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, Abbreviations, Authors Consensus sequences, Variations Testing Order Resource nucleotides for one occurrence or likelihood found
1. ABA-response element-like, (ABRE-like) ACGTGTCC Absent 21 ABA-response elements 13:07, 8 October 2020 48
2. ABA-response elements, novel, (ABREN, novel ABRE) GATCGATC, CGATCGAT, GATCGAT Absent 22 ABA-response elements 13:07, 8 October 2020 47-48
3. ABA responsive elements (ABREs) ACGTG(G/T)C Present 23 ABA-response elements 05:53, 9 October 2020 likely active or activable
4. Abf1 regulatory factors CGTNNNNNACGAT Absent 25 Abf1 regulatory factors 18:32, 10 October 2020 413
5. A-boxes TACGTA Present 16 A-boxes 21:24, 7 October 2020 likely active or activable
6. Abscisic acid-responsive elements (Pho4s), G boxes CACGTG Present 56 Abscisic acid-responsive elements (Pho4s), G boxes 06:38, 10 May 2022 likely active or activable
7. ACGT-containing elements ACGT Present 59 ACGT-containing elements 03:02, 25 September 2022 cores, proximals likely active or activable, few UTRs, distals may be random
8. Activated B-cell Factor-1s (ABFs, Abfms) CGTNNNNN(A/G)(C/T)GA(C/T) Present 24 Abf1 regulatory factors 17:47, 10 October 2020 likely active or activable
9. Activating proteins (Murata) GCCCACGGG Absent 117 Activating proteins 05:32, 15 December 2022‎ 49
10. Activating protein 2 alpha (AP2a) GCCNNNGGC Present 61 Activating protein 2 alpha 00:57, 29 September 2022‎‎ likely active or activable, positive strand, positive direction within randoms
11. Activating protein 2 (AP2), (Cohen1) GCCTGGCC Present 63 Activating protein 2 06:54, 30 September 2022 likely active or activable
12. Activating protein 2, (Cohen2) TCCCCCGCCC Present 64 Activating protein 2 07:41, 30 September 2022‎‎ likely active or activable
13. Activating protein 2, (Murata) (C/G)CCN(3)GG(C/G) Present 60 Activating protein 2 23:47, 28 September 2022‎ likely active or activable
14. Activating protein 2, (Murata) (C/G)CCN(4)GG(C/G) Present 62 Activating protein 2 19:10, 29 September 2022‎ likely active or activable
15. Activating protein 2, (Yao1) TCTTCCC Present 65 Activating protein 2 08:11, 30 September 2022 likely active or activable
16. Activating protein 2, (Yao2) CTCCCA Present 66 Activating protein 2 19:00, 30 September 2022‎ likely active or activable
17. Activating protein 2, (AP-2), (Yao3) GGCCAA Present 67 Activating proteins 22:23, 30 September 2022‎‎ likely active or activable
18. Activating protein 2, (AP-2), (Roesler) CCCCACC(A/C) Present 200 AP-2 (Roesler) samplings 19:31, 21 April 2023‎ likely active or activable
19. Activating transcription factors, (ATF), (Burton) (A/C/G)TT(A/G/T)C(A/G)TCA Present 68 Activating transcription factors 01:48, 1 October 2022‎ likely active or activable
20. Activating transcription factors, (ATF), (Kilberg) (A/G/T)TT(A/G/T)CATCA Present 69 Activating transcription factors 02:21, 1 October 2022 likely active or activable
21. Adenylate–uridylate rich elements, (AUREs), (Bakheet) (A/T)(A/T)(A/T)TATTTAT(A/T)(A/T) Present 49 Adenylate–uridylate rich elements 02:16, 3 October 2021 likely active or activable
22. Adenylate–uridylate rich elements, (AREs), (Chen and Shyu, Class I) ATTTA Present 115 Adenylate–uridylate rich elements 04:44, 15 December 2022 likely active or activable, UTRs at the lower end of the randoms
23. Adenylate–uridylate rich elements, (AREs), (Chen and Shyu, Class II) TTATTTA(A/T)(A/T) Present 114 Adenylate–uridylate rich elements 04:31, 15 December 2022‎ likely active or activable
24. Adenylate–uridylate rich elements, (AREs), (Chen and Shyu, Class III) ATTT Present 113 Adenylate–uridylate rich elements 04:06, 15 December 2022‎ likely active or activable, low negative direction proximals overlap randoms
25. Adr1ps, (ADR), (Tang 2020) TTGG(A/G)G Present 110 Adr1ps 01:36, 15 December 2022‎ likely active or activable
26. Aft1s, (AFT) (C/T)(A/G)CACCC(A/G) Present 70 Aft1s 15:48, 3 October 2022‎ likely active or activable
27. AGC boxes AGCCGCC (Leubner-Metzger 1998) Present 8 AGC boxes 14:40, 2 May 2014 likely active or activable
28. AhR DNA-binding consensus sequence, (AhRY), (Yao) GCGTGNN(A/T)NNN(C/G) Present 97 AhR DNA-binding consensus sequence 05:37, 5 November 2022‎ likely active or activable for ZNF497
29. AhR-responsive elements (AHRE) (Yao 1992) (G/T)NGCGTG(A/C)(C/G)A Absent 41 AhR/ARNT complex 20:45, 17 February 2021 23*46
30. Alpha-amylase conserved elements (Sharma 2020) TATCCATCCATCC Absent 30 Alpha-amylase conserved elements 22:18, 31 October 2020 413
31. Alpha-amylase conserved elements portion TATCCA Present 119 Alpha-amylase conserved elements portion 05:39, 11 April 2023 likely active or activable
32. Amino acid response elements, (AARE1), (Maruyama) ATTGCATCA Absent 47 Amino acid response elements 01:32, 22 May 2021 49
33. Amino acid response elements, (AARE), (Broer) TTTGCATCA[2][3] Absent 31 Amino acid response elements 01:59, 1 November 2020 49
34. Amino acid response element-like, (AARE-like), (AARE3), (Maruyama) TGGTGAAAG Absent 32 Amino acid response element-like 02:27, 2 November 2020‎ 49
35. Androgen response elements, (AREs), (Kouhpayeh) GGTACANNNTGTTCT Absent 33 Androgen response elements 17:01, 2 November 2020 412
36. Androgen response element1s, (Kouhpayeh) GGTACA of GGTACAnnnTGTTCT Present 71 Androgen response element1s 17:22, 4 October 2022 likely active or activable
37. Androgen response element2s, (Kouhpayeh) TGTTCT of GGTACAnnnTGTTCT Present 72 Androgen response element2s 17:01, 5 October 2022‎ likely active or activable
38. Androgen response elements, (AREs), (Wilson) AGAACANNNTGTTCT Absent 50 Androgen response elements 16:21, 11 November 2021 412
39. Androgen response elements, (Wilson) AGAACANNNTGTTCT Present 73 Androgen response elements 18:53, 5 October 2022 the two portions AGAACA and TGTTCT occurring separately are likely active or activable
40. Angiotensinogen core promoter elements (AGCE) (A/C)T(C/T)GTG Present 104 Angiotensinogen core promoter elements 20:01, 5 December 2022 likely active or activable, positive direction distal low occurrences overlap randoms
41. Antioxidant-electrophile responsive elements, (ARE), (Otsuki) GTGAGGTCGC[4] or GCTGAGT, GCAGGCT of GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A[5] Absent 34 Antioxidant-electrophile responsive elements 06:06, 4 November 2020 (4/3)*2*45-410
42. Antioxidant-electrophile responsive elements, (Lacher) GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A Present 74 Antioxidant-electrophile responsive elements 23:22, 5 October 2022‎ likely active or activable
43. Aryl hydrocarbon responsive element II, (AHRE-II) CATGN6C(A/T)TG Present 105 AhR responsive element or Aryl hydrocarbon responsive element II 18:04, 6 December 2022‎ likely active or activable
44. ATA boxes AATAAA Present 109 ATA boxes 19:59, 14 December 2022‎ likely active or activable
45. ATTTA elements, (Siegel) (A/T)(A/T)(A/T)(A/T)(A/T)(A/T)(A/T)(A/T)(A/T) Present 112 ATTTA elements 04:04, 15 December 2022‎ likely active or activable
46. Auxin response factors, (ARF), (Stigliani) (C/G/T)(A/C/T)(G/T)G(C/T)(C/T)(G/T)(C/G)(A/C/T)(A/G/T) Present 98 Auxin response factors 05:55, 5 November 2022‎ likely active or activable, positive direction proximals overlap high randoms, positive direction cores within randoms
47. Auxin response factors, (ARF), (Ulmasov) TGTCTC Present 99 Auxin response factors 06:02, 5 November 2022‎ likely active or activable
48. Auxin response factors, (ARF), (Boer) TGTCGG Present 75 Auxin response factors 17:03, 7 October 2022‎ likely active or activable
49. Auxin response factors, (ARF5) (C/G/T)N(G/T)GTC(G/T) Present 76 Auxin response factors 04:15, 10 October 2022 likely active or activable, negative direction proximals ≥ randoms
50. B-boxes, (Johnson) TGGGCA Present 78 B-boxes 18:05, 10 October 2022 likely active or activable, positive direction distals ≥ randoms
51. boxes A TGACTCT Present 55 Box A 06:50, 9 May 2022‎ likely active or activable
52. boxes B, (Sanchez) TGTCTCA Present 77 boxes B 15:26, 10 October 2022 likely active or activable
53. B recognition elements, (BREu) (G/C)(G/C)(G/A)CGCC Present 103 B recognition elements 20:39, 4 December 2022 likely active or activable
54. CAACTC regulatory elements, (CAREs), (Fan) CAACTC Present 53 CARE (Fan) 17:45, 7 May 2022 likely active or activable
55. CAAT boxes (C/T)(A/G)(A/G)CCAATC(A/G) Absent 12 CAAT boxes 02:41, 22 March 2019 48, consensus sequence for the CCAAT-enhancer-binding site (C/EBP) is TAGCATT.
56. CACA elements (Orlando 2019) CACA Present 45 CACA elements 05:04, 7 May 2021 likely active or activable
57. CadC binding domains TTANNNNT Present 79 CadC binding domains 22:14, 12 October 2022 likely active or activable, negative direction proximals within randoms
58. Calcineurin-responsive transcription factors TG(A/C)GCCNC Present 108 Calcineurin-responsive transcription factors 19:14, 12 December 2022‎ likely active or activable
59. Calcium-response elements, (CaRE1s), (Tao 2002) CTATTTCGAG Absent 35 Calcium-response elements 19:43, 7 November 2020‎ 410
60. Carbohydrate response elements, (ChREs), (ChoRE1, ChoRE2), (Long 2020) CACGTGACCGGATCTTG, TCCGCCCCCATCACGTG Absent 36 Carbohydrate response elements 20:50, 10 November 2020 417
61. Carbohydrate response elements, (ChoRE1), (Carb) ACCGG Present 57 Carbohydrate response elements 18:56, 18 June 2022 likely active or activable
62. Carbohydrate response elements, (ChoRE2), (Carb1) CCCAT Present 80 Carbohydrate response elements 06:01, 13 October 2022 likely active or activable
63. Carbohydrate response elements, (Carb E1) ATCTTG Present 81 Carbohydrate response elements 18:45, 13 October 2022‎ proximals likely active or activable
64. Carbohydrate response elements, (Carb E2) CACGTG Present 81 Carbohydrate response elements 21:30, 13 October 2022 likely active or activable
65. Carbohydrate response elements, (Carb E3) TCCGCC Present 82 Carbohydrate response elements 01:21, 14 October 2022‎ likely active or activable, low positive direction distals overlap high randoms
66. Carbon source-responsive elements, (CSREs) CATTCATCCG Absent 42 Carbon source-responsive elements 17:08, 19 March 2021 410, confers carbon source-dependent regulation
67. Carbon source-responsive elements, (TCCGs) TCCG Present 83 TCCG elements 02:41, 16 October 2022 likely active or activable
68. Carbon source-responsive elements, (CATTs) CATTCA Present 84 CATTCA elements 17:05, 18 October 2022 likely active or activable
69. CArG boxes, (Kamada 1992), (McDonald 2006) CC(A/T)6GG Absent 85 CArG boxes 19:08, 18 October 2022 26*44
70. CArG boxes, (Deng 2011) CCAAAAAT(G/A)G Absent 86 CArG boxes 19:08, 18 October 2022 2*49
71. CArG boxes, (suggested more general motif), (Deng 2011) C(C/A/T)(A/T)6(A/G)G from two different CArG-box motifs at 502 bp (CTAAATATGG) and 287 bp (CAATAATTGG) upstream Present 87 CArG boxes 19:08, 18 October 2022 likely active or activable, positive strand, negative direction: CATTAAAAGG at 3441 and CAAAAAAAAG at 1399
72. Cat8ps, (Tang 2020) CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA Present 88 Cat8ps 22:21, 18 October 2022 likely active or activable
73. CAT boxes, (Saitoh 1993) CATTCCT Present 89 CAT boxes 23:56, 18 October 2022‎ likely active or activable
74. CAT-box-like elements, (Berberich 1993) GCCATT Present 89 CAT-box-like elements 19:38, 20 October 2022‎ likely active or activable
75. Cbf1 regulatory factors TCACGTGA Absent 48 Cbf1 regulatory factors 15:57, 11 June 2021 48
76. C-boxes, (Johnson) GAGGCCATCT Absent 27 C-boxes 02:51, 22 October 2020 410
77. C boxes, (Samarsky) AGTAGT Present 90 C boxes 02:22, 21 October 2022 likely active or activable
78. C-boxes, (Song) GACGTC Present 91 C-boxes 06:22, 21 October 2022 likely active or activable
79. C/A hybrid boxes, (Song) TGACGTAT Absent 26 C/A hybrid boxes 16:18, 20 October 2020 48
80. C/G hybrid boxes, (Song) TGACGTGT Present 102 CG hybrid boxes 18:35, 15 November 2022 likely active or activable
81. C/T hybrid boxes, (Song) TGACGTTA Absent 28 C/T hybrid boxes 01:51, 24 October 2020 48
82. C boxes, (Voronina) GGTGATG Present 101 C boxes 18:28, 15 November 2022‎ likely active or activable
83. CCAAT-enhancer-binding site (C/EBP) activating transcription factor (ATF), or C/EBP-ATF responsive elements, (CAREs), (Garaeva) (A/G/T)TT(A/G/T)CATCA Present 54 CARE (Garaeva) 01:10, 8 May 2022 likely active or activable
84. CCAAT-enhancer-binding site (C/EBP), C/EBP boxes TTAGGACAT,[6] or TAGCATT.[7] Absent 37 C/EBP boxes 23:21, 18 November 2020 47-49
85. CCCTC-binding factors, (CTCF) NCA-NNA-G(A/G)N-GGC-(A/G)(C/G)(C/T) Absent 29 CCCTC-binding factors 23:02, 24 October 2020‎ 49
86. Cell-cycle boxes, (CCBs) CACGAAAA Absent 43 Cell-cycle boxes 22:13, 19 April 2021 48, "cell cycle box" is functional in either orientation, acting as an enhancer
87. Cell-cycle box variants, (CCBs) CACGAAA, ACGAAA and C-CGAAA Present 92 Cell-cycle box variants 05:54, 23 October 2022 likely active or activable
88. Cell cycle regulation, (Sharma 2020) CCCAACGGT Absent 38 Cell cycle regulation 20:53, 25 November 2020‎ 49
89. CENP-B boxes TTTCGTTGGAAGCGGGA Absent 13 CENP-B boxes 13:25, 11 May 2019 417, specifically localized at the centromere
90. CGCG boxes, (Yang 2002) (A/C/G)CGCG(C/G/T) Present 107 CGCG boxes 07:14, 12 December 2022‎ likely active or activable, probably for zinc fingers
91. Circadian control elements CAANNNNATC Present 106 Circadian control elements 00:33, 12 December 2022 likely active or activable but overlaps highest randoms
92. Class C DNA binding sites, (Leal) CACGNG Present 58 Class C DNA binding sites 06:16, 5 August 2022 likely active or activable, distals may be random
93. Cold-responsive elements CCGAC Present 93 Cold-responsive elements 05:34, 24 October 2022 likely active or activable
94. Constitutive decay elements, (CDEs), (Siegel) TTC(C/T)(A/G)(C/T)GAA Present 111 Constitutive decay elements 03:50, 15 December 2022‎ likely active or activable possibly for ZNF497
95. Copper response elements, (CuREs), (Quinn) TTTGC(T/G)C(A/G) Present 94 Copper response elements 07:57, 24 October 2022 likely active or activable
96. Copper response elements, (CuREs), (Park) TGTGCTCA Present 95 Copper response elements 05:45, 25 October 2022 likely active or activable
97. Coupling elements, (CE1), (Watanabe) TGCCACCGG Absent 39 Coupling elements 01:51, 1 December 2020 49
98. Coupling elements, (CE3s), (Watanabe) GCGTGTC Present 51 Coupling elements 15:47, 12 February 2022‎ likely active or activable
99. Coupling elements, (CE3s), (Ding) CACGCG Present 52 Coupling elements 02:59, 15 February 2022 likely active or activable
100. cyclic-AMP-responsive elements, (CREs), Aca1ps, Sko1ps, (Montminy 1986) TGACGTCA Present 116 cAMP-responsive elements 05:05, 15 December 2022 likely active or activable, same as Root specific elements
101. Cytokinin response regulators, (ARR1s) AGATT(C/T) Present 120 Cytokinin response regulators 16:21, 31 October 2022 likely active or activable
102. Cytokinin response regulators, (ARR10s) (A/G)GATA(A/C)G Present 200 Cytokinin response regulators 17:47, 27 October 2022 likely active or activable or may be random
103. Cytokinin response regulators, (ARR12s) (A/G)AGATA Present 200 Cytokinin response regulators 06:09, 28 October 2022 likely active or activable
104. Cytokinin response regulators, (ARRs), (Ferreira) (G/A)GGAT(T/C) Present 200 Cytokinin response regulators 03:25, 31 October 2022 likely active or activable
105. Cytokinin response regulators, (ARRs), (Rashotte1) GATCTT Present 200 Cytokinin response regulators 16:21, 31 October 2022‎ likely active or activable
106. Cytokinin response regulators, (ARRs), (Rashotte2) (G/A)GAT(T/C) Present 200 Cytokinin response regulators 20:24, 1 November 2022 likely active or activable
107. Cytoplasmic polyadenylation elements, (CPEs) TTTTTAT Present 200 Cytoplasmic polyadenylation elements 06:10, 25 July 2022‎ likely active or activable
108. DAF-16-associated elements, (DAE), (Li) TGATAAG Absent 200 DAF-16-associated elements 22:51, 3 December 2020 47
109. DAF-16 binding elements (A/G)(C/T)AAA(C/T)A Present 200 DAF-16 binding elements 19:54, 2 November 2022 likely active or activable
110. D-boxes, (Mracek1) GTTGTATAAC Absent 200 D-boxes 02:46, 10 December 2020 410
111. D-boxes, (Mracek2) CTTATGTAAA Absent 200 D-boxes 02:20, 12 December 2020 410
112. D-boxes, (Johnson) TCTCACATT(A/C)AATAAGTCA Absent 200 D-boxes 04:12, 8 December 2020 2*418
113. D boxes, (Samarsky) AGTCTG Present 200 D boxes 00:16, 12 December 2022 likely active or activable
114. D boxes, (Voronina) TCCTG Present 200 D boxes 02:28, 4 November 2022 likely active or activable
115. D-boxes, (Motojima) TGAGTGG Present 200 D-boxes 00:11, 12 December 2022 likely active or activable
116. Defense and stress-responsive elements, (Sharma) ATTTTCTTCA Absent 200 Defense and stress-responsive elements 21:02, 13 December 2020 410
117. Dioxin-responsive elements, (DREs) TNGCGTG Present 96 Dioxin-responsive elements 20:43, 4 November 2022 likely active or activable
118. DNA damage response elements, (DREs), (Smith) TTTCAAT Absent 200 DNA damage response elements 12:25, 17 December 2020 47
119. DNA damage response elements, (DREs), (Sumrada) TAGCCGCCG of TAGCCGCCGRRRR Absent 200 DNA damage response elements 06:31, 17 December 2022‎ 49-24*49
120. DNA replication-related elements, (DREs), (Hirose) TATCGATA Absent 200 DNA replication-related elements 02:56, 20 December 2020‎ 48
121. Downstream B recognition elements (A/G)T(A/G/T)(G/T)(G/T)(G/T)(G/T) Present 200 Downstream B recognition elements 22:45, 20 December 2022 likely active or activable, negatives > randoms, positives overlap or outside randoms
122. Downstream core elements, (DCESIs) CTTC of CTTC...CTGT...AGC Present 200 Downstream core elements 21:36, 22 December 2022 likely active or activable, depending on overlaps
123. Downstream core elements, (DCESIIs) CTGT of CTTC...CTGT...AGC Present 200 Downstream core elements 06:59, 26 December 2022 likely active or activable, depending on overlaps
124. Downstream core elements, (DCESIIIs) AGC of CTTC...CTGT...AGC Present 200 Downstream core elements 02:54, 28 December 2022 likely active or activable, depending on overlaps
125. Downstream promoter elements, (DPEs), (Juven-Gershon) (A/G)G(A/T)(C/T)(A/C/G)T Present 200 Downstream promoter elements 05:18, 17 July 2022 most or all of the real DPE (Juven-Gershon)s are likely active or activable
126. Downstream promoter elements (DPE) RGWCGTG (Burke 1996), RGWYV(T) (Kadonaga 2002) Present 3 Initiator elements 21:32, 20 May 2012 likely active or activable
127. Downstream promoter elements, (DPEs), (Kadonaga) (A/G)G(A/T)CGTG Present 200 Downstream promoter elements 20:16, 16 July 2022‎ likely active or activable
128. Downstream promoter elements, (DPEs), (Matsumoto) AGTCTC Present 200 Downstream promoter elements 21:32, 16 July 2022‎ likely active or activable
129. Downstream TFIIB recognition elements (BREd, dBRE) (Deng 2005) (A/G)T(A/G/T)(G/T)(G/T)(G/T)(G/T) Present 6 Downstream TFIIB recognition elements 21:32, 11 February 2013 likely active or activable
130. DREB boxes (CRT/DREB box) TACCGACAT Absent 200 DREB boxes 17:03, 28 December 2019 49
131. E2 boxes (G/A)CAGNTGN Present 200 E2 boxes 17:04, 3 October 2022‎ likely active or activable
132. EIF4E basal elements (poly(C) motif) TTACCCCCCCTT Absent 200 EIF4E basal elements 20:24, 30 March 2019 412
133. EIN3 binding sites A(C/T)G(A/T)A(C/T)CT Present 200 EIN3 binding sites 01:44, 29 December 2022 likely active or activable
134. Endoplasmic reticulum stress response elements, (ERSE) CCAAT-N9-CCACG Absent 200 Endoplasmic reticulum stress response elements 01:58, 31 December 2022 410
135. Endoplasmic reticulum stress response elements, (ESRE2) CCACG, for part 1 (CCAAT) see Hap motif Present 200 Endoplasmic reticulum stress response elements 01:57, 31 December 2022‎ likely active or activable
136. Endosperm expressions TGTGTCA Present 200 Endosperm expressions 31 December 2022‎ Marshallsumter likely active or activable
137. Enhancer boxes (E-box), (Massari 2000) CANNTG Present 7 Enhancer boxes 22:01, 17 April 2013 likely active or activable
138. Estrogen response elements, (EREs), (Matsumoto) AGGTTA or GGTCAGGAT of AGGTTATTGCCTCCT or GGTCAGGATGAC Absent 200 Estrogen response elements 05:34, 9 March 2023 46-412
139. Estrogen response elements, (EREs), (Yasar) GGTCAGGATGAC Absent 200 Estrogen response elements 05:37, 9 March 2023 412
140. Estrogen response elements, (ERE1s), (Driscoll) GGTCA Present 200 Estrogen response elements 03:27, 14 March 2023‎ likely active or activable
141. Estrogen response elements, (ERE2s), (Driscoll) TGACC Present 200 Estrogen response elements 03:37, 14 March 2023 likely active or activable
142. Ethylene responsive elements ATTTCAAA Present 200 Ethylene responsive elements 18:06, 5 November 2022‎ likely active or activable
143. F boxes, (Rose) TGATAAG Absent 200 F boxes 05:52, 28 January 2021 47, F-box overlaps the I-box
144. Forkhead boxes, (FOXO1), (Yoshihara) GTAAACAA Absent 200 Forkhead boxes 04:33, 20 April 2023 48
145. Forkhead boxes, (FOXA2), (Li 2017) (A/G)(C/T)AAA(C/T)A Present 200 Forkhead boxes 03:54, 1 January 2023 likely active or activable
146. GAAC elements GAACT Present 200 GAAC elements 22:49, 1 January 2023 likely active or activable
147. Galactose-inducible transcription activator 4s, (Gal4s), (Tang) CGG(A/G)NN(A/G)C(C/T)N(C/T)NCNCCG Absent 200 Gal4ps 22:28, 31 December 2020‎ 410
148. γ-interferon activated sequences, (GAS) TTCCTAGAA Absent 200 Samplings 04:43, 22 March 2018 49
149. Γ-interferon activated sequences, (GAS) TTNCNNNAA Present 200 Γ-interferon activated sequences 01:56, 3 January 2023, see STAT5 likely active or activable
150. GATA boxes GATA Present 200 GATA boxes 06:29, 8 December 2022 likely active or activable, may be random in proximals
151. GATA (GATAAG, GATAAH, GATTA) motifs, (Staschke) GAT(A/T)A Present 200 GATA (GATAAG, GATAAH, GATTA) motifs 20:11, 9 December 2022‎ likely active or activable
152. G boxes, (Song) (G/T)CCACGTG(G/T)C Absent 200 G boxes 03:20, 25 July 2021‎ 49
153. G-box motif, (Oeda) GCCACGTGGC Absent 200 G boxes 04:25, 20 July 2021 410, no "perfect palindrome" G boxes in either promoter
154. GC boxes, (Briggs 1986), (Rroji 2021) (G/T)(G/A)GGCG(G/T)(G/A)(G/A)(C/T) Present 200 GC boxes 16:57, 3 January 2023 likely active or activable
155. GC boxes, (Ye 2019) GGGCGG Present 200 GC boxes 08:28, 4 January 2023‎ likely active or activable
156. GCC boxes, (Sato 1996) GCCGCC Present 200 GCC boxes 06:52, 5 January 2023 likely active or activable
157. GCN4 motifs, (Zhang 2014) TGA(C/G)TCA Absent 200 GCN4 motifs 05:52, 30 September 2022 47
158. General control nonderepressible 4 protein binding sites, (Staschke 2010), (GCRE, GCN4) TGA(C/G/T)T(A/C/G)(A/T) Present 200 General control nonderepressible 4 protein binding site 07:05, 5 January 2023‎ likely active or activable
159. Gcn4ps, (Tang) ATGACTCTT Absent 200 Gcn4ps 22:17, 15 November 2022 49
160. GGCGGC triplet GGCGGC Present 200 GGCGGC triplet 00:32, 7 January 2023 likely active or activable
161. GGC triplets GGC Present 200 GGC triplets 19:40, 7 January 2023 likely active or activable
162. Gibberellic acid responsive elements-like 1, (GAREL1s) TAACA(A/G)A Present 200 Gibberellic acid responsive elements-like 1 19:12, 5 November 2022 likely active or activable
163. Gibberellin responsive element-like 2, (GARE-like 2), (Fan) TAACGTA Absent 200 Gibberellin responsive element-like 2 06:39, 2 January 2021 47
164. Gibberellin responsive elements, (GREs), (Sharma) AAACAGA Present 200 Gibberellin responsive elements 01:19, 8 January 2023‎ likely active or activable
165. GLM boxes, (GCN4-like motif) (G/A)TGA(G/C)TCA(T/C) Absent 200 GLM boxes 04:17, 13 October 2019 23*46
166. Glucocorticoid response elements, (GRE), (Parsonnet 2019) AGAACA Present 200 Glucocorticoid response elements 05:34, 10 December 2022 likely active or activable
167. Glucose transporter gene repressor, (Rgt1), (Kim 2019) CGG(A/G)(A/T)N(A/T)(A/T) Present 200 Glucose transporter gene repressor 20:06, 21 January 2023‎ likely active or activable
168. G-protein-coupled receptors,(GCR1s), CT boxes CTTCC Present 200 G-protein-coupled receptors 03:36, 8 January 2023 likely active or activable
169. Grainy head transcription factor binding sites AACCGGTT Absent 200 Grainy head transcription factor binding sites 23:33, 6 January 2021 48
170. Grainy head transcription factor binding sites GACTGGTT Absent 200 Grainy head transcription factor binding sites 07:13, 22 April 2023 48
171. GT boxes, (Motojima) TGGGTGGGGCT Absent 200 GT boxes 00:39, 11 January 2021 (-78 to -69) 411
172. GT boxes, (Sato) GGGG(T/A)GGGG Present 200 GT boxes 04:33, 8 January 2023 likely active or activable
173. Hac1, KAR2 CAGCGTG Present 200 Hac1 05:27, 8 January 2023‎ likely active or activable
174. H and ACA boxes AGAGGA Present 200 H and ACA boxes 04:33, 9 January 2023‎ likely active or activable, negative distals likely random
175. Hapless motifs (Ozsarac 1997) CCAATCA Absent 200 Hapless motifs 02:33, 30 June 2022‎ heterotrimeric transcription factor, HAP2/3/4 47
176. Hap motif (Hap4p) CCAAT Present 200 Hap motif 20:38, 9 January 2023 and ESRE CCAAT likely active or activable
177. H-boxes, (Grandbastien) CC(A/T)ACCNNNNNNN(A/C)T Present 200 H-boxes 16:34, 7 May 2022‎ likely active or activable
178. H-boxes, (Lindsay) CCTACC Present 200 H-boxes 14:39, 8 May 2022‎ likely active or activable, equal to or greater than the randoms for the negative direction distals
179. H box, (Mitchell) ANANNA Present 200 H box 20:03, 12 December 2022‎ likely active or activable
180. H box, (Rozhdestvensky) ACACCA Present 200 H box 05:46, 5 May 2022 likely active or activable
181. Heat-responsive elements AAAAAATTTC Absent 200 Heat-responsive elements 02:10, 14 January 2021 four nGAAn motifs 410
182. Heat shock elements, (HSE1), (Eastmond) nGAAnnTTCnnGAAn Absent 200 Heat shock elements 04:13, 20 January 2021 HSE1 49
183. Heat shock elements, (HSE2), (Eastmond) nTTCnnGAAnnTTCn Absent 200 Heat shock elements 16:30, 10 May 2022‎ HSE2 is the inverse complement of HSE1 49
184. Heat shock elements, (HSE3s), (Eastmond) nGAAn-(5-bp)-nGAAnnTTCn Present 200 Heat shock elements 17:47, 13 May 2022 likely active or activable
185. Heat shock elements, (HSEs), (Eastmond) nGA(A/G)n-(5-bp)-nGAAnnTTCn (GAP1) Present 200 Heat shock elements 16:28, 16 May 2022 same result as HSE3, likely active or activable
186. Heat shock elements, (HSEs), (Eastmond) nGAAn-(5-bp)-nGA(A/G)nnTTCn (GAP2) Present 200 Heat shock elements 06:36, 17 May 2022 same result as HSE3, likely active or activable
187. Heat shock elements, (HSE4s), (Eastmond) nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn Present 200 Heat shock elements 05:14, 14 May 2022‎ likely active or activable
188. Heat shock elements, (HSE5), (Eastmond) nTTCn-(5-bp)-nTTCnnGAAn Absent 200 Heat shock elements 02:49, 23 January 2021 HSE5 49
189. Heat shock elements, (HSE6), (Eastmond) nTTCn-nnGAAn-(5-bp)-nGAAn Absent 200 Heat shock elements 18:05, 23 January 2021 HSE6 49
190. Heat shock elements, (HSE7), (Eastmond) nGA(A/G)nnTTCnnGAAn Absent 200 Heat shock elements 22:36, 23 January 2021‎ HSE7 PFT1 2*48
191. Heat shock elements, (HSE), (Eastmond) nGAAnnTTCnnGA(A/G)n Absent 200 Heat shock elements 05:45, 24 January 2021 HSE7 PFT2 2*48
192. Heat shock elements, (HSE10), (Eastmond) nTTCn-(11-bp)-nGAAn-(5 bp)-nGAAn Absent 200 Heat shock elements 22:33, 26 January 2021 HSE10 49
193. Heat shock factors, (Hsfs), (Tang) NGAAN Present 200 Heat shock factors 06:01, 11 May 2022‎ likely active or activable
194. Hepatic nuclear factors (HNFs) (A/G/T)(A/T)(A/G)T(C/T)(A/C/G)AT(A/C/G/T)(A/G/T) Present 200 HNF6s 17:53, 20 May 2022 likely active or activable, although the negative direction distals are at or less than randoms
195. Hex sequences TGACGTGGC Present 200 Hex sequences 19:57, 17 May 2022‎ likely active or activable
196. High Mobility Group boxes, (HMG boxes) (A/T)(A/T)CAAAG Present 200 High Mobility Group boxes 22:01, 30 April 2023‎ likely active or activable
197. Homeoboxes CAAG Present 200 Homeoboxes 04:28, 4 December 2022 likely active or activable, occurs in Rox1ps
198. Homeodomains TAAT Present 200 Homeodomains 19:46, 4 December 2022‎ likely active or activable, low occurrence UTRs and negative direction distals overlap high randoms, occurs in CArG boxes and Pribnow boxes
199. HY boxes TG(A/T)GGG Present 200 HY boxes 12:43, 25 May 2022‎ likely active or activable
200. Hypoxia-inducible factors, (HIF-1), (Li 2020) GCCCTACGTGCTGTCTCA Absent 200 Hypoxia-inducible factors 16:43, 27 January 2021 composed of HIF-1α and HIF-1β 418
201. Hypoxia-inducible factors (HIF) (Orlando 2019), ABA-response element (ABRE) (Asad 2019)) ACGTG Present 46 Hypoxia-inducible factors 06:03, 7 May 2021, ABA-response element (ABRE) 03:06, 8 October 2020 likely active of activable
202. Hypoxia response elements (HRE) (Orlando 2019) CACGC Present 44 Hypoxia response elements 05:04, 7 May 2021 likely active or activable
203. I boxes GATAAG of GGATGAGATAAGA Absent 200 I boxes 05:49, 28 January 2021 413
204. Initiator element (Inr) (Liston 1999) YYA+1NWYY Present 2 Initiator elements 17:02, 17 April 2012 likely active or activable
205. Initiator element (Inr) (Juven-Gershon 2008) YYR+1NWYY Present 19 Initiator elements 17:44, 27 September 2020 likely active or activable
206. Initiator element (Inr) (Ngoc 2017) BBCA+1BW Present 11 Initiator elements 13:24, 22 December 2018 likely active or activable
207. Initiator element-like (Inr-like) (Matsumoto 2020) TTCTCT Present 20 Initiator elements 01:25, 29 September 2020 likely active or activable
208. Initiator element-like (TCT) (Parry 2010) (C/T)CT(C/T)T(C/T)(C/T) Present 118 Initiator elements 22:06, 10 April 2023 likely active or activable
209. Inositol/choline-responsive elements, (ICRE), (Case) CANNTGAAAT Absent 200 Inositol/choline-responsive elements 21:43, 29 January 2021 version of Lopes, see below 48
210. Inositol/choline-responsive elements, (ICRE), (Case, Lopes) CATGTGAAAT includes the canonical basic helix-loop-helix (bHLH) binding site CANNTG Present 200 Inositol/choline-responsive elements 23:14, 9 June 2022‎ likely active or activable
211. Inositol/choline-responsive elements, (ICRE), (Lopes) ATGTGAAAT Absent 200 Inositol/choline-responsive elements 23:01, 7 June 2022 using ANNTGAAAT 47-49
212. Inositol/choline-responsive elements, (ICREs), (Schwank) TYTTCACATGY contains the core sequence CANNTG Present 200 Inositol/choline-responsive elements 05:39, 9 June 2022 likely active or activable
213. Interferon regulatory factor, (IRF3) GCTTTCC Present 200 Interferon regulatory factor 03:07, 2 May 2023‎ likely active or activable
214. Interferon-stimulated response elements, (ISREs), (Michalska) AGTTTCN2TTTCN Absent 200 Interferon-stimulated response elements 15:43, 28 March 2021 410
215. Interferon-stimulated response elements, (ISREs), (Lu) GAAANNGAAA Present 200 IFN-stimulated response elements 06:41, 12 June 2022‎ likely active or activable
216. IRS consensus, (Fujii) AANNGAAA Present 200 IRS consensus 03:16, 14 June 2022‎ likely active or activable
218. Jasmonic acid-responsive elements, (JAREs) TGACG Present 200 Jasmonic acid-responsive elements 23:12, 20 June 2022‎ likely active or activable
219. K-boxes, (Saito 2020) GTTCGG-NNAN-CCNNAC Absent 200 K-boxes 22:22, 17 March 2021‎ 411
220. K-box1s, (Saito 2020) GTTCGG Present 200 K-boxes 06:08, 2 May 2023‎‎ likely active or activable?
221. Kozak sequences, (Kozak 1987) GCCGCC(A/G)CCATGG Absent 200 Kozak sequences 18:12, 17 March 2021 2*412
222. Kozak sequences, (Matsumoto) GAAAATGG Absent 200 Kozak sequences 01:16, 2 February 2021 48
223. Krüppel-like factors GGGNN(G/T)(G/T)(G/T) Present 200 Krüppel-like factors 18:25, 23 June 2022‎ likely active or activable
224. L boxes (Donald) AAATTAACCAA Absent 200 L boxes 04:21, 2 February 2021 411
225. Leu3 transcription factors, (Leu3), (Reddy 2020) (C/G)C(G/T)NNNN(A/C)G(C/G) Present 200 Leu3 transcription factors 04:52, 7 January 2023 likely active or activable
224. M35 or -35 sequence TTGACA Present 200 -35 sequence 16:16, 25 June 2022‎ likely active or activable, the UTR does overlap the randoms at the random's upper end
225. Maf recognition element, (MAREs), (Kyo) TGCTGA(G/C)TCAGCA Absent 200 Maf recognition element 03:29, 3 February 2021 2*412
226. M boxes, (Bertolotto) GTCATGTGCT or AGTCATGTGCT Absent 200 M boxes 16:05, 3 February 2021 410-411
227. M-CAT boxes, (Berberich 1993) GCGGCCTC Absent 200 M-CAT boxes 18:06, 18 April 2023 48
228. Mcm1 regulatory factors, (Rossi) TT(A/T)CCNN(A/T)TNGG(A/T)AA Absent 200 Mcm1 regulatory factors 03:17, 4 February 2021 23*49
229. Mcm1 regulatory factors, (Rossi) TTNCCNNNTNNGGNAA Absent 200 Mcm1 regulatory factors 04:32, 9 June 2021 49
230. Met3s, (Blaiseau) TCACGTG Absent 200 Met3s 08:09, 27 June 2022‎ 47
231. Met31ps, (Blaiseau) AAACTGTG Present 200 Met31ps 07:26, 27 June 2022‎ likely active or activable
232. Metal responsive elements, (MRE) TGC(A/G)C(A/C/G/T)C Present 200 Metal responsive elements 02:25, 30 June 2022‎ likely active or activable
233. Middle sporulation element, (MSE), (Branco) ACACAAA Present 200 Middle sporulation element 05:04, 2 July 2022‎ likely active or activable
234. Midsporulation element, (MSE), (Ozsarac) C(A/G)CAAA(A/T) Present 200 Midsporulation element 15:07, 14 August 2022 likely active or activable
235. MITF E-box, (MITF) CA(C/T)(A/G)TG, (CAYRTG) Present 200 MITF E-box (CAYRTG) 16:09, 2 May 2023‎ likely active or activable, negative distals overlap randoms at low end
236. Motif ten elements (MTE) (Lim 2004) C(C/G)A(A/G)C(C/G)(C/G)AACG(C/G), CSARCSSAACGS Absent 5 Motif ten elements 15:28, 10 February 2013 25*47
238. Multicopy inhibitor of the GAL1 promoter, (MIG1), (Gancedo 1998) (C/G)(C/T)GGGG Present 200 Multicopy inhibitor of the GAL1 promoter 16:09, 2 May 2023 likely active or activable, UTRs may be random
239. Musashi binding elements, (MBE1s) (G/A)U1AGU Present 200 Musashi binding elements 15:31, 10 July 2022‎ likely active or activable
240. Musashi binding elements, (MBE2s) (G/A)U2AGU Present 200 Musashi binding elements 06:37, 14 July 2022‎ likely active or activable, negative direction distals may be random
241. Musashi binding elements, (MBE3s) (G/A)U3AGU Present 200 Musashi binding elements 19:37, 16 July 2022‎ likely active or activable
242. Myeloblastosis (MYB) ACGT-containing elements, (ACEs) CACGT Present 200 MYB ACGT-containing elements 17:07, 22 July 2022 likely active or activable, positive strand UTR is likely random, negative strand, positive direction distals are likely random
243. Myeloblastosis recognition element, (MRE) A(A/C)C(A/T)A(A/C)C Present 200 Myeloblastosis recognition element 15:36, 25 July 2022‎ likely active or activable
244. Myocyte enhancer factors, (MEFs) (C/T)TA(A/T)(A/T)(A/T)(A/T)TA(A/G) Present 200 Myocyte enhancer factors 05:44, 28 July 2022 likely active or activable
245. Nanos/Pumilio response elements, (PREs) TGTAAAT Present 200 Nanos/Pumilio response elements 15:29, 31 July 2022‎ likely active or activable
246. N-boxes, (Lee) CCGGAA Present 200 N-boxes 05:07, 14 August 2022 likely active or activable
247. N-boxes, (Bai) CACGAG Present 200 N-boxes 17:10, 10 August 2022‎ likely active or activable
248. N-boxes, (Gao) CACGGC or CACGAC, CACG(A/G)C Present 200 N-boxes 05:54, 7 August 2022‎ likely active or activable
249. N-boxes, (Leal) CACNAG Present 200 N-boxes 06:16, 5 August 2022 likely active or activable
250. Non-DiTyrosine 80 transcription factor DNA binding domain, (Ndt80) (A/G/T)NC(A/G)CAAA(A/T) Present 200 Non-DiTyrosine 80 transcription factor DNA binding domain 20:36, 17 August 2022 likely active or activable
251. Nuclear factor of activated T cells, (NFATs) GGAAAA Present 200 Nuclear factor of activated T cells 22:08, 19 August 2022 likely active or activable, negative direction distals likely random, complement and inverse of the Pyrimidine boxes
252. NF‐κB/Rel family of eukaryotic transcription factors, (NF-κB) CCCCTAAGGGG Absent 200 NF‐κB/Rel family of eukaryotic transcription factors 02:53, 9 February 2021 411
253. NF𝜿B (Sato)(NF𝜿BSs) GAATTC Present 200 NF𝜿B (Sato) 07:30, 8 February 2023‎ likely active or activable
254. Nuclear factor 1, (NF-1) TTGGCNNNNNGCCAA Absent 200 Nuclear factor 1 03:51, 9 February 2021 palindromic sequence 410
255. Nuclear factor Ys CCAATGG(A/C)(A/G) Absent 200 Nuclear factor Ys 04:48, 9 February 2021 NF-Y is a trimeric complex 48
256. Nutrient-sensing response element 1, (NSRE) GTTTCATCA Present 200 Nutrient-sensing response element 1 04:29, 21 August 2022 likely active or activable
257. Oaf1 transcription factor CGGN3TNAN9-12CCG Present 200 Oaf1 transcription factor 05:57, 31 August 2022 likely active or activable
258. Oresara1, (ORE1), (Matallana) (A/C/G)(A/C)GT(A/G)N5,6(C/T)AC(A/G) Present 200 ORESARA1 05:42, 4 September 2022 likely active or activable
259. Oresara1, (ORE1), (Olsen) T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T) Present 200 ORESARA1 23:53, 7 September 2022‎ likely active or activable
260. p53 response elements (A/G)(A/G)(A/G)C(A/T)(A/T)G(C/T)(C/T)(C/T) Present 200 p53 response elements 18:30, 8 September 2022 likely active or activable
261. p53 response elements, (Long1) CAGGCCC Present 200 p53 response elements 03:26, 11 September 2022 likely active or activable
262. p53 response elements, (Long2) GGGCGTG Present 200 p53 response elements 20:10, 13 September 2022‎ likely active or activable
263. p63 DNA binding sites, (Perez 2007) (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), RRRC(A/G)(A/T)GYYYRRRC(A/T)(C/T)GYYY Absent 200 p63 DNA binding sites 04:14, 14 February 2021 412
264. P-box (Mena) (A/T)AAAG Present 200 P-box (Mena) 22:30, 21 September 2022‎ likely active or activable, the positive direction proximals overlap the randoms
265. P-box, (Motojima) TGAGTTCA Present 200 P-box 18:27, 24 September 2022‎ likely active or activable
266. P-box, (Yu) GTAA(T/C) Present 200 P-box 02:46, 18 September 2022‎ likely active or activable with some overlapping the randoms
267. Pleiotropic drug resistance 1p (Pdr1p), (Tang 2020) TCCGCGGA Absent 200 Pdr1p/Pdr3ps 04:07, 15 February 2021 Pdr1p/Pdr3p response elements (PDREs) 48
267. Pleiotropic drug resistance 1p (Pdr1p), (Salin 2008) TCCG(C/T)GG(A/G) Present 200 Pdr1p/Pdr3ps likely?
268. Peroxisome proliferator-activated receptor alpha CGACCCC Present 200 Peroxisome proliferator-activated receptor alpha 18:37, 15 February 2021 likely active or activable, positive direction distal overlaps upper end of randoms
269. Peroxisome proliferator hormone response elements, (PPREs) AGGTCANAGGTCA Absent 200 Peroxisome proliferator hormone response elements 18:37, 15 February 2021 PPARs/RXRs heterodimers bind to PPRE 412
270. Phosphate starvation-response transcription factor (Pho4) CAC(A/G)T(T/G) Present 200 Pho4ps 16:20, 12 May 2022 likely active or activable, positive strands of the UTRs and negative direction distals are in the random range
271. Pollen1 element with TCCACCATA AGAAANNNNTCCACCATA Absent 200 Pollen1 with TCCACCATA 23:24, 9 January 2023 adjacent co-dependent regulatory element TCCACCATA 49-414
272. Pollen1 elements AGAAA Present 200 Pollen1 elements 21:40, 10 January 2023 likely active or activable
273. Pollen1 element TCCACCATA Absent 200 TCCACCATA 08:30, 11 January 2023 no regulatory element TCCACCATA was found, nor its ci. 49
274. Polycomb response elements CGCCAT(A/T)TT Absent 200 Polycomb response elements 06:52, 16 February 2021 2*48-49
275. Polycomb response elements, (PRE) GCCAT Present 200 Polycomb response elements 22:28, 13 January 2023 likely active or activable
276. Pribnow boxes TATAAT Present 200 Pribnow boxes 03:43, 15 January 2023 likely active or activable
277. Prolamin boxes TG(A/T)AAAG Present 200 Prolamin boxes 06:14, 18 January 2023 likely active or activable
278. Q elements AGGTCA Present 200 Q elements 20:23, 18 January 2023‎ See Retinoic acid response element likely active or activable
279. Quinone reductase response element, (QRDRE), (Yao) TCCCCT of TCCCCTTGCGTG Present 200 Quinone reductase response element 05:08, 5 November 2022‎ likely active or activable
280. Rap1 regulatory factors ACCC(A/G)N(A/G)CA Absent 200 Rap1 regulatory factors 05:04, 20 February 2021 "(ACCCRnRCA), less than half of the sites were detectably bound"[8] 47
281. Rap1 reduced consensus (A/G)(A/C)ACCC(A/G)N(A/G)C(A/C)(C/T)(A/C) Present 200 Rap1 reduced consensus 03:47, 15 November 2022‎ likely active or activable
282. Reb1 extended, (Rossi) ATTACCCGAA Absent 200 Extended Reb1 00:07, 20 June 2021 410
283. Reb1 bound and exact occurrences TTACCC(G/T) Present 200 Reb1 bound and exact occurrences16:38, 15 November 2022 likely active or activable
284. Retinoic acid response element AG(A/G)TCA Present 200 Retinoic acid response element 19:56, 19 January 2023 likely active or activable, positive direction distals appear random
285. Ribophorin (RPN) (Rpn4), PACE (proteasome associated control element) GGTGGCAAA Absent 200 Rpn4ps 03:15, 23 February 2021‎ 49
286. Rlm1ps CTATATATAG Absent 200 Rlm1ps 05:55, 22 February 2021‎ 4TAG 24*46
287. RORE motif, (RORE) A(A/T)NTAGGTCA Present 200 classic RORE motif 05:51, 22 January 2023 likely active or activable
288. RORE motif, variant C(T/A)(G/A)GGNCA Present 200 variant RORE motif 03:04, 24 January 2023‎ likely active or activable
289. Rox1ps (Tang 2020) RRRTAACAAGAG Absent 200 Rox1ps Heme-dependent repressor of hypoxic genes 21:50, 22 February 2021 23*49
290. R response elements (RRE) CATCTG Present 200 R response elements 16:04, 19 July 2022‎ likely active or activable
291. Seed-specific elements (SRE) CATGCATG Absent 200 Seed-specific elements 20:18, 23 February 2021 48-412
292. Serum response elements, (SRE) ACAGGATGT Present 200 Serum response elements 16:38, 25 January 2023 likely active or activable
293. Servenius sequences GGACCCT Present 200 Servenius sequences 03:07, 28 January 2023‎ likely active or activable
294. Shoot specific elements, (SREs) CAGCAGATTGCG Absent 200 Shoot specific elements 15:13, 24 February 2021‎ 412
295. Shue box element, (Crowder 1988) CCCTG(C/G) Present 200 Shue box elements 05:24, 18 April 2023‎ likely active or activable
296. Sip4ps (Tang) CC(C/G)T(C/T)C(C/G)TCCG Absent 200 Sip4ps 02:55, 25 February 2021 23*48
297. Smp1ps (Tang) ACTACTA(T/A)4TAG Absent 200 Smp1ps 23:43, 25 February 2021 2*410
298. SP1, (Long) GGGGCGGGCC Absent 200 SP1 19:43, 25 April 2023 410
299. Sp1 element, (Berberich 1993) GGGGCGGGT Absent 200 Sp1 elements 21:03, 18 April 2023 49
300. SP1, (Zhang) (G/T)GGGCGG(G/A)(G/A)(C/T) Present 200 SP1 05:57, 2 February 2023‎ likely active or activable
301. SP-1, (Sato) CCGCCCC Present 200 SP-1 05:54, 2 February 2023‎ likely active or activable
302. SP1, (Yao) GCGGC Present 200 SP1 05:57, 4 February 2023 likely active or activable
303. SP1-box 1, (Motojima) GGGGCT Present 200 SP1-box 1 05:46, 29 January 2023‎ likely active or activable
304. SP1-box 2, (Motojima) CTGCCC Present 200 SP1-box 2 19:30, 30 January 2023‎ likely active or activable
305. STAT5 TTCNNNGAA Present 200 STAT5 03:41, 5 February 2023‎ likely active or activable, positive distal likely random
306. Sterile12, (STE12), (Tang 2020) TGAAAC Present 200 Sterile12 encodes a transcription factor (Ste12) 05:53, 27 April 2023‎‎ likely active or activable
307. Sterol response elements, (Branco) TCGTATA Absent 200 Sterol response elements 19:00, 28 February 2021‎ perhaps plant specific 47
308. Sterol response elements, (Yao) AGCAGATTGCG Absent 200 Sterol response elements 03:22, 1 March 2021 liver specific 411
309. Stress-response elements, (STREs) CCCCT Present 200 Stress-response elements 07:49, 7 February 2023‎ likely active or activable, positive cores overlap randoms
310. Sucrose boxes NNAATCA Present 200 Sucrose boxes 08:03, 10 February 2023‎ likely active or activable
311. TACTAAC boxes TACTAA(C/T) Present 200 TACTAAC boxes 06:05, 12 February 2023‎ likely active or activable
312. TAGteams CAGGTAG Present 200 TAGteams 04:15, 14 February 2023‎ likely active or activable
313. Tapetum boxes TCGTGT Present 200 Tapetum boxes 08:10, 16 February 2023‎ likely active or activable
314. TATA boxes TATAAAA (Carninci 2006) TAT box (Yang 2006) Present 1 Wikipedia:TATA box 02:36, 10 January 2011 likely active or activable
315. TATA boxes TATAAA (Butler 2002) Present 4 Downstream promoter elements 21:32, 20 May 2012 likely active or activable
314. TATA boxes (RGWYV(T)) (Burke 1996) TATA(A/T)A(A/T) (Watson 2014) Present 10 Wikipedia:TATA box 04:32, 4 December 2017‎ likely active or activable
315. TATA boxes (Yang 2007) TATA(A/T)AA(A/G) (Juven-Gershon 2010) Present 14 metazoan TATA box 01:05, 13 October 2019 likely active or activable
316. TATA boxes (Yang 2007) TATA(A/T)A(A/T)(A/G) (Basehoar 2004) Present 9 Wikipedia:TATA box 18:28, 21 November 2017 likely active or activable
317. TAT boxes (Fan 2007) TATCCAT Present 100 TAT box (Fan) samplings 06:17, 13 November 2022 likely active or activable
318. TATCCAC boxes TATCCAC Absent 200 TATCCAC boxes 03:59, 13 October 2019 GA responsive complex component 47
319. TATCCAC boxes (Yang 2007) TATCCAC Absent 15 TATC box gene transcriptions 03:59, 13 October 2019 47
320. Tbf1 regulatory factors A(A/G)CCCTAA Present 200 Tbf1 regulatory factors 17:38, 15 November 2022 Saccharomyces cerevisiae, likely active or activable
321. T boxes, (Conlon) TCACACCT Present 200 T boxes 23:28, 18 November 2022 likely active or activable
322. T boxes, (Zhang) AACGTT Present 200 T boxes 17:21, 20 November 2022‎ likely active or activable
323. TCCACCATA elements TCCACCATA Absent 200 TCCACCATA elements 05:10, 13 February 2021 adjacent co-dependent regulatory element of POLLEN1 49
324. TEA consensus sequences CATTCY Present 200 TEA consensus sequences 06:35, 24 February 2023‎ likely active or activable
325. Telomeric repeat DNA-binding factors, (TRFs) TTAGGG Present 200 Telomeric repeat DNA-binding factors 06:35, 2 March 2023 likely active or activable
326. Tetradecanoylphorbol-13-acetate response elements, (TREs) TGA(G/C)TCA Absent 200 Tetradecanoylphorbol-13-acetate response elements 15:07, 24 August 2020‎ cis-regulatory element of the human metallothionein IIa (hMTIIa) promoter and SV40 2*46
327. TGF-β control elements, (TCEs) GCGTGGGGGA Absent 200 TGF-β control elements 17:38, 5 March 2021 GCGTGGGGGA in humans 410
328. TGF-β inhibitory elements, (TIEs) GAGTGGTGA Absent 200 TGF-β inhibitory elements 01:57, 23 August 2020 in the rat transin/stromelysin promoter 49
329. Thyroid hormone response elements, (TREs)(THRs) AGGTCA Present 200 Thyroid hormone response elements 23:06, 3 March 2023‎ likely active or activable
330. Transcription factor 3, (TCF3) GTCTGGT Present 200 Transcription factor 3 19:21, 5 March 2023‎ likely active or activable
331. Translational control sequences, (TCSs) (A/T)TT(A/G)TCT Present 200 Translational control sequences 20:33, 7 March 2023‎ likely active or activable
332. Transposon enhancement control (TEC) or Tec1 GAATGT Present 200 Tec1ps 22:49, 26 February 2023 likely random, Ste12p cofactor
217. Tryptophan residues, (Lu) GAAA Present 200 Tryptophan residues 03:55, 18 June 2022‎ likely active or activable, the tryptophan residues occur in the IRS, IFN, ICRE, Cell-cycle box variants, V-box, Pollen1, and β-Scaffold response elements
333. Unfolded protein response element, (URE), (UPRE-1) CANCNTG Present 200 Unfolded protein response element 18:24, 8 January 2023 likely active or activable
334. Unfolded protein response elements, (UPREs) TGACGTG(G/A) Present 200 Unfolded protein response elements 21:02, 7 March 2023 likely active or activable
335. Upstream repressor site 1, (URS1, core), (Sumrada) CCGCC Present 200 Upstream repressor site 1 06:31, 17 December 2022 likely active or activable, negative direction proximals are within randoms
336. Upstream stimulating factors, (USFs) GCC(A/T)NN(C/G/T)(A/G) Present 200 Upstream stimulating factors 05:51, 11 March 2023‎ likely active or activable, cores overlap lower randoms
337. V boxes (A/G)TT(A/T)(C/T) Present 200 V boxes 20:50, 16 March 2023‎ likely active or activable
338. Vhr1ps, (VHR1), (Weider 2016), (Tang 2020) AATCA-N8-TGA(C/T)T Absent 200 Vhr1ps 01:26, 9 March 2021 Response to low biotin concentrations 2*49
339. Vitamin D response elements, (VDRE2s) A/GGG/TTCAnnnA/GGG/TTCA Absent 200 Vitamin D response elements 03:48, 10 March 2021 410
340. Vitamin D response elements (VDRE) (Kakhki 2018) (A/G)G(G/T)TCA Present 18 Vitamin D response elements 04:37, 19 March 2023 likely active or activable
341. W boxes (W-boxes) (WRKY) (C/T)TGAC(C/T) Present 200 W boxes 20:46, 20 March 2023 likely active or activable
342. X1a boxes (Ferstl 2004) TCTGCC Present 200 X-boxes 06:43, 27 April 2023‎ likely?
342. X1b boxes (Ferstl 2004) AGAGACAGAT Absent 200 X-boxes 17:57, 30 April 2023‎ 410
342. X2 boxes (Ferstl 2004) AGGTCCA Present 200 X-boxes 06:43, 27 April 2023‎ likely?
343. X boxes (Zhang 1993) GTTGGCATGGCAAC Absent 200 X boxes 02:35, 20 November 2018 X2 box is AGGTCCA 414
344. X-boxes (Moreno) GT(A/C/T)N(C/T)(C/T)AT(A/G)(A/G)NAAC Absent 200 X-boxes 16:43, 10 March 2021‎ includes GTTNCCATGGNAAC (4/3)*24*47-412
345. X core promoter elements (XCPE1) (A/G/T)(C/G)G(C/T)GG(A/G)A(C/G)(A/C) Present 200 X core promoter elements 19:37, 22 March 2023‎ likely active or activable
346. Xenobiotic response elements, (XREs) (T/G)NGCGTG(A/C)(G/C)A Absent 200 Xenobiotic response elements 20:45, 17 February 2021 contains the core sequence GCGTG, see AHRE above 2*47
347. Xenobiotic response elements (XREs) (Shen 1992) GCGTG Present 96 Xenobiotic response elements 05:22, 5 November 2022 likely active or activable
348. XhoI site-binding protein 1 protein (Xbp1p), (Mai 1997), (Tang 2020) GcCTCGA(G/A)G(C/A)g(a/g) Absent 200 Xbp1ps 14:40, 11 March 2021 Transcriptional repressor 2*410
349. Yap response elements (Salin 2008) T(G/T)ACT(A/C)A Present 200 Yap response elements 19:57, 24 March 2023 likely?
349. Yap recognition sequences (Tang 2020) TTACTAA Present 200 Yap recognition sequences 19:57, 24 March 2023 likely active or activable
350. Y boxes, (Koike 1997) (A/G)CTAACC(A/G)(A/G)(C/T) Absent 200 Y boxes 01:31, 20 November 2018 inverted CAAT box, 48
351. YY1 binding sites CCATTTA Absent 200 YY1 binding sites 06:23, 12 March 2021 47
352. YY1 binding sites CCATCTT Present 200 YY1 binding sites 22:07, 25 March 2023 likely active or activable
353. Z-box (ZboxN) samplings, (ZboxNs) ATACGGT Absent 200 Z-box (ZboxN) samplings 19:47, 2 December 2022‎ 47
354. Z-box (ZboxSo) samplings, (ZboxNs) ATACGTGT Absent 200 Z-box (ZboxSo) samplings 20:21, 3 December 2022‎ 48
355. Z boxes, NSoSp form A(C/T)A(C/G)G(G/T)(A/G/T)T Present 200 Z boxes 17:23, 28 November 2022‎ likely active or activable, negative direction distals within randoms
356. Z boxes, ZboxG A(C/T)A(C/G)GT(A/G)T Present 200 Z boxes 03:00, 1 December 2022 likely active or activable
357. Z boxes, ZboxSp CAGGT(A/G) Present 200 Z boxes 05:10, 24 November 2022‎ likely active or activable
358. Zinc-responsive elements, (Zhao 1998), (Tang 2020) (ZREs) ACCYYNAAGGT or ACC(C/T)(C/T)NAAGGT Absent 200 Zap1ps 15:52, 15 March 2021 49
359. Zinc responsive elements, (ZREs), (Nicola 2007) MHHAACCBYNMRGGT or (A/C)(A/C/T)(A/C/T)AACC(C/G/T)(C/T)N(A/C)(A/G)GGT Absent 200 Zinc responsive elements 19:02, 15 March 2021 (4/3)3*49

Response element testing (Absent)

Response element
Name of elements Consensus sequences Response element class Testing Activity
Abbreviations Variations Absent (N) Notes
Authors
1. novel ABA-response elements

(ABREN, novel ABRE)

GATCGATC, CGATCGAT, GATCGAT WD40 repeat family N ABREN, CGATCGAT motif, and core of ABREN and CGATCGAT motif.[9]
2. ABA-response element-like

(ABRE-like)

ACGTGTCC WD40 repeat family N third highest scoring motif.[9]
3. Abf1 regulatory factors CGTCCTCTACGAT General Regulatory Factors N CGTNNNNNACGAT.[8]
4. Activating proteins

(Murata)

GCCCACGGG bHSH N Activating protein 2.[10]
5. AhR-responsive elements

(AHRE)

(Yao)

(G/T)NGCGTG(A/C)(C/G)A bHLH N in the promoter region of AhR responsive genes
6. Alpha-amylase conserved elements TATCCA ? N TATCCATCCATCC.[11]
7. Amino acid response elements

(AARE)

(Maruyama)

ATTGCATCA ? N AARE1 (ATTGCATCA)[12]
8. Amino acid response elements

(AARE)

(Broer)

TTTGCATCA ? N TTTGCATCA.[2][3]
9. Amino acid response element-like

(AARE-like)

TGGTGAAAG ? N AARE-like sequence (TGGTGAAAG, named AARE3).[12]
10. Androgen response elements

(AREs)

(Kouhpayeh)

GGTACANNNTGTTCT Zinc finger DNA-binding domain N GGTACACGGTGTTCT.[13]
11. Androgen response elements

(AREs)

(Wilson)

TGATTCGTGAG Zinc finger DNA-binding domain N AGAACANNNTGTTCT.[14]
12. Antioxidant-electrophile responsive elements

(Otsuki)

GTGAGGTCGC bHLH N GTGAGGTCGC.[4] or GCTGAGT, GCAGGCT of GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A[5], an antioxidant response element (ARE)
13. CAAT boxes (C/T)(A/G)(A/G)CCAATC(A/G) bZIP N consensus sequence for the CCAAT-enhancer-binding site (C/EBP) is TAGCATT.
14. Calcium-response elements CTATTTCGAG ? N CaRE1 CTATTTCGAG.[15]
15. Carbohydrate response elements

(ChREs)

CACGTGACCGGATCTTG, TCCGCCCCCATCACGTG ? N ChoRE1, ChoRE2.[16]
16. Carbon source-responsive elements

(CSREs)

CATTCATCCG ? N confers carbon source-dependent regulation
17. 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.
18. C-boxes

(Johnson)

GAGGCCATCT bZIP N GAGGCCATCT.[17]
19. C/A hybrid boxes TGACGTAT bZIP N TGACGTAT.[18] A at the 12 position
20. C/T hybrid boxes TGACGTTA bZIP N TGACGTTA.[18] T at the 12 position
21. 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]
22. C/EBP boxes TTAGGACAT,[6] or TAGCATT.[7] bZIP N CCAAT-enhancer-binding site (C/EBP) is TAGCATT
23. Cell-cycle boxes

(CCBs)

CACGAAAA ? N "cell cycle box" is functional in either orientation, acting as an enhancer
24. Cell cycle regulation CCCAACGGT[11] ? N tomato genome-wide analysis
25. CENP-B boxes TTTCGTTGGAAGCGGGA ? N specifically localized at the centromere
26. Coupling elements

(CE1)

TGCCACCGG[9] ? N CE1 (Watanabe)
27. DAF-16-associated elements

(DAE)

TGATAAG ? N DAF-16-associated element (DAE).[20]
28. D-boxes

(Mracek1)

GTTGTATAAC ? N GTTGTATAAC.[21]
29. D-boxes

(Mracek)

CTTATGTAAA (Mracek2) ? N CTTATGTAAA.[21]
30. D-boxes

(Johnson)

TCTCACA ? N TCTCACATT(A/C)AATAAGTCA is a D-box.[17]
31. Defense and stress-responsive elements ATTTTCTTCA ? N ATTTTCTTCA.[11]
32. DNA damage response elements

(DREs)

(Smith)

TTTCAAT[22] ? N in the upstream repression sequence (URS)
33. DNA damage response elements

(DREs)

(Sumrada)

TAGCCGCCG of TAGCCGCCGRRRR.[23] ? N in the upstream repression sequence (URS)
34. DNA replication-related elements

(DREs)

TATCGATA ? N DNA replication-related element (DRE).[24]
35. DREB boxes TACCGACAT ? N CRT/DREB box
36. EIF4E basal elements TTACCCCCCCTT ? N poly(C) motif
37. Endoplasmic reticulum stress response elements

(ERSE)

CCAAT-N9-CCACG bZIP N compare CCAAT-box and ERSE below in the (present)
38. Estrogen response elements

(EREs)

AGGTTA or GGTCAGGAT Cys
4
N AGGTTATTGCCTCCT or GGTCAGGATGAC
39. F boxes TGATAAG[25] ? N F-box overlaps the I-box
40. Forkhead boxes GTAAACAA[26] HTH, Forkhead N GTAAACAA FOXO1
41. Gal4ps CGGACCGC ? N CGG(A/G)NN(A/G)C(C/T)N(C/T)NCNCCG[27]
42. γ-interferon activated sequences

(GAS)

TTCCTAGAA ? N ALS-GAS1 between nt −633 and nt −625
43. G boxes (G/T)CCACGTG(G/T)C ? N no "perfect palindrome" G boxes in either promoter
44. GCN4 motifs TGACTCA, TGAGTCA bZIP N ACGT motif
45. Gcn4ps ATGACTCTT[27] bZIP N GCN4 motifs
46. Gibberellin responsive element-like 2

(GARE-like 2)

(Fan)

TAACGTA[28] ? N "in the promoters of hydrolase genes".[28]
47. GLM boxes (G/A)TGA(G/C)TCA(T/C) ? N GCN4-like motif
48. Grainy head transcription factor binding sites AACCGGTT β-Scaffold factors with minor groove contacts N also GACTGGTT
49. GT boxes

(Motojima)

TGGGTGGGGCT ? N (-78 to -69)
50. Hapless motifs CCAATCA ? N heterotrimeric transcription factor, HAP2/3/4.[29]
51. Heat-responsive elements AAAAAATTTC Helix-turn-helix (HTH), Heat shock factors (HSFs) N four nGAAn motifs
52. Heat shock elements

(HSE1)

(Eastmond)

nGAAnnTTCnnGAAn HTH, HSFs N HSE1
53. Heat shock elements

(HSE2)

(Eastmond)

nTTCnnGAAnnTTCn HTH, HSFs N HSE2 is the inverse complement of HSE1
54. Heat shock elements

(HSE5)

(Eastmond)

nTTCn-(5-bp)-nTTCnnGAAn HTH, HSFs N HSE5
55. Heat shock elements

(HSE6)

(Eastmond)

nTTCn-nnGAAn-(5-bp)-nGAAn HTH, HSFs N HSE6
56. Heat shock elements

(HSE7)

(Eastmond)

nGA(A/G)nnTTCnnGAAn HTH, HSFs N HSE7 PFT1
57. Heat shock elements

(HSE)

(Eastmond)

nGAAnnTTCnnGA(A/G)n HTH, HSFs N HSE7 PFT2
58. Heat shock elements

(HSE10)

(Eastmond)

nTTCn-(11-bp)-nGAAn-(5 bp)-nGAAn HTH, HSFs N HSE10
59. Hypoxia-inducible factors

(HIF-1)

GCCCTACGTGCTGTCTCA[30] bHLH N composed of HIF-1α and HIF-1β
60. I boxes GATAAG ? N GGATGAGATAAGA
61. Inositol/choline-responsive elements

(ICRE)

(Case)

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

(ICRE)

(Lopes)

ATGTGAAAT ? N using ANNTGAAAT
63. Interferon-stimulated response elements

(ISREs)

AGTTTCN2TTTCN ? N consensus sequence AGTTTCN2TTTCN.[31]
64. Kozak sequences GCCGCC(A/G)CCATGG ? N GCCGCC(A/G)CCATGG[32]
65. Kozak sequences

(Matsumoto)

GAAAATGG ? N GAAAATGG[33]
66. L boxes AAATTAACCAA ? N AAATTAACCAA[34]
67. Maf recognition element

(MAREs)

TGCTGA(G/C)TCAGCA ? N and TGCTGA(GC/CG)TCAGCA[35]
68. Met3s TCACGTG bZIP N TCACGTG[36]
68. M boxes GTCATGTGCT ? N or AGTCATGTGCT[37]
69. 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.[8]
70. Mcm1 regulatory factors


(Rossi)

TTNCCNNNTNNGGNAA ? N Primary consensus sequence apparently: TT(A/T)CCNN(A/T)TNGG(A/T)AA.[8]
71. Motif ten elements C(C/G)A(A/G)C(C/G)(C/G)AACG(C/G) ? N Gene ID: 6309
72. NF‐κB/Rel family of eukaryotic transcription factors CCCCTAAGGGG β-Scaffold factors with minor groove contacts N NF-κB
73. Nuclear factor 1

(NF-1)

TTGGCNNNNNGCCAA NF I N palindromic sequence
74. Nuclear factor Ys CCAATGG(A/C)(A/G) ? N NF-Y is a trimeric complex
75. 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) β-Scaffold factors with minor groove contacts N RRRC(A/G)(A/T)GYYYRRRC(A/T)(C/T)GYYY
76. Pdr1p/Pdr3ps TCCGCGGA ? N Pdr1p/Pdr3p response elements (PDREs)
77. Peroxisome proliferator hormone response elements

(PPREs)

AGGTCANAGGTCA ? N PPARs/RXRs heterodimers bind to PPRE
78. Pollen1 with TCCACCATA AGAAANNNNTCCACCATA ? N adjacent co-dependent regulatory element TCCACCATA
79. TCCACCATA TCCACCATA ? N no regulatory element TCCACCATA was found, nor its ci.
80. Polycomb response elements CGCCAT(A/T)TT ? N CGCCATTT
81. Rap1 regulatory factors ACCC(A/G)N(A/G)CA ? N "(ACCCRnRCA), less than half of the sites were detectably bound"[8]
82. Extended Reb1 ATTACCCGAA ? N "extended motif VTTACCCGNH (IUPAC nomenclature) (Rhee and Pugh 2011)."[8]
83. Rlm1ps CTATATATAG ? N CTA(T/A)4TAG
84. Rox1ps RRRTAACAAGAG ? N Heme-dependent repressor of hypoxic genes.[27]
85. Rpn4ps GGTGGCAAA ? N proteasome genes
86. Seed-specific elements CATGCATG ? N SRE consensus: CAGCAGATTGCG is none
87. Shoot specific elements GATAATGATG ? N SRE consensus: CAGCAGATTGCG is none
88. Sip4ps CC(C/G)T(C/T)C(C/G)TCCG ? N CC(C/G)T(C/T)C(C/G)TCCG[27]
89. Smp1ps ACTACTA(A/T)(A/T)(A/T)(A/T)TAG ? N ACTACTA(T/A)4TAG[27]
90. SP1

(Long)

GGGGCGGGCC ? N GGGGCGGGCC[16]
91. Sterol response elements

(Branco)

TCGTATA ? N perhaps plant specific
92. Sterol response elements

(Yao)

AGCAGATTGCG ? N liver specific
93. TATCCAC boxes TATCCAC ? N GA responsive complex component
94. TCCACCATA elements TCCACCATA ? N adjacent co-dependent regulatory element of POLLEN1
95. Tetradecanoylphorbol-13-acetate response elements

(TREs)

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

(TCEs)

GAGTGGGGCG ? N in mouse and rat, GCGTGGGGGA in humans
97. TGF-β inhibitory elements

(TIEs)

GAGTGGTGA ? N in the rat transin/stromelysin promoter
98. Vhr1ps

(VHR1)

AATCA-N8-TGA(C/T)T ? N Response to low biotin concentrations
99. Vitamin D response elements

(VDREs)

A/GGG/TTCAnnnA/GGG/TTCA ? N (A/G)G(G/T)TCANNN(A/G)G(G/T)TCA
100. X boxes GTTGGCATGGCAAC[38] ? N X2 box is AGGTCCA not ⌘F
101. X-boxes GT(A/C/T)N(C/T)(C/T)AT(A/G)(A/G)NAAC[39] ? N includes GTTNCCATGGNAAC
102. Xbp1ps GcCTCGA(G/A)G(C/A)g(a/g) ? N Transcriptional repressor
103. Xenobiotic response elements

(XREs)

(T/G)NGCGTG(A/C)(G/C)A ? N contains the core sequence GCGTG, see AHRE above
104. Y boxes (A/G)CTAACC(A/G)(A/G)(C/T) ? N inverted CAAT box
105. Zap1ps ACCCTCA ? N ACC(C/T)(C/T)(A/C/G/T)AAGGT
106. Z-box (ZboxN) samplings

(ZboxNs)

ATACGGT ? N No ZboxN occur on either side of A1BG
107. Z-box (ZboxSo) samplings

(ZboxNs)

ATACGTGT ? N No ZboxSo occur on either side of A1BG
108. Zinc responsive elements

(ZREs)

MHHAACCBYNMRGGT ? N (A/C)(A/C/T)(A/C/T)AACC(C/G/T)(C/T)N(A/C)(A/G)GGT

Response element testing (Present)

Response element
Name of elements Consensus sequences Response element class Testing Activity/Notes
Abbreviations Variations Present (Y) Random or likely active or activable
Authors Table (T)
1. ABA responsive elements

(ABREs)

ACGTG(G/T)C WD40 repeat family Y

T

likely active or activable
2. Activated B-cell Factor-1s

(ABFs, Abfms)

CGTNNNNN(A/G)(C/T)GA(C/T) General Regulatory Factors Y

T

likely active or activable
3. A-boxes TACGTA Basic leucine zipper (bZIP) Y

T

likely active or activable
4. boxes A TGACTCT bZIP Y

T

likely active or activable
5. Abscisic acid-responsive elements (Pho4s), G boxes CACGTG bZIP, bHLH Y

T

likely active or activable
6. ACGT-containing elements ACGT bZIP Y

T

cores and proximals are likely active or activable, but a few of the UTRs and distal promoters may be random
7. Activating protein 2 alpha

(AP2a)

GCCNNNGGC bHSH Y

T

likely active or activable, positive strand, positive direction AP2a within randoms
8. Activating protein 2

(AP2)

(Cohen)

GCCTGGCC bHSH Y

T

likely active or activable
9. Activating protein 2

(Cohen)

TCCCCCGCCC bHSH Y

T

likely active or activable
10. Activating protein 2

(Murata)

(C/G)CCN(3)GG(C/G) bHSH Y

T

likely active or activable
11. Activating protein 2

(Murata)

(C/G)CCN(4)GG(C/G) bHSH Y

T

likely active or activable
12. Activating protein 2

(Yao)

TCTTCCC bHSH Y

T

likely active or activable
13. Activating protein 2

(Yao)

CTCCCA bHSH Y

T

likely active or activable
14. Activating proteins

(AP-2)

(Yao)

GGCCAA bHSH Y

T

likely active or activable
15. Activating transcription factors

(Burton)

(A/C/G)TT(A/G/T)C(A/G)TCA bZIP Y

T

likely active or activable
16. Activating transcription factors

(Kilberg)

(A/G/T)TT(A/G/T)CATCA bZIP Y

T

likely active or activable
17. Adenylate–uridylate rich elements

(AUREs)

(Bakheet)

(A/T)(A/T)(A/T)TATTTAT(A/T)(A/T) stem-loop Y

T

likely active or activable
18. Adenylate–uridylate rich elements

(AREs)

(Chen and Shyu, Class I)

ATTTA stem-loop Y

T

likely active or activable, UTRs at the lower end of the randoms
19. Adenylate–uridylate rich elements

(AREs)

(Chen and Shyu, Class II)

TTATTTA(A/T)(A/T) stem-loop Y

T

likely active or activable
20. Adenylate–uridylate rich elements

(AREs)

(Chen and Shyu, Class III)

ATTT stem-loop Y

T

likely active or activable, low negative direction proximals overlap randoms
21. Adr1ps TTGG(A/G)G Cys
2
His
2
zinc finger binding domain
Y

T

likely active or activable
22. Aft1s (C/T)(A/G)CACCC(A/G) bZIP? Y

T

likely active or activable
23. AGC boxes AGCCGCC AP-2/EREBP-related factors Y

T

likely active or activable
24. AhR responsive element or Aryl hydrocarbon responsive element II

(AHRE-II)

CATGN6C(A/T)TG bHLH Y

T

likely active or activable
25. AhR DNA-binding consensus sequence

(AhRY)

(Yao)

GCGTGNN(A/T)NNN(C/G) bHLH Y

T

likely active or activable for ZNF497
26. Androgen response element1s

(Kouhpayeh)

GGTACA of GGTACAnnnTGTTCT Zinc finger DNA-binding domain Y

T

likely active or activable
27. Androgen response element2s

(Kouhpayeh)

TGTTCT of GGTACAnnnTGTTCT Zinc finger DNA-binding domain Y

T

likely active or activable
28. Androgen response elements

(Wilson)

AGAACANNNTGTTCT Zinc finger DNA-binding domain Y

T

the two portions AGAACA and TGTTCT occurring separately are likely active or activable
29. Angiotensinogen core promoter elements (A/C)T(C/T)GTG bZIP? Y

T

likely active or activable, positive direction distal low occurrences overlap randoms
30. Antioxidant-electrophile responsive elements

(Lacher)

GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A bHLH Y

T

likely active or activable
31. ATA boxes AATAAA β-Scaffold factor? Y

T

likely active or activable
32. ATTTA elements

(Siegel)

(A/T)(A/T)(A/T)(A/T)(A/T)(A/T)(A/T)(A/T)(A/T) β-Scaffold factor? Y

T

likely active or activable
33. Auxin response factors

(Stigliani)

(C/G/T)(A/C/T)(G/T)G(C/T)(C/T)(G/T)(C/G)(A/C/T)(A/G/T) WD40 repeat family Y

T

likely active or activable, positive direction proximals overlap high randoms, positive direction cores within randoms
34. Auxin response factors

(Ulmasov)

TGTCTC WD40 repeat family Y

T

likely active or activable
35. Auxin response factors

(Boer)

TGTCGG WD40 repeat family Y

T

likely active or activable
36. Auxin response factors

(ARF5)

(C/G/T)N(G/T)GTC(G/T) WD40 repeat family Y

T

likely active or activable, negative direction proximals ≥ randoms
37. B-boxes

(Johnson)

TGGGCA Zinc finger DNA-binding domains Y

T

likely active or activable, positive direction distals ≥ randoms
38. boxes B

(Sanchez)

TGTCTCA Zinc finger DNA-binding domains Y

T

likely active or activable
39. B recognition elements

(BREu)

(G/C)(G/C)(G/A)CGCC HTH Y

T

likely active or activable
40. CACA elements (Orlando 2019) CACA ? Y

T

likely active or activable
40. CadC binding domains TTANNNNT HTH Y

T

likely active or activable, negative direction proximals within randoms
41. Calcineurin-responsive transcription factors TG(A/C)GCCNC ? Y

T

likely active or activable
42. Carbohydrate response elements ChoRE1 ACCGG ? Y

T

likely active or activable
43. Carbohydrate response elements ChoRE2 CCCAT ? Y

T

likely active or activable
44. Carbohydrate response elements Carb E1 ATCTTG bHLH? Y

T

proximals likely active or activable
45. Carbohydrate response elements Carb E2 CACGTG bHLH Y

T

likely active or activable
46. Carbohydrate response elements Carb E3 TCCGCC bHLH? Y

T

likely active or activable, low positive direction distals overlap high randoms
47. Carbon source-responsive elements TCCG elements

(TCCGs)

TCCG bHLH? Y

T

likely active or activable
48. CATTCA elements

(CATTs)

CATTCA bHLH? Y

T

likely random
49. CARE (Fan)

(CAREs)

(Fan)

CAACTC WD-40 repeat family Y

T

likely active or activable
50. CARE (Garaeva)

(CAREs)

(Garaeva)

(A/G/T)TT(A/G/T)CATCA WD-40 repeat family Y

T

likely active or activable
51. cAMP-responsive elements

(CREs), Aca1ps, Sko1ps

TGACGTCA bZIP Y

T

likely active or activable, same as Root specific elements
52. CArG boxes CCAAAAAT(G/A)G bHLH Y

T

likely active or activable
53. Cat8ps CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA ? Y

T

likely active or activable
54. CAT boxes CATTCCT bHLH Y

T

likely active or activable
55. CAT-box-like elements GCCATT bHLH Y

T

likely active or activable
56. C boxes

(Samarsky)

AGTAGT bZIP Y

T

likely active or activable
57. C-boxes

(Song)

GACGTC bZIP Y

T

likely active or activable
58. hybrid CG-boxes

(Song)

TGACGTGT bZIP Y

T

likely active or activable
59. C boxes

(Voronina)

GGTGATG bZIP Y

T

likely active or activable
60. Cell-cycle box variants

(CCBs)

CACGAAA, ACGAAA and C-CGAAA ? Y

T

likely active or activable
61. CGCG boxes (A/C/G)CGCG(C/G/T) ? Y

T

likely active or activable probably for the respective zinc fingers
62. Circadian control elements CAANNNNATC ? Y

T

likely active or activable but overlaps highest randoms
63. Class C DNA binding sites CACGNG bHLH Y

T

likely active or activable, although the distals may be random
64. Cold-responsive elements CCGAC ? Y

T

likely active or activable
65. Constitutive decay elements

(CDEs)

(Siegel)

TTC(C/T)(A/G)(C/T)GAA stem-loop Y

T

likely active or activable possibly for ZNF497
66. Copper response elements

(CuREs)

(Quinn)

TTTGC(T/G)C(A/G) ? Y

T

likely active or activable
67. Copper response elements

(CuREs)

(Park)

TGTGCTCA ? Y

T

likely active or activable
68. Coupling elements

(CE3s)

(Watanabe)

GCGTGTC WD-40 repeat family Y

T

likely active or activable
69. Coupling elements

(CE3s)

(Ding)

CACGCG WD-40 repeat family Y

T

likely active or activable
70. Cytokinin response regulators

(ARR1s)

AGATT(C/T) WD40 repeat family Y

T

likely active or activable
71. Cytokinin response regulators

(ARR10s)

(A/G)GATA(A/C)G WD40 repeat family Y

T

likely active or activable or may be random
72. Cytokinin response regulators

(ARR12s)

(A/G)AGATA WD40 repeat family Y

T

likely active or activable
73. Cytokinin response regulators

(ARRs)

(Ferreira)

(G/A)GGAT(T/C) WD40 repeat family Y

T

likely active or activable
74. Cytokinin response regulators

(ARRs)

(Rashotte1)

GATCTT WD40 repeat family Y

T

likely active or activable
75. Cytokinin response regulators

(ARRs)

(Rashotte2)

(G/A)GAT(T/C) WD40 repeat family Y

T

likely active or activable
76. Cytoplasmic polyadenylation elements

(CPEs)

TTTTTAT ? Y

T

likely active or activable
77. DAF-16 binding elements (A/G)(C/T)AAA(C/T)A ? Y

T

likely active or activable
78. D boxes

(Samarsky)

AGTCTG ? Y

T

likely active or activable
79. D boxes

(Voronina)

TCCTG ? Y

T

likely active or activable
80. D-boxes

(Motojima)

TGAGTGG ? Y

T

likely active or activable
81. Dioxin-responsive elements

(DREs)

TNGCGTG bHLH? Y

T

likely active or activable
82. Downstream B recognition elements (A/G)T(A/G/T)(G/T)(G/T)(G/T)(G/T) ? Y

T

likely active or activable, negatives > randoms, positives overlap or outside randoms
83. Downstream core elements

(DCESIs)

CTTC of CTTC...CTGT...AGC ? Y

T

likely active or activable, depending on overlaps
84. Downstream core elements

(DCESIIs)

CTGT of CTTC...CTGT...AGC ? Y

T

likely active or activable, depending on overlaps
85. Downstream core elements

(DCESIIIs)

AGC of CTTC...CTGT...AGC ? Y

T

likely active or activable, depending on overlaps
86. Downstream promoter elements

(DPEs)

(Juven-Gershon)

(A/G)G(A/T)(C/T)(A/C/G)T ? Y

T

most or all of the real DPE (Juven-Gershon)s are likely active or activable
87. Downstream promoter elements

(DPEs)

(Kadonaga)

(A/G)G(A/T)CGTG ? Y

T

likely active or activable
88. Downstream promoter elements

(DPEs)

(Matsumoto)

AGTCTC ? Y

T

likely active or activable
89. E2 boxes (G/A)CAG(A/C/G/T)TG(A/C/G/T) bHLH Y

T

likely active or activable
90. EIN3 binding sites A(C/T)G(A/T)A(C/T)CT ? Y

T

likely active or activable
91. Endoplasmic reticulum stress response elements CCAAT-N9-CCACG, part 1 see Hap motif no.114 below, ESRE2, CCACG bZIP Y

T

likely active or activable
92. Endosperm expressions TGTGTCA ? Y

T

likely active or activable
93. Enhancer boxes CA(A/C/G/T)(A/C/G/T)TG bHLH Y

T

likely active or activable
94. Estrogen response elements

(ERE1s)

(Driscoll)

GGTCA Cys
4
Y

T

likely active or activable
95. Estrogen response elements

(ERE2s)

(Driscoll)

TGACC Cys
4
Y

T

likely active or activable
96. Ethylene responsive elements ATTTCAAA WD40 repeat family Y

T

likely active or activable
97. Forkhead boxes (A/G)(C/T)AAA(C/T)A HTH, Forkhead Y

T

likely active or activable
98. GAAC elements GAACT ? Y

T

likely active or activable
99. Γ-interferon activated sequences

(GAS), see STAT5

TTNCNNNAA β-Scaffold factors with minor groove contacts Y

T

likely active or activable
100. GATA boxes GATA Zinc finger DNA-binding domains, bHLH Y

T

likely active or activable when occurring in the UTR or distals but may be random when occurring in the proximals
101. GATA (GATAAG, GATAAH, GATTA) motifs

(Staschke)

GAT(A/T)A Zinc finger DNA-binding domains, bHLH Y

T

likely active or activable
102. GC boxes

(Briggs)

(G/T)(G/A)GGCG(G/T)(G/A)(G/A)(C/T) ? Y

T

likely active or activable
103. GC boxes

(Ye)

GGGCGG ? Y

T

likely active or activable
104. GCC boxes GCCGCC ? Y

T

likely active or activable
105. General control nonderepressible 4 protein binding site

(GCRE, GCN4)

TGA(C/G/T)T(A/C/G)(A/T) bZIP Y

T

likely active or activable
106. GGCGGC triplet GGCGGC Zn(II)2Cys6 Y

T

likely active or activable
107. GGC triplets GGC Zn(II)2Cys6 Y

T

likely active or activable
108. Gibberellic acid responsive elements

(GAREs)

TAACAAA WD40 repeat family Y

T

likely active or activable
109. Gibberellic acid responsive elements-like 1

(GAREL1s)

TAACA(A/G)A WD40 repeat family Y

T

likely active or activable
110. Gibberellin responsive elements

(GREs)

(Sharma)

AAACAGA[11] WD40 repeat family Y

T

likely active or activable
111. G-protein-coupled receptors

(GCR1s), CT boxes

CTTCC ? Y

T

likely active or activable.
112. Glucocorticoid response elements AGAACA bHLH Y

T

likely active or activable
113. GT boxes

(Sato)

GGGG(T/A)GGGG ? Y

T

likely active or activable
114. Hac1 KAR2 CAGCGTG ? Y

T

likely active or activable
115. H and ACA boxes AGAGGA Hairpin-hinge-hairpin-tail Y

T

likely active or activable, negative distals likely random
116. Hap motif and ESRE CCAAT

(Hap4p)

CCAAT bZIP Y

T

likely active or activable
117. H-boxes

(Grandbastien)

CC(A/T)ACCNNNNNNN(A/C)T hairpin-hinge-hairpin-tail Y

T

likely active or activable
118. H-boxes

(Lindsay)

CCTACC hairpin-hinge-hairpin-tail Y

T

likely active or activable, equal to or greater than the randoms for the negative direction distals
119. H box

(Mitchell)

ANANNA hairpin-hinge-hairpin-tail Y

T

likely active or activable
120. H box

(Rozhdestvensky)

ACACCA hairpin-hinge-hairpin-tail Y

T

likely active or activable
121. Heat shock elements

(HSE3s)

(Eastmond)

nGAAn-(5-bp)-nGAAnnTTCn HTH, HSFs Y

T

likely active or activable
122. Heat shock elements

(HSEs)

(Eastmond)

nGA(A/G)n-(5-bp)-nGAAnnTTCn (GAP1) HTH, HSFs Y

T

same result as HSE3, likely active or activable
123. Heat shock elements

(HSEs)

(Eastmond)

nGAAn-(5-bp)-nGA(A/G)nnTTCn (GAP2) HTH, HSFs Y

T

same result as HSE3, likely active or activable
124. Heat shock elements

(HSE4s)

(Eastmond)

nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn HTH, HSFs Y

T

likely active or activable
125. Heat shock factors

(Hsfs)

(Tang)

NGAAN HTH, HSFs Y

T

likely active or activable
126. Hex sequences TGACGTGGC ? Y

T

likely active or activable
127. High Mobility Group boxes

(HMG boxes)

(A/T)(A/T)CAAAG β-Scaffold factors with minor groove contacts Y

T

random
128. HNF6s (A/G/T)(A/T)(A/G)T(C/T)(A/C/G)AT(A/C/G/T)(A/G/T) Cys
4
Y

T

likely active or activable, although the negative direction distals are at or less than randoms
129. Homeoboxes CAAG HTH Y

T

likely active or activable
130. Homeodomains TAAT HTH Y

T

likely active or activable, low occurrence UTRs and negative direction distals overlap high randoms
131. HY boxes TG(A/T)GGG ? Y

T

likely active or activable
132. Hypoxia-inducible factors ACGTG bHLH Y

T

likely active or activable
133. Hypoxia response elements CACGC WD40 repeat family Y

T

likely active or activable
134. CACA elements CACA WD40 repeat family Y

T

likely active or activable
135. Initiator elements

(Inrs)

YYRNWYY ? Y

T

likely active or activable
136. Initiator elements

(Inrs)

BBCABW ? Y

T

likely active or activable
137. Initiator-like elements

(Ins-Like)

TTCTCT ? Y

T

likely active or activable, where real Inr-like negative direction distals are within the range of the randoms
138. Initiator-like elements

(TCT)

(C/T)CT(C/T)T(C/T)(C/T) ? Y

T

likely active or activable
139. Inositol/choline-responsive elements

(ICRE)

(Case, Lopes)

CATGTGAAAT includes the canonical basic helix-loop-helix (bHLH) binding site CANNTG (Lopes et al. 1991) bHLH Y

T

likely active or activable
140. Inositol/choline-responsive elements

(ICREs)

(Schwank)

TYTTCACATGY contains the core sequence CANNTG bHLH Y

T

likely active or activable
141. Interferon regulatory factor

(IRF3)

GCTTTCC HTH Y

T

random
142. IFN-stimulated response elements

(ISREs)

(Lu)

GAAANNGAAA HTH Y

T

likely active or activable
143. IRS consensus

(Fujii)

AANNGAAA HTH Y

T

likely active or activable
144. Tryptophan residues

(Lu)

GAAA HTH Y

T

likely active or activable, the tryptophan residues occur in the IRS, IFN, ICRE, Cell-cycle box variants, V-box, Pollen1, and β-Scaffold response elements
145. Jasmonic acid-responsive elements

(JAREs)

TGACG ? Y

T

likely active or activable
146. Krüppel-like factors GGGNN(G/T)(G/T)(G/T) ? Y

T

likely active or activable
147. Leu3 transcription factors (C/G)C(G/T)NNNN(A/C)G(C/G) Zn(II)2Cys6 Y

T

likely active or activable
148. -35 sequence TTGACA ? Y

T

likely active or activable, the UTR does overlap the randoms at the random's upper end
149. Met31ps AAACTGTG[36] bZIP Y

T

likely active or activable
150. Metal responsive elements

(MRE)

TGC(A/G)C(A/C/G/T)C ? Y

T

likely active or activable
151. Middle sporulation element

(MSE)

(Branco)

ACACAAA ? Y

T

likely active or activable
152. Midsporulation element

(MSE)

(Ozsarac)

C(A/G)CAAA(A/T) ? Y

T

likely active or activable
153. Multicopy inhibitor of the GAL1 promoter

(MIG1)

(C/G)(C/T)GGGG bZIP Y

T

likely active or activable, UTRs may be random
154. MITF E-box (CAYRTG)

(MITF)

CA(C/T)(A/G)TG ? Y

T

likely active or activable, negative distals overlap randoms at low end
155. Musashi binding elements

(MBE1s)

(G/A)U1AGU ? Y

T

likely active or activable
156. Musashi binding elements

(MBE2s)

(G/A)U2AGU ? Y

T

likely active or activable, negative direction distals may be random
157. Musashi binding elements

(MBE3s)

(G/A)U3AGU ? Y

T

likely active or activable
158. MYB ACGT-containing elements

(ACEs)

CACGT ? Y

T

likely active or activable, positive strand UTR is likely random, negative strand, positive direction distals are likely random
159. Myeloblastosis recognition element

(MRE)

A(A/C)C(A/T)A(A/C)C ? Y

T

likely active or activable
160. Myocyte enhancer factors

(MEFs)

(C/T)TA(A/T)(A/T)(A/T)(A/T)TA(A/G) β-Scaffold factors with minor groove contacts Y

T

likely active or activable
161. Nanos/Pumilio response elements

(PREs)

TGTAAAT ? Y

T

likely active or activable
162. N-boxes

(Lee)

CCGGAA bHLH Y

T

likely active or activable
163. N-boxes

(Bai)

CACGAG bHLH Y

T

likely active or activable
164. N-boxes

(Gao)

CACGGC or CACGAC, CACG(A/G)C bHLH Y

T

likely active or activable
165. N-boxes

(Leal)

CACNAG bHLH Y

T

likely active or activable
166. Non-DiTyrosine 80 transcription factor DNA binding domain

(Ndt80)

(A/G/T)NC(A/G)CAAA(A/T) ? Y

T

likely active or activable
167. Nuclear factor of activated T cells

(NFATs)

complement and inverse of the Pyrimidine boxes

GGAAAA β-Scaffold factors with minor groove contacts Y

T

likely active or activable, negative direction distals likely random
168. NF𝜿B (Sato)

(NF𝜿BSs)

GAATTC ? Y

T

likely active or activable
169. Nutrient-sensing response element 1

(NSRE)

GTTTCATCA ? Y

T

likely active or activable
170. Oaf1 transcription factor CGGN3TNAN9-12CCG ? Y

T

likely active or activable
171. ORESARA1

(ORE1)

(Matallana)

(A/C/G)(A/C)GT(A/G)N5,6(C/T)AC(A/G) ? Y

T

likely active or activable
172. ORESARA1

(ORE1)

(Olsen)

T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T) ? Y

T

likely active or activable
173. p53 response elements (A/G)(A/G)(A/G)C(A/T)(A/T)G(C/T)(C/T)(C/T) β-Scaffold factors with minor groove contacts Y

T

likely active or activable
174. p53 response elements

(Long1)

CAGGCCC β-Scaffold factors with minor groove contacts Y

T

likely active or activable
175. p53 response elements

(Long2)

GGGCGTG β-Scaffold factors with minor groove contacts Y

T

likely active or activable
176. P-box (Mena) (A/T)AAAG ? Y

T

likely active or activable, the positive direction proximals overlap the randoms
177. P-box

(Motojima)

TGAGTTCA ? Y

T

likely active or activable
178. P-box

(Yu)

GTAA(T/C) ? Y

T

likely active or activable with some overlapping the randoms
179. Peroxisome proliferator-activated receptor alpha CGACCCC ? Y

T

likely active or activable, positive direction distal overlaps upper end of randoms
180. Pho4ps CAC(A/G)T(T/G) bHLH Y

T

likely active or activable, positive strands of the UTRs and negative direction distals are in the random range
181. Pollen1 elements AGAAA ? Y

T

likely active or activable
182. Polycomb response elements

(PRE)

GCCAT ? Y

T

likely active or activable
183. Pribnow boxes TATAAT ? Y

T

likely active or activable
184. Prolamin boxes TG(A/T)AAAG ? Y

T

likely active or activable
185. Q elements

See Retinoic acid response element

AGGTCA ? Y

T

likely active or activable
186. Quinone reductase response element

(QRDRE)

(Yao)

TCCCCT of TCCCCTTGCGTG ? Y

T

likely active or activable
187. Rap1 reduced consensus (A/G)(A/C)ACCC(A/G)N(A/G)C(A/C)(C/T)(A/C) WD40 repeat family Y

T

likely active or activable
188. Reb1 bound and exact occurrences TTACCC(G/T) WD40 repeat family Y

T

likely active or activable
189. Retinoic acid response element AG(A/G)TCA ? Y

T

likely active or activable, positive direction distals appear random
190. Glucose transporter gene repressor

(Rgt1)

CGG(A/G)(A/T)N(A/T)(A/T) ? Y

T

likely active or activable
191. classic RORE motif

(RORE)

A(A/T)NTAGGTCA ? Y

T

likely active or activable
192. variant RORE motif C(T/A)(G/A)GGNCA ? Y

T

likely active or activable
193. R response elements

(RRE)

CATCTG ? Y

T

likely active or activable
194. Serum response elements

(SRE)

see CArG boxes

ACAGGATGT bHLH-ZIP Y

T

likely active or activable
195. Servenius sequences GGACCCT ? Y

T

likely active or activable
196. SP1

(Zhang)

(G/T)GGGCGG(G/A)(G/A)(C/T) ? Y

T

likely active or activable
197. SP1-box 1

(Motojima)

GGGGCT ? Y

T

likely active or activable
198. SP1-box 2

(Motojima)

CTGCCC ? Y

T

likely active or activable
199. SP-1

(Sato)

CCGCCCC ? Y

T

likely active or activable
200. SP1

(Yao)

GCGGC ? Y

T

likely active or activable
201. STAT5 TTCNNNGAA β-Scaffold factors with minor groove contacts Y

T

likely active or activable, positive distal likely random
202. Stress-response elements

(STREs)

CCCCT ? Y

T

likely active or activable, positive cores overlap randoms

Positive strand, negative direction: CCCCT at 3059

203. Sucrose boxes NNAATCA ? Y

T

likely active or activable
204. TACTAAC boxes TACTAA(C/T) ? Y

T

likely active or activable
205. TAGteams CAGGTAG ? Y

T

likely active or activable
206. Tapetum boxes TCGTGT ? Y

T

likely active or activable
207. metazoan TATA boxes TATA(A/T)AA(A/G) β-Scaffold factors with minor groove contacts Y

T

likely active or activable
208. TATA boxes TATA(A/T)A(A/T)(A/G) β-Scaffold factors with minor groove contacts Y

T

likely active or activable
209. TAT Boxes

(Yang)

TATAAAA WD40 repeat family Y

T

likely active or activable
210. TAT Boxes

(Fan)

TATCCAT WD40 repeat family Y

T

likely active or activable
211. Tbf1 regulatory factors A(A/G)CCCTAA General Regulatory Factors Y

T

Saccharomyces cerevisiae, likely active or activable
212. T boxes

(Conlon)

TCACACCT bZIP Y

T

likely active or activable
213. T boxes

(Zhang)

AACGTT bZIP Y

T

likely active or activable
214. TEA consensus sequences CATTCY ? Y

T

likely active or activable
215. Tec1ps GAATGT ? Y

T

likely random, Ste12p cofactor
216. Telomeric repeat DNA-binding factors

(TRFs)

TTAGGG ? Y

T

likely active or activable
217. Thyroid hormone response elements

(TREs)(THRs)

AGGTCA ? Y

T

likely active or activable
218. Transcription factor 3

(TCF3)

GTCTGGT ? Y

T

likely active or activable
219. Translational control sequences

(TCSs)

(A/T)TT(A/G)TCT ? Y

T

likely active or activable
220. Unfolded protein response element

(URE) (UPRE-1)

CANCNTG ? Y

T

likely active or activable
221. Unfolded protein response elements

(UPREs)

TGACGTG(G/A) bZIP Y

T

likely active or activable
222. Upstream repressor site 1

(URS1, core)

(Sumrada)

CCGCC ? Y

T

likely active or activable, negative direction proximals are within randoms
223. Upstream stimulating factors

(USFs)

GCC(A/T)NN(C/G/T)(A/G) bHLH-ZIP Y

T

likely active or activable, cores overlap lower randoms
224. UUA rich elements

(Chen)

TTATTTA(A/T)(A/T) ? Y

T

likely active or activable
225. V boxes (A/G)TT(A/T)(C/T) ? Y

T

likely active or activable
226. Vitamin D response elements

(VDREs)

(A/G)G(G/T)(G/T)CA ? Y

T

likely active or activable
227. W boxes (C/T)TGAC(C/T) WRKY Y

T

likely active or activable
228. X core promoter elements (A/G/T)(C/G)G(C/T)GG(A/G)A(C/G)(A/C) ? Y

T

likely active or activable
229. Xenobiotic response elements

(XREs)

GCGTG bHLH Y

T

likely active or activable
230. Yap recognition sequences TTACTAA ? Y

T

likely active or activable
231. YY1 binding sites CCATCTT Cys
2
His
2
Y

T

likely active or activable
232. Z boxes

NSoSp form

A(C/T)A(C/G)G(G/T)(A/G/T)T ? Y

T

likely active or activable, negative direction distals within randoms
233. Z boxes

ZboxG

A(C/T)A(C/G)GT(A/G)T ? Y

T

likely active or activable
234. Z boxes

ZboxSp

CAGGT(A/G) ? Y

T

likely active or activable

Totals

Of 358 response elements, there are 117 Ns for not present (absent) in either A1BG promoter and 241 Ys for (present) or transcription factors that occur in the promoters on either side A1BG. There are four apparent random elements (CATTs, HMG boxes, IRF3s and TECs), and 236 likely active or activable (97.93 %). With 4560 nts considered between ZSCAN22 and A1BG, halfway would be at 2280. Less than 2280 suggests the nearest other gene. In the positive direction, 4445 nts considered between ZNF497 and A1BG, halfway would be 2222 for another nearest gene. Less than 2222 suggests the nearest other gene.

Acknowledgements

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

See also

References

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External links

{{Phosphate biochemistry}}