Skip to main content

Table 1 The information of potential SNP markers

From: Identification of the genetic background of laboratory rats through amplicon-based next-generation sequencing for single-nucleotide polymorphism genotyping

Rs ID

Chromosome

Position

Alleles

Genotyping rate

PICa

rs8169141

1

254,790,912

A/G

94%

0.3668

rs13448358

1

33,719,774

C/T

99%

0.0000

rs8171835

2

242,598,784

A/G

94%

0.0000

rs8166528

2

233,674,127

C/T

99%

0.2604

rs8168881

2

22,555,749

T/G

99%

0.3782

rs8170208

2

19,891,632

A/G

94%

0.2949

rs13450855

3

45,404,901

A/T

99%

0.3758

rs8169763

3

41,936,742

T/C

99%

0.2876

rs8171848

3

17,179,381

T/C

94%

0.0000

rs8154128

3

11,884,035

G/A

99%

0.3749

rs8158616

3

13,306,212

G/A

99%

0.0565

rs8159769

4

18,948,897

C/T

99%

0.2516

rs13452837

4

14,526,973

T/C

99%

0.0000

rs8167403

4

41,345,566

G/A

99%

0.0000

rs8166799

4

154,107,521

C/T

99%

0.2949

rs8152852

4

179,028,705

A/G

98%

0.2817

rs8168444

4

5,491,949

C/A

99%

0.3693

rs8148930

4

13,297,375

C/T

99%

0.1435

rs8167441

5

9,338,221

T/C

99%

0.0905

rs8161751

5

49,121,997

C/T

99%

0.3165

rs13453278

5

16,754,298

G/A

99%

0.0000

rs13449280

5

56,879,740

T/G

99%

0.1638

rs8166045

6

21,240,076

G/C

98%

0.3270

rs8168649

6

10,870,450

G/T

99%

0.3740

rs13453541

6

3,878,961

T/C

99%

0.3637

rs13450235

6

25,726,532

T/G

99%

0.3294

rs13450129

6

14,005,543

T/C

99%

0.3701

rs13453721

6

24,943,950

T/C

99%

0.2647

rs8168175

6

132,669,062

C/T

99%

0.3137

rs8174435

7

121,344,313

A/G

99%

0.1818

rs8160832

7

131,352,435

C/T

97%

0.3744

rs8148130

7

134,435,255

G/A

99%

0.3245

rs8159460

7

19,679,357

T/C

99%

0.0000

rs8145290

7

133,456,396

G/C

99%

0.0000

rs8153704

7

12,021,844

A/G

99%

0.2172

rs8166824

7

129,267,219

G/A

99%

0.3015

rs8163140

7

120,262,470

C/T

99%

0.3108

rs13457692

8

27,934,196

A/G

99%

0.1401

rs8154618

8

30,731,507

G/A

99%

0.3015

rs8154587

8

27,281,855

C/A

98%

0.2407

rs8174221

8

29,553,942

G/A

99%

0.3637

rs13458265

8

31,141,988

T/C

99%

0.0000

rs8148423

9

98,293,815

A/G

99%

0.1435

rs13452633

9

15,864,247

A/G

99%

0.0000

rs8157693

9

107,325,142

G/A

99%

0.3502

rs8164803

9

3,672,785

T/C

99%

0.3677

rs8172917

9

111,386,127

T/C

97%

0.3078

rs8168207

9

17,891,861

C/A

99%

0.2471

rs13447862

9

7,221,768

C/T

99%

0.3701

rs8168969

9

90,474,795

C/T

99%

0.0000

rs8173256

10

8,191,041

T/C

99%

0.3384

rs8175088

10

11,499,089

C/T

99%

0.2688

rs8172635

10

95,062,487

G/A

99%

0.3498

rs8169565

10

10,642,572

C/T

99%

0.3589

rs13455236

10

105,806,576

T/C

99%

0.0565

rs13450304

11

69,302,699

C/T

97%

0.3876

rs8161849

11

17,020,361

A/G

99%

0.0739

rs8160264

11

58,562,755

T/C

99%

0.3463

rs8163017

11

31,166,852

A/G

99%

0.0000

rs13452810

11

83,957,805

G/T

99%

0.3341

rs13453039

11

67,007,616

T/C

99%

0.0000

rs8149407

11

82,927,813

T/G

98%

0.2471

rs8168227

12

2,664,391

C/T

99%

0.1638

rs8160963

12

41,131,365

A/G

98%

0.3701

rs8167270

12

33,980,489

T/G

99%

0.3896

rs8154321

12

1,743,850

A/G

98%

0.0000

rs8171585

12

25,868,848

T/G

99%

0.1638

rs13449675

12

42,886,710

C/T

99%

0.3047

rs8157662

12

31,362,048

A/C

97%

0.2806

rs8161193

12

32,623,410

G/A

99%

0.1766

rs8164165

12

759,084

T/C

99%

0.0000

rs8151157

13

38,963,744

T/G

99%

0.3668

rs13455507

13

21,660,005

C/T

99%

0.2376

rs8154112

13

45,648,357

A/T

99%

0.1766

rs13450894

13

31,024,434

C/T

99%

0.1638

rs8174376

13

43,056,898

T/C

99%

0.3734

rs8164488

14

99,591,611

G/A

99%

0.2806

rs8163179

14

62,348,810

A/G

99%

0.0099

rs8170866

14

104,144,989

A/G

99%

0.2327

rs8173076

14

35,961,730

A/G

97%

0.0000

rs8170012

14

35,197,685

G/T

98%

0.0000

rs8170416

14

57,835,181

T/G

99%

0.1703

rs13450626

14

58,170,161

T/C

99%

0.0000

rs13450107

14

82,028,126

C/T

99%

0.2376

rs8170216

15

17,086,551

C/T

99%

0.0000

rs8164192

15

70,213,143

A/G

99%

0.3243

rs8154696

15

100,399,944

C/T

97%

0.3444

rs8162908

15

957,738

C/T

99%

0.1364

rs8153931

15

3,458,579

A/G

99%

0.3356

rs13457157

15

12,877,583

C/A

98%

0.1064

rs8164746

16

68,781,793

T/C

99%

0.3165

rs8160858

16

46,943,096

G/A

98%

0.3922

rs8171061

16

69,564,078

C/T

99%

0.0000

rs8151192

16

66,083,042

C/T

99%

0.1064

rs8165937

16

5,175,148

C/T

99%

0.3839

rs13455465

16

74,647,415

C/G

88%

0.3640

rs8160129

17

74,776,044

C/T

99%

0.0000

rs8163385

17

71,831,856

C/T

99%

0.1364

rs8163926

17

9,958,295

A/G

99%

0.2376

rs8168707

17

29,009,092

C/G

99%

0.0000

rs8160522

17

77,907,236

G/A

99%

0.3245

rs8173582

17

15,611,034

A/G

99%

0.3444

rs13447922

18

15,917,628

G/A

99%

0.3704

rs24888722

18

21,894,719

G/A

/

/

rs8165131

18

26,502,952

C/T

99%

0.3714

rs8168577

18

23,579,593

G/A

99%

0.2915

rs8164263

18

4,877,659

C/T

99%

0.3561

rs8172792

19

14,103,717

C/T

99%

0.0476

rs8167553

19

37,075,508

T/C

99%

0.0000

rs8171189

19

13,375,868

A/C

99%

0.3575

rs13455797

19

47,468,591

T/C

99%

0.2172

rs8164881

19

9,709,609

T/G

99%

0.0000

rs8170006

20

43,702,231

G/A

99%

0.3425

rs13451851

20

25,692,991

G/C

99%

0.3301

rs8165677

20

13,024,999

T/G

99%

0.2561

rs8168563

20

47,398,076

A/G

99%

0.3822

rs13449954

20

28,061,010

C/T

99%

0.3301

rs13456641

X

64,050,620

C/T

99%

0.3741

rs24888620

X

135,127,326

T/C

99%

0.1142

rs8174979

X

1,623,313

C/T

99%

0.2172

rs8144657

X

1,508,772

G/A

/

/

rs8171592

X

121,436,171

A/C

/

/

rs13450524

X

14,849,683

A/G

/

/

Average

/

/

/

98.66%

0.22

  1. a: polymorphism information content (PIC)