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Table 3 Candidate new brassica-specific miRNAs

From: Identification of miRNAs and their targets from Brassica napus by high-throughput sequencing and degradome analysis

miRNA

miR sequence (5'→3')

miR length (nt)

Reads

Precursor from EST

Mature miRNA position

Stem-loop position

 

miR start

miR end

Precursor start

Precursor end

Bna-miRC1

CCATACTAAATCTGGATCATTT

22

115

CU943501

519

540

519

634

Bna-miRC2

ATAAATCCCAAGCATCATCCA

21

1011

EV202910

179

199

173

261

Bna-miRC3

TGGGATTGGCTTTGGGCTTTTC

22

12

CU940792

108

129

82

281

Bna-miRC4

TTTCAGTCGTCATAGGTTAGT

21

11

GT084890

55

75

51

158

Bna-miRC5-1

TGTGTTGTGATGATAATCCGA

21

306

CU971106

285

305

132

350

Bna-miRC5-1*

AATCGGATTATCATCACAACA

21

7

CU971106

93

113

29

291

Bna-miRC5-2

TCAACCAAATACACATTGTGG

21

4

CU971106

52

72

35

306

Bna-miRC5-3

TTATCATCACAACACTAGATC

21

536

CU971106

76

96

19

281

Bna-miRC5-3*

TCTTGTGTTGTGATGATAATC

21

216

CU971106

288

308

136

349

Bna-miRC5-4

TGATAATCCGACTTCTATGAC

21

29

CU971106

272

292

122

356

Bna-miRC5-5

TTGGTTTGGATCTTGGAAATC

21

8

CU971106

123

143

42

304

Bna-miRC5-6

TCGGATTATCATCACAACACT

21

182

CU971106

89

109

27

289

Bna-miRC6

ATAGATCCTTCTGATGACGCA

21

16

DU099814

306

326

254

327

Bna-miRC7

CAAATCCTGTCATCCCTACCA

21

89

GT079632

102

122

102

229

Bna-miRC8

CAGGAGAGATTGTTGGATCCA

21

3

CU931338

337

357

337

443

Bna-miRC9

TGCCTGGCTCCCTGTATACCA

21

118

EV193539

387

407

380

474

Bna-miRC10

TCAATGTTGGCTCAATTATGT

21

12

CU934632

731

751

666

751

Bna-miRC11

GGCGAGTCACCGGTGTCGGTC

21

6

FP328714

415

435

406

534

Bna-miRC12

GGGTCGATATGAGAACACATG

21

15

EE426846

15

35

1

123

Bna-miRC13

ACCCTGTTGAGCTTGTCTCTA

21

3

CU980942

490

510

449

524

Bna-miRC14

CAGCTGGACGACTTAGTAGAC

21

7

CU943399

123

143

103

229

Bna-miRC15-1

ACATTGGACTACATATATTAC

21

8

ES901619

392

412

299

430

Bna-miRC15-2

TCAATACATTGGACTACATAT

21

9

ES901619

387

407

299

430

Bna-miRC16

GTTTTGAGAGATTGGGAAGCT

21

3

EV146378

77

97

58

216

Bna-miRC17a-1

TTTCCAAATGTAGACAAAGCA

21

7132

ES913560

96

116

31

137

Bna-miRC17a-1*

CTTTGTCTATCGTTTGGAAAAG

22

782

ES913560

53

74

31

137

Bna-miRC18

TCGCGATCTTAGATCCTCTAA

21

41

EV179238

441

461

288

564

Bna-miRC19

CGAGTTGGTCGGGAAAGACGG

21

12

DU102764

104

124

35

128

Bna-miRC20

CTCTCGTGGAGCGTCTCGAGG

21

3

EV192419

700

720

567

746

Bna-miRC21

GGAGGCAGCGGTTGATCGATC

21

7

DY025212

429

449

420

523

Bna-miRC22a-1

CAAGTAGACGACTTTCCAGAC

21

10

CU945922

359

379

298

403

Bna-miRC22a-2

CGTGGTCGTCCAAGTAGACGA

21

13

CU945922

363

383

292

397

Bna-miRC22a-3

TTGGACGACTTTGTAGACGAC

21

9

CU945922

303

323

297

402

Bna-miRC23a-1

TCAGAACCAAACCCAGAACAAG

22

54

CU958057

25

46

3

241

Bna-miRC23a-2

TTACAGAACAGCAACAAGCTGT

22

150

CU958057

47

68

7

238

Bna-miRC23a-3

TATCTACTGCTTATGCCACCA

21

65

CU958057

54

74

1

215

Bna-miRC23a-3*

GATGCATAACCACTAGATACG

21

8

CU958057

140

160

1

215

Bna-miRC24

TTAGGATTGAGATCTTAGCGA

21

7

EV176533

225

245

214

395

Bna-miRC25

TTGGACTGAAGGGAACTCCCT

21

23719

FP023833

319

339

168

343

Bna-miRC25*

AGAGTTTCCTTAAGTCCATTC

21

34

FP023833

173

193

167

343

Bna-miRC26

TGAGCCAAAGATGACTTGTCG

21

45

BZ021311

68

88

66

323

Bna-miRC27

TAAGATGATGGAACACTGGCC

21

25

EE438385

18

38

14

279

Bna-miRC28

ATGGATCCGCCGGATAAGGAT

21

6

CU965419

466

486

350

511

Bna-miRC29

TTGAGGTTTTGAGGACTGGCC

21

6

EV093069

644

664

564

668

Bna-miRC30

TCCTGGACGACTTTCAAGTAAG

22

9

CZ888137

161

182

20

250

Bna-miRC31

AGATCATCCTGCGGCTTCATT

21

26

EV134163

290

310

233

335

Bna-miRC32

GCAAGTTGACTTTGGCTCCGT

21

51

BZ021311

52

72

13

184

Bna-miRC33

TTTTGCCTACTCCTCCCATACC

22

268

CU981257

103

124

95

223

Bna-miRC34

ATCCTCGGGACACAGATTACC

21

113

EV076017

357

377

339

459

Bna-miRC35

ATGGTGTAGGTACTGAGCAGA

21

13

EV194620

298

318

294

400

Bna-miRC36

CGTCCGGGGAAAGCAAAGTCG

21

11

EV088144

141

161

64

186

Bna-miRC37

TGATTTATCCAAGGGTTCAGG

21

31

DU101557

509

529

367

608

Bna-miRC38

CAAGTAGACTACTTTCCAGACG

22

9

GT084321

52

73

1

92

Bna-miRC39

TAAGATGATGGGACGTTGGATC

22

11

DY002174

42

63

40

306

Bna-miRC40

CGCTCACAGCATCTGAACTCT

21

21

CD842549

99

119

78

243

Bna-miRC41

TTTTGGAGAAGGCTGTAGGCA

21

13

DU109430

791

811

780

890

Bna-miRC42

TTCCCCGGACGACTTTAAATT

21

15

EV088144

90

110

3

125

Bna-miRC43

TGTGAATGATGCGGGAGATGT

21

15

CN829704

219

239

69

315

Bna-miRC44

TTGGCCACAACGGATTTAACA

21

9

EV006438

66

86

66

141

Bna-miRC45

TTTCATCTTAGAGAATGTTGTC

22

42

EV178795

578

599

478

617

Bna-miRC46

ACTTGTCTCACTCATCAGTT

20

7

EV063926

5

24

3

215

Bna-miRC47

CAAATGTAGACAAAGCAAAAC

21

4

ES913560

100

120

31

137