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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