Table 19

AGRIS Lookup

3'UTRs

5'UTRs

Intron

Core Promoters

Proximal Promoters

Distal Promoters

Regulatory Element from AGRIS database [25]

Rank

Score

Rank

Score

Rank

Score

Rank

Score

Rank

Score

Rank

Score


Bellringer/replumless/pennywise BS3 IN AG

-

-

-

-

43503

0.0479784

-

-

64618

0.955909

56341

-103.557


CBF1 BS in cor15a

-

-

-

-

48346

-1.48116

-

-

4852

1.34988

11624

24.1708


Octamer promoter motif

-

-

-

-

41435

0.673899

-

-

11935

1.28979

23858

4.69741


Bellringer/replumless/pennywise BS1 IN AG

72

67.6311

352

35.2087

574

127.468

19

117.144

875

1.0759

58337

-186.12


ABRE-like binding site motif

5445

11.7462

1138

21.7556

15242

16.0488

304

41.9698

53

1.45099

109

255.929


G-box promoter motif

1852

21.1577

1138

21.7556

12023

20.8282

304

41.9698

53

1.45099

102

260.604


DPBF1&2 binding site motif

3720

14.7278

2963

13.7441

3460

54.8094

355

39.8827

137

1.36496

102

260.604


MYB1 binding site motif

4306

13.6223

446

32.0594

1407

86.7638

400

38.3647

1785

1.11027

2557

76.5745


RAV1-A binding site motif

568

34.0603

148

49.0095

2000

73.6726

451

36.3111

135

1.20169

289

186.355


W-box promoter motif

751

30.7769

675

27.0198

458

139.172

533

34.175

176

1.19182

756

131.24


CBF2 binding site motif and GBF1/2/3 BS in ADH1

-

-

-

-

34949

2.87187

540

34.0562

729

1.293

998

117.554


ARF and ARF1 binding site motif

976

27.5809

216

42.5544

741

116.214

568

33.5619

2852

1.07934

2306

80.856


L1-box promoter motif

2697

17.6326

-

-

5824

38.2912

585

33.083

2889

1.05367

2235

81.9035


GATA promoter motif

1186

25.6353

741

26.1103

1247

91.6715

802

29.355

355

1.08161

1033

115.612


ATB2/AtbZIP53/AtbZIP44/GBF5 BS in ProDH

1757

21.6648

1225

20.9254

2890

60.5806

908

27.9139

1313

1.12688

3204

67.6808


SORLIP2

3658

14.8663

9024

6.91197

16361

14.6754

1006

26.5383

550

1.34186

780

129.375


MYB binding site promoter

4762

12.8183

2462

15.1743

1897

75.734

1032

26.1692

4931

1.06605

2010

86.739


CCA1 binding site motif

1230

25.1325

371

34.5029

5202

41.532

1225

24.4536

61990

0.99765

58013

-161.161


TGA1 binding site motif

-

-

13290

4.96662

10326

24.0526

1233

24.3919

1660

1.21323

1879

89.7072


SORLIP1

5297

11.9625

6172

9.0064

11076

22.5348

1286

23.8899

4965

1.15533

4097

58.1886


T-box promoter motif

639

32.6567

1532

19.0267

774

114.265

1325

23.5609

193

1.27522

205

212.153


Ibox promoter motif

2156

19.649

358

35.0463

3223

57.1901

1797

20.4507

1081

1.14622

628

140.679


Box II promoter motif

1403

23.9863

4993

10.3195

1437

85.6577

1804

20.4254

1986

1.30314

669

136.891


Hexamer promoter motif

7590

9.4166

1616

18.5991

10347

24.0156

2225

18.6568

3477

1.24419

1252

107.567


AtMYC2 BS in RD22

1193

25.5614

4026

11.6309

3460

54.8094

2823

16.6193

646

1.21499

2073

85.133


RAV1-B binding site motif

7054

9.94571

8250

7.4051

11589

21.6087

2996

16.0975

6084

1.12709

2017

86.5658


RY-repeat promoter motif

182

49.4382

-

-

530

132.253

3097

15.8378

72

1.29305

61

302.629


MYB3 binding site motif

5128

12.2348

10575

6.06616

1407

86.7638

3292

15.3953

3288

1.08324

11546

24.3649


Bellringer/replumless/pennywise BS2 IN AG

3126

16.2923

-

-

64424

-30.4349

3694

14.5011

62777

0.97976

58184

-172.62


AtMYB2 BS in RD22

6797

10.1949

9630

6.55608

4961

42.997

4480

13.0383

3570

1.07359

3218

67.5209


E2F binding site motif and E2F/DP BS in AtCDC6

-

-

4078

11.5443

46644

-0.929602

4953

12.223

60966

1.20703

55143

-85.466


ERF1 BS in AtCHI-B and GCC-box promoter motif

-

-

681

26.9446

20822

10.4265

6359

10.5016

4340

1.35349

1735

93.0802


Z-box promoter motif

-

-

-

-

36029

2.48082

10144

7.62515

39199

1.00107

26784

1.42726


LTRE promoter motif

-

-

6230

8.95512

16036

15.0374

11248

7.01938

11296

1.13624

7155

38.6247


SORLIP5

5170

12.1706

3175

13.3137

14017

17.6817

11614

6.82909

14984

1.04471

22267

6.5221


ABFs and ABRE binding site motif

8540

8.6035

6266

8.92287

29109

5.33319

12250

6.52158

725

1.25598

1490

100.349


PI promoter motif

9436

7.96403

-

-

60410

-9.96838

14596

5.56209

24540

1.01231

7902

35.621


Observations about the regulatory elements (length = 8) contained in the AGRIS database [25].

Lichtenberg et al. BMC Genomics 2009 10:463   doi:10.1186/1471-2164-10-463

Open Data