [HIPP] [TIM] |
[22] | |
hyfAp | 2601171 | hyfA, hyfB, hyfC, hyfD, hyfE, hyfF, hyfG, hyfH, hyfI, hyfJ, hyfR, focB | 30 | cataacttattgaatatattgagttaatcagaatggcatcctttatgcaatatgaaatgcAatgtttcatatcattttcaa -24 -12 +1 |
TGCAA | TGGCAT | [HIPP] [TIM] |
[23] | |
hypAp | 2850627 | hypA, hypB, hypC, hypD, hypE, fhlA | 20 | catcgacattattcaccgcagggataatcaacactggcacaattattgcttgtagctggcAatagttaatgggaggcgata -24 -12 +1 |
TGCTT | TGGCAC | [TIM] | [24] | |
ibpBp | 3866981 | ibpB | 84 | gcgaaaaaaccgcgccgtatcgaaatcaactaattccctaaggccgcctggcgcggcctgAcatctccatgctcgccgtca -24 -12 +1 |
GGCCT | GGCCGC | [TIM] | [25] | |
nacp | 2061978 | nac | 45 | ttggttagcttgtacatcaacaccaaaataaaactggcaagcatcttgcaatctggttgtAagtaatggcggcacttgggc -24 -12 +1 |
TGCAA | TGGCAA | [HIPP] [TIM] |
[26] | |
nikAp2 | 3613439 | nikA, nikB, nikC, nikD, nikE, nikR | 228 | agccatcgttaaacagcgtggcggcagcgcctggcaaatcgtcagcgtagacagcacctaTcactcctcgctgtcagtcag -24 -12 +1 |
AGCGT | TGGCAA | [HIPP] [IEP] |
[1] | |
norVp | 2832439 | norV, norW | 37 | ttatttatagagtaaaaacaatcagataaaaaactggcacgcaatctgcaattagcaagaCatctttttagaacacgctga -24 -12 +1 |
TGCAA | TGGCAC | [AIPP] [HIPP] [IEP] [TIM] |
[3] [27] [1] |
|
patAp | 3219458 | patA | 36 | gtgtttatcccgattttcgcgatcgcagccggagtggcgcaatccctgcaatacttaaatCggtatcatgtgatacgcgag -24 -12 +1 |
TGCAA | TGGCGC | [AIPP] [TIM] |
[28] | |
potFp1 | 893736 | potF, potG, potH, potI | 48 | gttctcttttcttacaccgcgccgataaaaaatatgcacgtttattgcatatctttcagtGtgacaacttttgttcgtttg -24 -12 +1 |
TGCAT | ATGCAC | [AIPP] | [3] | |
prpBp | 348646 | prpB, prpC, prpD, prpE | 36 | tgaaattaaacatttaattttattaaggcaattgtggcacaccccttgctttgtctttatCaacgcaaataacaagttgat -24 -12 +1 |
TGCTT | TGGCAC | [AIPP] | [3] | |
pspAp | 1368038 | pspA, pspB, pspC, pspD, pspE | 41 | aatcagatctttataaatcaaaaagataaaaaattggcacgcaaattgtattaacagttcAgcaggacaatcctgaacgca -24 -12 +1 |
TGTAT | TGGCAC | [AIPP] [CV(RS-EPT-CBR)] [CV(TIM)] [RS-EPT-CBR] [TIM] |
[13] [29] |
|
pspGp | 4262816 | pspG | 24 | gggcgttttgctgttaaatcaatagattatttttggcatgattcttgtaatgccagcaagAgatttcatatttgggagagc -24 -12 +1 |
TGTAA | TGGCAT | [ICA] [RPF] |
[30] | |
puuPp | 1359373 | puuP, ymjE | 32 | gtaatccagacatttcccggatgtcgcgttatggagcgcgggcggcaacgggcttccgttAacgattaagactgtgacgag -24 -12 +1 |
GGCAA | TGGAGC | [AIPP] [HIPP] [IEP] |
[3] [1] |
|
radDp | 2280622 | radD | 10 | ctaataacatccctcaagggaaaaagatccatggcatactattagcagaataatctacctAcgcgagaccatgatttttac -24 -12 +1 |
AGCAG | TGGCAT | [HIPP] [IEP] |
[1] | |
relAp3 | 2913700 | relA | 49 | tggatatgttcccacacacgggacatctggaatcgatggtacttttctcgcgcgttaaatAgttgcgatttgccgatttcg |
[TIM] | [31] | |||
relAp4 | 2914318 | relA | 667 | ccgcaccgctaagttcggcagatcgcgaaaaactggaacgcttttcgcattctgaaggccTggatctgtatctcgcccccg |
[TIM] | [31] | |||
rhaDp | 4094385 | rhaD | 113 | gattgccggatgcggcacaagtgccttatcaggcctacaggtcggcaatagttgtaggccTgataagacgcgacagcgtcg -24 -12 +1 |
GGCAA | AGGCCT | [HIPP] [IEP] |
[1] | |
rpoEp2b | 2710339 | rseC, rseB, rseA, rpoE, rseD | 175 | aacatggtttggtcagcatagcatcatgttgtgcggataaacacctgctattttaatattTgttacagttgctaaacacgc -24 -12 +1 |
TATTTT | ATGTTG | [TIM] | [32] | |
rpoEp2b | 2710339 | rseC, rseB, rseA, rpoE, rseD | 175 | aacatggtttggtcagcatagcatcatgttgtgcggataaacacctgctattttaatattTgttacagttgctaaacacgc -24 -12 +1 |
TGCTA | CGGATA | [TIM] | [32] | |
rpoHp6 | 3600813 | rpoH | 30 | aacagtgaatgataacctcgttgctcttaagctctggcacagttgttgctaccactgaagCgccagaagatatcgattgag -24 -12 +1 |
TGCTA | TGGCAC | [CV(RPF)] [CV(RPF/TIM)] [CV(TIM)] [HIPP] [RPF] [TIM] |
[33] [34] |
|
rtcBp | 3558107 | rtcA, rtcB | 28 | tgaattaaaaaattaagctgcttatttaattttctggcacgacggttgcaattatcaggaCagcaaacaacgaaaagagaa -24 -12 +1 |
TGCAA | TGGCAC | [HIPP] [TIM] |
[35] | |
rtcRp | null | rtcR | [HIPP] | [35] | |||||
rutAp | 1074026 | rutG, rutF, rutE, rutD, rutC, rutB, rutA | 15 | aacagattaataacattaactttttaaaaactggcatccgctttgcaaacaagccaatacGcggctgaaaaggatatgcag -24 -12 +1 |
TGCAA | TGGCAT | [AIPP] [HIPP] [IEP] |
[3] [1] |
|
xapBp3 | 2524375 | xapB | 390 | taacgatgatcgttttggagagcgcttcttctcactggcaaatgcctacgatgcggaataCcgcgcactgttacaaaaagt -24 -12 +1 |
ACGAT | TGGCAA | [RE] [TIM] |
[20] | |
xdhAp2 | 3000265 | xdhA, xdhB, xdhC | 80 | cctacctcccctaacgcttatcgtcgtttctggcgtaaatcttgcctgcttagactaaatCtttgccataagaaccaaatg -24 -12 +1 |
TGCCTG | TGGCG | [HIPP] [IEP] [TIM] |
[36] [1] |
|
yaaUp | 45592 | yaaU | 215 | cacattgttgtgaaggccgatgctgataaacaggcgctggagctgctggtgaaagcgtgcCccgcaggtctgtacaagaag -24 -12 +1 |
TGAAA | TGGAGC | [HIPP] [IEP] |
[1] | |
yahEp | 335739 | yahE | 186 | cagaccaaccatgtaggctggacgccgctactggaagcgattgtgcttaatgatggtggtAttaaacagcaggcgattgtg -24 -12 +1 |
TGCTT | TGGAAG | [HIPP] [IEP] |
[1] | |
yeaGp1 | 1866815 | yeaG, yeaH | 93 | atcaccgggcacgttgttctcatcgtcgataaaatggcatgagagttgctgtgttttagcAagagacgtcgttcagtttac -24 -12 +1 |
TGCTG | TGGCAT | [AIPP] | [3] | |
ygfKp | 3015992 | ygfK, ssnA | 68 | cctcacatttttttatatttcccgccaaacctggcaagagtggtgcgattgttgctctatCcccctaaaccaccggatttc -24 -12 +1 |
TGCGA | TGGCAA | [HIPP] [IEP] |
[1] | |
yhdWp | 3418972 | yhdW, yhdX, yhdY, yhdZ | 70 | cagcttattgcgacgcgaaatcgtgcgcaaaagctggcactacttttgcttataagaggaTggccacagacaggtaaaaga |
[AIPP] | [3] | |||
yhjCp | 3672136 | yhjC | 278 | aaaacaattttgaggatttccttatattggtggttagtacgcatgcaattaaaaatgaaaTtccgcgaccacaagccaaaa -24 -12 +1 |
TGCAA | TGGTTA | [HIPP] [IEP] |
[1] | |
zraPp | 4201712 | zraP | 24 | gccagattacccgtcatatcagcgtttcatcgttggcacggaagatgcaatacccgaagtAagacaaccactggaggatta -24 -12 +1 |
TGCAA | TGGCAC | [AIPP] [HIPP] |
[37] [3] |
|
zraSp | 4201905 | zraS, zraR | 21 | tgtgttacagcgcagggtaagcgctgataaaagatggcatgatttctgctgtcagaaaggGatgagcaggcaaagaagaag -24 -12 +1 |
TGCTG | TGGCAT | [AIPP] [HIPP] |
[37] [3] |
Evidence: | [HIPP] Human inference of promoter position [IEP] Inferred from expression pattern [AIPP] Automated inference of promoter position [CV(RPF)] cross validation(RPF) [CV(RPF/TIM)] cross validation(RPF/TIM) [CV(TIM)] cross validation(TIM) [RPF] RNA polymerase footprinting [TIM] Transcription initiation mapping [IMP] Inferred from mutant phenotype [CV(RS-EPT-CBR)] cross validation(RS-EPT-CBR) [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates [RE] RNA-seq evidence [ICA] Inferred by computational analysis |