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Table 3 Genes and transcripts located in the QTL candidate regions for Campylobacter resistance with the highest variation among the two parental lines. (A) Backcross experiment (B) Advanced Intercross Experiment

From: The genomic architecture of resistance to Campylobacter jejuni intestinal colonisation in chickens

Gene

Transcript

Chr

dN/dS

dN/L

exon_rate

intron_rate

A

ENSGALG00000026721

ENSGALT00000043718

7

3

0.002441

0.003247

No introns

FAM134A

ENSGALT00000018495

7

3

0.002098

0.002797

0.006759

RALB

ENSGALT00000018997

7

3

0.004342

0.00519

0.00601

IFIH1

ENSGALT00000018067

7

2

0.000608

0.000743

0.000568

ARPC2

ENSGALT00000018675

7

2

0.001768

0.002418

0.003158

PECR

ENSGALT00000018735

7

2

0.002235

0.003007

0.006175

LZTR1

ENSGALT00000046043

7

2

0.002436

0.003925

0.003483

NIFK

ENSGALT00000019039

7

2

0.002424

0.002251

0.006897

CCDC14

ENSGALT00000019150

7

2

0.000729

0.001017

0.004697

TTC21B

ENSGALT00000038446

7

1.75

0.001702

0.002346

0.004126

SMARCAL1

ENSGALT00000018709

7

1.333333

0.001388

0.004471

0.005288

C16orf96

ENSGALT00000042897

14

1.25

0.008818

0.014139

0.00646

COBLL1

ENSGALT00000018021

7

1.2

0.001736

0.003179

0.003251

OBSL1

ENSGALT00000018337

7

1.142857

0.002852

0.00482

0.009001

SLX4

ENSGALT00000046089

14

1

0.001744

0.004729

0.005968

SLC38A11

ENSGALT00000018002

7

1

0.000749

0.003485

0.007136

FIGN

ENSGALT00000018023

7

1

0.000446

0.000892

No introns

FAP

ENSGALT00000018083

7

1

0.000444

0.001297

0.002828

ASIC4

ENSGALT00000018356

7

1

0.001254

0.002503

0.008669

ZFAND2B

ENSGALT00000044043

7

1

0.002137

0.004343

0.007585

SLC11A1

ENSGALT00000018510

7

1

0.00119

0.002381

0.009314

C16orf96

ENSGALT00000042897

14

1.25

0.008818

0.014139

0.00646

ENSGALG00000023695

ENSGALT00000039593

14

NA

0.005587

0.00534

0.002789

RALB

ENSGALT00000018997

7

3

0.004342

0.00519

0.00601

GJD3

ENSGALT00000018322

7

NA

0.003421

0.003421

0.008052

OBSL1

ENSGALT00000018337

7

1.142857

0.002852

0.00482

0.009001

ENSGALG00000026721

ENSGALT00000043718

7

3

0.002441

0.003247

No introns

LZTR1

ENSGALT00000046043

7

2

0.002436

0.003925

0.003483

NIFK

ENSGALT00000019039

7

2

0.002424

0.002251

0.006897

ENSGALG00000023707

ENSGALT00000039621

14

0.285714

0.002304

0.010333

0.008303

CCDC108

ENSGALT00000018523

7

0.75

0.002268

0.005093

0.009366

PECR

ENSGALT00000018735

7

2

0.002235

0.003007

0.006175

TMEM169

ENSGALT00000038136

7

1

0.002176

0.003236

0.007113

ZFAND2B

ENSGALT00000044043

7

1

0.002137

0.004343

0.007585

FAM134A

ENSGALT00000018495

7

3

0.002098

0.002797

0.006759

CYP27A1

ENSGALT00000003899

7

0.75

0.001911

0.004882

0.003762

RACGAP1

ENSGALT00000018359

7

0.6

0.001808

0.004455

0.007782

NHEJ1

ENSGALT00000018498

7

1

0.001795

0.011236

0.006046

ARPC2

ENSGALT00000018675

7

2

0.001768

0.002418

0.003158

SLX4

ENSGALT00000046089

14

1

0.001744

0.004729

0.005968

COBLL1

ENSGALT00000018021

7

1.2

0.001736

0.003179

0.003251

C16orf96

ENSGALT00000042897

14

1.25

0.008818

0.014139

0.00646

MNR2

ENSGALT00000018518

7

0

0

0.012723

0.00565

NHEJ1

ENSGALT00000018498

7

1

0.001795

0.011236

0.006046

TUBA4A

ENSGALT00000018477

7

0

0

0.010549

0.004069

ENSGALG00000023707

ENSGALT00000039621

14

0.285714

0.002304

0.010333

0.008303

TUBA4A

ENSGALT00000038318

7

0.058824

0.000729

0.010204

0.017134

HSPBAP1

ENSGALT00000019085

7

0.25

0.001374

0.006512

0.006158

C2orf62

ENSGALT00000029291

7

0.166667

0.000938

0.006416

0.008264

ABCB6

ENSGALT00000038272

7

0.2

0.000805

0.006006

0.007832

ERCC3

ENSGALT00000018775

7

0

0

0.005964

0.01652

PLA2R1

ENSGALT00000033111

7

0.5

0.00138

0.005762

0.008359

STK16

ENSGALT00000018480

7

0

0

0.005722

0.006693

ENSGALG00000023695

ENSGALT00000039593

14

NA

0.005587

0.00534

0.002789

GLB1L

ENSGALT00000018482

7

0.5

0.001586

0.005227

0.012599

RALB

ENSGALT00000018997

7

3

0.004342

0.00519

0.00601

CCDC108

ENSGALT00000018523

7

0.75

0.002268

0.005093

0.009366

CYP27A1

ENSGALT00000003899

7

0.75

0.001911

0.004882

0.003762

EPB41L5

ENSGALT00000018952

7

0

0

0.004822

0.006925

OBSL1

ENSGALT00000018337

7

1.142857

0.002852

0.00482

0.009001

SPEG

ENSGALT00000043042

7

0.194444

0.000763

0.004805

0.005843

TUBA4A

ENSGALT00000038318

7

0.058824

0.000729

0.010204

0.017134

ERCC3

ENSGALT00000018775

7

0

0

0.005964

0.01652

GLB1L

ENSGALT00000018482

7

0.5

0.001586

0.005227

0.012599

RUFY4

ENSGALT00000043062

7

0.333333

0.001133

0.003315

0.01241

ATG9A

ENSGALT00000019038

7

0

0

0.002891

0.011987

RPL37A

ENSGALT00000018702

7

0

0

0

0.011268

C16orf5

ENSGALT00000012346

14

0

0

0.002632

0.011263

AAMP

ENSGALT00000018663

7

0

0

0.001614

0.010427

DES

ENSGALT00000018446

7

0

0

0.003731

0.010335

CTDSP1

ENSGALT00000045561

7

0

0

0.001002

0.010093

ANKZF1

ENSGALT00000018493

7

0

0

0.004431

0.010028

IGFBP2

ENSGALT00000018698

7

0

0

0.003279

0.009894

CCDC108

ENSGALT00000018523

7

0.75

0.002268

0.005093

0.009366

SLC23A3

ENSGALT00000018510

7

1

0.00119

0.002381

0.009314

OBSL1

ENSGALT00000018337

7

1.142857

0.002852

0.00482

0.009001

ASIC4

ENSGALT00000018356

7

1

0.001254

0.002503

0.008669

LY75

ENSGALT00000018187

7

0.266667

0.000775

0.00358

0.008563

PLA2R1

ENSGALT00000033111

7

0.5

0.00138

0.005762

0.008359

ENSGALG00000023707

ENSGALT00000039621

14

0.285714

0.002304

0.010333

0.008303

C2orf62

ENSGALT00000029291

7

0.166667

0.000938

0.006416

0.008264

ARHGEF1

ENSGALT00000045992

7

0

0

0.002606

0.008085

B

Gene

Transcript

Chr

dN/dS

dN/L

exon rate

intron rate

BF2

ENSGALT00000046170

16

9

0.00878

0.009381

0.010121

BF2

ENSGALT00000000139

16

9

0.00885

0.009452

0.01004

BF2

ENSGALT00000044107

16

9

0.00858

0.013504

0.010373

BF2

ENSGALT00000043207

16

9

0.008515

0.013432

0.01046

RASSF6

ENSGALT00000019068

4

2

0.001974

0.005961

0.006711

BLB1

ENSGALT00000008925

16

2

0.002994

0.002985

0

TRIM27

ENSGALT00000000172

16

1.666667

0.003915

0.006672

0.007874

TAPBP

ENSGALT00000000203

16

1.333333

0.00312

0.005109

0.010619

C16orf96

ENSGALT00000042897

14

1.25

0.008818

0.014139

0.00646

TNXB

ENSGALT00000000238

16

1.25

0.002016

0.003629

0.001132

SLX4

ENSGALT00000046089

14

1

0.001744

0.004729

0.005968

TAPBP

ENSGALT00000044889

16

1

0.002132

0.003899

0.010359

SLX4

ENSGALT00000012367

14

0.875

0.001439

0.004358

0.006141

ENSGALG00000028367

ENSGALT00000045620

16

0.75

0.002477

0.00578

0.013439

TAP2

ENSGALT00000000237

16

0.666667

0.00382

0.009537

0.014909

BG1

ENSGALT00000045385

16

0.6

0.005976

0.016882

0.010126

TRAP1

ENSGALT00000012459

14

0.5

0.000965

0.003201

0.007825

HLADMB

ENSGALT00000041213

16

0.5

0.002865

0.008137

0.006479

TCLEC2D

ENSGALT00000000183

16

0.5

0.001789

0.005938

0.011905

TRIM41

ENSGALT00000045935

16

0.5

0.001744

0.004208

0.00173

TRIM27

ENSGALT00000042650

16

0.5

0.000892

0.002676

0.003241

BNK

ENSGALT00000000188

16

NA

0.013462

0.011445

0.003878

BF2

ENSGALT00000000139

16

9

0.00885

0.009452

0.01004

C16orf96

ENSGALT00000042897

14

1.25

0.008818

0.014139

0.00646

BF2

ENSGALT00000046170

16

9

0.00878

0.009381

0.010121

BF2

ENSGALT00000044107

16

9

0.00858

0.013504

0.010373

BF2

ENSGALT00000043207

16

9

0.008515

0.013432

0.01046

BG1

ENSGALT00000045385

16

0.6

0.005976

0.016882

0.010126

ENSGALG00000023695

ENSGALT00000039593

14

NA

0.005587

0.00534

0.002789

TRIM27

ENSGALT00000000172

16

1.666667

0.003915

0.006672

0.007874

TAP2

ENSGALT00000000237

16

0.666667

0.00382

0.009537

0.014909

ZNF692

ENSGALT00000031515

16

0.454545

0.003215

0.00949

0.01307

Hep21

ENSGALT00000000164

16

NA

0.003145

0.00316

0.008

TAPBP

ENSGALT00000000203

16

1.333333

0.00312

0.005109

0.010619

BLB1

ENSGALT00000008925

16

NA

0.002994

0.002985

0

HLADMB

ENSGALT00000041213

16

0.5

0.002865

0.008137

0.006479

DMB2

ENSGALT00000000222

16

0.4

0.002581

0.010393

0.014409

ENSGALG00000028367

ENSGALT00000045620

16

0.75

0.002477

0.00578

0.013439

ENSGALG00000023707

ENSGALT00000039621

14

0.285714

0.002304

0.010333

0.008303

TAPBP

ENSGALT00000044889

16

1

0.002132

0.003899

0.010359

TNXB

ENSGALT00000000238

16

1.25

0.002016

0.003629

0.001132

RASSF6

ENSGALT00000019068

4

2

0.001974

0.005961

0.006711

BG1

ENSGALT00000045385

16

0.6

0.005976

0.016882

0.010126

C16orf96

ENSGALT00000042897

14

1.25

0.008818

0.014139

0.00646

BF2

ENSGALT00000044107

16

9

0.00858

0.013504

0.010373

BF2

ENSGALT00000043207

16

9

0.008515

0.013432

0.01046

BNK

ENSGALT00000000188

16

NA

0.013462

0.011445

0.003878

DMB2

ENSGALT00000000222

16

0.4

0.002581

0.010393

0.014409

ENSGALG00000023707

ENSGALT00000039621

14

0.285714

0.002304

0.010333

0.008303

TAP2

ENSGALT00000000237

16

0.666667

0.00382

0.009537

0.014909

LOC422654

ENSGALT00000041397

4

0

0

0.009533

0

ZNF692

ENSGALT00000031515

16

0.454545

0.003215

0.00949

0.01307

BF2

ENSGALT00000000139

16

9

0.00885

0.009452

0.01004

BF2

ENSGALT00000046170

16

9

0.00878

0.009381

0.010121

HLADMB

ENSGALT00000041213

16

0.5

0.002865

0.008137

0.006479

DMB2

ENSGALT00000041214

16

0

0

0.008121

0.011547

TAP1

ENSGALT00000045907

16

0.230769

0.001726

0.006978

0.010147

TRIM27

ENSGALT00000000172

16

1.666667

0.003915

0.006672

0.007874

IL4I1

ENSGALT00000000109

16

0.428571

0.001912

0.006361

0.005435

RASSF6

ENSGALT00000019068

4

2

0.001974

0.005961

0.006711

TCLEC2D

ENSGALT00000000183

16

0.5

0.001789

0.005938

0.011905

ENSGALG00000028367

ENSGALT00000045620

16

0.75

0.002477

0.00578

0.013439

TAP2

ENSGALT00000000237

16

0.666667

0.00382

0.009537

0.014909

DMB2

ENSGALT00000000222

16

0.4

0.002581

0.010393

0.014409

ENSGALG00000028367

ENSGALT00000045620

16

0.75

0.002477

0.00578

0.013439

ZNF692

ENSGALT00000031515

16

0.454545

0.003215

0.00949

0.01307

TCLEC2D

ENSGALT00000000183

16

0.5

0.001789

0.005938

0.011905

DMB2

ENSGALT00000041214

16

0

0

0.008121

0.011547

CXCLi1

ENSGALT00000019072

4

0

0

0.001606

0.011457

C16orf5

ENSGALT00000012346

14

0

0

0.002632

0.011263

TAPBP

ENSGALT00000000203

16

1.333333

0.00312

0.005109

0.010619

BF2

ENSGALT00000043207

16

9

0.008515

0.013432

0.01046

BF2

ENSGALT00000044107

16

9

0.00858

0.013504

0.010373

TAPBP

ENSGALT00000044889

16

1

0.002132

0.003899

0.010359

TAP1

ENSGALT00000045907

16

0.230769

0.001726

0.006978

0.010147

BG1

ENSGALT00000045385

16

0.6

0.005976

0.016882

0.010126

BF2

ENSGALT00000046170

16

9

0.00878

0.009381

0.010121

BF2

ENSGALT00000000139

16

9

0.00885

0.009452

0.01004

BMA1

ENSGALT00000000214

16

0.25

0.001274

0.005488

0.010015

C4

ENSGALT00000044830

16

0.421053

0.001616

0.005525

0.008507

DNASE

ENSGALT00000039621

14

0.285714

0.002304

0.010333

0.008303

TRAP1

ENSGALT00000012459

14

0.5

0.000965

0.003201

0.007825

RASSF6

ENSGALT00000019068

4

2

0.001974

0.005961

0.006711

  1. Non synonymous SNVs/synonymous SNVs(dN/dS); non synonymous SNVs/CDS length (dN/L); NA = no synonymous SNV present; with bold is the rate based on which the genes were ranked
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BMC Genomics

ISSN: 1471-2164

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