Skip to main content

Table 2 Targets of new candidate microRNAs in Brassica juncea

From: Identification of miRNAs and their targets using high-throughput sequencing and degradome analysis in cytoplasmic male-sterile and its maintainer fertile lines of Brassica juncea

miRNA

referred to Arabidopsis

Category

Cleavage Site

MF-Rep Norm reads

CMS-Rep Norm reads

Annotation

PC-3p-30

AT4G28000.1

4

77

1

 

P-loop containing nucleoside triphosphate hydrolases superfamily protein

AT4G38850.1

4

272

 

0.111111

SAUR-like auxin-responsive protein family

PC-3p-41

AT1G07920.1

3

1202

1

3.361111

GTP binding Elongation factor Tu family protein

AT1G07930.1

3

1214

1

3.361111

GTP binding Elongation factor Tu family protein

AT1G07930.2

3

983

1

3.361111

GTP binding Elongation factor Tu family protein

AT1G07940.1

3

1206

1

3.361111

GTP binding Elongation factor Tu family protein

AT1G07940.2

3

1333

1

3.361111

GTP binding Elongation factor Tu family protein

AT1G35550.1

4

303

 

0.111111

elongation factor Tu C-terminal domain-containing protein

AT5G60390.1

3

1158

1

3.361111

GTP binding Elongation factor Tu family protein

AT5G60390.2

3

1158

1

3.361111

GTP binding Elongation factor Tu family protein

AT5G60390.3

3

1148

1

3.361111

GTP binding Elongation factor Tu family protein

PC-3p-65

AT1G18400.1

2

460

2

 

BR enhanced expression 1

AT1G18710.1

4

792

0.333333

 

myb domain protein 47

AT1G62750.1

3

82

 

0.4

Translation elongation factor EFG/EF2 protein

AT1G76720.1

4

1493

0.2

 

eukaryotic translation initiation factor 2 (eIF-2) family protein

AT1G76810.1

4

1225

0.2

 

eukaryotic translation initiation factor 2 (eIF-2) family protein

AT1G76820.1

4

878

0.2

 

eukaryotic translation initiation factor 2 (eIF-2) family protein

AT2G26630.1

4

761

0.25

0.2

transposable element gene

AT2G27710.1

3

505

0.535714

0.142857

60S acidic ribosomal protein family

AT2G27710.2

3

502

0.535714

0.142857

60S acidic ribosomal protein family

AT2G27710.3

3

433

0.535714

0.142857

60S acidic ribosomal protein family

AT2G27710.4

3

454

0.535714

0.142857

60S acidic ribosomal protein family

AT2G30860.1

3

128

 

1

glutathione S-transferase PHI 9

AT2G30860.2

3

128

 

1

glutathione S-transferase PHI 9

AT2G33810.1

4

409

1

 

squamosa promoter binding protein-like 3

AT3G06870.1

2

585

0.4

 

proline-rich family protein

AT4G09255.1

4

62

0.5

 

transposable element gene

AT4G11420.1

4

538

 

1

eukaryotic translation initiation factor 3A

AT5G21274.1

4

63

 

1

calmodulin 6

AT5G57290.2

2

348

3

0.333333

60S acidic ribosomal protein family

AT5G57655.1

4

1553

 

0.5

xylose isomerase family protein

AT5G57655.2

4

1592

 

0.5

xylose isomerase family protein

PC-5p-12

AT3G25100.1

3

823

0.5

 

cell division cycle 45

AT5G28800.1

4

13

0.166667

 

unknown protein

AT5G40340.1

2

380

0.85

 

Tudor/PWWP/MBT superfamily protein 6

AT5G52830.1

4

1040

 

1

WRKY DNA-binding protein 27

AT5G62750.1

2

212

2

 

unknown protein

PC-5p-20

AT2G28056.1

2

677

2

 

MIR172/MIR172A; miRNA

PC-5p-32

AT1G70700.1

4

958

 

0.5

TIFY domain/Divergent CCT motif family protein

AT1G70700.2

4

886

 

0.5

TIFY domain/Divergent CCT motif family protein

AT2G24270.1

2

1736

0.75

 

aldehyde dehydrogenase 11A3

AT2G24270.2

2

1633

0.75

 

aldehyde dehydrogenase 11A3

AT2G24270.3

2

1622

0.75

 

aldehyde dehydrogenase 11A3

AT2G24270.4

2

1633

0.75

 

aldehyde dehydrogenase 11A3

AT2G39720.1

4

1004

 

1

RING-H2 finger C2A

PC-5p-51

AT2G20585.1

4

375

0.333333

 

nuclear fusion defective 6

AT2G20585.2

4

375

0.333333

 

nuclear fusion defective 6

AT2G20585.3

4

375

0.333333

 

nuclear fusion defective 6

PC-5p-52

AT2G27760.1

4

42

 

0.5

tRNAisopentenyltransferase 2

AT2G45960.1

4

148

0.166667

 

plasma membrane intrinsic protein 1B

AT2G45960.2

4

148

0.166667

 

plasma membrane intrinsic protein 1B

AT2G45960.3

4

148

0.166667

 

plasma membrane intrinsic protein 1B

AT2G47700.1

4

32

 

0.5

RING/U-box superfamily protein

AT3G03340.1

4

67

0.1

0.1

LUC7 related protein

AT3G09980.1

4

71

0.333333

 

Family of unknown function (DUF662)

AT3G57870.1

4

81

1

 

sumo conjugation enzyme 1

AT5G18310.1

0

31

1.5

 

unknown protein

AT5G18310.2

0

24

1.5

 

unknown protein

PC-5p-53

AT3G46040.1

3

131

1

 

ribosomal protein S15A D

AT4G02660.1

2

8902

1

 

Beige/BEACH domain ;WD domain, G-beta repeat protein

AT4G34230.1

2

178

 

1

cinnamyl alcohol dehydrogenase 5

AT4G34230.2

2

175

 

1

cinnamyl alcohol dehydrogenase 5

AT5G53530.1

4

993

1

 

vacuolar protein sorting 26A

AT5G59850.1

2

122

2.333333

0.333333

Ribosomal protein S8 family protein

PC-5p-56

AT4G12800.1

2

385

4

4

photosystem I subunit l

AT5G19290.1

4

387

 

1

alpha/beta-Hydrolases superfamily protein

PC-5p-64

AT1G20260.1

4

648

 

0.5

ATPase, V1 complex, subunit B protein

AT1G50500.1

4

533

0.333333

 

Membrane trafficking VPS53 family protein

AT1G50500.2

4

548

0.333333

 

Membrane trafficking VPS53 family protein

AT1G67410.1

0

1638

6

 

Exostosin family protein

AT1G71680.1

4

1781

1

 

Transmembrane amino acid transporter family protein

AT1G76030.1

4

654

 

0.5

ATPase, V1 complex, subunit B protein

AT2G38040.1

4

1257

0.5

2.5

carboxyltransferase alpha subunit

AT2G38040.2

4

1232

0.5

2.5

carboxyltransferase alpha subunit

AT4G25050.1

4

355

 

0.5

acyl carrier protein 4

AT4G25050.2

4

416

 

0.5

acyl carrier protein 4

AT4G35300.1

4

2370

 

0.2

tonoplast monosaccharide transporter2

AT4G35300.2

4

2371

 

0.2

tonoplast monosaccharide transporter2

AT4G35300.3

4

2331

 

0.2

tonoplast monosaccharide transporter2

AT4G35300.4

4

2370

 

0.2

tonoplast monosaccharide transporter2

AT4G35300.5

4

2251

 

0.2

tonoplast monosaccharide transporter2

AT4G36640.1

1

281

1.5

 

Sec14p-like phosphatidylinositol transfer family protein

AT4G36640.2

1

185

1.5

 

Sec14p-like phosphatidylinositol transfer family protein

AT5G19770.1

4

558

0.5

 

tubulin alpha-3

AT5G19780.1

4

591

0.5

 

tubulin alpha-5

AT5G54960.1

4

1869

0.5

0.5

pyruvate decarboxylase-2

PC-5p-74

AT3G09800.1

2

689

3

2

SNARE-like superfamily protein

AT3G17900.1

4

905

 

1

unknown protein

AT3G53710.1

4

1391

0.5

 

ARF-GAP domain 6

AT3G53710.2

4

1333

0.5

 

ARF-GAP domain 6

AT3G56850.1

4

1331

 

1

ABA-responsive element binding protein 3

AT4G09510.1

0

1861

6.5

3

cytosolic invertase 2

AT4G09510.2

0

1916

6.5

3

cytosolic invertase 2

AT5G27860.1

4

463

0.5

 

unknown protein

AT5G27860.2

4

463

0.5

 

unknown protein

AT5G39740.1

2

838

0.75

0.5

ribosomal protein L5 B

AT5G39740.2

2

880

0.75

0.5

ribosomal protein L5 B

AT5G47040.1

1

2243

 

4

lon protease 2

ATMG01360.1

2

1453

13

2

cytochrome oxidase

AT4G31480.1

4

2477

0.333333

 

Coatomer, beta subunit

AT4G31480.2

4

2557

0.333333

 

Coatomer, beta subunit

AT4G31490.1

4

2399

0.333333

 

Coatomer, beta subunit

Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us