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Table 1 Structural characteristics of Dicer-like, Argonaute and RNA dependent RNA Polymerase genes identified in rice

From: Genome-wide identification, organization and phylogenetic analysis of Dicer-like, Argonaute and RNA-dependent RNA Polymerase gene families and their expression analysis during reproductive development and stress in rice

Serial No.

Gene Name

Accession Numbers of Gene Models

TIGR Locus ID

Coordinates (5'-3')

ORF Length (bp)

Protein

No. of Introns

  

TIGR (Release 5)

   

Length (a.a.)

Mol. Wt. (Da)

pI

 

DICER-like

1

OsDCL1a

12003.m05835

LOC_Os03g02970

1183184 – 1174351

5655

1884

210202.11

6.64

18

2

OsDCL2a

12003.m08967

LOC_Os03g38740

21469900 – 21455783

4236

1411

158493.38

6.86

19

3

OsDCL2b

12009.m04723

12009.m50214

12009.m50215

LOC_Os09g14610

8649185 – 8646060

1080

359

39984.82

7.27

2

4

OsDCL3a

12001.m12915

LOC_Os01g68120

39932566 – 39922935

4797

1598

178239.94

6.65

26

5

OsDCL3b

12010.m06268

LOC_Os10g34430

18031152 – 18042777

4719

1572

177717.08

6.7

25

6

SHO1

12004.m09269

12004.m101860

12004.m78968

12004.m78969

LOC_Os04g43050

25262283 – 25255247

3180

1059

119863.82

7.55

25

7

OsDCL1c

12005.m06289

LOC_Os05g18850

10924931 – 10927291

957

318

34954.29

8.7

2

8

OsDCL1b

12006.m07173

LOC_Os06g25250

14769389 – 14772506

903

300

33335.89

5

2

ARGONAUTES

1

OsAGO1a

12002.m09547

12002.m100310

LOC_Os02g45070

27335674 – 27324616

3252

1083

120463

9.43

22

2

OsAGO1b

12004.m09728

12004.m101624

LOC_Os04g47870

28214275 – 28207729

3309

1102

121632.35

9.86

22

3

OsAGO1c

12002.m10870

LOC_Os02g58490

35762233 – 35755714

3039

1012

113158

9.53

22

4

OsAGO1d

12006.m091803

12006.m09654

LOC_Os06g51310

31069900 – 31076078

3120

1039

115923.39

9.27

22

5

OsAGO2

12004.m10147

LOC_Os04g52540

31020218 – 31024093

3105

1038

111444.34

9.7

2

6

OsAGO3

12004.m10148

LOC_Os04g52550

31025382 – 31030370

3333

1110

122752.46

9.45

4

7

OsAGO4a

12001.m08283

12001.m150415

12001.m150416

12001.m150417

LOC_Os01g16870

9633946 – 9628308

2718

905

100638.84

9.32

21

8

OsAGO4b

12004.m05971

12004.m35113

LOC_Os04g06770

3547911 – 3542867

2739

912

101739.93

9.2

21

9

OsAGO14

12007.m05358

LOC_Os07g09020

4710731 – 4701446

3162

1053

113909.58

10

21

10

OsMEL1

12003.m10765

LOC_Os03g58600

33319166 – 33310479

3180

1059

117034.04

9.58

21

11

OsAGO13

12003.m10673

LOC_Os03g57560

32753781 – 32760315

3186

1061

121023.51

9.46

21

12

OsAGO16

12007.m06064

LOC_Os07g16224

9466401 – 9459149

1095

364

40509.71

8.07

10

13

SHL4

12003.m08604

LOC_Os03g33650

19198976 – 19203042

3168

1055

118110.77

9.76

2

14

OsPNH1

12006.m08501

LOC_Os06g39640

23539785 – 23545931

2925

974

107717.15

9.64

21

15

OsAGO17

12002.m06078

LOC_Os02g07310

3754861 – 3748703

2634

877

98923

8.64

21

16

OsAGO12

12003.m09795

LOC_Os03g47820

27110631 – 27102684

2934

977

107073.06

9.83

21

17

OsAGO11

12003.m09796

LOC_Os03g47830

27127103 – 27114562

2688

895

99845.06

8.94

20

18

OsAGO18

12007.m07156

LOC_Os07g28850

16891936 – 16898240

3270

1089

118034.34

9.57

20

19

OsAGO15

12001.m08281

LOC_Os01g16850

9622035-9610432

6711

2237

246763.92

8.51

19

RNA-DEPENDENT RNA POLYMERASES

1

SHL2

12001.m09741

LOC_Os01g34350

19272378 – 19267489

3657

1219

136533.79

7.11

1

2

OsRDR2

12004.m08905

LOC_Os04g39160

23065706 – 23070916

3411

1137

126924.77

7.56

3

3

OsRDR4

12001.m07636

12001.m97449

12001.m97489

LOC_Os01g10140

5321158 – 5304556

3621

1207

135030.19

7.1

18

4

OsRDR1

12002.m10067

LOC_Os02g50330

30727018 – 30730508

2223

741

84265

6.88

2

5

OsRDR3

12001.m07635

LOC_Os01g10130

5289905 – 5285242

1311

437

50679.98

6.57

6

  1. Values in Bold: Molecular weight and pI calculated by Gene Runner as it was not available in TIGR bp, base pairs; a.a., amino acid; Da, Dalton