Skip to main content

Table 4 Genes identified in the perennial ryegrass mitochondrial genome

From: The genome and transcriptome of perennial ryegrass mitochondria

Name of the genea

Sizeb(bp)

Position in the genome

Strandc

No. of amino acids

From

To

A. Protein and rRNA-coding genes

1. Complex I genes

     

nad1

978

-

-

x

325

  nad1a

387

284,188

284,574

+

129

  nad1b

81

247,595

247,675

-

27

  nad1c

192

245,995

246,186

-

64

  nad1d

60

512,368

512,427

-

20

  nad1e

258

76,540

76,797

-

85

nad2

1,467

-

-

x

488

  nad2a

153

324,853

325,005

-

51

  nad2b

396

323,224

323,619

-

132

  nad2c

159

588,650

588,809

+

53

  nad2d

573

591,214

591,786

+

191

  nad2e

186

593,194

593,381

+

61

nad3

357

137,432

137,788

-

118

nad4

1,488

-

-

+

495

  nad4a

461

43,953

44,413

+

153

  nad4b

515

45,442

45,956

+

172

  nad4c

423

48,576

48,998

+

141

  nad4d

89

51,790

51,878

+

29

nad4L

315

263,099

263,413

+

104

nad5

2,013

-

-

-

670

  nad5a

228

637,049

637,277

-

76

  nad5b

1,218

634,967

636,186

-

406

  nad5c

21

76,157

76,177

-

7

  nad5d

396

237,378

237,773

-

132

  nad5e

150

236,297

236,446

-

49

nad6

945

510,437

511,381

-

314

nad7-1

1,185

-

-

+

394

  nad7-1a

143

213,945

214,087

+

47

  nad7-1b

69

214,890

214,958

+

23

  nad7-1c

467

216,269

216,735

+

155

  nad7-1d

244

217,735

217,978

+

81

  nad7-1e

262

219,684

219,945

+

86

nad7-2

1,185

-

-

-

394

  nad7-2a

143

449,072

449,214

-

47

  nad7-2b

69

448,201

448,269

-

23

  nad7-2c

467

446,424

446,890

-

155

  nad7-2d

244

445,181

445,424

-

81

  nad7-2e

262

443,214

443,475

-

86

nad9

573

669,561

670,133

+

190

2. Complex III gene

     

cob

1,194

232,540

233,733

+

397

3. Complex IV genes

     

cox1

1,989

1

1,989

+

662

cox2

783

-

-

+

260

  cox2a

388

484,835

485,222

+

130

  cox2b

395

486,506

486,897

+

130

cox3

843

670,403

671,245

+

280

4. Complex V genes

     

atp1

1,530

312,019

313,548

-

509

atp4

588

335,648

336,235

+

195

atp6

714

415,086

415,799

+

237

atp8

468

292,308

292,775

+

155

atp9

225

35,605

35,829

+

74

5. Cytochrome c

     

biogenesis genes

     

ccmB

651

132,035

132,685

-

216

ccmC

723

549,113

549,835

-

240

ccmFN

1,770

83,571

85,340

-

589

ccmFC

1,434

-

-

+

477

  ccmFCa

755

519,648

520,402

+

252

  ccmFCb

679

521,399

522,077

+

225

6. Ribosomal proteins

     

genes

     

rps1

636

82,801

83,436

-

211

rps2

1,464

575,833

577,296

+

487

rps3

1,650

-

-

+

549

  rps3a

72

228,586

228,657

+

24

  rps3b

1,578

229,590

231,167

+

525

rps4

1,035

93,583

94,617

-

344

rps4-p

1,032

603,531

604,562

+

343

rps7-1

447

177,808

178,254

-

148

rps7-2

447

380,279

380,725

+

148

rps12

378

137,010

137,387

-

125

rps13

351

248,209

248,559

-

116

rps14-1

159

190,863

191,021

+

52

rps14-2

159

472,138

472,296

-

52

rpl5-1

552

190,178

190,729

+

183

rpl5-2

552

472,430

472,981

-

183

rpl16

558

231,058

231,615

+

185

7. Other protein coding genes

     

matR

1,977

77,314

79,290

-

658

mttB

816

604,582

605,397

+

271

8. rRNA genes

     

rrn5-1

122

500,941

501,062

+

-

rrn5-2

122

568,955

569,076

+

-

rrn18-1

1,966

498,862

500,827

+

-

rrn18-2

1,966

566,875

568,841

+

-

rrn26-1

3,461

115,757

119,217

-

-

rrn26-2

3,457

348,904

352,360

+

-

Name of the gene a

Size b (bp)

Position in the genome

Strand b

tRNA type

Anti-codon

From

To

B. tRNA-coding genes

trnN

72

616,184

616,255

-

Asn

GTT

trnD-1

74

129,749

129,822

-

Asp

GTC

trnD-2

74

338,298

338,371

+

Asp

GTC

trnD-3

74

615,471

615,544

+

Asp

GTC

trnC-1

71

221,721

221,791

-

Cys

GCA

trnC-2

71

441,367

441,437

+

Cys

GCA

trnQ-1

72

151,087

151,158

+

Gln

TTG

trnQ-2

72

185,132

185,203

+

Gln

TTG

trnQ-3

72

407,374

407,445

-

Gln

TTG

trnQ-4

72

477,956

478,027

-

Gln

TTG

trnE

73

649,329

649,401

+

Glu

TTC

trnH

74

304,917

304,990

+

His

GTG

trnL

71

-

-

-

Leu

CAA

  trnLa

37

549,042

549,076

-

  

  trnLb

34

548,992

549,029

-

  

trnK-1

73

174,964

175,036

-

Lys

TTT

trnK-2

73

383,497

383,569

+

Lys

TTT

trnfM

74

11,905

11,978

-

Met

CAT

trnM-1

74

615,054

615,127

-

Met

CAT

trnM-2

73

630,497

630,569

+

Met

CAT

trnF

73

371,486

371,558

-

Phe

GAA

trnP-1

74

172,177

172,250

-

Pro

TGG

trnP-2

75

282,933

283,007

+

Pro

TGG

trnP-3

74

386,282

386,355

+

Pro

TGG

trnS-1

88

138,301

138,388

-

Ser

GCT

trnS-2

86

379,430

379,515

+

Ser

TGA

trnW-1

74

171,961

172,034

-

Trp

CCA

trnW-2

74

386,498

386,571

+

Trp

CCA

trnY

83

587,933

588,015

+

Tyr

GTA

trnF-p

73

262,935

263,007

+

Phe

GAA

  1. A total of 39 protein-coding genes and 6 rRNA-coding genes (A) and 28 tRNA-coding genes (B) were identified. ap, pseudogene; bBoldface, sum of all exons; lower-case letters, exons of protein-coding genes; hyphenated, duplicate genes; cPlus and minus, encoded by the forward and reverse DNA strand, respectively; x, trans-spliced.