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Table 2 miRNA-mRNA target pairs identified in at least one library of peanut gynorphore with p-value ≤ 0.05

From: Small RNA profiling and degradome analysis reveal regulation of microRNA in peanut embryogenesis and early pod development

miRNA

Target gene

Target annotation

Cleavage site(nt)

Target site location

Class

Abundance in D1 (RP10M)

Abundance in D2 (RP10M)

ahy-miR156/157

Araip.QT8AK.1

Squamosa promoter binding protein

999

CDS

0

93

54

Araip.0ZF73.1

Squamosa promoter binding protein

2069

3′-UTR

0

27

28

Araip.II3JP.1

Squamosa promoter binding protein

1557

3′-UTR

0

628

127

Araip.RD4BX.1

Squamosa promoter binding protein

1423

3′-UTR

0

64

124

ahy-miR159

Araip.B1U9G.1

MYB transcription factor

661

CDS

0

7

33

Araip.0279H.1

MYB transcription factor

1506

CDS

0

2

3

ahy-miR160

Araip.NYM6Q.1

Auxin response factor

1364

CDS

0

67

46

Araip.BYV33.1

Auxin response factor

1429

CDS

0

257

430

Araip.18474.1

Digalactosyldiacylglycerol synthase

1629

CDS

1

2

0

Araip.9V70N.1

Solute carrier

955

CDS

0

15

72

ahy-miR164

Araip.D25HB.1

Transcriptional factor NAC

786

CDS

0

60

130

Araip.DLE10.1

Heat shock protein

580

CDS

1

10

12

ahy-miR166

Araip.IIT7G.1

ARF GTPase-activating protein

1048

CDS

0

4

3

Araip.P57FD.1

Serine/threonine kinase

552

CDS

0

10

40

Araip.80WHH.1

Peroxidase

828

CDS

1

11

5

Araip.8GH41.1

Plastidic glucose transporter

120

CDS

0

2

10

ahy-miR167

Araip.7M6VI.1

Pentatricopeptide repeat protein (PPRP)

1005

CDS

0

0

118

Araip.R1QSY.1

Auxin response factor

568

CDS

2

0

2

ahy-miR168

Araip.FPV8R.1

Argonaute protein 1

379

CDS

0

113

188

ahy-miR169

Araip.T3WCA.1

Nuclear transcription factor Y

971

3′-UTR

0

45

130

ahy-miR171

Araip.E00UL.1

Transcription factor GRAS

542

CDS

0

209

845

Araip.27I5U.1

Gibberellin receptor

290

CDS

1

0

5

ahy-miR172

Araip.Y07A4.1

Ethylene-responsive transcription factor AP2

1253

5′-UTR

0

476

965

Araip.AE7EH.1

Cell division protease

825

CDS

0

4

1

 

Araip.HRN64.1

Embryogenesis abundant protein

55

5′-UTR

1

3

7

ahy-miR319

Araip.SZ7Q5.1

Monodehydroascorbate reductase

1263

CDS

0

88

52

Araip.Z17TF.1

Transcription factor TCP

1688

CDS

0

41

55

Araip.KK7TK.1

DELLA protein

939

CDS

1

0

3

ahy-miR390

Araip.VT2PQ.1

TAS3

342

 

0

0

25

Araip.43TDN.1

Solute carrier family 50 (sugar transporter)

96

CDS

0

1

45

ahy-miR391

Araip.5A463.1

Aluminium induced protein

309

CDS

2

6

15

Araip.HW8E3.1

Homeobox-leucine zipper protein

2183

CDS

2

2

2

Araip.65E1M.1

LA RNA-binding protein

2280

CDS

2

0

2

ahy-miR393

Araip.774UX.1

Auxin signaling F-box protein

1906

CDS

0

589

968

Araip.0E25I.1

Auxin signaling F-box protein

1710

CDS

0

296

429

Araip.0XA60.1

Auxin signaling F-box protein

297

CDS

2

4

5

Araip.NRD2A.1

Brassinosteroid receptor kinase

79

CDS

2

0

3

ahy-miR394

Araip.Y8EUA.1

Glutathione S-transferase

760

CDS

0

5

0

ahy-miR395

Araip.BC9AA.1

Cellulose synthase

1531

CDS

0

6

3

ahy-miR396

Araip.6YN77.1

Growth-regulating factor

922

CDS

0

422

97

Araip.SE9FW.1

MADS-box transcription factor

313

CDS

0

0

11

ahy-miR397

Araip.QA79V.1

Laccase 10 (lignin catabolic process)

743

CDS

0

8

5

Araip.Z5USZ.1

Laccase 11 (lignin catabolic process)

746

CDS

0

3

2

ahy-miR398

Araip.SEZ68.1

Calcium-dependent protein kinase

1309

CDS

1

2

0

ahy-miR399

Araip.G5CUD.1

Disease resistance protein

4095

CDS

0

2

24

Araip.RXA31.1

Expansin-A4(cell wall organization)

958

5′-UTR

0

8

4

Araip.I7ZGU.1

Unknown protein

173

CDS

0

8

11

ahy-miR414

Araip.IJ273.1

Ribosome biogenesis protein

1818

CDS

0

8

20

Araip.467MQ.1

Serine/threonine-protein phosphatase

1586

CDS

0

10

13

Araip.HJ37G.1

Phosphoinositide phospholipase C

1118

CDS

0

19

24

Araip.Y25R8.1

ARF guanine-nucleotide exchange factor

755

CDS

0

23

38

Araip.98Q8H.1

Sequence-specific DNA binding transcription factor

359

CDS

0

7

0

Araip.FPJ1M.1

DDB1-CUL4 associated factor (protein binding)

5387

CDS

0

0

11

ahy-miR477

Araip.6IZ1V.1

Mitogen-activated protein kinase

147

CDS

0

2

2

Araip.48K15.1

Heat shock cognate protein

190

CDS

2

7

7

Araip.A6M6K.1

Cytosolic ascorbate peroxidase

163

CDS

2

30

37

Araip.BP9MY.1

Myo-inositol-1-phosphate synthase

34

5′-UTR

0

0

15

Araip.N0DQ0.1

Dual specificity protein phosphatase

33

5′-UTR

0

0

2

Araip.N1PSJ.1

Glutamate synthase

22

CDS

0

0

5

Araip.SJE6C.1

Unknown protein

64

CDS

0

0

16

ahy-miR482

Araip.61H7R.1

WD repeat-containing protein

57

CDS

0

4

16

Araip.9T0HK.1

E3 ubiquitin-protein ligase

1029

CDS

0

48

44

Araip.313YK.1

E3 ubiquitin-protein ligase

4548

CDS

2

0

3

Araip.6W5RU.1

E3 ubiquitin protein ligase

1890

CDS

2

0

3

Araip.NX28V.1

Disease resistance protein

3219

3′-UTR

2

0

4

Araip.BX1V3.1

Disease resistance protein

4147

CDS

2

0

2

ahy-miR530

Araip.87MXF.1

Nuclear protein required for cytoskeleton organization

2092

CDS

1

7

0

Araip.X3V04.1

Unknown protein

481

CDS

0

6

0

Araip.YGJ1S.1

Leucine-rich repeat receptor kinase

1659

CDS

0

0

2

ahy-miR1088

Araip.6BJ8Z.1

Pentatricopeptide repeat protein (PPRP)

27

5′-UTR

0

113

0

ahy-miR1507

Araip.UGA40.1

LRR-NB-ARC domain disease resistance protein

4474

CDS

0

148

119

Araip.SJE6C.1

DUF4228 domain protein

64

5′-UTR

0

11

16

Araip.4Q4DB.1

NBS-LRR domain disease resistance protein

1036

CDS

0

21

0

Araip.AX6A6.1

Disease resistance protein

880

CDS

0

14

0

Araip.KW5UK.1

Disease resistance protein

939

CDS

0

14

0

Araip.L51CJ.1

Disease resistance protein

880

CDS

0

14

0

ahy-miR1511

Araip.08W0L.1

Protein binding protein

174

CDS

0

0

2

Araip.PD52B.1

Aluminum sensitive protein

345

CDS

0

9

10

ahy-miR1515

Araip.9C688.1

Chlorophyll a-b binding protein

375

CDS

1

17

1

Araip.U8QGY.1

DNA-lyase-like isoform

963

CDS

0

0

9

Araip.5RQ6Z.1

ATP binding protein

3153

CDS

0

32

0

ahy-miR1520

Araip.AW9H3.1

DNA methyltransferase

687

CDS

0

2

0

Araip.5K8JY.1

DNA methyltransferase

576

CDS

1

3

0

Araip.LK5X5.1

Protein kinase

2471

CDS

2

0

5

Araip.U0MS2.1

Zinc finger CCCH domain-containing protein

1559

3′-UTR

2

0

2

ahy-miR2111

Araip.KV8TN.1

Ubiquitin carboxyl-terminal hydrolase

79

CDS

0

5

1

Araip.8SC4I.1

Anaphase-promoting complex subunit

426

CDS

1

2

0

Araip.QW087.1

Dihydroorotate dehydrogenase

46

5′-UTR

0

0

2

ahy-miR2118

Araip.B2Q36.1

Translation initiation factor eIF

1643

CDS

0

38

18

Araip.QG6DX.1

Zinc finger protein

3535

CDS

0

4

0

Araip.NP9KT.1

Carboxylate dehydrogenase

1932

3′-UTR

2

2

4

Araip.E41BL.1

Disease resistance protein

344

CDS

0

0

9

Araip.IKJ6N.1

Disease resistance protein

666

CDS

2

0

4

ahy-miR2199

Araip.I1L37.1

bHLH transcription factor

741

CDS

0

593

312

ahy-miR2628

Araip.LY8H2.1

Protein kinase

55

5′-UTR

0

24

22

ahy-miR3514

Araip.GQ8VC.1

Pentatricopeptide repeat protein (PPRP)

360

CDS

0

2699

435

Araip.N7IGZ.1

Pentatricopeptide repeat protein (PPRP)

1134

CDS

0

53

4

ahy-miR4376

Araip.0K3S5.1

Cullin-like protein

2083

CDS

2

2

0

Araip.Q4HT6.1

Methyltransferase

2372

CDS

0

9

0

Araip.NS167.1

ATP-dependent RNA helicase-like protein

2264

CDS

0

0

8

ahy-miR4414

Araip.B5L53.1

DNA binding transcription factor

989

CDS

1

2

0

ahy-miR5021

Araip.166TL.1

MADS-box transcription factor

189

5′-UTR

0

3

0

ahy-miR5225

Araip.WG5D6.1

Histidine kinase

180

CDS

1

0

2

ahy-miR6300

Araip.VJ5LB.1

Dehydroascorbate reductase

70

CDS

2

62

198

ahy-miR9666

Araip.99HRK.1

Protein kinase (protein ubiquitination process)

537

CDS

1

2

0

ahy-miRn1

Araip.9T0HK.1

E3 ubiquitin protein ligase

1260

CDS

0

45

43

Araip.71CS3.1

Transcriptional factor NAC

1420

CDS

0

81

241

Araip.QG6DX.1

Zinc finger protein

3535

3′-UTR

0

4

0

ahy-miRn2

Araip.C0ZFN.1

LRR-NB-ARC domain disease resistance protein

704

CDS

0

17

45

Araip.I8IY2.1

TIR-NBS-LRR domain disease resistance protein

3782

CDS

1

17

0

ahy-miRn4

Araip.JPM97.1

Receptor kinase

533

CDS

0

4

9

ahy-miRn5

Araip.3TX6Y.1

Unknown protein

300

CDS

0

0

5

ahy-miRn7

Araip.K65JZ.1

Major intrinsic protein (transporter activity)

189

CDS

0

319

1084

ahy-miRn10

Araip.T99DR.1

DNA polymerases (DNA replication)

20

CDS

1

11

0

ahy-miRn24

Araip.NF709.1

Cytochrome P450 protein

386

CDS

0

4

9

  1. RP10M reads per 10 million clean reads