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Table 2 Nucleotide substitution rates estimated from alignments of human and chimpanzee orthologous CT ORFs

From: Rapid evolution of cancer/testis genes on the X chromosome

Gene Name

Refseq

Chromosome

dN

dS

dN/dS

ACTL8

NM_030812

1

0.0012

0.0170

0.0700

BRDT

NM_207189

1

0.0066

0.0071

0.9216

HORMAD1

NM_032132

1

0.0068

0.0104

0.6485

LEMD1

NM_001001552

1

0.0044

0.0327

0.1342

PRAMEF1

NM_023013

1

0.0162

0.0288

0.5624

PRAMEF2

NM_023014

1

0.0304

0.0317

0.9573

PRAMEF3

NM_001013692

1

0.0223

0.0269

0.8278

PRAMEF4

NM_001009611

1

0.0284

0.0305

0.9314

PRAMEF5

NM_001013407

1

0.0353

0.0586

0.6025

PRAMEF6

NM_001010889

1

0.0142

0.0149

0.9479

PRAMEF8

NM_001012276

1

0.0141

0.0262

0.5383

PRAMEF10

NM_001039361

1

0.0184

0.0262

0.7029

PRAMEF16

NM_001045480

1

0.0253

0.0236

1.0734

SYCP1

NM_003176

1

0.0050

0.0123

0.4093

BX103208

BX103208

3

0.0000

0.0346

0.0009

CCDC36

NM_178173

3

0.0065

0.0118

0.5502

MORC1

NM_014429

3

0.0071

0.0112

0.6325

CCDC110

NM_152775

4

0.0081

0.0142

0.5694

MGC27016

NM_144979

4

0.0017

0.0166

0.0994

SLCO6A1

NM_173488

5

0.0083

0.0093

0.8940

TAG1

AY328030

5

0.0001

0.1321

0.0009

BC040308

BC040308

6

0.0381

0.0004

∞

CRISP2

NM_003296

6

0.0034

0.0078

0.4355

DDX43

NM_018665

6

0.0046

0.0084

0.5422

TDRD6

NM_001010870

6

0.0029

0.0077

0.3756

ZNF165

NM_003447

6

0.0028

0.0083

0.3332

AA884595

AA884595

7

0.0000

0.0000

0.4503

BAGE2

NM_182482

7

0.0000

0.0000

0.4741

ADAM2

NM_001464

8

0.0090

0.0102

0.8787

TEX15

NM_031271

8

0.0064

0.0103

0.6188

BAGE

NM_001187

9

0.0000

0.0441

0.0009

ARMC3

NM_173081

10

0.0049

0.0142

0.3479

SYCE1

NM_130784

10

0.0073

0.0105

0.6979

TDRD1

NM_198795

10

0.0035

0.0085

0.4101

LDHC

NM_002301

11

0.0000

0.0070

0.0009

TPTE

NM_199261

13

0.0118

0.0095

1.2398

CTAGE5

NM_203356

14

0.0029

0.0082

0.3578

BC048128

BC048128

15

0.0077

0.0143

0.5355

CASC5

NM_170589

15

0.0084

0.0116

0.7226

CCDC33

NM_182791

15

0.0093

0.0192

0.4835

Klkbl4

XM_375358

16

0.0051

0.0109

0.4713

HSPB9

NM_033194

17

0.0112

0.0184

0.6077

CTAGE1

NM_172241

18

0.0108

0.0204

0.5311

COX6B2

NM_144613

19

0.0047

0.0138

0.3413

DKKL1

NM_014419

19

0.0055

0.0060

0.9034

NALP4

NM_134444

19

0.0090

0.0180

0.4981

THEG

NM_016585

19

0.0100

0.0091

1.1002

TULP2

NM_003323

19

0.0059

0.0056

1.0501

CTCFL

NM_080618

20

0.0124

0.0169

0.7316

SPINLW1

NM_181502

20

0.0134

0.0262

0.5122

SPO11

NM_012444

20

0.0044

0.0119

0.3679

PRAME

NM_006115

22

0.0191

0.0162

1.1798

CPXCR1

NM_033048

X

0.0104

0.0047

2.2411

CSAG1

NM_153478

X

0.0622

0.0006

∞

CSAG2

NM_004909

X

0.0163

0.0266

0.6138

CT45-2

NM_152582

X

0.0207

0.0002

∞

DDX53

NM_182699

X

0.0159

0.0109

1.4567

FATE1

NM_033085

X

0.0025

0.0142

0.1755

FMR1NB

NM_152578

X

0.0374

0.0228

1.6405

FTHL17

NM_031894

X

0.0150

0.0002

∞

GAGE4

NM_001474

X

0.0273

0.0117

2.3392

GAGE8

NM_012196

X

0.0244

0.0320

0.7617

LUZP4

NM_016383

X

0.0129

0.0138

0.9364

MAGEA10

NM_001011543

X

0.0083

0.0058

1.4380

MAGEA11

NM_001011544

X

0.0050

0.0055

0.9233

MAGEA12

NM_005367

X

0.0057

0.0222

0.2586

MAGEA2

NM_175743

X

0.0133

0.0126

1.0583

MAGEA4

NM_002362

X

0.0129

0.0086

1.4989

MAGEA5

NM_021049

X

0.0119

0.0001

∞

MAGEA8

NM_005364

X

0.0045

0.0074

0.6156

MAGEA9

NM_005365

X

0.0131

0.0171

0.7667

MAGEB1

NM_002363

X

0.0085

0.0129

0.6585

MAGEB2

NM_002364

X

0.0189

0.0068

2.7789

MAGEB3

NM_002365

X

0.0124

0.0001

∞

MAGEB4

NM_002367

X

0.0070

0.0133

0.5249

MAGEB5

XM_293407

X

0.0098

0.0117

0.8398

MAGEB6

NM_173523

X

0.0229

0.0157

1.4654

NXF2

NM_017809

X

0.0111

0.0125

0.8884

PAGE1

NM_003785

X

0.0102

0.0001

∞

PAGE2B

NM_001015038

X

0.0379

0.0117

3.2472

PAGE3

NM_001017931

X

0.0092

0.0087

1.0551

PAGE4

NM_007003

X

0.0000

0.0000

0.4989

PAGE5

NM_130467

X

0.0124

0.0001

∞

SAGE1

NM_018666

X

0.0096

0.0083

1.1487

SPANX-N2

NM_001009615

X

0.0216

0.0265

0.8131

SPANX-N4

NM_001009613

X

0.0151

0.0207

0.7276

SPANX-N5

NM_001009616

X

0.0000

0.0000

0.3869

SPANXD

NM_032417

X

0.1423

0.1107

1.2849

SSX1

NM_005635

X

0.0211

0.0057

3.7126

SSX2

NM_003147

X

0.0456

0.0373

1.2216

SSX4

NM_005636

X

0.0180

0.0059

3.0628

SSX5

NM_021015

X

0.0681

0.0622

1.0946

SSX8

NM_174961

X

0.0182

0.0002

∞

SSX9

NM_174962

X

0.0248

0.0208

1.1926

XAGE1

NM_133431

X

0.0145

0.0079

1.8487

XAGE2

NM_130777

X

0.0079

0.0001

∞

XAGE3

NM_133179

X

0.0046

0.0179

0.2556

XAGE5

NM_130775

X

0.0085

0.0118

0.7165

TSPY1

NM_003308

Y

0.0158

0.0241

0.6575

  1. Synonymous (dS) and nonsynonymous (dN) nucleotide substitution rates were estimated using codeml from PAML [24] as described in Methods. Genes are presented by chromosomal location. '∞' denotes cases in which the dN/dS ratio cannot be calculated because the number of synonymous substitutions between the human and chimp sequences is zero.
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