Table 2

Structural variants (SVs) between C57BL/6N and C57BL/6J

Chr

SV starta

SV stopa

Ancestral event

Strain

Gene

Overlap


1

149518394

149524878

LINE Ins

B6J

-

-

2

7325700

7330977

IAP Ins

B6J

-

-

2

70619835

70620080

SINE Ins

B6J

Tlk1

Intron

3

77975065

77977953

Del

B6N

-

-

3

5049018

5055845

LINE Ins

B6J

-

-

3

60336036

60336037

Del (large)

B6J

Mbnl1

Intron

3

41885819

41887255

LINE Ins

B6J

-

-

3

18484710

18484889

Del

B6N

-

-

4

101954274

101954395

Del

B6N

Pde4b

Intron

4

116051393

116051799

MaLR Ins

B6J

Mast2

Intron

5

46376307

46377852

LINE Ins

B6J

-

-

5

90356490

90356491

Del (~300 bp)

B6J

-

-

5

146248861

146261885

Ins

B6J+others

-

-

6

18112291

18119019

LINE Ins

B6J

-

-

6

62964974

62972907

LINE Ins

B6J

-

-

6

86478779

86479400

Ins

B6J

-

-

6

103669536

103676487

LINE Ins

B6J

Chl1

Intron

6

104207081

104214434

LINE Ins

B6J

-

-

7

92095990

92096149

Del

B6N

Vmn2r65

Exon

7

27636128

27748456

Ins

B6J

Cyp2a22

Entire

7

100892501

100899058

LINE Ins

B6J

-

-

7

139306094

139307981

MaLR Ins

B6J

Cpxm2

Intron

8

16716381

16716382

Del (large)

B6J

Csmd1

Intron

9

25674550

25674770

SINE Ins

B6J

-

-

9

58544415

58546304

MaLR Ins

B6J

2410076I21Rik

Intron

10

3039196

3039197

Del (large)

B6J

-

-

10

29339441

29345955

LINE Ins

B6J

-

-

10

32536420

32543464

LINE Ins

B6J

Nkain2

Intron

10

49543303

49550645

LINE Ins

B6J

-

-

11

104906390

104906621

Del

B6N

-

-

11

119560391

119566827

MTA Ins

B6J

Rptor

Intron

12

42023964

42032747

Del

B6N

Immp2l

Intron

13

71224557

71231011

MTA Ins

B6J

-

-

13

120164268

120164269

Del (large)

B6J

Nnt

Exon

14

112825585

112832341

LINE Ins

B6J

-

-

15

49554596

49554597

Ins (large)

B6N

-

-

15

31106173

31106382

VNTR

-

-

-

16

6115804

6138105

Del

B6N

-

-

17

60286367

60286368

Ins (~2000 bp)

B6N

-

-

18

4809271

4809272

Del (~1200 bp)

B6J

-

-

19

12863187

12863188

Del (~1800 bp)

B6J

Zfp91

Intron

X

15697909

15697910

Del (~400 bp)

B6J

-

-

X

95155499

95163160

LINE Ins

B6J

-

-


Abbreviations: Del, deletion; IAP, intracisternal A particle; Ins, insertion; LINE, long interspersed nuclear element; MaLR, mammalian apparent long terminal repeat retrotransposon; MTA, member of transcript retrotransposon; SINE, short interspersed nuclear element; VNTR, variable number tandem repeat.

aStart and stop coordinates are given for MGSCv37 of the mouse reference genome.

Simon et al. Genome Biology 2013 14:R82   doi:10.1186/gb-2013-14-7-r82

Open Data