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Table 1 Lead SNPs from genome-wide associated regions for fat yield in Nordic Holstein cattle. Base positions are given as position in UMD 3.1.1 [49]

From: RETRACTED ARTICLE: Dissecting closely linked association signals in combination with the mammalian phenotype database can identify candidate genes in dairy cattle

BTA base position Imputation accuracy Effect –log10(p) Region Gene Annotation
2 126979882 0.9972 −1.31 11.46 126041707~ 127230070 PIGV (near) Downstream
2 85991577b 0.9542 1.30 8.91 85042155~ 86241732 ANKRD44 Intron
3 7226390 0.9998 −1.09 9.01 6264604~ 7476473 NOS1AP Intron
5 93948357 0.9906 3.28 62.41 93698481~ 94198475 MGST1 Intron
5 20284735b 0.9692 −1.30 9.79 20035379~ 20534779 5S_rRNA intergenic
6 95497933 0.9996 −1.45 14.76 95248213~ 95747954 PAQR3 intergenic
6 32950721b 0.4975 6.33 11.39 32367171~ 33200834 ENSBTAG00000047255 Intron
7 57287990 0.8807 −1.66 20.11 57038213~ 57538309 KCTD16 Intron
9 38715137 0.9809 −1.47 8.89 38345408~ 38965425 LAMA4 Intron
11 88771449 0.9876 1.16 10.43 88521462~ 89021477 ENSBTAG00000047976 intergenic
11 15323223b 0.8962 −1.32 9.81 14855568~ 15573444 TTC27 Intron
11 55681193c 0.9948 −1.60 9.91 55423855~ 55931229 CTNNA2 Intron
12 68965758 0.9957 −1.10 8.93 68502223~ 69216445 ENSBTAG00000045195 intergenic
14a 1802265 0.9398 −6.93 240.56 1549133~ 2049435 DGAT1 missense
14a 1802266 0.9362 −6.93 240.56 1549133~ 2049435 DGAT1 missense
15 65891100 0.9992 1.50 12.99 65363764~ 66141839 ELF5 intergenic
15 25044706b 0.9908 −1.17 9.80 24795472~ 25295470 ZBTB16 Intron
17 62543160 0.9898 1.14 10.49 62224291~ 62793298 TBX5 Intron
18 18970551 0.9442 −1.19 10.30 18341203~ 19220732 NKD1 intergenic
19 27522927 0.8500 −1.32 10.86 26625240~ 27773016 ASGR1 intergenic
20 22609736 0.9813 1.53 14.23 21664412~ 22859809 MAP3K1 intergenic
26 20547445 0.9993 −1.76 21.46 20297497~ 20797570 COX15 Intron
26 42408595b 0.9998 −1.21 10.30 41409014~ 42658925 TACC2 Intron
29 23609412 0.7717 2.06 10.73 22613737~ 23859451 ENSBTAG00000047094 intergenic
  Total number of significant SNPs 54,435
  1. a Fourteen additional SNPs on chromosome 14 located near DGAT1 gene had same highest P value (details on those not presented). b indicated this SNP was found on second round, c indicated this SNP was found on third round