Table 4. Significant SNPs (total collagen)

SNP_id SNP (MinorA/ MajorB) Chr Genomic position Estimate SE p-value −LogP nAA nAB nBB σ2 (SNP)/ σ2 (trait) Gene_name
Hapmap38956-BTA-43309 [C/A] 1 97,366,225 0.1576 0.0440 0.0005 3.3186 1 10 119 0.0804 SLC7A14
ARS-BFGL-NGS-535 [G/A] 1 109,221,369 −0.0636 0.0185 0.0008 3.1119 27 52 51 0.0719 MFSD1, RSRC1
rs383007308 [A/G] 1 131,149,414 0.1204 0.0340 0.0006 3.2490 1 22 107 0.0893 ESYT3
ARS-BFGL-NGS-109828 [G/A] 2 77,033,601 0.1496 0.0415 0.0004 3.3557 1 13 116 0.0894 CNTNAP5
rs110414144 [A/C] 2 113,584,292 0.0834 0.0245 0.0009 3.0467 5 48 77 0.0886 DOCK10, NYAP2
3:101365765 [C/A] 3 101,365,765 0.1330 0.0337 0.0001 3.8871 1 22 107 0.1090 ZSWIM5, TMEM53
rs456169856 [A/G] 3 106,866,376 0.1053 0.0299 0.0006 3.2230 3 22 105 0.0783 MACF1
BTB-01834875 [G/A] 3 46,721,234 −0.0763 0.0215 0.0005 3.2758 11 47 72 0.0834 DPYD, PTBP2
ARS-BFGL-NGS-13158 [C/G] 3 19,337,220 0.0790 0.0228 0.0007 3.1439 8 48 74 0.0851 POGZ
BTB-00157833 [G/A] 3 111,842,741 0.0711 0.0198 0.0005 3.3249 19 57 54 0.0861 CSMD2
rs381136948 [A/C] 3 112,012,156 0.1779 0.0419 4.E-05 4.3832 1 11 118 0.1105 CSMD2, GIGYF2
Hapmap57254-rs29022776 [A/G] 3 113,433,557 0.0763 0.0218 0.0006 3.1947 12 62 56 0.0947 MROH2A
rs385230778 [A/G] 3 115,009,419 0.1587 0.0419 0.0002 3.6379 2 7 121 0.0750 AGAP1
ARS-BFGL-NGS-118221 [A/C] 5 90,684,739 0.0998 0.0276 0.0004 3.3663 2 40 88 0.1028 PLEKHA5
Hapmap41631-BTA-75177 [A/G] 5 114,405,063 0.0685 0.0199 0.0008 3.1054 16 45 69 0.0720 EFCAB6
ARS-BFGL-NGS-11339 [A/G] 4 45,128,142 0.3496 0.0689 1.E-06 5.8765 0 5 125 0.1695 RELN, LHFPL3
BTB-00182993 [C/A] 4 45,513,003 0.4383 0.0746 3.E-08 7.4631 0 4 126 0.2139 RELN, LHFPL3
BTA-70441-no-rs [G/A] 4 45,602,047 0.2001 0.0544 0.0003 3.4599 0 9 121 0.0984 RELN, LHFPL3, ENSBTAG00000048818
ARS-BFGL-NGS-110196 [G/A] 4 81,109,721 −0.0970 0.0262 0.0003 3.4935 4 33 93 0.0919 SUGCT, POU6F2
Hapmap23877-BTA-143906 [A/C] 6 36,829,725 0.1503 0.0435 0.0007 3.1284 0 16 114 0.0959 HERC6, NCAPG
BTB-01265106 [A/C] 6 116,779,750 0.2034 0.0514 0.0001 3.8972 0 11 119 0.1232 ZFYVE28, FGFR3
BTB-00348139 [A/G] 8 52,645,428 0.1334 0.0369 0.0004 3.3626 0 22 108 0.1013 PCSK5
ARS-BFGL-NGS-66538 [A/G] 8 64,011,227 −0.1006 0.0297 0.0009 3.0301 2 29 99 0.0825 GABBR2, COL15A1
ARS-BFGL-NGS-34771 [A/G] 8 21,943,761 0.1775 0.0513 0.0007 3.1288 1 6 123 0.0691 ENSBTAG00000053368
BTB-00960162 [A/G] 7 83,915,853 0.1482 0.0400 0.0003 3.5092 0 18 112 0.1040 VCAN, EDIL3
rs443739156 [C/A] 11 30,840,950 0.1851 0.0495 0.0003 3.5511 0 11 119 0.1021 STON1, FSHR
ARS-BFGL-NGS-83866 [A/G] 11 30,851,124 0.2519 0.0562 2.E-05 4.7918 0 8 122 0.1391 STON1, FSHR
BTB-01944534 [A/G] 11 30,826,527 0.1851 0.0495 0.0003 3.5511 0 11 119 0.1021 FSHR
ARS-BFGL-NGS-2573 [A/G] 11 101,602,103 0.3742 0.0908 0.0001 4.1669 0 3 127 0.1174 ABL1, PRRC2B, MED27
ARS-BFGL-NGS-94862 [G/A] 11 103,534,103 0.3660 0.0911 0.0001 3.9978 0 3 127 0.1123 NACC2
BTA-62308-no-rs [G/A] 10 29,176,267 0.2134 0.0542 0.0001 3.8626 0 9 120 0.1127 AVEN, FMN1
ARS-BFGL-NGS-3005 [C/A] 10 81,981,544 0.1212 0.0329 0.0003 3.4729 2 19 109 0.0871 SYNJ2BP
BTA-60292-no-rs [A/G] 10 7,308,238 0.1575 0.0370 4.E-05 4.3893 1 16 113 0.1175 CERT1, IQGAP2
ARS-BFGL-NGS-118392 [G/A] 10 84,632,536 0.1263 0.0364 0.0007 3.1479 1 18 111 0.0833 DPF3, PSEN1, MIDEAS
Hapmap41972-BTA-79298 [A/G] 10 85,547,284 0.1577 0.0311 1.E-06 5.8690 3 15 112 0.1357 LIN52, YLPM1
Hapmap39952-BTA-86345 [C/A] 10 99,626,471 0.0730 0.0202 0.0004 3.3565 28 69 33 0.0978 SPATA7
Hapmap44561-BTA-72345 [G/A] 10 60,168,183 0.1684 0.0492 0.0008 3.0779 1 7 122 0.0697 TRPM7, ATP8B4
ARS-BFGL-NGS-110504 [A/C] 10 70,556,929 0.1485 0.0383 0.0002 3.7812 1 15 114 0.0991 PSMA3
ARS-BFGL-NGS-116012 [G/A] 10 71,266,946 0.1678 0.0411 0.0001 4.0971 1 12 115 0.1070 KIAA0586, JKAMP
BTB-00434096 [G/A] 10 71,082,204 0.1779 0.0419 4.E-05 4.3862 1 11 118 0.1105 DAAM1
ARS-BFGL-NGS-23163 [A/G] 10 71,835,260 0.1944 0.0445 3.E-05 4.5979 1 9 120 0.1126 RTN1, PCNX4
BTB-01203179 [A/G] 10 72,694,329 0.0909 0.0220 0.0001 4.2010 9 52 69 0.1195 LRRC9, SLC38A6
ARS-BFGL-NGS-69839 [G/A] 10 74,011,076 0.2210 0.0435 1.E-06 5.8897 1 9 120 0.1455 PRKCH, SYT16
rs378634523 [A/G] 10 76,078,820 0.0913 0.0237 0.0002 3.7395 6 45 79 0.1048 GPHB5, MTHFD1
ARS-BFGL-NGS-116025 [T/A] 10 79,496,312 0.1353 0.0286 6.E-06 5.2450 2 30 98 0.1530 GPHN, RAD51B
ARS-BFGL-NGS-101050 [G/A] 12 19,868,800 0.0917 0.0199 9.E-06 5.0292 21 67 42 0.1504 RNASEH2B
BTA-21437-no-rs [C/A] 12 43,601,825 0.0932 0.0205 1.E-05 4.8732 14 51 60 0.1379 KLHL1
Hapmap45915-BTA-22734 [A/T] 12 46,867,626 0.0742 0.0212 0.0006 3.2022 12 48 70 0.0811 DACH1
Hapmap51092-BTA-93283 [A/G] 12 3,172,154 −0.0684 0.0197 0.0007 3.1424 19 54 57 0.0786 DIAPH3
ARS-BFGL-NGS-43617 [A/G] 15 35,138,494 0.1610 0.0463 0.0007 3.1627 0 13 117 0.0905 SERGEF, PLEKHA7
ARS-BFGL-NGS-118358 [G/A] 15 42,960,757 0.1453 0.0353 0.0001 4.1554 0 24 105 0.1310 SBF2, SWAP70, DENND5A
Hapmap40712-BTA-33406 [A/G] 13 67,101,174 0.1238 0.0365 0.0009 3.0383 1 18 111 0.0800 KIAA1755, PPP1R16B
ARS-BFGL-NGS-115847 [A/G] 14 40,458,050 0.2866 0.0805 0.0005 3.2804 0 4 125 0.0922 ZFHX4
ARS-BFGL-NGS-116702 [A/G] 16 79,720,573 0.1447 0.0411 0.0006 3.2188 0 17 113 0.0941 IGFN1, PPP1R12B
BTA-40408-no-rs [G/C] 17 17,408,409 −0.2725 0.0805 0.0010 3.0203 0 4 126 0.0827 RNF150, MAML3
ARS-BFGL-NGS-98331 [A/G] 21 22,057,989 0.1534 0.0421 0.0004 3.4121 0 16 114 0.0999 CRTC3, SLC28A1
Hapmap42198-BTA-39980 [G/A] 18 41,617,350 −0.0790 0.0200 0.0001 3.8824 30 68 32 0.1145 ZNF536
ARS-BFGL-NGS-111273 [A/G] 19 37,699,961 −0.0877 0.0258 0.0009 3.0501 4 40 86 0.0850 PHB, CALCOCO2, SKAP1
Hapmap60163-rs29015084 [G/A] 19 22,120,443 0.0910 0.0252 0.0004 3.3654 4 45 81 0.0988 MYO1C
ARS-BFGL-NGS-32460 [G/A] 19 40,716,234 0.0721 0.0209 0.0007 3.1266 14 56 60 0.0835 TNS4
BTB-00885986 [A/C] 24 31,423,445 −0.0754 0.0188 0.0001 3.9739 31 60 39 0.1040 ZNF521
BTB-00885964 [C/A] 24 31,457,933 −0.0771 0.0189 0.0001 4.0891 31 61 38 0.1088 ZNF521
Hapmap49083-BTA-21452 [A/G] 24 32,171,355 0.0820 0.0199 0.0001 4.1832 16 53 61 0.1088 ZNF521
BTB-00830153 [A/G] 22 4,534,118 0.3169 0.0633 2.E-06 5.7484 0 6 124 0.1665 RBMS3
ARS-BFGL-NGS-103489 [A/G] 23 49,135,538 0.1671 0.0479 0.0007 3.1708 0 13 117 0.0975 FARS2, CDYL
ARS-BFGL-NGS-27800 [A/G] 23 50,897,089 0.1354 0.0369 0.0004 3.4454 1 17 112 0.0913 SLC22A23, MYLK4, GMDS
ARS-BFGL-NGS-108494 [A/G] 23 51,241,585 0.1951 0.0471 0.0001 4.2057 0 12 118 0.1232 SERPINB6, GMDS
ARS-BFGL-NGS-13891 [A/G] 23 51,487,543 0.2238 0.0571 0.0001 3.8431 0 8 122 0.1098 GMDS
ARS-BFGL-NGS-27911 [A/G] 26 35,048,102 0.1982 0.0483 0.0001 4.1410 1 7 122 0.0965 ABLIM1, ATRNL1
UA-IFASA-8514 [C/A] 29 8,936,383 0.2864 0.0482 3.E-08 7.5884 0 11 119 0.2443 TMEM135, ME3
Hapmap27205-BTA-156398 [A/G] 29 18,203,037 0.4084 0.0897 1.E-05 4.9151 0 3 127 0.1399 GAB2, RSF1
ARS-BFGL-NGS-92926 [C/A] 25 4,131,112 0.1035 0.0296 0.0007 3.1795 3 23 104 0.0780 HMOX2, ENSBTAG00000026383
ARS-BFGL-BAC-42642 [A/G] 25 35,532,374 0.1930 0.0493 0.0001 3.8300 0 12 118 0.1206 CUX1
SNPs, single nucleotide polymorphisms; Chr, chromosome.