A1BG response element positive results

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" are called response elements.

Hypotheses

Main article: Hypotheses

1. A1BG has all known response elements in both promoters.
2. A1BG is transcribed by all known response elements.
3. Each known response element participates in the transcription of A1BG.

Response element positive results

Main article: A1BG regulatory elements and regions

Response elements occurring in promoters for A1BG

Name of elements	Consensus sequences	UTR	Core promoter	Core promoter	Proximal promoter	Proximal promoter	Distal promoter	Distal promoter
(Abbreviations)	Nucleotides	Negative direction	Negative direction	Positive direction	Negative direction	Positive direction	Negative direction	Positive direction
(Authors)	(complements not included)	(4685-2846 nts from ZSCAN22)	(2846-2811 nts from ZSCAN22)	(4300-4265 nts from ZNF 497)	(2811-2596 nts from ZSCAN22)	(4265-4050 nts from ZNF 497)	(2596-<200 nts from ZSCAN22)	(4050-<200 nts from ZNF 497)
ABA responsive elements (ABREs)	ACGTG(G/T)C	Negative strand: CTGTGCA at 3429 Positive strand: ACGTGGC at 4239	-	Positive strand: ACGTGGC at 4344	-	-	-	Positive strand: GACACGT at 2960, ACGTGTC at 1823
Activated B-cell Factor-1s (ABFs)	CGTNNNNN(A/G)(C/T)GA(C/T)	-	-	-	-	-	Positive strand: CGTTCTTTATGAT at 352	Positive strand: CGTCACCGGTGAC at 2073, CGTTCGGTGTGAC at 346
A boxes	TACGTA	Negative strand: TACGTA at 4246	-	-	-	-	-	Positive strand: TACGTA at 3071
boxes A	TGACTCT	-	-	-	Positive strand: TGACTCT at 2788	-	-	Positive strand: TCTCAGT at 2613
Abscisic acid-responsive elements (Pho4s), G boxes	CACGTG	-	-	-	-	-	-	Negative strand: CACGTG at 570 Positive strand: CACGTG at 3884, CACGTG at 2961, CACGTG at 1219, and CACGTG at 547
H and ACA boxes	AGAGGA	Positive strand: AGGACA at 4468, AGGACA at 3756, AGGACA at 3389	-	-	Positive strand: ACAGGA at 2690	Negative strand: AGGACA at 4252	Negative strand: AGGACA at 1911	Negative strand: ACAGGA at 3572, AGGACA at 3131, AGGACA at 2460 Positive strand: AGGACA at 3622, ACAGGA at 3620, AGGACA at 144
ACGT-containing elements	ACGT	Negative strand: ACGTG at 4339, CACGT at 3429, ACGTG at 3288, CACGT at 2863	-	Negative strand: TGCAC at 4342	Negative strand: ACGTG at 2760	Positive strand: ACGTG at 4237	Negative strand: ACGTG at 2425, CACGT at 2081, ACGTG at 1999, ACGTG at 1718, CACGT at 1535, CACGT at 1470, ACGTG at 1346, ACGTG at 1338 Positive strand: CACGT at 1772, CACGT at 531, CACGT at 342	Negative strand: CACGT at 3254, ACGTG at 570, CACGT at 569 Positive strand: CACGT at 3960, ACGTG at 3884, CACGT at 3883, CACGT at 3464, ACGTG at 3342, ACGTG at 3321, ACGTG at 2961, CACGT at 2960, CACGT at 2800, CACGT at 2681, CACGT at 2334, CACGT at 2326, CACGT at 2063, ACGTG at 1821, CACGT at 1786, ACGTG at 1471, ACGTG at 1371, ACGTG at 1219, CACGT at 1218, CACGT at 783, ACGTG at 547, CACGT at 546
Activating protein 2 (Murata)	(C/G)CCN(3,4)GG(C/G)	-	-	Negative strand: CCCTGGGGC at 4427, CCCTTGGGG at 4302	-	Negative strand: CCCATGGGG at 4224, CCCCATGGG at 4223	Negative strand: CCCTGCGGC at 1154 Positive strand: CCCAAGGGC at 1820	Negative strand: GCCCTGGGC at 3498, GCCAATGGG at 2911, GCCTCTGGC at 2884, CCCTTAGGG at 2766, GCCACCGGC at 1547, GCCACCGGC at 1295, GCCAGCGGC at 332, CCCTCAGGC at 91 Positive strand: CCCGTTGGC at 3912, CCCTGTGGG at 3533, GCCAACGGG at 3493, CCCAGAGGC at 1961, GCCGGTGGG at 1852, GCCCGCGGG at 1770, CCCGGCGGC at 1758, GCCCCCGGC at 1647, CCCGACGGC at 483, CCCTCCGGG at 372
Activating protein 2 (AP2) (Cohen)	GCCTGGCC	Negative strand: CCGGTCCG at 4103, CGGACCGG at 3130	-	-	-	-	Negative strand: CCGGTCCG at 2520, CGGACCGG at 1200, CCGGTCCG at 649	Negative strand: GCCTGGCC at 3681, GCCTGGCC at 2990, GGCCAGGC at 1176
Activating protein 2 (Cohen)	TCCCCCGCCC	-	-	-	-	-	-	Positive strand: TCCCCCGCCC at 4440
Activating protein 2 (Yao)	TCTTCCC	-	-	-	-	Positive strand: CCCTTCT at 4264	Negative strand: TCTTCCC at 1657, GGGAAGA at 620	-
Activating protein 2 (Yao)	CTCCCA	Negative strand: ACCCTC at 4549, ACCCTC at 4497, ACCCTC at 4303, ACCCTC at 4271, GAGGGT at 4259, ACCCTC at 4153, ACCCTC at 3989, ACCCTC at 3752, ACCCTC at 3714, ACCCTC at 3080	-	-	-	-	Negative strand: ACCCTC at 2221, ACCCTC at 2104, ACCCTC at 1962, ACCCTC at 1930, ACCCTC at 1795, ACCCTC at 1018, ACCCTC at 686, ACCCTC at 550, ACCCTC at 413, GAGGGT at 389	Negative strand: CTCCCA at 3333, CTCCCA at 2532, CTCCCA at 2396, CTCCCA at 2383, TGGGAG at 1782, CTCCCA at 466 Positive strand: CTCCCA at 3880, CTCCCA at 2797, CTCCCA at 182
Activating transcription factors (Burton)	(A/C/G)TT(A/G/T)C(A/G)TCA	Positive strand: ATTTCATCA at 2888	-	-	-	-	Positive strand: TGACGAAAC at 313	Negative strand: CTTGCGTCA at 2423, TGACGTAAG at 2207, TGATGAAAC at 2147, CTTTCGTCA at 1184
Activating transcription factors (Kilberg)	(A/G/T)TT(A/G/T)CATCA	-	Positive strand: ATTTCATCA at 2888	-	-	-	-	Negative strand: TGATGAAAC at 2147
Adr1ps	TTGG(A/G)G	Negative strand: CCCCAA at 3803, TTGGAG at 3786, CTCCAA at 3260, TTGGGG at 3150, AACCTC at 3118, AACCCC at 2923	-	Negative strand: TTGGGG at 4302	Negative strand: TTGGGG at 2623	-	Negative strand: CTCCAA at 2397, TTGGGG at 2286, TTGGGG at 1859, CTCCAA at 1318, TTGGGG at 1216, CTCCAA at 1027, CTCCAA at 861, TTGGGG at 616	Negative strand: TTGGGG at 2285, CTCCAA at 1278, CTCCAA at 942, CTCCAA at 842, CTCCAA at 606, CCCCAA at 176 Positive strand: TTGGGG at 3939, CTCCAA at 1925, TTGGAG at 1618, TTGGAG at 610, CTCCAA at 304
Aft1s	(C/T)(A/G)CACCC(A/G)	Positive strand: TGGGTGTG at 3185	-	-	-	-	Negative strand: TGGGTGTG at 1804 Positive strand: CGGGTGCG at 2196, CGGGTGCG at 379	Negative strand: TGCACCCG at 3324
AGC boxes	AGCCGCC	-	-	-	-	-	Negative strand: CCGCCGA at 1754	-
AhR responsive element (AHRE-II)	CATGN6C(A/T)TG	Positive strand: CATGGTGGCTCATG at 4116	-	-	-	-	-	-
Androgen response elements (Kouhpayeh)	GGTACAnnnTGTTCT	Negative strand: TGTTCT at 3759, TGTTCT at 3635, TGTTCT at 3340, TGTTCT at 3307 Positive strand: AGAACA at 3668	-	-	Negative strand: TGTACC at 2614	Negative strand: AGAACA at 4068	Negative strand: TGTACC at 2152, TGTACC at 1207, ACATGG at 798, AGAACA at 281 Positive strand: AGAACA at 287, TGTTCT at 45	Negative strand: AGAACA at 3094, TGTTCT at 108 Positive strand: GGTACA at 3901, GGTACA at 3336, GGTACA at 2474, TGTACC at 2032, ACAAGA at 108
Androgen response elements (Wilson)	AGAACAGCCTGTTCT	Negative strand: TGTTCT at 3759, TGTTCT at 3635, TGTTCT at 3340, TGTTCT at 3307 Positive strand: AGAACA at 3668	-	-	-	Negative strand: AGAACA at 4068	Negative strand: AGAACA at 281 Positive strand: AGAACA at 287, TGTTCT at 45	Negative strand: AGAACA at 3094, TGTTCT at 108
Angiotensinogen core promoter elements	(A/C)T(C/T)GTG	Negative strand: CACGAG at 4403, CTCGTG at 3914, CTTGTG at 3669 Positive strand: CACGAG at 4472, CACAAG at 3634, CACAAT at 3515, CACGAG at 3232	-	Negative strand: CTCGTG at 4376	-	-	Negative strand: ATCGTG at 2096, ATTGTG at 340, CACGAT at 336 Positive strand: CACAAG at 2244, CACAAT at 1721, CACGAG at 1182, CACGAG at 708, CACGAG at 572, CACGAG at 435	Negative strand: ATTGTG at 2679, CACGAG at 243 Positive strand: CTCGTG at 3739, CACGAG at 3152, CTTGTG at 3095, CACGAG at 2090, CTCGTG at 1627, CTCGTG at 1207, CTCGTG at 955, CTCGTG at 855, CACAAG at 107
Antioxidant-electrophile responsive elements (Lacher)	GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A	Negative strand: TGACTATGC at 3546 Positive strand: TGAGTTGGC at 4098, TTAAAAGGC at 3442	-	-	-	-	Negative strand: TTAATCGGC at 1237 Positive strand: GCAGTGTAA at 2087, TTAGCCAGC at 504, GCATTTTAA at 192	Negative strand: TGACCAGGC at 2877 Positive strand: TGAAAAAGC at 1750
ATA boxes	AATAAA	Negative strand: AAATAA at 4537 Positive strand: AAATAA at 4221, AAATAA at 4075, AATAAA at 4072, AAATAA at 4071, AATAAA at 3335, AAATAA at 3334, AATAAA at 3014, AAATAA at 3013	-	-	-	Positive strand: AAATAA at 4142	Negative strand: AATAAA at 1726	Negative strand: AATAAA at 3427 Positive strand: AAATAA at 2347
Auxin response factors (Ulmasov)	TGTCTC	Negative strand: TGTCTC at 4519, TGTCTC at 3673 Positive strand: CCTGTCTCAA at 4374, TCTGTCTCAA at 3324	-	-	Negative strand: TGTCTC at 2779	-	Negative strand: TGTCTC at 2444, GAGACA at 2029, TGTCTC at 2018, GAGACA at 1452, GAGACA at 1085, TGTCTC at 1074, GAGACA at 919, TGTCTC at 908 Positive strand: TGTCTC at 2166, TCTGTCTCAA at 2034, TCTGTCTCAA at 1090, TCTGTCTCAA at 924	Negative strand: GTTGTCTCTT at 3056, TGTCTC at 2467, TGTCTC at 2173, TGTCTC at 2079, GAGACA at 712 Positive strand: TGTCTC at 3180, TGTCTC at 3134, TGTCTC at 2653, GAGACA at 2308, GAGACA at 98
Auxin response factors (Boer)	TGTCGG	Negative strand: TGTCGG at 3727	-	-	-	-	-	Negative strand: CCGACA at 1964 Positive strand: TGTCGG at 3896, CCGACA at 3640, CCGACA at 3349, TGTCGG at 3101, CCGACA at 264, TGTCGG at 65
B-boxes (Johnson)	TGGGCA	Positive strand: TGCCCA at 4251, TGGGCA at 4191, TGGGCA at 4040, TGCCCA at 3883, TGCCCA at 3854, TGGGCA at 3301	-	-	Positive strand: TGGGCA at 2773	Negative strand: TGGGCA at 4180	Positive strand: TGGGCA at 2438, TGCCCA at 1458, TGGGCA at 1359, TGGGCA at 1114, TGGGCA at 902, TGGGCA at 462	Negative strand: TGCCCA at 3377, TGCCCA at 3237, TGGGCA at 2894, TGGGCA at 1945, TGGGCA at 27 Positive strand: TGCCCA at 3750
boxes B (Sanchez)	TGTCTCA	Positive strand: TGTCTCA at 4373, TGTCTCA at 3323	-	-	-	-	Negative strand: TGTCTCA at 2445, TGAGACA at 2029, TGAGACA at 1085, TGTCTCA at 1075, TGAGACA at 919 Positive strand: TGTCTCA at 2033, TGTCTCA at 1089, TGTCTCA at 923	Negative strand: TGTCTCA at 2468, TGTCTCA at 2174 Positive strand: TGAGACA at 2308
B recognition elements (BREu)	(G/C)(G/C)(G/A)CGCC	Positive strand: GGCGTGG at 3047	-	-	-	-	Negative strand: CCACGCC at 2197, CCGCGCC at 1762, CCTGCGG at 1153, CCACGCC at 380 Positive strand: GGCGTGG at 1897, GGCGTGG at 1244	Negative strand: GGCGCCC at 1770, GGGCGCC at 1769, GGACGCC at 1672, GCACGCC at 1302 Positive strand: GGCGTGG at 2566, CCACGCC at 1764, GGCGCCG at 1438, GGCGCCG at 1338, CGACGCC at 1033, GGCGCGC at 682, CCACGCC at 489
CadC binding domains	TTANNNNT	Negative strand: ATAATTAA at 4541, AAGTGTAA at 4533, TTATTAAT at 4227, ATTATTAA at 4226, TTATTATT at 4224, TTTTTATT at 4221, TTATCTTT at 4081, TATTTATT at 4075, TTATTTAT at 4074, TTTTTATT at 4071, etc. Positive strand: TTATTAAT at 4540	-	-	-	Negative strand: TTATAATT at 4169, TATTGATT at 4163, TTATTGAT at 4162, TGATTATT at 4159, TTAATCAT at 4148, TTATTAAT at 4145, TCTTGATT at 4133, TTATCACT at 4126 Positive strand: TTACTCCT at 4097	-	-
Calcineurin-responsive transcription factors	TG(A/C)GCCNC	Positive strand: GTGGCTCA at 4114, GTGGCTCA at 3963, GTGGCTCA at 3054	-	-	-	-	Positive strand: GTGGCTCA at 2531, GTGGCTCA at 2204, GTGGCTCA at 1769, GTGGCTCA at 1124, GTGGCTCA at 660	Negative strand: TGAGCCAC at 2560, TGAGCCAC at 1291 Positive strand: GCGGCTCA at 1166, GCGGCTCA at 1082, GGGGCTCA at 578
Carbohydrate response elements	ChoRE1 ACCGG, ChoRE2 CCCAT	Negative strand: ACCGG (Carb) at 4099, TCCGCC (CarbE3) at 3999, ACCGG at 3948, GTTCTA (CarbE1) at 3275, ACCGG at 3130, TCCGCC (CarbE3) at 3090 Positive strand: CCCAT at 4454 (Carb1)	-	Negative strand: ACCGG (Carb) at 4345	Negative strand: ACCGG at 2607	Negative strand: CCCAT (Carb1) at 4220, GTTCTA (CarbE1) at 4075 Positive strand: GGCGGA (CarbE3) at 4239, ATCTTG (CarbE1) at 4067	Negative strand: TCCGCC (CarbE3) at 2392, TCCGCC (CarbE3) at 2231, TCCGCC (CarbE3) at 1752, GGCGGA (CarbE3) at 1504, ACCGG at 1200, GTTCTA (CarbE1) at 876, TCCGCC (CarbE3) at 856, TCCGCC (CarbE3) at 700, ACCGG at 645, TCCGCC (CarbE3) at 427, ATCTTG (CarbE1) at 286, etc.	-
CAACTC regulatory elements (CAREs)	CAACTC	Positive strand: GAGTTG at 4096, GAGTTG at 3115	-	-	Positive strand: GAGTTG at 2704	-	Negative strand: GAGTTG at 1406, CAACTC at 86 Positive strand: GAGTTG at 2592	Negative strand: CAACTC at 3292 Positive strand: GAGTTG at 3290, GAGTTG at 1621
CArG boxes	CCAAAAAT(G/A)G	Positive strand: CATTAAAAGG at 3441	-	-	-	-	Positive strand: CAAAAAAAAG at 1399	-
Cat8ps	CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA	-	-	-	-	-	Negative strand: TCCGTGCCACCG at 2528, TCCGTGCCACCG at 657	-
CAT boxes	CATTCCT	Negative strand: TCCTTAC at 4554	-	-	-	-	-	Negative strand: CATTCCT at 2209 Positive strand: CATTCCT at 2458
C-boxes (Song)	GACGTC	Negative strand: GACGTC at 4316	-	Positive strand: GACGTC at 4316	-	-	-	Positive strand: GACGTC at 3280, GACGTC at 3231, GACGTC at 2858, GACGTC at 1506, GACGTC at 1120, GACGTC at 532, GACGTC at 437, GACGTC at 193
C boxes (Voronina)	GGTGATG	Positive strand: GGTGATG at 3798	-	-	-	-	-	-
C boxes (Samarsky)	AGTAGT	Negative strand: AGTAGT at 3521, AGTAGT at 3418, AGTAGT at 2944, AGTAGT at 2888	-	-	-	-	-	Positive strand: ACTACT at 2144, AGTAGT at 3251
hybrid C/G-boxes (Song)	TGACGTGT	-	-	-	-	-	-	Positive strand: ACACGTCA at 3962
CCAAT-boxes-binding transcription factors (Hap4p)	CCAAT	Positive strand: ATTGG at 3529, CCAAT at 2848	-	-	-	-	Negative strand: ATTGG at 614 Positive strand: ATTGG at 1045, ATTGG at 643	Negative strand: CCAAT at 2908, ATTGG at 24 Positive strand: CCAAT at 3024
CGCG boxes	(A/C/G)CGCG(C/G/T)	-	-	-	-	-	Negative strand: CCGCGC at 1761, GCGCGT at 161 Positive strand: GCGCGG at 1762	Negative strand: CCGCGC at 1650, CCGCGG at 1437, CCGCGG at 1337, ACGCGG at 971, ACGCGG at 871, GCGCGC at 683, CCGCGC at 681, GCGCGT at 543 Positive strand: CCGCGG at 1769, CCGCGT at 1550, ACGCGT at 1523, ACGCGG at 1498, ACGCGG at 1454, ACGCGT at 1414, ACGCGG at 1398, ACGCGG at 1354, ACGCGT at 1314, CCGCGT at 1298, ACGCGG at 1246, CCGCGC at 1214, ACGCGG at 1162, ACGCGG at 1078, CCGCGT at 1046, CCGCGT at 976, CCGCGT at 876, GCGCGT at 684, GCGCGC at 682, CCGCGC at 542, ACGCGG at 452, CCGCGC at 161
Circadian control elements	CAANNNNATC	Negative strand: CTACCCCAAC at 3804	-	-	-	-	-	-
Cold-responsive elements	CCGAC	Negative strand: GTCGG at 4490, GTCGG at 4481, GTCGG at 4346, CCGAC at 4275, CCGAC at 4144, GTCGG at 4034, CCGAC at 3993, GTCGG at 3727, CCGAC at 3718, GTCGG at 3683, GTCGG at 3295, CCGAC at 3223, GTCGG at 3205, GTCGG at 3125, CCGAC at 3084, CCGAC at 3040	-	-	Negative strand: GTCGG at 2767, CCGAC at 2695, GTCGG at 2651	-	Negative strand: CCGAC at 2561, GTCGG at 2432, CCGAC at 2360, GTCGG at 2265, CCGAC at 2225, CCGAC at 2108, CCGAC at 2068, GTCGG at 2006, CCGAC at 1799, CCGAC at 1755, CCGAC at 1745, CCGAC at 1463, CCGAC at 1281, GTCGG at 1195, CCGAC at 1110, GTCGG at 1062, CCGAC at 990, GTCGG at 896, CCGAC at 824, GTCGG at 729, GTCGG at 505, GTCGG at 36	Negative strand: CCGAC at 3800, CCGAC at 1963, GTCGG at 1529, CCGAC at 997, CCGAC at 897, CCGAC at 791 Positive strand: GTCGG at 3998, GTCGG at 3896, CCGAC at 3639, CCGAC at 3587, CCGAC at 3525, CCGAC at 3348, GTCGG at 3101, CCGAC at 2914, GTCGG at 2897, CCGAC at 2886, CCGAC at 2809, CCGAC at 2769, GTCGG at 2527, GTCGG at 2391, GTCGG at 2353, CCGAC at 2319, GTCGG at 2009, CCGAC at 1818, GTCGG at 1604, GTCGG at 1268, CCGAC at 1030, GTCGG at 932, GTCGG at 832, GTCGG at 614, GTCGG at 512, CCGAC at 480, CCGAC at 416, CCGAC at 276, CCGAC at 263, GTCGG at 65
Coupling elements (CE1s) (Watanabe)	GCGTGTC	-	-	-	-	-	-	Positive strand: GCGTGTC at 1053
Coupling elements (CE3s) (Ding)	CACGCG	-	-	-	-	-	-	Negative strand: CGCGTG at 1216, CACGCG at 970, CACGCG at 870, CGCGTG at 544 Positive strand: CACGCG at 1726, CGCGTG at 1551, CACGCG at 1522, CGCGTG at 1299, CACGCG at 1245, CACGCG at 1161, CGCGTG at 1131, CGCGTG at 1047, CGCGTG at 977, CGCGTG at 877, CGCGTG at 685
cAMP-responsive elements (CREs), Aca1ps, Sko1ps	TGACGTCA	Negative strand: TGACGTCA at 4317	-	-	-	-	-	-
DAF-16 binding elements	(A/G)(C/T)AAA(C/T)A	Negative strand: GTAAATA at 4536, TATTTAT at 4074, TATTTGT at 3337, TGTTTAT at 3333, TATTTGT at 2876	-	-	-	Negative strand: ACAAACA at 4256	Negative strand: TGTTTGT at 2512, TGTTTGT at 2512, TGTTTGT at 1391 Positive strand: ACAAACA at 2487, GCAAACA at 2483, GCAAACA at 1539	Negative strand: TGTTTGC at 3340, TGTTTAT at 2346 Positive strand: TATTTAC at 3429, ACAAATA at 2346
D boxes (Samarsky)	AGTCTG	Negative strand: AGTCTG at 2947	-	-	-	-	Positive strand: CAGACT at 1616, AGTCTG at 1355, CAGACT at 15	Negative strand: AGTCTG at 3923, CAGACT at 2416 Positive strand: CAGACT at 3924, CAGACT at 3006, CAGACT at 2943
D boxes (Voronina)	TCCTG	Negative strand: TCCTG at 4467, TCCTG at 3755, TCCTG at 3639, TCCTG at 3388 Positive strand: TCCTG at 4545, CAGGA at 4437, CAGGA at 4283, CAGGA at 4171, CAGGA at 4139, TCCTG at 3905, CAGGA at 3250, CAGGA at 3218, CAGGA at 3111	-	Negative strand: TCCTG at 4408	Positive strand: CAGGA at 2690	Negative strand: TCCTG at 4185 Positive strand: TCCTG at 4251	Positive strand: CAGGA at 2588, CAGGA at 2368, CAGGA at 2251, CAGGA at 2135, CAGGA at 1942, TCCTG at 1910, TCCTG at 1840, CAGGA at 1824, CAGGA at 1289, CAGGA at 1276, CAGGA at 998, CAGGA at 985, CAGGA at 851, CAGGA at 832, CAGGA at 715, TCCTG at 595, CAGGA at 579, CAGGA at 442	Negative strand: CAGGA at 3869, TCCTG at 3621, CAGGA at 3572, TCCTG at 3295, CAGGA at 3129, CAGGA at 2746, CAGGA at 2621, TCCTG at 2519, TCCTG at 2500, TCCTG at 2210, TCCTG at 1775, TCCTG at 1117, CAGGA at 708, CAGGA at 425, TCCTG at 143 Positive strand: CAGGA at 3864, CAGGA at 3620, TCCTG at 3130, CAGGA at 2999, TCCTG at 2459, TCCTG at 1669, CAGGA at 758, CAGGA at 219
D-boxes (Motojima)	TGAGTGG	Negative strand: CCACTCA at 3827 Positive strand: CCACTCA at 4487	-	-	-	-	-	Negative strand: TGAGTGG at 3449
Dioxin-responsive elements (DREs)	TNGCGTG	Positive strand: CACGCCA at 3282	-	-	-	-	Negative strand: CACGCCA at 2198, CACGCCA at 381 Positive strand: CACGCCA at 2209, CACGCCA at 1993	Positive strand: TGGCGTG at 2565, CACGCGA at 1727, TCGCGTG at 1131
DNA damage response elements (DRE, core) (Sumrada)	CCGCC	Negative strand: CCGCC at 3999, CCGCC at 3090	-	Negative strand: CCGCC at 4291 Positive strand: CCGCC at 4439, CCGCC at 4429	Negative strand: CCGCC at 2727, CCGCC at 2724	Negative strand: CCGCC at 4238	Negative strand: CCGCC at 2392, CCGCC at 2231, CCGCC at 1809, CCGCC at 1752, CCGCC at 1250, CCGCC at 956, CCGCC at 856, CCGCC at 700, CCGCC at 427 Positive strand: CCGCC at 1503	Negative strand: CCGCC at 1757, CCGCC at 904 Positive strand: CCGCC at 3487, CCGCC at 2485, CCGCC at 1901, CCGCC at 1793, CCGCC at 1202, CCGCC at 1025, CCGCC at 406, CCGCC at 356, CCGCC at 353
Downstream B recognition elements	(A/G)T(A/G/T)(G/T)(G/T)(G/T)(G/T)	Negative strand: GTAGGTG at 4458, GTGGGGT at 4446, GTTTTTT at 4378, GTTTTTT at 4218, ATGTTTT at 4216, GTTGTGT at 4196, GTTTTTT at 4068, ATGTTTT at 4066, AACCAAC at 3945, CCACTAC at 3798, GTGTTTT at 3767, ATGGTGG at 3740, CACCAAC at 3605, AACCAAC at 3532, GTAGTTG at 3523, ATTTGGT at 3484, ATTTGGT at 3365, CCAAAAT at 3350, ATTTGTT at 3338, GTTTTTG at 3328, CCCACAC at 3185, GTATTTT at 3171, ATTTTTG at 3165, GTGGGTT at 3136, ATTTTTT 3026, GTAGTTT at 2890, ATATTTG at 2875, GTTGGGT at 2846 Positive strand: AACCCAT at 4454, AAAAAAT at 4219, ATGGTGG at 4110, AAAAAAT at 4069, CCAACAC at 3981, GTTGGTT at 3944, GTGTTGG at 3942, CCCATAC at 3857, ATGTGGT at 3811, ATGGGGT at 3802, ACAAAAT at 3768, GTGGTTG at 3605, ATTGGTT at 3531, CAACTAT at 3526, AAAACAC at 3512, AAACCAC at 3366, CAAAAAC at 3328, GTGGGTG at 3195, GTGTGGT at 3187, GTGGTGG at 3192, GTGGTGG at 3189, GTGTGGT at 3187, AAAACAT at 3167, ACCCCAT at 3152, ACCCAAC at 3137, GTGGTGG at 3050, AAAAAAC at 3027, AAACCAC at 2972, AAAAAAT at 2930, AAAATAT at 2869, ATATTTT at 2853	Negative strand: GTTGGGT at 2846 Positive strand: AAACAAC at 2843	Negative strand, positive direction: GTGGGGT at 2764, ATGTTTT at 2644, ATATGTT at 2642	Negative strand: ACACCAC at 2660 Positive strand: GTGGTGG at 2661, GTGTGGT at 2659, CAAAAAT at 2646, CCAACAT at 2612	Negative strand, positive direction: CAAACAC at 4257, ATGGGGG at 4225, ACCCCAT at 4220, ATTGTTG at 4173, GTGGTTT at 4108 Positive strand: GTTTGTG at 4257, CCAAAAT at 4110	Negative strand: 33 BREd between 22549 and 68 Positive strand: 58 BREd between 2332 and 43	Negative strand: 18 BREd between 3969 and 56 Positive strand: 30 BREd between 3968 and 59
Downstream core elements (DCEs)	CTTC...CTGT...AGC	Negative strand: CTGT at 4507, GCT at 4471, CTGT at 4468, ACAG at 4370, CTGT at 4355 AGC at 4289, GCT at 4241 Positive strand: CTTC at 4528, AGC at 4520, ACAG at 4517, AGC at 4489, AGC at 4480, AGC at 4411, GCT at 4402, CTGT at 4399, CTGT at 4369, ACAG at 4356, AGC at 4345, AGC at 4321, AGC at 4296, GCT at 4291, GCT at 4274, GCT at 4262, AGC at 4261, GCT at 4255, AGC at 4229	-	Negative strand: CTGT at 4392, GCT at 4390, GCT at 4372, AGC at 4352, GCT at 4321, GCT at 4312 Positive strand: AGC at 4374, ACAG at 4366, GCT at 4356, CTGT at 4332	-	Negative strand: CTTC at 4241, GCT at 4175, ACAG at 4069, CTTC at 4061, AGC at 4052 Positive strand: CTTC at 4263, CTGT at 4252, CTTC at 4248, CTTC at 4197	Negative strand: many Positive strand: many	Negative strand: 275 between 4027 and 3 Positive strand: 116 between 3985 and 48
Downstream promoter elements (DPEs)	(A/G)G(A/T)(C/T)(A/C/G)T	Negative strand: AGGACC at 4546, AGTCCT at 4437, AGATGT at 4213 Positive strand: AGACAT at 4508, AGATCC at 4476, AGAACC at 4451, AGTTCT at 4418, AGACGT at 4236	-	Negative strand: ATGTCC at 4367 Positive strand: AGGACC at 4409, ACGTCT at 4317	-	Negative strand: GGTTCT at 4074 Positive strand: AGGACT at 4186, ACGACC at 4177, ATAACT at 4161, AGAACT at 4131, AGATCC at 4077, AGATCT at 4065	Negative strand: many Positive strand: many	Negative strand: 32 between at 38 and 4048 Positive strand: 61 between 8 and 4032
E2 boxes	(G/A)CAG(A/C/G/T)TG(A/C/G/T)	Negative strand: ACAGATGT at 4213, ACAGATGT at 2989 Positive strand: ACACCTGT at 3970, ACAGATGA at 3920, GCAACTGC at 3851	-	-	-	-	Negative strand: CCACCTGT at 2117, GCAGTTGG at 1514, ACAGATGT at 1225, ACAGATGT at 482 Positive strand: GCAGGTGG at 2571, ACACCTGT at 1131, CCACCTGT at 394	Negative strand: GCAGATGA at 3476, GCAGGTGC at 3150, GCAGCTGG at 2405, TCACCTGT at 2250, ACAGGTGA at 2128, CCAGCTGC at 2055, ACAGGTGT at 1969, GCAGGTGG at 197
EIN3 binding sites	A(C/T)G(A/T)A(C/T)CT	-	-	-	-	-	Negative strand: ATGAACCT at 329 Positive strand: ATGAACCT at 1957	Negative strand: AGGTTCGT at 1928 Positive strand: AGGTACGT at 1935
Endoplasmic reticulum stress response elements	CCAAT-N9-CCACG, CCACG	Negative strand: CCACG at 3954, CCACG at 3880, CCACG at 3196 Positive strand: CGTGG at 3047	-	Negative strand: CGTGG at 4377 Positive strand: CGTGG at 4343	Negative strand: CGTGG at 2761	Positive strand: CGTGG at 4238	Negative strand: CCACG at 2333, CCACG at 2195, CCACG at 2080, CGTGG at 1339, CCACG at 1254, CCACG at 378 Positive strand: CGTGG at 1897, CGTGG at 1244, CGTGG at 741	Negative strand,: CGTGG at 3813, CCACG at 3604, CCACG at 968, CCACG at 868, CCACG at 775, CCACG at 298, CCACG at 241 Positive strand: CGTGG at 3885, CCACG at 3882, CGTGG at 3601, CGTGG at 3322, CCACG at 3150, CGTGG at 3044, CCACG at 2799, CGTGG at 2566, CCACG at 2333, CCACG at 2088, CCACG at 1762, CGTGG at 1628, CGTGG at 1460, CGTGG at 1360, CGTGG at 1208, CGTGG at 1124, CGTGG at 1040, CGTGG at 956, CGTGG at 856, CGTGG at 788, CCACG at 782, CGTGG at 772, CGTGG at 620, CCACG at 487
Endosperm expressions	TGTGTCA	Negative strand: 5'-TGTGTCA-3' at 4198	-	-	-	-	-	Positive strand: 5'-TGTGTCA-3' at 3413, 5'-TGACACA-3' at 2076
Enhancer boxes	CA(A/C/G/T)(A/C/G/T)TG	Negative strand: CAGATG at 4212, CATTTG at 3482, CAGATG at 2988 Positive strand: CACTTG at 4011, CACCTG at 3969, CAGGTG at 3953, CAGATG at 3919, CAACTG at 3850, CAGATG at 3627, CAGATG at 3620, CACTTG at 3241, CACTTG at 3102, CACTTG at 2920	-	-	CACATG at 2667	Positive strand: CAAGTG at 4202	Negative strand: 7 between 2116 and 324 Positive strand: 20 between 2579 and 41	Negative strand: 26 between 2579 and 41 Positive strand: 10 between 186 and 3936
Ethylene responsive elements	ATTTCAAA	-	-	-	-	-	Positive strand: ATTTCAAA at 1383	Negative strand: ATTTCAAA at 2648
Forkhead boxes	(A/G)(C/T)AAA(C/T)A	Negative strand: GTAAATA at 4536, TATTTAT at 4074, TATTTGG at 3364, TATTTGT at 3337, TGTTTAT at 3333, TATTTGA at 3016, TATTTGT at 2876	-	-	-	Negative strand: ACAAACA at 4256	Negative strand: TGTTTGT at 2512, TGTTTGT at 2487, TGTTTGG at 1588, TGTTTGT at 1391 Positive strand: GCAAACA at 2483, GCAAACA at 1539	Negative strand: TGTTTGC at 3340, TGTTTAT at 2346 Positive strand: TATTTAC at 3429
GAAC elements	GAACT	Negative strand: GAACT at 4294, AGTTC at 4178, AGTTC at 4027, GAACT at 4012, AGTTC at 3844, GAACT at 3571, GAACT at 3401, GAACT at 3242, GAACT at 3103 Positive strand: AGTTC at 4417, AGTTC at 4175, AGTTC at 4024, GAACT at 3460	-	-	Negative strand: GAACT at 2714	Negative strand: AGTTC at 4200 Positive strand: GAACT at 4131	Negative strand: GAACT at 2580, GAACT at 2379, GAACT at 2127, GAACT at 1300, GAACT at 1009, GAACT at 843 Positive strand: GAACT at 1685, AGTTC at 1177, AGTTC at 719, AGTTC at 253	Negative strand: GAACT at 4048, AGTTC at 2954, AGTTC at 1987, GAACT at 1951 Positive strand: GAACT at 4016, AGTTC at 2615, AGTTC at 2508
Gibberellic acid responsive elements (GAREs)	TAACAAA	-	-	-	-	-	Negative strand: TTTGTTA at 230	-
GARE-like 1	TAACA(A/G)A	-	-	-	-	-	Negative strand: TTTGTTA at 230 Positive strand: TAACAGA at 13	-
GATA boxes	GATA	Negative strand: TATC at 4078, TATC at 4046, GATA at 3526, TATC at 3446, TATC at 3421, GATA at 2996, GATA at 2975, TATC at 2902, GATA at 2898 Positive strand: GATA at 3655, GATA at 3544, GATA at 3535, GATA at 3465, GATA at 3360, GATA at 2981	-	-	-	Negative strand: TATC at 4123	Negative strand: TATC at 2498, TATC at 1709, TATC at 1703, GATA at 1525, TATC at 468, TATC at 354, TATC at 250, GATA at 234, GATA at 210, TATC at 99 Positive strand: GATA at 2177, TATC at 1730, GATA at 1702, GATA at 1665, GATA at 1595, TATC at 1528, GATA at 353, GATA at 108, GATA at 98, GATA at 74, GATA at 57	Negative strand: TATC at 3383, GATA at 2737, GATA at 2659, GATA at 1837 Positive strand: TATC at 3700, GATA at 3698, GATA at 3258, TATC at 2626, TATC at 2549, GATA at 2157, GATA at 1975, TATC at 1838
GC boxes (Briggs)	(G/T)(G/A)GGCG(G/T)(G/A)(G/A)(C/T)	Negative strand: ACTCCGCCCA at 3092 Positive strand: TGGGCGTGGT at 3048	-	-	-	-	Positive strand: TGGGCGTGGT at 1898, GCTCCGCCTC at 1505	Negative strand: TGGGCGGGAC at 409 Positive strand: GCCACGCCCC at 491
GC boxes SP1 (Ye) (Zhang) core	GGGCGG	Negative strand: CCGCCC at 4000, CCGCCC at 3091	-	Negative strand: GGGCGG at 4439, GGGCGG at 4429, CCGCCC at 4292 Positive strand: CCGCCC at 4440, CCGCCC at 4430	Positive strand: GGGCGG at 2724, GGGCGG at 1809	Positive strand: GGGCGG at 4238	Negative strand: CCGCCC at 1251 Positive strand: GGGCGG at 1809	Negative strand: GGGCGG at 1901, GGGCGG at 1793, GGGCGG at 406, GGGCGG at 353 Positive strand: CCGCCC at 2486, CCGCCC at 1026, CCGCCC at 407
GCC boxes	GCCGCC	-	-	-	Negative strand: GCCGCC at 2727	-	Positive strand: GGCGGCT at 1753	Negative strand: GCCGCC at 1757, GCCGCC at 904 Positive strand: CCGCCG at 1902, CCGCCG at 1794, GCCGCC at 356, CCGCCG at 354
General control nonderepressible 4 protein binding site (GCRE)	TGA(C/G/T)T(A/C/G)(A/T)	Negative strand: ACACTCA at 4094, TGAGTCT at 3644, TGACTAT at 3544 Positive strand: AGACTCA at 4055, TGAGTAT at 3829, AGAATCA at 3237	-	Negative strand: ACACTCA at 4336 Positive strand: TGAGTGA at 4338	Positive strand: TGACTCT at 2788	Negative strand: TGATTAT at 4165, TGATTAT at 4158, TTAATCA at 4147	Negative strand: ATACTCA at 276 Positive strand: AGACTCA at 1404, AGAATCA at 293, TGAGTCT at 278, AGAATCA at 198	Negative strand: TGAGTGA at 3712, TGAGTGT at 3592, TGATTGT at 2678, AGAGTCA at 2613, TCAGTCA at 2100 Positive strand: TTACTCA at 3447, AGACTCA at 3008, AGACTCA at 2952, TGACTAA at 2676
Gibberellin responsive elements	AAACAGA	Positive strand: AAACAGA at 4518, AAACAGA at 2878	-	-	-	-	Positive strand: AAACAGA at 168	Negative strand: AAACAGA at 3179, AAACAGA at 2652, TCTGTTT at 2262
Γ-interferon activated sequences (GAS), see STAT5	TTNCNNNAA	Negative strand: TTTCTGTAA at 4509, TTTAAGCAA at 3503, TTTCCAAAA at 3349 Positive strand: TTCCCTGAA at 3782, TTAAGGAAA at 2957, TTGGGGAAA at 2926, TTTCATCAA at 2889	-	-	-	Negative strand: TTCCGGGAA at 4247 Positive strand: TTGTAGTAA at 4118	Negative strand: TTGAGGTAA at 1378, TTTCGTAAA at 189, TTTTCGTAA at 188, TTAAAGAAA at 25 Positive strand: TTCGGGAAA at 2458, TTGCTTGAA at 2380, TTGCCTGAA at 1624, TTTCAAAAA at 1385, TTACTTGAA at 1301, TTGCTTGAA at 1010	Negative strand: TTGCAGGAA at 2747 Positive strand:TTTCCGAAA at 1095, TTCCATGAA at 128
G-protein-coupled receptors (GCR1s), CT boxes	CTTCC	Negative strand: CTTCC at 3611 Positive strand: GGAAG at 3909, CTTCC at 3777, GGAAG at 3610	-	-	Positive strand: GGAAG at 2730	Negative strand: GGAAG at 4263, GGAAG at 4248, CTTCC at 4242 Positive strand: CTTCC at 4249, GGAAG at 4241, GGAAG at 4061	Negative strand: CTTCC at 2558, CTTCC at 1656, CTTCC at 1556, GGAAG at 619 Positive strand: GGAAG at 2557, GGAAG at 331, GGAAG at 241, GGAAG at 81	Negative strand: GGAAG at 3871, GGAAG at 3762, GGAAG at 3667, GGAAG at 2784, GGAAG at 2748, GGAAG at 1594, CTTCC at 1433, CTTCC at 1333, CTTCC at 1070, CTTCC at 734, CTTCC at 677, GGAAG at 209 Positive strand: CTTCC at 3852, GGAAG at 3312, GGAAG at 2582, GGAAG at 1516, GGAAG at 1432, GGAAG at 1405, GGAAG at 1332, GGAAG at 1305, GGAAG at 1264, GGAAG at 1153, GGAAG at 1069, GGAAG at 1012, GGAAG at 928, GGAAG at 828, GGAAG at 760, GGAAG at 733, GGAAG at 676, GGAAG at 592, GGAAG at 456, CTTCC at 210
Glucocorticoid response elements	AGAACA	Negative strand: TGTTCT at 3759, TGTTCT at 3635, TGTTCT at 3340, TGTTCT at 3307 Positive strand: AGAACA at 3668	-	-	-	Negative strand: AGAACA at 4068	Negative strand: AGAACA at 281 Positive strand: AGAACA at 287, TGTTCT at 45	Negative strand: AGAACA at 3094, TGTTCT at 108
GT boxes (Sato)	GGGG(T/A)GGGG	-	-	-	-	-	-	Negative strand: GGGGAGGGG at 2291
Hac1 KAR2	CAGCGTG	-	-	-	-	-	Positive strand: CAGCGTG at 740	Negative strand: CACGCTG at 778
H box (Mitchell)	ANANNA	Negative strand: AAATAA at 4537, AGAGAA at 4527, TTGTCT at 4518, TTCTGT at 4507, TGCTCT at 4473, TCCTGT at 4468, ACACGA at 4402, TCTTTT at 4395, TTCTTT at 4394, TTTTCT at 4392, TCTTTT at 4390, TTCTTT at 4389, TTTTCT at 4387, TTTTTT at 4385, TCTTTT at 4383, TTCTTT at 4382, TTTTCT at 4380, TTTTTT at 4378, TATTAT at 4223, TTTTAT at 4220, TTTTTT at 4218, TGTTTT at 4216, TCCTGT at 3756, TCCTGT at 3389 Positive strand: ACACGA at 4471, TCCTCT at 4428, TGCTCT at 4404, AGAAAA at 4395, AAAGAA at 4393, AAAAGA at 4392, AGAAAA at 4390, AAAGAA at 4388, AAAAGA at 4387, AAAAAA at 4385, AGAAAA at 4383, AAAGAA at 4381, AAAAGA at 4380, AAAAAA at 4378, ATAATA at 4223, AAATAA at 4221, AAAATA at 4220, AAAAAA at 4218, ACAAAA at 4216, TCCTCT at 3790, AGAGGA at 3675, AGAGGA at 3638, AGAGGA at 3387	-	Negative strand: TGCTGT at 4392, TTCTCT at 4386, TGGTCT at 4380, TCATGT at 4365 Positive strand: AGAGAA at 4387	Positive strand: ACAGGA at 2690	Negative strand: ACATGA at 4154, TAGTTT at 4139, TGATTT at 4134, TTTTAT at 4122, TCATTT at 4119, ACATCA at 4116, TGGTTT at 4108, AAATGA at 4094, AGAACA at 4068 Positive strand: AGAGAA at 4387, TCCTGT at 4252, ATATTA at 4168, TAATAT at 4166, TAGTAT at 4149, AAATAA at 4142, AAATCA at 4137, AAAATA at 4122, TCTTGT at 4068, AGAGGA at 4059	Negative strand: TCCTCT at 2370, TCCTCT at 1944, TCCTCT at 1826, TCCTCT at 1291, TCCTCT at 1000, TCCTCT at 834, TCCTCT at 581 Positive strand: TCCTGT at 1911 *	Negative strand: TCCTGT at 3622, ACAGGA at 3572, TCCTCT at 3304, TCCTCT at 2981, AGAGGA at 2793, AGAGGA at 471, TCCTCT at 221, AGAGGA at 207, TCCTGT-3' at 144 Positive strand: TCCTCT at 3650, AGAGGA at 3302, TCCTGT-3' at 3131, TCCTGT at 2460, AGAGGA at 2081, TCCTCT at 710, AGAGGA at 142, TCCTCT at 46 *
H box (Rozhdestvensky)	ACACCA	Negative strand: ACACCA at 3811, TGGTGT at 3764, ACACCA at 3187	-	-	Negative strand: ACACCA at 2659	-	Negative strand: ACACCA at 788 Positive strand: ACACCA at 2419, TGGTGT at 1477, ACACCA at 883, TGGTGT at 793, TGGTGT at 608	Negative strand: TGGTGT at 3969, TGGTGT at 3950, ACACCA at 3825, TGGTGT at 2813, ACACCA at 2603, TGGTGT at 105 Positive strand: ACACCA at 3967, TGGTGT at 3859, ACACCA at 3643, TGGTGT at 2634, TGGTGT at 2600, TGGTGT at 2123
H boxes (Lindsay)	CCTACC	Negative strand: GGTAGG at 4456	-	-	-	-	Negative strand: GGTAGG at 1838 Positive strand: GGTAGG at 119	Negative strand: GGTAGG at 3753, CCTACC' at 1196 Positive strand: GGTAGG at 3629, GGTAGG at 3108, CCTACC at 1879
Heat shock elements (HSEs) (Eastmond)	nGAAn-(5-bp)-nGAAnnTTCn	-	-	-	-	-	Negative strand: GGAATTCACATGAACCTTCA at 332	-
Heat shock elements (HSEs) (Eastmond)	nGA(A/G)n-(5-bp)-nGAAnnTTCn (GAP)	-	-	-	-	-	Negative strand: GGAATTCACATGAACCTTCA at 332	-
Heat shock elements (HSEs) (Eastmond)	nGAAn-(5-bp)-nGA(A/G)nnTTCn (GAP)	-	-	-	-	-	Negative strand: GGAATTCACATGAACCTTCA at 332	-
Heat shock elements (HSEs) (Eastmond)	nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn	-	Postive strand: AGAAGAAAAAAGAAAAGAGAAGAAA at 2831	-	-	-	-	-
Hex sequences	TGACGTGGC	-	-	Positive strand: TGACGTGGC at 4344	-	-	-	-
High Mobility Group boxes (HMG boxes)	(A/T)(A/T)CAAAG	Positive strand: ATCAAAG at 2891	-	-	-	-	Negative strand: CTTTGTT at 1585, CTTTGTT at 229	-
HNF6s	(A/G/T)(A/T)(A/G)T(C/T)(A/C/G)AT(A/C/G/T)(A/G/T)	Positive strand: TTATTAATTC at 4542, TTATTAATCG at 4229, TAGTTGATAA at 3527 Positive strand: TCATCAACTA at 3525, AAATTGATAA at 3361	-	-	-	Negative strand: TTATTGATTA at 4164, TTATTAATCA at 4147 Positive strand: ATATTAACAA at 4172	Negative strand: GTGTTAATAA at 1725, TAATGAACTT at 1301, ACATGGACAT at 802	Negative strand: ATGTCCATGG at 3581 Positive strand: CCATTGACTC at 3736, GAGTCCATTG at 3732
Homeoboxes	CAAG	Negative strand: CTTG at 4450, CAAG at 4417, CAAG at 4175, CAAG at 4024, CTTG at 3783, CTTG at 3723, CTTG at 3667, CTTG at 3459, CTTG at 3244 Positive strand: CTTG at 4293, CTTG at 4267 CAAG at 4200, CTTG at 4187, CAAG at 4183, CAAG at 4178, CAAG at 4073, CAAG at 4027, CAAG at 4019, CTTG at 4011, CAAG at 3844, CTTG at 3792, CAAG at 3758, CAAG at 3634, CTTG at 3570, CTTG at 3400, CAAG at 3373, CAAG at 3339, CAAG at 3306, CAAG at 3273, CTTG at 3241, CAAG at 3140, CTTG at 3102, CAAG at 2963, CTTG at 2920	-	Negative strand: CTTG at 4388, CTTG at 4299 Positive strand: CTTG at 4443	Negative strand: CTTG at 2716 Positive strand: CTTG at 2713	Negative strand: CTTG at 4130 Positive strand: CTTG at 4067	Negative strand: CTTG at 2381, CTTG at 1955, CTTG at 1684, CTTG at 1551, CTTG at 1302, CAAG at 1177, CTTG at 1011, CTTG at 845, CAAG at 719, CAAG at 344, CTTG at 286, CAAG at 253, CAAG at 44 Positive strand: CTTG at 2579, CTTG at 2378, CAAG at 2244, CTTG at 2126, CAAG at 2022, CTTG at 1972, CTTG at 1926, CAAG at 1817, CTTG at 1648, CTTG at 1618, CTTG at 1606, CAAG at 1496, CTTG at 1299, CTTG at 1008, CAAG at 874, CTTG at 842, CAAG at 692, CAAG at 556, CAAG at 454, CAAG at 419, CTTG at 327, CTTG at 280, CAAG at 114, CAAG at 70	Negative strand: CTTG at 4015, CTTG at 3373, CTTG at 3001, CTTG at 2741, CAAG at 2692, CAAG at 2615, CAAG at 2593, CAAG at 2508, CTTG at 2418, CAAG at 2398, CAAG at 2189, CAAG at 1947, CTTG at 1798, CTTG at 1578, CAAG at 1525, CAAG at 1510, CAAG at 1426, CAAG at 1326, CAAG at 1258, CAAG at 1006, CAAG at 922, CAAG at 822, CAAG at 754, CAAG at 670, CAAG at 586, CTTG at 654, CTTG at 526, CAAG at 502, CAAG at 338, CAAG at 177, CTTG at 129 Positive strand: CTTG at 4047, CTTG at 3936, CTTG at 3855, CTTG at 3837, CAAG at 3624, CAAG at 3351, CTTG at 3093, CAAG at 2954, CAAG at 2933, CAAG at 2922, CTTG at 2775, CTTG at 2578, CTTG at 2224, CAAG at 1987, CTTG at 1950, CAAG at 1926, CTTG at 1810, CAAG at 1489, CAAG at 1389, CAAG at 508, CTTG at 362, CAAG at 305, CAAG at 107
HY boxes	TG(A/T)GGG	Negative strand: CCCTCA at 4498, CCCTCA at 3889, CCCACA at 3184 Positive strand: TGAGGG at 4558, TGTGGG at 3712, TGAGGG at 3652	-	Negative strand: TGTGGG at 4395	Negative strand: CCCTCA at 2702 Positive strand: TGAGGG at 2699	-	Negative strand: TGTGGG at 749 Positive strand: TGAGGG at 88	Negative strand: TGAGGG at 3879, CCCTCA at 3503, TGAGGG at 3479, CCCTCA at 3207, CCCTCA at 3185, CCCACA at 1803, CCCTCA at 1783, CCCTCA at 662, CCCTCA at 494, TGAGGG at 258, CCCTCA at 88, between 258 and 3879 Positive strand: TGTGGG at 3533, TGTGGG at 2965
Hypoxia response elements	ACGTG	Negative strand: ACGTG at 4339, CACGT at 3429, ACGTG at 3288, CACGT at 2863 Positive strand: ACGTG at 4237	-	Positive strand: ACGTG at 4342	Negative strand: ACGTG at 2760	-	Negative strand: ACGTG at 2425, CACGT at 2081, ACGTG at 1999, ACGTG at 1718, CACGT at 1535, CACGT at 1470, ACGTG at 1346, ACGTG at 1338 Positive strand: CACGT at 1772, CACGT at 531, CACGT at 342	Negative strand: CACGT at 3254, ACGTG at 570, CACGT at 569 Positive strand: CACGT at 3960, ACGTG at 3884, CACGT at 3883, CACGT at 3464, ACGTG at 3342, ACGTG at 3321, ACGTG at 2961, CACGT at 2960, CACGT at 2800, CACGT at 2681, CACGT at 2334, CACGT at 2326, CACGT at 2063, ACGTG at 1821, CACGT at 1786, ACGTG at 1471, ACGTG at 1371, ACGTG at 1219, CACGT at 1218, CACGT at 783, ACGTG at 547, CACGT at 546
Initiator elements (Inrs)	YYANWYY	Negative strand: 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: 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	-	Negative strand: GGAACAA at 4445, GGAGTGA at 4350, CTGCACC at 4343 Positive strand: CCAGACC at 4416, CCACTCC at 4401, AGAACGA at 4390, GGTACGA at 4372, AGTACAG at 4366, GGAGTAA at 4309	-	Negative strand: GATTTAG at 4136, GAAATGA at 4094, AGAACAG at 4069 Positive strand: GGACTGG at 4216, GAAACGG at 4210, AAATCAA at 4138, GAACTAA at 4133, AAAATAG at 4123	Negative strand: 114 between 4202 and 71, 30 between 4118 and 213 Positive strand: 33 between 3967 and 20, 96 between 4177 and 17	Negative strand: 40 between 3824 and 115, 55 between 4040 and 53 Positive strand: 70 between 3971 and 40, 66 between 4018 and 10
Initiator elements (Inrs)	BBCABW	Negative strand: TCTGGG at 4366, GTCACA at 4359, CCCACT at 4353, TGTGAC at 4336, GTCACT at 4319, TCCAGT at 4307, TCTGCA at 4236 Positive strand: 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	-	Negative strand: TCTGGG at 4417, TGTGGG at 4395, AGTGAG at 4351, ACTGCA at 4341, CTCACT at 4338, CCCAGA at 4330, TGCAGA at 4317, CTCATT at 4309, AGTGCC at 4274, GTCAGT at 4271 Positive strand: CCCAGA at 4414, CCCACT at 4399, CTCACT at 4350, AGTGAC at 4339, TGTGAG at 4335, AGTGGG at 4326, TCTGCG at 4320, TCCAGT at 4269	-	Negative strand: CTCAGA at 4195, AATGAG at 4095, ACTGAA at 4090 Positive strand: TGTGCC at 4259, ACTGGG at 4217, AGTGGG at 4204, AGTGAG at 4127, AGTGAC at 4088, CGCAGA at 4056	Negative strand: 40 between 4200 and 179, 43 between 4205 and 16 Positive strand: 50 between 3965 and 39, 48 between 4201 and 18	Negative strand, positive direction: 81 between 4013 and 15, 87 between 4041 and 54 Positive strand, positive direction: 35 between 3964 and 153, 38 between 4019 and 236
Initiator-like elements	TTCTCT	Negative strand: AGAGAA at 4527, TTCTCT at 3380	-	Negative strand: TTCTCT at 4386 Positive strand: AGAGAA at 4387, AGAGAA at 3406	Negative strand: TTCTCT at 2826, TTCTCT at 2809 Positive strand: AGAGAA at 2827	-	Positive strand: AGAGAA at 2810, TTCTCT at 622	Negative strand: TTCTCT at 1990, TTCTCT at 139, TTCTCT at 119 Positive strand: AGAGAA at 3056
Inositol/choline-responsive elements (ICREs) (Schwank)	TYTTCACATGY contains the core sequence CANNTG	-	-	-	-	-	Positive strand: ACATTTGAAGA at 368	Negative strand: GCACCTGAAGA at 962, GCACCTGAAGA at 862
Inositol/choline-responsive elements (ICRE) (Case, Lopes)	CATGTGAAAT includes the canonical basic helix-loop-helix (bHLH) binding site CANNTG (Lopes et al. 1991)	-	-	-	Positive strand: AGCTGAAAT at 2747	-	-	-
Interferon regulatory factor (IFF3)	GCTTTCC	-	-	-	-	-	Positive strand: GGAAAGC at 1678	Negative strand: GCTTTCC at 1097
Jasmonic acid-responsive elements (JAREs)	TGACG	Negative strand: TGACG at 4337, TGACG at 4329, CGTCA at 4317, TGACG at 4314, TGACG at 3851, CGTCA at 3600, CGTCA at 3478	-	Positive strand: TGACG at 4340	Negative strand: TGACG at 2758, CGTCA at 2737	-	Negative strand: TGACG at 2423, CGTCA at 2402, CGTCA at 2083, TGACG at 1997, CGTCA at 1976, TGACG at 1493, CGTCA at 1472, CGTCA at 1323, CGTCA at 1032 Positive strand: CGTCA at 1511, TGACG at 309	Negative strand: CGTCA at 2423, TGACG at 1834, CGTCA at 1184. Positive strand: CGTCA at 3962, CGTCA at 3461, TGACG at 3319, CGTCA at 3281, CGTCA at 3232, TGACG at 2822, CGTCA at 2328, TGACG at 2203, CGTCA at 2065, TGACG at 2042, TGACG at 1504, TGACG at 1000, TGACG at 900, TGACG at 748, TGACG at 237
Krüppel-like factors	GGGNN(G/T)(G/T)(G/T)	Negative strand: GGGTCGGG at 4482, GGGTAGGT at 4457, GGGTCTTG at 4450, GGGTTGTG at 3981, GGGTATGG at 3858, CACTACCC at 3800, GGGACTTG at 3783, GGGTCGTG at 3733, ACCAACCC at 3607, CACCACCC at 3193, GGGTTGTT at 3139, GGGTCGTG at 3072, CCCGACCC at 3042 Positive strand: AACTGCCC at 3853, AACAGCCC at 3728, GGGCCTTG at 3570, GGGTGTGG at 3186, GGGCGTGG at 3047, GGGGCTGG at 3041	Positive strand: AACAACCC at 2845	Negative strand: GGGGCGGG at 4440, GGGAGGGG at 4435, GGGGCGGG at 4430, GGGTCTGG at 4416, CACCGCCC at 4292 Positive strand: CCAGACCC at 4417, GGGTCTGT at 4332	Positive strand: GGGAGTTG at 2704, AAACCCCC at 2624	Negative strand: CCCTGCCC at 4233 Positive strand: GGGACTGG at 4216, AACGACCC at 4178	Negative strand: GGGTTGTG at 2549, CACCACCC at 1904, GGGTCGTG at 1787, GGGCAGTT at 1512, CACCGCCC at 1251, GGGTCGTG at 1142, GGGTCGTG at 678, CCCGGCCC at 514, GGGTCGTG at 405, CAACTCCC at 88 Positive strand: GGGCGTGG at 1897, GGGCGTGG at 1244, GGGCCGGG at 514, GGGAAGTT at 83	Negative strand: GGGAGGGG at 3981, ACCTCCCC at 3555, GGGTGGGG at 3542, CCCGTCCC at 3204, GGGCAGGG at 2297, GGGAGGGG at 2291, GGGGAGGG at 2290, GGGACTTT at 2273, CACCCCCC at 2021, CCACCCCC at 2020, CCCACCCC at 2019, ACCCACCC at 2018, ACAGTCCC at 1827, GGGTGTGG at 1805, CCCTTCCC at 1071, GGGACTGT at 916, GGGACTGT at 816, GGGGAGTG at 495, GGGCGTTG at 448, GGGCTGGG at 418, GGGGCTGG at 417, GGGACGGG at 412, GGGCCTGG at 286, GGGCTGTG at 265, GGGGCTGT at 264, GGGCATTG at 23 Positive strand: GGGCCGTG at 4005, ACACTCCC at 3906, CACCACCC at 3817, GGGAGTGT at 3505, CACGTCCC at 3467, GGGAGTGT at 3209, GGGTCTTG at 3093, CACAACCC at 2817, AAACCCCC at 2286, AAAACCCC at 2285, AAAAACCC at 2284, ACAGACCC at 1865, CACGTCCC at 1789, CCACGCCC at 1765, AAAAGCCC at 1752, AACGCCCC at 1708, GGGACTGG at 1662, ACCGCCCC at 1027, CACCGCCC at 1026, AACGTCCC at 659, CACGCCCC at 491, CCACGCCC at 490, ACCCGCCC at 407, GGGTGGGT at 71
-35 sequence	TTGACA	Negative strand: TTGACA at 4399	-	-	-	-	Negative strand: TTGACA at 477	-
Met31ps	AAACTGTG	Positive strand: AAACTGTG at 4400	-	-	-	-	-	-
Metal responsive elements (MRE)	TGC(A/G)C(A/C/G/T)C	Positive strand: TGCACTC at 4341, TGCACTC at 3290, GTGTGCA at 2863	-	-	Positive strand: TGCACCC at 2762	-	Negative strand: GAGTGCA at 1772, GTGTGCA at 531 Positive strand: TGCACTC at 2427, TGCACTC at 2001, GAGTGCA at 1470, TGCACTC at 1348, TGCGCTC at 891	Negative strand: GGGTGCA at 3883, TGCACCC at 3323, TGCACAC at 2963, GGGTGCA at 2800, GAGTGCA at 2326, GAGTGCA at 1786, TGCGCCC at 1657, GTGCGCA at 1523, TGCGCCC at 1499, TGCACTC at 1473, TGCGCCC at 1399, TGCACTC at 1373, TGCGCCC at 1247, TGCACAC at 1221, GCGTGCA at 1218, GGGCGCA at 976, GGGCGCA at 876, GCGCGCA at 684, TGCACAC at 549, GCGTGCA at 546, TGCGCCC at 453 Positive strand: TGCGCCC at 972, TGCGCCC at 872
Middle sporulation element (MSE) (Branco)	ACACAAA	Negative strand: TTTGTGT at 3513	-	-	-	-	Negative strand: TTTGTGT at 1541	Positive strand: TTTGTGT at 2835
Midsporulation element (MSE) (Ozsarac)	C(A/G)CAAA(A/T)	Negative strand: TTTTGTG at 3512 Positive strand: CACAAAA at 3767	-	-	-	-	Positive strand: CGCAAAA at 164	-
Multicopy inhibitor of the GAL1 promoter (MIG1)	(C/G)(C/T)GGGG	Negative strand: GTGGGG at 4445, GTGGGG at 3058 Positive strand: CCCCAG at 4447, CTGGGG at 3037	-	Positive strand: CCCCGC at 4428, CCCCAG at 4413, CCCCAC at 4398, GTGGGG at 4327, CCCCGG at 4304, GTGGGG at 4285 Negative strand: CTGGGG at 4426, CTGGGG at 4411, GTGGGG at 4396, CCCCAG at 4329, CCCCAC at 4287	Negative strand: GTGGGG at 2763 Positive strand: CCCCAG at 2765	Positive strand: CTGGGG at 4218	Negative strand: GTGGGG at 750, CCCCAG at 205	Positive strand: GTGGGG at 3614, GTGGGG at 2019, CCCCAG at 1957, CCCCGC at 1792, CCCCAG at 1710, CCGGGG at 391, CCGGGG at 373, CCCCGG at 248, CCGGGG at 201 Negative strand: GTGGGG at 4042, CCCCGG at 4002, CCCCAC at 3941, CCCCGG at 3557, GTGGGG at 3542, GTGGGG at 3451, CCCCAG at 3015, CTGGGG at 1955, CCCCAG at 1892, CTGGGG at 1866, GCGGGG at 1708, GCGGGG at 1027, GCGGGG at 491, CCCCGC at 393, CCCCGG at 375, CTGGGG at 349, CTGGGG at 279, CCCCAG at 203, GTGGGG at 55
Myeloblastosis recognition element (MRE)	A(A/C)C(A/T)A(A/C)C	Negative strand: GGTAGGT at 4457, ACCAACC at 3946, ACCAACC at 3606, GGTTGTT at 3139	Positive strand: AACAACC at 2844	-	-	-	Negative strand: GTTTGTT at 2488, GTTTGTT at 2484, GTTTGTT at 1392 Positive strand: AACAAAC at 2511, AACAAAC at 2486, AACAAAC at 1587, AACAAAC at 1390	Positive strand: GGTAGGT at 3109 Negative strand: ACCAAAC at 3176
Myocyte enhancer factors (MEFs)	(C/T)TA(A/T)(A/T)(A/T)(A/T)TA(A/G)	Negative strand: TTATTATTAA at 4226	-	-	-	Positive strand: CTAATATTAA at 4169	Negative strand: CTATATATAA at 1601	Negative strand: CTAATTTTAA at 2443
Non-DiTyrosine 80 transcription factor DNA binding domain (Ndt80)	(A/G/T)NC(A/G)CAAA(A/T)	Negative strand: TTTTGTGTT at 3514 Positive strand: ACCACAAAA at 3767	-	-	-	-	-	-
Nuclear factor of activated T cells (NFATs)	GGAAAA	Negative strand: TTTTCC at 3441, TTTTCC at 3345 Positive strand: GGAAAA at 2968, GGAAAA at 2927	-	-	-	-	Negative strand: TTTTCC at 1107, TTTTCC at 105 Positive strand: GGAAAA at 2459	Negative strand: GGAAAA at 291 Positive strand: GGAAAA at 135
Nutrient-sensing response element 1	GTTTCATCA	-	-	-	-	-	-	Negative strand: ACTACTTTG at 2147
Oaf1 transcription factor	CGGN3TNAN9-12CCG	-	-	-	-	-	Negative strand: CGGTCATGAAACCCTCCGACTCCG at 2229	Positive strand: CGGACGTGAGACCGCTCTCCG at 1484, CGGACGTGAGACCGCTCTCCG at 1384
ORESARA1 (ORE1) (Matallana)	(A/C/G)(A/C)GT(A/G)N5,6(C/T)AC(A/G)	Negative strand: GCGTAGAAGACACA at 3558, AAGTAGTTTCTACG at 2895	-	-	-	-	Positive strand: ACATCCTCAAATGAA at 1581, CAGTGGATCACACG at 530, GCACATAATATGAG at 275	Negative strand: CCGTGGTGGGTCACA at 3822, GCACCGGCGCGTGCA at 1218, GCATCGGCGCGTGCA at 546 Positive strand: GCGTAGAGGGTACA at 3336
ORESARA1 (ORE1) (Olsen)	T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T)	Negative strand: TGACGTGAG at 4341, TAACGTGAG at 3290 Positive strand: ATCACGCCA at 3282	-	-	-	-	Negative strand: TGACGTGAG at 2427, TGACGTGAG at 2001, TAACGTGTT at 1720, CTCACGTCA at 1472, TAACGTGAG at 1348 Positive strand: CTCACGCCA at 2209, ATCACGCCA at 1993, CACACGTAA at 533	Positive strand: TACACGTCA at 3962, TTACGTAAG at 3073, CTTACGTAA at 3072, CTCACGTCA at 2328, TGACGTAAG at 2207, TGGCGTACG at 2154
p53 response elements	(A/G)(A/G)(A/G)C(A/T)(A/T)G(C/T)(C/T)(C/T)	Positive strand: AGACAAGCTT at 4186	-	-	-	-	Positive strand: AGACTTGCCT at 1621, AGGCAAGCCT at 457	-
P-box (Mena)	(A/T)AAAG	Negative strand: CTTTT at 4395, CTTTT at 4390, CTTTT at 4383, TAAAG at 3688, TAAAG at 2884 Positive strand: AAAAG at 4391, AAAAG at 4386, AAAAG at 4379, AAAAG at 3440, AAAAG at 3344, CTTTT at 3019, TAAAG at 2857	-	-	Positive strand: AAAAG at 2835, AAAAG at 2823, AAAAG at 2818, AAAAG at 2806, AAAAG at 2797	Positive strand: CTTTA at 4092	Negative strand: TAAAG at 1603, TAAAG at 1380, TAAAG at 22 Positive strand: AAAAG at 2477, AAAAG at 2471, TAAAG at 2174, AAAAG at 2052, CTTTA at 1734, AAAAG at 1627, TAAAG at 1548, CTTTT at 1419, AAAAG at 1399, AAAAG at 1106, AAAAG at 943, CTTTA at 348, AAAAG at 223, AAAAG at 184, AAAAG at 104, CTTTA at 48, AAAAG at 54, CTTTT at 26	Negative strand: AAAAG at 2708, CTTTA at 2586, CTTTT at 2279, CTTTT at 2274, AAAAG at 2004, CTTTT at 1747, CTTTT at 135, and complements Positive strand: CTTTT at 3927, CTTTA at 3795, CTTTA at 3166, TAAAG at 2645, CTTTA at 2624, AAAAG at 2275, TAAAG at 1978, AAAAG at 1749, CTTTT at 291, AAAAG at 136
P-box (Motojima)	TGAGTTCA	-	-	-	-	-	Positive strand: TGAGTTCA at 1178	-
P-box (Yu)	GTAA(T/C)	Negative strand: ATTAC at 3658, GTAAT at 3436, GTAAC at 3285, GTAAT at 2951 Positive strand: GTAAT at 3973, ATTAC at 3469, GTAAT at 3064	-	Positive strand: GTAAC at 4310	Positive strand: GTAAT at 2675	-	Negative strand: GTAAC at 1343, GTAAC at 886, GTAAT at 173, GTAAT at 153 Positive strand: GTAAT at 2088, GTAAT at 1914, GTAAT at 1779, GTAAT at 1707, ATTAC at 1296, GTAAT at 1261, GTAAT at 1134, GTAAT at 804, GTAAT at 670, GTAAC at 613, GTAAT at 534, GTAAT at 397, GTAAT at 248	Negative strand, positive direction: GTAAC at 3732 Positive strand, positive direction: GTTAC at 2909, GTAAC at 2903, GTAAC at 1703, GTTAC at 227, GTAAC at 23
Peroxisome proliferator-activated receptor alpha	CGACCCC	Negative strand: CGACCCC at 3037	-	-	Positive strand: CCCCAGC at 2766	-	-	Positive strand: CGACCCC at 279
Pho4ps	CAC(A/G)T(T/G)	Negative strand: TTACAC at 4091, AACGTG at 3288, CACGTT at 2864 Positive strand: CACATT at 4533	-	-	Positive strand: CACATG at 2667	-	Negative strand: CACATT at 2087, TTACAC at 2064, AACGTG at 1718, CACGTT at 1536, AACGTG at 1346, AACGTG at 1338, CACATG at 797, CACATT at 612, and CACATG at 324 Positive strand: CACGTT at 343	Negative strand: CATGTG at 3958, CACATG at 3956, CATGTG at 3902, CACATG at 3742, CACATG at 3707, CACATG at 2031, CACGTG at 570, AATGTG at 229 Positive strand: CACGTG at 3884, CACGTG at 2961, CACGTT at 2801, CACGTT at 2335, CACGTG at 1219, CACGTG at 547
Pollen1 elements	AGAAA	Negative strand: 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: AGAAA at 4394, AGAAA at 4389, AGAAA at 4382, AGAAA at 4085, AGAAA at 4081, AGAAA at 3591, AGAAA at 3376, AGAAA at 3342	Negative strand: TTTCT at 2836, TTTCT at 2824, TTTCT at 2819 Positive strand: AGAAA at 2838, AGAAA at 2831, AGAAA at 2821, AGAAA at 2814	Negative strand: TTTCT at 4384 Positive strand: AGAAA at 4382	Negative strand: TTTCT at 2807, TTTCT at 2802, TTTCT at 2798 Positive strand: AGAAA at 2804, AGAAA at 2800	-	Negative strand: TTTCT at 2175, TTTCT at 2053, AGAAA at 1733, TTTCT at 1628, TTTCT at 1549, AGAAA at 1418, TTTCT at 1400, AGAAA at 347, TTTCT at 224, TTTCT at 55, AGAAA at 47, AGAAA at 25 Positive strand: AGAAA at 2505, AGAAA at 2055, AGAAA at 1630, TTTCT at 1604, AGAAA at 357, AGAAA at 303, AGAAA at 226, AGAAA at 135, AGAAA at 102, AGAAA at 52, TTTCT at 23	Negative strand: AGAAA at 3918, AGAAA at 2629, TTTCT at 2276, TTTCT at 2165, TTTCT at 1979, TTTCT at 137 Positive strand: TTTCT at 3929, AGAAA at 3397, TTTCT at 3065, AGAAA at 2585, AGAAA at 2278, AGAAA at 1981, AGAAA at 110
Polycomb response elements (PRE)	GCCAT	Positive strand: GCCAT at 3685, ATGGC at 3629, GCCAT at 3283, ATGGC at 3005, ATGGC at 2907	-	-	-	-	Positive strand: ATGGC at 2153, ATGGC at 1949, ATGGC at 1743, ATGGC at 954, GCCAT at 38	Positive strand: TACCG at 2160
Pribnow boxes	TATAAT	Negative strand: TATAAT at 3468, TATAAT at 3454	-	-	-	-	Negative strand: ATTATA at 603, ATTATA at 272	Negative strand: TATAAT at 729, ATTATA at 727
Prolamin boxes	TG(A/T)AAAG	Negative strand: TGTAAAG at 2884	-	-	-	-	Positive strand: TGAAAAG at 1627	Negative strand: TGAAAAG at 3928 Positive strand: TGAAAAG at 2275
Pyrimidine boxes	CCTTTT	Negative strand: CCTTTT at 2968, CCTTTT at 2927 Positive strand: AAAAGG at 3441, AAAAGG at 3345	-	-	-	-	Negative strand: CCTTTT at 2459 Positive strand: AAAAGG at 1107, AAAAGG at 105	Negative strand: CCTTTT at 135 Positive strand: CCTTTT at 291
Q elements See Retinoic acid response element	AGGTCA	Positive strand: AGGTCA at 4307	-	Negative strand: AGGTCA at 4269	-	-	Negative strand: AGGTCA at 1532, AGGTCA at 1352 Positive strand: AGGTCA at 2585, AGGTCA at 2248, AGGTCA at 712, AGGTCA at 576, AGGTCA at 568, AGGTCA at 439	Negative strand: TGACCT at 4019, TGACCT at 3785, AGGTCA at 2220, AGGTCA at 153
Quinone reductase response element (QRDRE) (Yao)	TCCCCT of TCCCCTTGCGTG	-	-	-	-	-	-	Negative strand: TCCCCT at 1073 Positive strand: TCCCCT at 3665, TCCCCT at 2657, TCCCCT at 321
Rap1 reduced consensus	(A/G)(A/C)ACCC(A/G)N(A/G)C(A/C)(C/T)(A/C)	-	-	-	-	-	-	Positive strand: GAACCCACACCTC at 1807
Reb1 bound and exact occurrences	TTACCC(G/T)	Negative strand: TTACCCT at 3661	-	-	-	-	-	Positive strand: TTACCCT at 3170, TTACCCG at 2912
Retinoic acid response element	AG(A/G)TCA	Negative strand: TGATCT at 3463	-	-	-	-	Positive strand: AGATCA at 2414, AGATCA at 1988, TGATCT at 1482, AGATCA at 878, AGATCA at 590	Positive strand: AGATCA at 2168
Glucose transporter gene repressor (Rgt1)	CGG(A/G)(A/T)N(A/T)(A/T)	Negative strand: ATTTTCCG at 3442	-	-	Positive strand: CGGAAGTT at 2732	-	Negative strand: TTTTCCG at 1108, AACTCCCG at 89 Positive strand: CGGGAAAA at 2459	Negative strand: ATGAGGGC at 3480, TTATAGGC at 2551 Positive strand: CGGGTCAA at 3380
classic RORE motif (RORE)	A(A/T)NTAGGTCA	-	-	-	-	-	Negative strand: ATATAGGTCA at 1532	-
variant RORE motif	C(T/A)(G/A)GGNCA	Negative strand: CTGGGACA at 4369, CTGGGACA at 4208	-	-	-	-	Positive strand: CAAGGTCA at 2248, CAAGGGCA at 1821	Negative strand: CTGGGACA at 3530, TGCCCCAG at 3015, TGGCCCAG at 1741
R response elements (RRE)	CATCTG	Negative strand: CAGATG at 4212, CAGATG at 2988 Positive strand: CAGATG at 3919, CAGATG at 3627, CAGATG at 3620	-	-	-	-	Negative strand: CAGATG at 1224, CAGATG at 481	Negative strand: CAGATG at 3475, CATCTG at 3404
Serum response elements (SRE) see CArG boxes	ACAGGATGT	-	-	-	-	-	-	Negative strand: ACAGGATGT at 3575
Servenius sequences	GGACCCT	Negative strand: GGACCCT at 4548, GGACCCT at 4496, GGACCCT at 4302	-	-	-	-	Negative strand: GGACCCT at 1961, GGACCCT at 1017	Negative strand: GGACCCT at 189 Positive strand: GGACCCT at 3760, GGACCCT at 288
Sp1-box 1 (Motojima)	GGGGCT	Negative strand: AGCCCC at 3037 Positive strand: GGGGCT at 3039	-	Positive strand: AGCCCC at 4426, AGCCCC at 4411	-	Negative strand: AGCCCC at 4218	-	Negative strand: GGGGCT at 3983, GGGGCT at 1029, GGGGCT at 415, GGGGCT at 262 Positive strand: AGCCCC at 1955, AGCCCC at 1866, GGGGCT at 576, AGCCCC at 349, AGCCCC at 279
Sp1-box 2 (Motojima)	CTGCCC	Positive strand: CTGCCC at 3853	-	-	-	Negative strand: CTGCCC at 4233	Negative strand: GGGCAG at 1510, GGGCAG at 753 Positive strand: GGGCAG at 1822	Negative strand: GGGCAG at 3472, GGGCAG at 2895, GGGCAG at 2295, CTGCCC at 741 Positive strand: GGGCAG at 3202, CTGCCC at 412
Sp-1 (Sato)	CCGCCCC	-	-	Negative strand: GGGGCGG at 4439, GGGGCGG at 4429	-	Positive strand: GGGGCGG at 4238	-	Negative strand: GGGGCGG at 1793, GGGGCGG at 353 Positive strand: CCGCCCC at 1027
Sp1 (Yao)	GCGGC	-	-	-	Negative strand: GCCGC at 2726 Positive strand: GCGGC at 2725	-	Negative strand: GCGGC at 1154 Positive strand: GCGGC at 1753, GCGGC at 957	Negative strand: GCCGC at 3226, GCCGC at 2355, GCGGC at 1902, GCGGC at 1794, GCCGC at 1756, GCCGC at 1648, GCGGC at 1637, GCGGC at 1582, GCGGC at 1438, GCGGC at 1423, GCGGC at 1338, GCGGC at 1323, GCGGC at 1255, GCGGC at 1171, GCGGC at 1148, GCGGC at 1034, GCGGC at 1003, GCCGC at 903, GCGGC at 751, GCGGC at 721, GCGGC at 667, GCGGC at 637, GCGGC at 583, GCGGC at 499, GCGGC at 354, GCGGC at 332 Positive strand: GCCGC at 1918, GCGGC at 1758, GCCGC at 1583, GCCGC at 1548, GCCGC at 1296, GCCGC at 1212, GCGGC at 1163, GCGGC at 1079, GCCGC at 1044, GCCGC at 638, GCCGC at 540, GCCGC at 355
SP1 (Zhang)	(G/T)GGGCGG(G/A)(G/A)(C/T)	-	-	-	-	-	-	Negative strand: TGGGCGGGAC at 409
STAT5	TTCNNNGAA	Positive strand: TTCCCTGAA at 3782, TTCGTTGAA at 3506	-	-	-	Negative strand: TTCCGGGAA at 4247	-	Positive strand: TTCCATGAA at 128
Sterile 12 (Ste12p)	TGAAAC	Negative strand: TGAAAC at 4462, TGAAAC at 3985, TGAAAC at 3076 Positive strand: TGAAAC at 3147	-	-	Positive strand: TGAAAC at 2620	-	Negative strand: TGAAAC at 2553, TGAAAC at 2217, TGAAAC at 2100, TGAAAC at 1791, TGAAAC at 1688, TGAAAC at 1146, TGAAAC at 682, TGAAAC at 546, TGAAAC at 409 Positive strand: TGAAAC at 2283, TGAAAC at 1856, TGAAAC at 1583, TGAAAC at 1213, TGAAAC at 474, TGAAAC at 127	Negative strand: GTTTCA at 2302, GTTTCA at 2264, TGAAAC at 2147
Stress-response elements (STREs)	CCCCT	Negative strand: CCCCT at 2924 Positive strand: CCCCT at 3059	-	Negative strand: AGGGG at 4435	-	-	Positive strand: CCCCT at 617	Negative strand: AGGGG at 3981, AGGGG at 3664, AGGGG at 3654, CCCCT at 3615, AGGGG at 3468, AGGGG at 2656, AGGGG at 2291, AGGGG at 1790, CCCCT at 1073, AGGGG at 320, AGGGG at 259, AGGGG at 246, CCCCT at 86 Positive strand: CCCCT at 4043, CCCCT at 3665, CCCCT at 3656, AGGGG at 3555, CCCCT at 3543, CCCCT at 3452, AGGGG at 3199, AGGGG at 3078, CCCCT at 2657, CCCCT at 2287, CCCCT at 1867, AGGGG at 1072, CCCCT at 492, CCCCT at 321, AGGGG at 174, AGGGG at 84, CCCCT at 57
Sucrose boxes	NNAATCA	Negative strand: TGATTCC at 3474, TGATTTT at 3163, TGATTCG at 3032, TGATTCG at 2915 Positive strand: AGAATCA at 3237	-	-	Negative strand: TGATTGT at 2678, TGATTTA at 2636 Positive strand: GAAATCA at 2749, AAAATCA at 2648	Negative strand: TGATTAT at 4165, TGATTAT at 4158, TTAATCA at 4147, TGATTTA at 4135 Positive strand: TAAATCA at 4137	Negative strand: TGATTTT at 2299, TGATTTC at 2174, TGATTTT at 1872, TGATTCC at 818, TGATTTT at 763, TGATTTT at 629, GTAATCA at 155 Positive strand: CTAATCA at 982, AGAATCA at 293, AGAATCA at 198	Negative strand: GCAATCA at 2338
TACTAAC boxes	TACTAA(C/T)	-	-	-	-	Positive strand: TACTAAT at 4157, ATTAGTA at 4148	-	-
TAGteams	CAGGTAG	-	-	-	-	-	-	Negative strand: CAGGTAG at 4035, CTACCTG at 1198
Tapetum boxes	TCGTGT	Negative strand: ACACGA at 4402, TCGTGT at 3915 Positive strand: ACACGA at 4471	-	-	-	-	-	Negative strand: TCGTGT at 80 Positive strand: TCGTGT at 3740
TATA boxes	TATA(A/T)A(A/T)(A/G)	Negative strand: TTTATATA at 2871 Positive strand: TATATAAA at 2874	-	-	-	-	Negative strand: TATATAAA at 1602, TATATATA at 1600 Positive strand: TATAAAAG at 223, TTTTTATA at 219, TATAAAAG at 184	-
Unfolded protein response element (URE) (UPRE-1)	CANCNTG	Positive strand: CAGCCTG at 4348, CATGGTG at 4109, CAGCCTG at 4036, CATCCTG at 3905, CACCCTG at 3743, CAGCCTG at 3297, CAAGGTG at 3143, CAGCCTG at 3127	-	Negative strand: CATCATG at 4364	Negative strand: CACCGTG at 2664 Positive strand: CAGCCTG at 2769, CATGGTG at 2616, CAACATG at 2613	Negative strand: CATCCTG at 4185	Negative strand: CATCATG at 2342, CATCTTG at 286 Positive strand: CACGGTG at 2526, CAGCCTG at 2434, CATGCTG at 2325, CATGGTG at 2279, CAGCATG at 2276, CAGCCTG at 2267, CAACATG at 2151, CAGCCTG at 2008, CATGTTG at 1852, CATCCTG at 1840, CAGGCTG at 1463, CATGGTG at 1209, CAACATG at 1206, CAGCCTG at 1197, CAGCCTG at 898, CAGCGTG at 740, CAGCCTG at 731, CACGGTG at 655, CATCCTG at 595, CAGCCTG at 507	Negative strand: CACCATG at 3827, CAGGCTG at 3639, CAGGATG at 3574, CAGGGTG at 3539, CACCCTG at 2967, CATGTTG at 2476, CACCATG at 2473, CAGGCTG at 2319, CATGATG at 2143, CAACCTG at 946, CAACCTG at 846, CACGCTG at 778 Positive strand: CACGTTG at 2802, CATGGTG at 2599
Upstream stimulating factors (USFs)	GCC(A/T)NN(C/G/T)(A/G)	Negative strand: CGGTCCAC at 3953 Positive strand: CAGATGGC at 3629	-	-	-	-	Negative strand: CGGTCCAC at 2079	Negative strand: GCCACATG at 3707 Positive strand: GTAGACCG at 3406, GTGGACCG at 2570, CAGGTGGC at 1845, GTCCACCG at 198
V boxes	(A/G)TT(A/T)(C/T)	Negative strand: 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: ATTTT at 4511, AAAAC at 4396, AAAAC at 4311, ATAAT at 4225, ATAAT at 4222, AAAAT at 4219	-	-	-	Negative strand: ATAAT at 4168, ATTAT at 4165, ATTAT at 4158, ATTTT at 4120, GTTTT at 4109, GAAAT at 4092 Positive strand: TAATA at 4165, TAATA at 4158, TAAAA at 4120, CAAAA at 4109	Negative strand: 90 between 28 and 4077 Positive strand: 89 between 22 and 4088	Negative strand: 21 between 147 and 3795 Positive strand: 22 between 147 and 3425
W boxes	(C/T)TGAC(C/T)	Negative strand: GGTCAA at 4416, GGTCAA at 4308, CTGACC at 3749	-	Negative strand: GGTCAG at 4270	-	Positive strand: CTGACC at 4216	Negative strand: CTGACT at 1935, GGTCAG at 1353, CTGACC at 734, TTGACT at 307, TTGACT at 130, CTGACT at 17 Positive strand: GGTCAG at 2586, GGTCAG at 2249, GGTCAG at 713, GGTCAG at 577, GGTCAG at 440	Negative strand: TTGACC at 4018, CTGACT at 2945, TTGACC at 2873, AGTCAG at 2619, AGTCAA at 2614, AGTCAG at 2608, GGTCAG at 2221, AGTCAG at 2101, CTGACC at 1662, CTGACC at 2213 Positive strand: TTGACT at 3735, GGTCAA at 3380, GGTCAG at 3083, GGTCAG at 2997, CTGACT at 2674, GGTCAG at 2606, AGTCAG at 2099, GGTCAG at 2025, TTGACC at 1953
X core promoter elements	(A/G/T)(C/G)G(C/T)GG(A/G)A(C/G)(A/C)	Negative strand: TGGTGGGACC at 3744	-	-	-	-	Positive strand: GCTCCCACCT at 392	Positive strand: GGTCCCACCC at 3541, GGGTGGAAGC at 1406, TCTCCCACCT at 185
Xenobiotic response elements (XREs)	GCGTG	Positive strand: CACGC at 3280, GCGTG at 3046	-	-	-	-	Negative strand: CACGC at 2196, CACGC at 447, CACGC at 379 Positive strand: CACGC at 2207, CACGC at 1991, GCGTG at 1896, GCGTG at 1243, CACGC at 963, GCGTG at 740, CACGC at 663	Negative strand: GCGTG at 2554, GCGTG at 1719, CACGC at 1553, CACGC at 1301, GCGTG at 1242, GCGTG at 1216, CACGC at 1133, CACGC at 1049, GCGTG at 1019, CACGC at 987, CACGC at 969, CACGC at 887, CACGC at 869, CACGC at 803, CACGC at 797, CACGC at 776, GCGTG at 544 Positive strand: GCGTG at 2565, CACGC at 1763, CACGC at 1725, CACGC at 1589, GCGTG at 1555, GCGTG at 1551, CACGC at 1521, GCGTG at 1299, CACGC at 1253, CACGC at 1244, CACGC at 1169, CACGC at 1160, GCGTG at 1135, GCGTG at 1131, CACGC at 1085, GCGTG at 1051, GCGTG at 1047, CACGC at 1017, GCGTG at 977, GCGTG at 877, GCGTG at 799, GCGTG at 795, GCGTG at 685, CACGC at 665, CACGC at 581, CACGC at 497, CACGC at 488
Z boxes	A(C/T)A(C/G)GT(A/G)T	Positive strand: ACACCTGT at 3970, ATACCTAT at 2996	-	-	-	-	Positive strand: ACACCTGT at 1131	Negative strand: ACAGGTGT at 1969 Positive strand: ACACGTGT at 2962

Acknowledgements

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

See also

• A1BG gene transcriptions
• A1BG regulatory elements and regions
• A1BG response element negative results
• Complex locus A1BG and ZNF497

External links

• GenomeNet KEGG database
• Home - Gene - NCBI
• NCBI All Databases Search
• NCBI Site Search

{{Phosphate biochemistry}}