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Table 2 Significant SNPs for number of teats and associated genes

From: Revealing new candidate genes for reproductive traits in pigs: combining Bayesian GWAS and functional pathways

SNP

Chr

Position (bp)

QTL

Gene

Distance (bp)a

ALGA0004864

1

99,713,078

–

–

–

ALGA0012925

2

34,084,545

–

–

–

ALGA0012930

2

34,177,927

–

–

–

ALGA0013045

2

40,181,443

–

LOC102167107

20,750

MARC0055904

2

40,328,584

–

SLC17A6

Inside

ASGA0032215

7

31,600,286

QTL 1

KLHL31

978

H3GA0020592

7

31,714,979

LOC102166539, LOC102166618, GCLC, LOC102167236 and LOC102167364

Inside

MARC0010879

7

31,869,398

MARC0098266

7

31,945,954

KHDRBS2

12,332

ALGA0039995

7

32,047,280

QTL 2

KHDRBS2

Inside

ALGA0040000

7

32,134,452

ASGA0032254

7

32,166,462

ASGA0032255

7

32,192,051

MARC0043689

7

32,252,888

INRA0024655

7

32,313,430

ASGA0032266

7

32,543,114

–

–

ALGA0040040

7

32,915,748

–

PRIM2

Inside

ASGA0034811

7

91,149,363

–

–

–

H3GA0022644

7

102,901,720

–

PTGR2

27,013

MARC0038565

7

103,495,170

–

VRTN

28,094

SYNDIG1L

5675

MARC0048752

7

103,789,642

QTL 3

AREL1

5892

M1GA0010654

7

103,796,933

FCF1, YLPM1, PROX2, DLST and RPS6KL1

Inside

ALGA0043962

7

103,816,521

H3GA0022664

7

103,910,821

ASGA0035527

7

103,933,199

DIAS0001088

7

103,960,033

M1GA0010658

7

103,999,954

–

LOC102167367

26,610

PGF

Inside

ASGA0035536

7

104,108,293

–

MLH3

16,923

LOC102167860

5573

ACYP1

Inside

ZC2HC1C

1044

NEK9

11,806

ALGA0122954

7

104,598,913

–

JDP2

Inside

LOC100624918/FLVCR2

8951

ASGA0035556

7

105,224,235

–

TGFB3

14,323

IFT43

Inside

MARC0093074

8

50,223,543

QTL 1

LOC102166479, C8H4orf45 and RAPGEF2

Inside

H3GA0024861

8

50,329,649

H3GA0024862

8

50,359,681

H3GA0024868

8

50,479,231

H3GA0052920

8

50,503,562

ASGA0038804

8

50,537,893

DRGA0008588

8

51,580,681

–

–

–

MARC0077695

8

53,929,233

–

–

–

ALGA0047895

8

55,647,917

QTL 2

LOC102159670

Inside

H3GA0024880

8

55,670,008

H3GA0024879

8

55,749,069

ALGA0047896

8

56,064,449

ASGA0038818

8

56,175,366

–

–

–

H3GA0024884

8

56,642,918

QTL 3

–

–

ASGA0038820

8

56,673,496

H3GA0024882

8

56,695,265

ASGA0038822

8

56,764,454

ALGA0047901

8

56,805,057

MARC0013221

8

57,262,741

–

LOC100519853/ZNF320

Inside

LOC102160850

692

INRA0029832

8

58,466,955

QTL 4

LOC102165777, NMU, LOC102166140, PDCL2, LOC102166866, CLOCK and LOC100523623/TMEM165

Inside

ALGA0047932

8

58,557,889

ALGA0047933

8

58,625,849

M1GA0011944

8

58,807,576

SRD5A3

13,606

MARC0000554

8

67,026,060

–

LOC100737487/EPHA5-like

Inside

ASGA0085207

8

69,065,977

QTL 5

–

–

MARC0020237

8

69,070,421

MARC0095739

8

69,146,481

ALGA0103392

8

69,146,919

ALGA0102491

8

69,215,722

ALGA0066725

12

50,281,949

QTL 1

METTL16, PAFAH1B1, LOC102165360, CLUH, LOC102165602/CCDC92

Inside

ASGA0054883

12

50,340,265

MARC0027202

12

50,489,072

ALGA0066740

12

50,578,018

DIAS0001557

12

55,962,023

–

PFAS

11,951

RANGRF

Inside

SLC25A35

163

ARHGEF15

8954

ODF4

31,445

ASGA0062949

14

43,688,399

–

TRPV4

4852

FAM222A

4716

  1. The table shows significant SNPs, their positions in base pairs (bp) on the swine chromosome (Chr), the QTL region, associated genes (genes located in a QTL region or in an interval of 32.5 Kbp around each QTL region or SNP), followed by their distance in base pairs of a single marker or in relation to the first or last SNP of the region
  2. aGene location in relation to the QTL region or to the single SNP
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Genetics Selection Evolution

ISSN: 1297-9686