Skip to main content

Table 3 Potential miRNA targets found only in cotyledons at different seed developmental stages

From: Identification of soybean seed developmental stage-specific and tissue-specific miRNA targets by degradome sequencing

miRNA

Tissue

Target

Target Annotation

C.Site

Location

Category

TP100M

P-Value

gma-miR171

C25

Glyma15g01820.1

Protein tyrosine kinase

1359

CDS

1

24.2379

0.0013

 

C300

Glyma12g08490.1

Putative methyltransferase

434

CDS

1

12.3961

0.0462

gma-miR394

C100

Glyma06g13230.3

Ferredoxin related protein

1070

CDS

1

104.088

0.027

 

C100

Glyma06g13230.2

Ferredoxin related protein

685

CDS

1

104.088

0.027

 

C100

Glyma14g25810.1

GTPase-activating protein

1013

CDS

1

57.8265

0.0035

 

C100

Glyma06g13230.1

Ferredoxin related protein

952

CDS

1

104.088

0.027

gma-miR398

C100

Glyma03g40280.2

Copper/Zinc superoxide dismutase

156

5' UTR

2

57.8265

0.0379

 

C100

Glyma03g40280.3

Copper/Zinc superoxide dismutase

156

5' UTR

2

57.8265

0.0379

gma-miR1509

C300

Glyma18g03980.2

No Functional Annotation

2155

3' UTR

0

7.43768

0.0041

gma-miR1513

C300

Glyma08g27950.1

F-box domain containing protein

190

CDS

0

29.7507

0.0402

gma-miR1514

C25

Glyma07g05360.2

No apical meristem protein

773

CDS

0

16.1586

0.0371

gma-miR1515

C300

Glyma09g02920.1

PAZ domain containing protein

2750

CDS

0

57.0223

0.003

gma-miR1531

C100

Glyma16g33400.1

Serine protease inhibitor family

536

3' UTR

3

46.2612

0.0414

gma-miR1532

C25

Glyma10g28900.1

Universal stress protein family

626

3' UTR

4

4.03965

0.015

gma-miR1535

C25

Glyma08g22920.1

Ribose 5-phosphate isomerase

168

CDS

1

60.5947

0.0242

gma-miR2109

C25

Glyma03g14900.1

LRR containing protein

46

CDS

0

88.8723

0.0165

gma-miR4357

C300

Glyma13g01500.1

Alg9-like mannosyltransferase

779

CDS

1

22.3131

0.0089

 

C300

Glyma01g35530.1

Transferase family protein

522

CDS

1

9.91691

0.0114

gma-miR4369

C25

Glyma19g43800.1

Calcineurin-like phosphoesterase

1257

3' UTR

4

4.03965

0.0468

gma-miR4371

C300

Glyma15g08400.4

No Functional Annotation

452

3' UTR

0

17.3546

0.0017

gma-miR4380

C300

Glyma06g10840.1

MYB family transcription factor

630

CDS

1

9.91691

0.0347

gma-miR4387

C300

Glyma08g43670.1

Uncharacterized conserved protein

1501

CDS

0

4.95846

0.0068

gma-miR4390

C100

Glyma15g06380.1

Dynamin family protein

287

CDS

3

104.088

0.0251

gma-miR4398

C25

Glyma02g25150.1

Integrase domain containing protein

199

5' UTR

4

4.03965

0.0444

gma-miR4402

C300

Glyma02g18090.1

Lectin domain containing protein

783

CDS

4

2.47923

0.0293

gma-miR4403

C300

Glyma19g36500.1

No Functional Annotation

1860

3' UTR

4

2.47923

0.0484

gma-miR4408

C25

Glyma16g34800.1

No functional annotation

434

CDS

1

68.674

0.0057

gma-miR4409

C25

Glyma16g04060.3

BTB/POZ domain containing protein

1304

3' UTR

0

12.1189

0.0144

gma-miR4415

C100

Glyma02g20490.2

Transferase family protein

502

CDS

1

57.8265

0.0463

 

C100

Glyma02g20490.1

Transferase family protein

502

CDS

1

57.8265

0.0463

 

C100

Glyma15g12430.1

Transferase family protein

464

CDS

1

57.8265

0.0463

gma-miR4416

C100

Glyma01g44970.1

BTB/POZ domain containing protein

434

CDS

0

161.914

0.0318

  1. CDS: Coding Sequence; UTR: Untranslated Region; TP100M: Transcripts per 100 million; C.site (Cleavage site): Nucleotide number from 5’ end of cDNA; P-value ≤0.05 using Cleaveland pipeline.
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us