A1BG response element gene transcriptions

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Associate Editor(s)-in-Chief: Henry A. Hoff

Def. nucleotide "sequences, usually upstream, which are recognized by specific regulatory transcription factors, thereby causing gene response to various regulatory agents", [that] "may be found in both promoter and enhancer regions"[1] are called response elements.

Hypotheses

  1. A1BG has no response elements in either promoter.
  2. A1BG is not transcribed by a response element.
  3. Each response element does not participate in the transcription of A1BG.

Response element testing

Response element
Name of elements Consensus sequences Testing Notes
Abbreviations variations Present (Y), Absent (N)
Authors
1. ABA responsive elements

(ABREs)

ACGTG(G/T)C Y -
2. novel ABA-response elements

(ABREN, novel ABRE)

GATCGATC, CGATCGAT, GATCGAT N ABREN, CGATCGAT motif, and core of ABREN and CGATCGAT motif.[2]
3. ABA-response element-like

(ABRE-like)

ACGTGTCC N third highest scoring motif[2]
4. Activated B-cell Factor-1s

(ABFs)

CGTNNNNN(A/G)(C/T)GA(C/T) Y -
5. Abf1 regulatory factors CGTCCTCTACGAT N CGTNNNNNACGAT[3]
6. A boxes TACGTA Y -
7. boxes A TGACTCT Y -
9. Abscisic acid-responsive elements (Pho4s), G boxes CACGTG[4] Y -
10. ACGT-containing elements ACGT Y -
11. Activating protein 2

(AP2)

(Cohen)

GCCTGGCC Y -
12. Activating protein 2

(Cohen)

TCCCCCGCCC Y -
13. Activating protein 2

(Murata)

(C/G)CCN(3,4)GG(C/G) Y -
14. Activating proteins

(Murata)

GCCCACGGG N Activating protein 2[5]
15. Activating protein 2

(Yao)

TCTTCCC Y -
16. Activating protein 2

(Yao)

CTCCCA Y -
17. Activating proteins

(AP-2)

(Yao)

GGCCAA N Activating protein 2 (AP-2)[6]
18. AhR-responsive elements

(AHRE)

(Yao)

(G/T)NGCGTG(A/C)(C/G)A N in the promoter region of AhR responsive genes
19. Activating transcription factors

(Burton)

(A/C/G)TT(A/G/T)C(A/G)TCA Y -
20. Activating transcription factors

(Kilberg)

(A/G/T)TT(A/G/T)CATCA Y -
21. Adr1ps TTGG(A/G)G Y -
22. Aft1s (C/T)(A/G)CACCC(A/G) Y -
23. AGC boxes AGCCGCC Y -
24. AhR responsive element

(AHRE-II)

CATGN6C(A/T)TG Y -
25. Alpha-amylase conserved elements TATCCA N TATCCATCCATCC[7]
26. Amino acid response elements

(AARE)

(Maruyama)

ATTGCATCA N AARE1 (ATTGCATCA)[8]
27. Amino acid response elements

(AARE)

(Broer)

TTTGCATCA N TTTGCATCA.[9][10]
28. Amino acid response element-like

(AARE-like)

TGGTGAAAG N AARE-like sequence (TGGTGAAAG, named AARE3)[8]
29. Androgen response elements

(AREs)

(Kouhpayeh)

GGTACANNNTGTTCT[11] N GGTACACGGTGTTCT[11]
30. Androgen response elements

(Kouhpayeh)

GGTACAnnnTGTTCT Y Positive strand: TGTTCT at 45, Negative strand: TGTTCT at 108

Positive strand: GGTACA at 3901, GGTACA at 3336, GGTACA at 2474

31. Androgen response elements

(Wilson)

AGAACANNNTGTTCT[12] Y Negative strand: TGTTCT at 3759, TGTTCT at 3635, TGTTCT at 3340, TGTTCT at 3307; AGAACA at 4068, AGAACA at 3094, TGTTCT at 108, AGAACA at 281

Positive strand: AGAACA at 3668, AGAACA at 287, TGTTCT at 45

32. Androgen response elements

(AREs)

(Wilson)

TGATTCGTGAG N AGAACANNNTGTTCT[12]
33. Antioxidant-electrophile responsive elements

(Lacher)

GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A Y -
34. Antioxidant-electrophile responsive elements

(Otsuki)

GTGAGGTCGC N GTGAGGTCGC[13] or GCTGAGT, GCAGGCT of GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A[14], an antioxidant response element (ARE)
35. ATA boxes AATAAA Y -
36. Auxin response factors

(Ulmasov)

TGTCTC Y -
37. Auxin response factors

(Boer)

TGTCGG Y -
38. B-boxes

(Johnson)

TGGGCA Y -
39. boxes B

(Sanchez)

TGTCTCA Y -
40. B recognition elements

(BREu)

(G/C)(G/C)(G/A)CGCC Y -
41. CAAT boxes (C/T)(A/G)(A/G)CCAATC(A/G) N consensus sequence for the CCAAT-enhancer-binding site (C/EBP) is TAGCATT
42. CadC binding domains TTANNNNT Y -
43. Calcineurin-responsive transcription factors TG(A/C)GCCNC Y -
44. Calcium-response elements CTATTTCGAG N CaRE1 CTATTTCGAG[15]
45. Carbohydrate response elements

(ChREs)

CACGTGACCGGATCTTG, TCCGCCCCCATCACGTG N ChoRE1, ChoRE2[16]
46. Carbohydrate response elements ChoRE1 ACCGG, ChoRE2 CCCAT Y -
47. CAACTC regulatory elements

(CAREs)

CAACTC Y -
48. CArG boxes CCAAAAAT(G/A)G Y -
49. Cat8ps CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA Y -
50. CAT boxes CATTCCT Y -
51. Cbf1 regulatory factors TCACGTGA N strongly bound Cbf1 motifs enriched at both ends with a "T" on the 5′ and "A" on the 3′ end
52. C-boxes

(Johnson)

GAGGCCATCT N GAGGCCATCT[17]
53. C boxes

(Samarsky)

AGTAGT Y -
54. C-boxes

(Song)

GACGTC Y -
55. C/A hybrid boxes TGACGTAT N TGACGTAT[18] A at the 12 position
56. hybrid C/G-boxes

(Song)

TGACGTGT Y -
57. C/T hybrid boxes TGACGTTA N TGACGTTA[18] T at the 12 position
58. C boxes

(Voronina)

GGTGATG Y -
59. CCAAT-boxes-binding transcription factors

(Hap4p)

CCAAT Y -
60. CCCTC-binding factors

(CTCF)

NCA-NNA-G(A/G)N-GGC-(A/G)(C/G)(C/T) N NCA-NNA-G(G/A)N-GGC-(G/A)(C/G)(T/C)[19]
61. C/EBP boxes TTAGGACAT,[20] or TAGCATT[6] N CCAAT-enhancer-binding site (C/EBP) is TAGCATT
62. Cell cycle regulation CCCAACGGT[7] N tomato genome-wide analysis
63. CENP-B boxes TTTCGTTGGAAGCGGGA N specifically localized at the centromere
64. CGCG boxes (A/C/G)CGCG(C/G/T) Y -
65. Coupling elements

(CE)

TGCCACCGG[2] N CE1 (Watanabe)
66. Circadian control elements CAANNNNATC Y -
67. Cold-responsive elements CCGAC Y -
68. Coupling elements

(CE1s)

(Watanabe)

GCGTGTC Y -
69. Coupling elements

(CE3s)

(Ding)

CACGCG Y -
70. cAMP-responsive elements

(CREs), Aca1ps, Sko1ps

TGACGTCA Y -
71. DAF-16 binding elements (A/G)(C/T)AAA(C/T)A Y -
72. DAF-16-associated elements

(DAE)

TGATAAG N DAF-16-associated element (DAE)[21]
73. D-boxes

(Mracek1)

GTTGTATAAC N GTTGTATAAC[22]
74. D-boxes

(Mracek)

CTTATGTAAA (Mracek2) N CTTATGTAAA[22]
75. D-boxes

(Johnson)

TCTCACA N TCTCACATT(A/C)AATAAGTCA is a D-box.[17]
76. D boxes

(Samarsky)

AGTCTG Y -
77. D boxes

(Voronina)

TCCTG Y -
78. D-boxes

(Motojima)

TGAGTGG Y -
79. Dioxin-responsive elements

(DREs)

TNGCGTG Y -
80. Defense and stress-responsive elements ATTTTCTTCA N (ATTTTCTTCA)[7]
81. DNA damage response elements

(DREs)

(Smith)

TTTCAAT[23] N in the upstream repression sequence (URS)
82. DNA damage response elements

(DRE, core)

(Sumrada)

CCGCC Y -
83. DNA damage response elements

(DREs)

(Sumrada)

TAGCCGCCG of TAGCCGCCGRRRR[24] N in the upstream repression sequence (URS)
84. DNA replication-related elements

(DREs)

TATCGATA N DNA replication-related element (DRE)[25]
85. Downstream B recognition elements (A/G)T(A/G/T)(G/T)(G/T)(G/T)(G/T) Y -
86. Downstream core elements

(DCEs)

CTTC...CTGT...AGC Y -
87. Downstream promoter elements

(DPEs)

(A/G)G(A/T)(C/T)(A/C/G)T Y -
88. DREB boxes TACCGACAT N CRT/DREB box
89. E2 boxes (G/A)CAG(A/C/G/T)TG(A/C/G/T) Y -
90. EIF4E basal elements TTACCCCCCCTT N poly(C) motif
91. EIN3 binding sites A(C/T)G(A/T)A(C/T)CT Y -
92. Endoplasmic reticulum stress response elements

(ERSE)

CCAAT N CCAATGGGCTGAAAC between ZNF497 and A1BG, compare CCAAT-box and ERSE below
93. Endoplasmic reticulum stress response elements CCAAT-N9-CCACG, CCACG Y -
94. Endosperm expressions TGTGTCA Y -
95. Enhancer boxes CA(A/C/G/T)(A/C/G/T)TG Y -
96. Estrogen response elements

(EREs)

AGGTTA or GGTCAGGAT N AGGTTATTGCCTCCT or GGTCAGGATGAC
97. Ethylene responsive elements ATTTCAAA Y -
98. F boxes TGATAAG[26] N F-box overlaps the I-box
99. Forkhead boxes GTAAACAA[27] N GTAAACAA FOXO1
100. Forkhead boxes (A/G)(C/T)AAA(C/T)A Y -
101. GAAC elements GAACT Y -
102. Gal4ps CGGACCGC N CGG(A/G)NN(A/G)C(C/T)N(C/T)NCNCCG[28]
103. γ-interferon activated sequences

(GAS)

TTCCTAGAA N ALS-GAS1 between nt −633 and nt −625
104. Γ-interferon activated sequences

(GAS), see STAT5

TTNCNNNAA Y -
105. GATA boxes GATA Y -
106. G boxes (G/T)CCACGTG(G/T)C N no "perfect palindrome" G boxes in either promoter
107. GC boxes

(Briggs)

(G/T)(G/A)GGCG(G/T)(G/A)(G/A)(C/T) Y -
108. GC boxes

(Ye)

GGGCGG Y Negative strand, negative direction: CCGCCC at 4000, CCGCCC at 3091
109. GCC boxes GCCGCC Y -
110. General control nonderepressible 4 protein binding site

(GCRE, GCN4)

TGA(C/G/T)T(A/C/G)(A/T) Y -
111. GCN4 motifs TGACTCA, TGAGTCA N ACGT motif
112. Gcn4ps ATGACTCTT[28] N GCN4 motifs
113. Gibberellic acid responsive elements

(GAREs)

TAACAAA Y -
113. Gibberellin responsive elements

(GAREs)

(Sharma)

AAACAGA[7] Y -
114. GARE-like 1

(Fan)

TAACA(A/G)A[29] Y -
115. Gibberellin responsive element-like 2

(GARE-like 2)

(Fan)

TAACGTA[29] N "in the promoters of hydrolase genes".[29]
116. GLM boxes (G/A)TGA(G/C)TCA(T/C) N GCN4-like motif
117. G-protein-coupled receptors

(GCR1s), CT boxes

CTTCC Y -
118. Glucocorticoid response elements AGAACA Y -
119. Grainy head transcription factor binding sites AACCGGTT N also GACTGGTT
120. GT boxes

(Motojima)

TGGGTGGGGCT N (-78 to -69)
121. GT boxes

(Sato)

GGGG(T/A)GGGG Y Negative strand, Positive direction: GGGGAGGGG at 2291
122. Hac1 KAR2 CAGCGTG Y Positive strand, negative direction: CAGCGTG at 740, Negative strand, positive direction: CACGCTG at 778
123. H and ACA boxes AGAGGA Y -
124. Hapless motifs CCAATCA N heterotrimeric transcription factor, HAP2/3/4.[30]
125. H boxes

(Lindsay)

CCTACC Y -
126. H box

(Mitchell)

ANANNA Y -
127. H box

(Rozhdestvensky)

ACACCA Y -
128. Heat-responsive elements AAAAAATTTC N four nGAAn motifs
129. Heat shock elements

(HSEs)

(Eastmond)

nGAAn-(5-bp)-nGAAnnTTCn Y Negative strand, positive direction: GGAATTCACATGAACCTTCA at 332
130. Heat shock elements

(HSEs)

(Eastmond)

nGA(A/G)n-(5-bp)-nGAAnnTTCn (GAP) Y Negative strand, positive direction: GGAATTCACATGAACCTTCA at 332
131. Heat shock elements

(HSEs)

(Eastmond)

nGAAn-(5-bp)-nGA(A/G)nnTTCn (GAP) Y Negative strand, negative direction: GGAATTCACATGAACCTTCA at 332
132. Heat shock elements

(HSEs)

(Eastmond)

nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn Y Postive strand, negative direction: AGAAGAAAAAAGAAAAGAGAAGAAA at 2831
133. Heat shock elements

(HSE1)

(Eastmond)

nGAAnnTTCnnGAAn N HSE1
134. Heat shock elements

(HSE2)

(Eastmond)

nTTCnnGAAnnTTCn N HSE2 is the inverse complement of HSE1
135. Heat shock elements

(HSE5)

(Eastmond)

nTTCn-(5-bp)-nTTCnnGAAn N HSE5
136. Heat shock elements

(HSE6)

(Eastmond)

nTTCn-nnGAAn-(5-bp)-nGAAn N HSE6
137. Heat shock elements

(HSE7)

(Eastmond)

nGA(A/G)nnTTCnnGAAn N HSE7 PFT1
138. Heat shock elements

(HSE)

(Eastmond)

nGAAnnTTCnnGA(A/G)n N HSE7 PFT2
139. Heat shock elements

(HSE10)

(Eastmond)

nTTCn-(11-bp)-nGAAn-(5 bp)-nGAAn N HSE10
140. Hex sequences TGACGTGGC Y Positive strand, positive direction: TGACGTGGC at 4344
141. High Mobility Group boxes

(HMG boxes)

(A/T)(A/T)CAAAG Y Positive strand, negative direction: ATCAAAG at 2891
142. HNF6s (A/G/T)(A/T)(A/G)T(C/T)(A/C/G)AT(A/C/G/T)(A/G/T) Y Positive strand, negative direction: TTATTAATTC at 4542, TTATTAATCG at 4229, TAGTTGATAA at 3527
143. Homeoboxes CAAG Y -
144. HY boxes TG(A/T)GGG Y Negative strand, negative direction: CCCTCA at 4498, CCCTCA at 3889, CCCACA at 3184

Positive strand, negative direction: TGAGGG at 4558, TGTGGG at 3712, TGAGGG at 3652

145. Hypoxia-inducible factors GCCCTACGTGCTGTCTCA[31] N composed of HIF-1α and HIF-1β
146. Hypoxia response elements ACGTG Y Negative strand: ACGTG at 4339, CACGT at 3429, ACGTG at 3288, CACGT at 2863

Positive strand: ACGTG at 4237

147. I boxes GATAAG N GGATGAGATAAGA
148. Initiator elements

(Inrs)

YYANWYY Y Negative strand, negative direction: TTACTCC at 4557, TCACACT at 4361, TCGGACC at 4349, CCAGTTT at 4309, TCGGACC at 4300, GGTCCGA at 4255, CTGCACC at 4238, TCGGTCT at 4233

Positive strand, negative direction: GGAATGA at 4555, TTAATTC at 4542, TCACATT at 4533, AGTCCAA at 4502, CCACTTT at 4461, CCACTCC at 4425, CCACTCC at 4425, CCAGTTC at 4417, AGTGTGA at 4361, CTGCACT at 4340, CCGGACT at 4327, AAAATAA at 4221

149. Initiator elements

(Inrs)

BBCABW Y Negative strand, negative direction: TCTGGG at 4366, GTCACA at 4359, CCCACT at 4353, TGTGAC at 4336, GTCACT at 4319, TCCAGT at 4307, TCTGCA at 4236

Positive strand, negative direction: AATGAG at 4556, TTCACA at 4531, CCCACT at 4485, TCCACT at 4459, CCCAGA at 4448, TCCACT at 4423, GCCAGT at 4415, TGCACT at 4340, TGCAGT at 4317, GCCAGA at 4233

150. Initiator-like elements TTCTCT Y Negative strand: AGAGAA at 4527, TTCTCT at 3380
151. Inositol/choline-responsive elements

(ICRE)

(Case)

CANNTGAAAT N version of Lopes, see below
152. Inositol/choline-responsive elements

(ICRE)

(Case, Lopes)

CATGTGAAAT includes the canonical basic helix-loop-helix (bHLH) binding site CANNTG (Lopes et al. 1991) Y -
153. Inositol/choline-responsive elements

(ICRE)

(Lopes)

ATGTGAAAT N using ANNTGAAAT
154. Inositol/choline-responsive elements

(ICREs)

(Schwank)

TYTTCACATGY contains the core sequence CANNTG Y -
155. Interferon regulatory factor

(IFF3)

GCTTTCC Y -
156. Jasmonic acid-responsive elements

(JAREs)

TGACG Y -
157. Kozak sequences GCCGCC(A/G)CCATGG N GCCGCC(A/G)CCATGG[32]
158. Kozak sequences

(Matsumoto)

GAAAATGG N GAAAATGG[33]
159. Krüppel-like factors GGGNN(G/T)(G/T)(G/T) Y -
160. L boxes AAATTAACCAA N AAATTAACCAA[34]
161. -35 sequence TTGACA Y Negative strand: TTGACA at 4399
162. Maf recognition element

(MAREs)

TGCTGA(G/C)TCAGCA N and TGCTGA(GC/CG)TCAGCA[35]
163. M boxes GTCATGTGCT N or AGTCATGTGCT[36]
164. Mcm1 regulatory factors TT(A/T)CCNN(A/T)TNGG(A/T)AA N Primary consensus sequence apparently: TT(A/T)CCNN(A/T)TNGG(A/T)AA.[3]
165. Met31ps AAACTGTG[37] Y Positive strand, negative direction: AAACTGTG at 4400
166. Metal responsive elements

(MRE)

TGC(A/G)C(A/C/G/T)C Y Positive strand: TGCACTC at 4341, TGCACTC at 3290, GTGTGCA at 2863
167. Middle sporulation element

(MSE)

(Branco)

ACACAAA Y Negative strand, negative direction: TTTGTGT at 3513
168. Midsporulation element

(MSE)

(Ozsarac)

C(A/G)CAAA(A/T) Y Negative strand, negative direction: TTTTGTG at 3512

Positive strand, negative direction: CACAAAA at 3767

169. Multicopy inhibitor of the GAL1 promoter

(MIG1)

(C/G)(C/T)GGGG Y Negative strand, negative direction: GTGGGG at 4445, GTGGGG at 3058

Positive strand, negative direction: CCCCAG at 4447, CTGGGG at 3037

170. Motif ten elements C(C/G)A(A/G)C(C/G)(C/G)AACG(C/G) N Gene ID: 6309
171. Myeloblastosis recognition element

(MRE)

A(A/C)C(A/T)A(A/C)C Y Negative strand: GGTAGGT at 4457, ACCAACC at 3946, ACCAACC at 3606, GGTTGTT at 3139
172. Myocyte enhancer factors

(MEFs)

(C/T)TA(A/T)(A/T)(A/T)(A/T)TA(A/G) Y Negative strand, negative direction: TTATTATTAA at 4226
173. Non-DiTyrosine 80 transcription factor DNA binding domain

(Ndt80)

(A/G/T)NC(A/G)CAAA(A/T) Y Negative strand, negative direction: TTTTGTGTT at 3514

Positive strand: ACCACAAAA at 3767

174. NF‐κB/Rel family of eukaryotic transcription factors CCCCTAAGGGG N NF-κB
175. Nuclear factor 1

(NF-1)

TTGGCNNNNNGCCAA N palindromic sequence
176. Nuclear factor of activated T cells

(NFATs)

GGAAAA Y Negative strand, negative direction: TTTTCC at 3441, TTTTCC at 3345

Positive strand, negative direction: GGAAAA at 2968, GGAAAA at 2927

177. Nuclear factor Ys CCAATGG(A/C)(A/G) N NF-Y is a trimeric complex
178. Nutrient-sensing response element 1 GTTTCATCA Y -
179. Oaf1 transcription factor CGGN3TNAN9-12CCG Y -
180. ORESARA1

(ORE1)

(Matallana)

(A/C/G)(A/C)GT(A/G)N5,6(C/T)AC(A/G) Y Negative strand, negative direction: GCGTAGAAGACACA at 3558, AAGTAGTTTCTACG at 2895
181. ORESARA1

(ORE1)

(Olsen)

T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T) Y Negative strand, negative direction: TGACGTGAG at 4341, TAACGTGAG at 3290

Positive strand, negative direction: ATCACGCCA at 3282

182. p53 response elements (A/G)(A/G)(A/G)C(A/T)(A/T)G(C/T)(C/T)(C/T) Y Positive strand, negative direction: AGACAAGCTT at 4186
183. p63 DNA binding sites (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T) N RRRC(A/G)(A/T)GYYYRRRC(A/T)(C/T)GYYY
184. P-box (Mena) (A/T)AAAG Y Negative strand, negative direction: CTTTT at 4395, CTTTT at 4390, CTTTT at 4383, TAAAG at 3688, TAAAG at 2884

Positive strand, negative direction: AAAAG at 4391, AAAAG at 4386, AAAAG at 4379, AAAAG at 3440, AAAAG at 3344, CTTTT at 3019, TAAAG at 2857

185. P-box

(Motojima)

TGAGTTCA Y -
186. P-box

(Yu)

GTAA(T/C) Y Negative strand, negative direction: ATTAC at 3658, GTAAT at 3436, GTAAC at 3285, GTAAT at 2951

Positive strand, negative direction: GTAAT at 3973, ATTAC at 3469, GTAAT at 3064

187. Pdr1p/Pdr3ps TCCGCGGA N Pdr1p/Pdr3p response elements (PDREs)
188. Peroxisome proliferator-activated receptor alpha CGACCCC Y Negative strand, negative direction: CGACCCC at 3037
189. Peroxisome proliferator hormone response elements

(PPREs)

AGGTCANAGGTCA N PPARs/RXRs heterodimers bind to PPRE
190. Pho4ps CAC(A/G)T(T/G) Y Negative strand, negative direction: TTACAC at 4091, AACGTG at 3288, CACGTT at 2864

Positive strand, negative direction: CACATT at 4533

191. Pollen1 elements AGAAA Y Negative strand, negative direction: TTTCT at 4505, TTTCT at 4392, TTTCT at 4387, TTTCT at 4380, TTTCT at 4083, TTTCT at 3924, TTTCT at 3665, TTTCT at 3378, TTTCT at 2892

Positive strand, negative direction: AGAAA at 4394, AGAAA at 4389, AGAAA at 4382, AGAAA at 4085, AGAAA at 4081, AGAAA at 3591, AGAAA at 3376, AGAAA at 3342

192. Pollen1 with TCCACCATA AGAAANNNNTCCACCATA N adjacent co-dependent regulatory element TCCACCATA
193. Polycomb response elements CGCCAT(A/T)TT N CGCCATTT
194. Polycomb response elements

(PRE)

GCCAT Y Positive strand, negative direction: GCCAT at 3685, ATGGC at 3629, GCCAT at 3283, ATGGC at 3005, ATGGC at 2907
195. Pribnow boxes TATAAT Y Negative strand, negative direction: TATAAT at 3468, TATAAT at 3454
196. Prolamin boxes TG(A/T)AAAG Y Negative strand, negative direction: TGTAAAG at 2884
197. Pyrimidine boxes CCTTTT Y Negative strand, negative direction: CCTTTT at 2968, CCTTTT at 2927

Positive strand, negative direction: AAAAGG at 3441, AAAAGG at 3345

198. Q elements

See Retinoic acid response element

AGGTCA Y Positive strand, negative direction: AGGTCA at 4307
199. Quinone reductase response element

(QRDRE)

(Yao)

TCCCCT of TCCCCTTGCGTG Y -
200. Rap1 regulatory factors ACCC(A/G)N(A/G)CA N "(ACCCRnRCA), less than half of the sites were detectably bound"[3]
201. Rap1 reduced consensus (A/G)(A/C)ACCC(A/G)N(A/G)C(A/C)(C/T)(A/C) Y Positive strand, positive direction: GAACCCACACCTC at 1807
202. Reb1 bound and exact occurrences TTACCC(G/T) Y Negative strand, negative direction: TTACCCT at 3661
203. Extended Reb1 ATTACCCGAA N "extended motif VTTACCCGNH (IUPAC nomenclature) (Rhee and Pugh 2011)."[3]
204. Retinoic acid response element AG(A/G)TCA Y Negative strand, negative direction: TGATCT at 3463
205. Glucose transporter gene repressor

(Rgt1)

CGG(A/G)(A/T)N(A/T)(A/T) Y Negative strand, negative direction: ATTTTCCG at 3442
206. Rlm1ps CTATATATAG N CTA(T/A)4TAG
207. classic RORE motif

(RORE)

A(A/T)NTAGGTCA Y -
208. variant RORE motif C(T/A)(G/A)GGNCA Y Negative strand, negative direction: CTGGGACA at 4369, CTGGGACA at 4208
209. Rox1ps RRRTAACAAGAG N Heme-dependent repressor of hypoxic genes.[28]
210. Rpn4ps GGTGGCAAA N proteasome genes
211. R response elements

(RRE)

CATCTG Y Negative strand, negative direction: CAGATG at 4212, CAGATG at 2988

Positive strand, negative direction: CAGATG at 3919, CAGATG at 3627, CAGATG at 3620

212. Seed-specific elements CATGCATG N SRE consensus: CAGCAGATTGCG is none
213. Serum response elements

(SRE)

see CArG boxes

ACAGGATGT Y Negative strand, positive direction: ACAGGATGT at 3575
214. Servenius sequences GGACCCT Y Negative strand, negative direction: GGACCCT at 4548, GGACCCT at 4496, GGACCCT at 4302
215. Shoot specific elements GATAATGATG N SRE consensus: CAGCAGATTGCG is none
216. Sip4ps CC(C/G)T(C/T)C(C/G)TCCG N CC(C/G)T(C/T)C(C/G)TCCG[28]
217. Smp1ps ACTACTA(A/T)(A/T)(A/T)(A/T)TAG N ACTACTA(T/A)4TAG[28]
218. SP1

(Zhang)

(G/T)GGGCGG(G/A)(G/A)(C/T) Y see GC boxes above
219. SP1-box 1

(Motojima)

GGGGCT Y Positive strand, negative direction: GGGGCT at 3039
220. SP1-box 2

(Motojima)

CTGCCC Y Positive strand, negative direction: CTGCCC at 3853
221. SP-1

(Sato)

CCGCCCC Y Negative strand, positive direction: GGGGCGG at 4439, GGGGCGG at 4429
222. SP1

(Yao)

GCGGC Y Negative strand, negative direction: GCCGC at 2726

Positive strand, negative direction: GCGGC at 2725

223. STAT5 TTCNNNGAA Y Positive strand, negative direction: TTCCCTGAA at 3782, TTCGTTGAA at 3506
224. Sterol response elements

(Branco)

TCGTATA N perhaps plant specific
225. Sterol response elements

(Yao)

AGCAGATTGCG N liver specific
226. Stress-response elements

(STREs)

CCCCT Y Negative strand, negative direction: CCCCT at 2924

Positive strand, negative direction: CCCCT at 3059

227. Sucrose boxes NNAATCA Y Negative strand, negative direction: TGATTCC at 3474, TGATTTT at 3163, TGATTCG at 3032, TGATTCG at 2915
228. TACTAAC boxes TACTAA(C/T) Y Positive strand, positive direction: TACTAAT at 4157, ATTAGTA at 4148
229. TAGteams CAGGTAG Y Negative strand, positive direction: CAGGTAG at 4035, CTACCTG at 1198
230. Tapetum boxes TCGTGT Y Negative strand, negative direction: ACACGA at 4402, TCGTGT at 3915
231. TATA boxes TATA(A/T)A(A/T)(A/G) Y Negative strand, negative direction: TTTATATA at 2871

Positive strand, negative direction: TATATAAA at 2874

232. TAT Boxes

(Yang)

TATAAAA Y Negative strand, negative direction: TATAAAA at 2853
233. TAT Boxes

{Fan)

TATCCAT Y Negative strand, negative direction: ATGGATA at 2996
234. TATCCAC boxes TATCCAC N GA responsive complex component
235. TCCACCATA elements TCCACCATA N adjacent co-dependent regulatory element of POLLEN1
236. Tec1ps GAATGT ⌘F Ste12p cofactor
237. Tetradecanoylphorbol-13-acetate response elements

(TREs)

TGA(G/C)TCA N cis-regulatory element of the human metallothionein IIa (hMTIIa) promoter and SV40
238. TGF-β control elements

(TCEs)

GAGTGGGGCG ⌘F in mouse and rat, GCGTGGGGGA in humans
235. TGF-β inhibitory elements

(TIEs)

GAGTGGTGA N in the rat transin/stromelysin promoter
236. Thyroid hormone response elements

(TREs)

AGGTCA ⌘F See VDREs, X boxes
237. Unfolded protein response element

(URE) (UPRE-1)

CANCNTG Y Positive strand, negative direction: CAGCCTG at 4348, CATGGTG at 4109, CAGCCTG at 4036, CATCCTG at 3905, CACCCTG at 3743, CAGCCTG at 3297, CAAGGTG at 3143, CAGCCTG at 3127
238. Unfolded protein response elements

(UPREs)

TGACGTG(G/A) ⌘F XBP1 binds to UPRE
239. Upstream stimulating factors

(USFs)

GCC(A/T)NN(C/G/T)(A/G) Y Negative strand, negative direction: CGGTCCAC at 3953

Positive strand, negative direction: CAGATGGC at 3629

240. V boxes (A/G)TT(A/T)(C/T) Y Negative strand, negative direction: ATAAT at 4538, AAAAT at 4512, GTTTC at 4504, GAAAC at 4462, GTTTT at 4376, GTTTT at 4310, ATTAT at 4223, GTTTT at 4216

Positive strand, negative direction: ATTTT at 4511, AAAAC at 4396, AAAAC at 4311, ATAAT at 4225, ATAAT at 4222, AAAAT at 4219

241. Vhr1ps AATCA-N8-TGA(C/T)T ⌘F Response to low biotin [71] concentrations
242. Vitamin D response elements

(VDREs)

(A/G)G(G/T)(G/T)CA ⌘F AGGTCA not ⌘F
243. W boxes (C/T)TGAC(C/T) Y Negative strand, negative direction: GGTCAA at 4416, GGTCAA at 4308, CTGACC at 3749
244. X boxes GTTGGCATGGCAAC N X2 box is AGGTCCA not ⌘F
245. Xbp1ps GcCTCGA(G/A)G(C/A)g(a/g) ⌘F Transcriptional repressor
246. X core promoter elements (A/G/T)(C/G)G(C/T)GG(A/G)A(C/G)(A/C) Y Negative strand, negative direction: TGGTGGGACC at 3744
247. Xenobiotic response elements

(XREs)

GCGTG Y Positive strand, negative direction: CACGC at 3280, GCGTG at 3046
248. Xenobiotic response elements

(XREs)

(T/G)NGCGTG(A/C)(G/C)A ⌘F contains the core sequence GCGTG
249. Yap1p,2ps TTACTAA ⌘F Yap1p binding sites
250. Y boxes (A/G)CTAACC(A/G)(A/G)(C/T) N inverted CAAT box
251. Zap1ps ACCCTCA ⌘F ACC(C/T)(C/T)(A/C/G/T)AAGGT
252. Z boxes A(C/T)A(C/G)GT(A/G)T Y Positive strand, negative direction: ACACCTGT at 3970, ATACCTAT at 2996

Acknowledgements

The content on this page was first contributed by: Henry A. Hoff.

See also

References

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External links

{{Phosphate biochemistry}}