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Table 5 Genes linked to the 43 genome-wide significant SNPs for yields of milk, fat, protein and somatic cell score in New Zealand dairy goats

From: Genome-wide association studies of lactation yields of milk, fat, protein and somatic cell score in New Zealand dairy goats

Chra

Position

Traitb

−log10(P)

Annotation

Gene name

Gene description

14

81,658,443

FY

9.21

Upstream

ZNF16

Zinc finger protein 16

19

24,836,694

SCS

6.97

Intron

MYBBP1A

MYB binding protein 1a

19

25,087,981

MY, PY

6.7.2–7.7

Intron

KIAA0753

KIAA0753 ortholog

19

25,413,768

MY, FY, PY

7.2–7.7

Intergenic

WSCD1

WSC domain containing 1

19

25,782,297

MY

6.7

Intergenic

NLRP1

NLR family pyrin domain containing 1

19

25,823,025

MY, FY, PY

9.9–12.5

Intergenic

NLRP1

NLR family pyrin domain containing 1

19

26,072,328

MY, FY, PY

16.3–19.3

Intergenic

RABEP1

Rabaptin, RAB GTPase binding effector protein 1

19

26,115,456

MY, FY, PY

6.0–7.4

Intergenic

ZNF232

Zinc finger protein 232

19

26,148,755

MY, FY, PY

16.6–20.1

Downstream

ZFP3

Zinc finger protein

19

26,192,128

MY, FY, PY

15.2–17.1

Downstream

KIF1C

KIF1C Kinesin family member 1C

19

26,420,506

MY, FY, PY

13.5–15.2

Intron

ZMYND15

Zinc finger MYND-type containing 15

19

26,542,254

MY, FY, PY

6.7.3–7.7

Downstream

None

Arachidonate 12-lipoxygenase, epidermal-type

19

26,578,775

MY, FY, PY, SCS

6.5–16.4

Intergenic

None

Arachidonate 12-lipoxygenase, epidermal-type

19

26,610,610

MY, FY, PY, SCS

8.2–22.5

Synonymous

RNASEK

Ribonuclease K

19

26,662,281

MY, FY, PY, SCS

7.9–21.7

Intron

ASGR2

Asialoglycoprotein receptor 2

19

26,724,454

MY, FY, PY

7.9–8.9

Intron

DLG4

Discs large MAGUK scaffold protein 4

19

26,780,952

MY, FY, PY

7.5–8.6

Downstream

ELP5

Elongator acetyltransferase complex subunit 5

19

27,360,768

MY, FY, PY

7.5–8.4

Intron

CNTROB

Centrobin, centriole duplication and spindle assembly protein

19

27,401,023

MY, FY, PY, SCS

6.3–13.6

Intron

GUCY2D

Guanylate cyclase 2D, retinal

19

27,480,793

MY, FY, PY, SCS

6.5–12.7

Intron

ALOXE3

Arachidonate lipoxygenase 3

19

27,529,983

MY, FY, PY, SCS

6.1–12.2

Intron

None

Vesicle associated membrane protein 2

19

27,558,520

MY, FY, PY

10.3–12.0

Intron

TMEM107

Transmembrane protein 107

19

27,605,322

MY, FY, PY

9.2–10.5

Intron

CTC1

CST telomere replication complex component 1

19

27,744,036

SCS

7.5

Upstream

NDEL1

NudE neurodevelopment protein 1 like 1

19

27,854,624

SCS

7.0

Synonymous

MYH10

Myosin heavy chain 10

19

28,038,645

MY, FY, PY, SCS

6.7–16.5

Intron

PIK3R6

Phosphoinositide-3-kinase regulatory subunit 6

19

28,079,607

SCS

7.8

Intergenic

MYH10

Myosin heavy chain 10

19

28,202,268

MY, FY, PY

7.1–8.9

Intergenic

NTN1

Netrin 1

19

28,578,424

MY

6.7

Intron

STX8

Syntaxin 8

19

28,730,193

MY, FY, PY

9.3–11.0

Intron

GLP2R

Glucagon like peptide 2 receptor

19

28,953,102

MY, FY, PY

6.8–7.8

Intron

None

Growth arrest specific 7

29

24,850,418

SCS

6.2

Intergenic

NAV2

Neuron navigator 2

29

25,175,690

SCS

11.9

Intron

ZDHHC13

Zinc finger DHHC-type containing 13

29

25,206,548

SCS

12.4

Intron

ZDHHC13

Zinc finger DHHC-type containing 13

29

25,328,810

SCS

14

Intergenic

PTPN5

Protein tyrosine phosphatase, non-receptor type 5

29

25,366,901

SCS

8.3

Intergenic

PTPN5

Protein tyrosine phosphatase, non-receptor type 5

29

25,649,038

SCS

8.8

Intron

LDHC

L-lactate dehydrogenase C chain

29

26,381,310

SCS

6.0

Intergenic

OR10D3

Putative olfactory receptor 10D3

29

26,502,551

SCS

8.8

Intergenic

None

Olfactory receptor 145-like

29

27,144,973

SCS

10.4

Intron

OR8B4

Olfactory receptor family 8 subfamily B member 4

29

27,407,592

SCS

6.7

Intergenic

PANX3

Pannexin 3

29

27,967,983

SCS

9.2

Intergenic

PKNOX2

PBX/knotted 1 homeobox 2

  1. aChromosome, bMY milk yield, FY fat yield, PY protein yield, SCS somatic cell score