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Table 2 Genome wide significant SNPs for goat udder traits in the New Zealand goat population

From: A Capra hircus chromosome 19 locus linked to milk production influences mammary conformation

Trait

SNP,

Chr:Pos

dbSNP number

-log10(P-value)1

Annotation

Nearest gene

Distance to nearest gene, kb

MAF2

UD

19:25,413,768

rs268243473

8.37

Intergenic

WSCD1

53.48

0.352

UD

19:25,782,297

rs268243466

7.48

Intergenic

NLRP1

57.74

0.265

UD, RUA

19:25,823,025

rs268243465

10.53–12.07

Intergenic

NLRP1

40.73

0.370

UD

19:26,029,220

rs268243461

9.26

Intron

RABEP1

Within gene 

0.249

UD, FUA, RUA

19:26,072,328

rs268243460

7.53–14.88

Intergenic

RABEP1

17.63

0.447

UD, RUA

19:26,115,456

rs268243459

8.30–12.83

Intergenic

ZNF232

23.45

0.278

UD, RUA

19:26,148,755

rs268291686

10.03–13.23

Downstream

ZFP3

1.30

0.409

UD, FUA, RUA

19:26,192,128

rs268243458

10.63–21.50

Downstream

KIF1C

3.80

0.417

UD, FUA, RUA

19:26,420,506

rs268256399

8.31–20.09

Intron

ZMYND15

Within gene

0.423

UD, RUA

19:26,542,254

rs268256402

9.29–12.41

Downstream

ALOX12

50.98

0.285

UD, FUA, RUA

19:26,578,775

rs268256403

10.58–19.47

Intergenic

ALOX12

14.46

0.406

UD, FUA, RUA

19:26,610,610

rs268292132

11.57–22.65

Synonymous

RNASEK

Within gene

0.471

UD, FUA, RUA

19:26,662,281

rs268256404

9.39–19.99

Intron

ASGR2

Within gene

0.454

UD

19:26,724,454

rs268256405

10.33

Intron

DLG4

Within gene

0.233

UD

19:26,780,952

rs268256406

9.40

Downstream

ELP5

0.19

0.226

UD, FUA, RUA

19:26,907,844

rs268256408

7.76–10.81

Synonymous

NLGN2

Within gene

0.340

UD, FUA, RUA

19:27,401,023

rs268256418

8.39–19.31

Intron

GUCY2D

Within gene

0.379

UD, RUA

19:27,480,793

rs268256419

12.44–18.06

Intron

ALOXE3

Within gene

0.418

UD, RUA

19:27,529,983

rs268256420

10.98–16.18

Intron

VAMP2

Within gene

0.407

UD

19:27,558,520

rs268256421

9.18

Intron

TMEM107

Within gene

0.308

UD

19:27,605,322

rs268256422

9.04

Intron

CTC1

Within gene

0.288

UD, RUA

19:27,646,998

rs268256423

7.39–10.66

Upstream

SLC25A35

1.18

0.254

UD, RUA

19:28,038,645

rs268256430

10.58–14.48

Intron

PIK3R6

Within gene

0.458

UD

19:28,202,268

rs268256435

7.57

Intergenic

NTN1

5.68

0.350

UD

19:28,348,471

rs268241939

7.51

Intron

NTN1

Within gene

0.266

UD

19:28,832,418

rs268241930

8.56

Intron

GAS7

Within gene

0.360

UD

19:28,953,102

rs268241927

9.13

Intron

GAS7

Within gene

0.270

  1. 12SNPs were considered significant if they exceed the genome wide significance threshold of -log10(5 × 10−8). MAF, Minor allele frequency; RUA, Rear udder attachment; UD, Udder depth; FUA, Fore udder attachment