Table 5.
Gene name |
Gene position (bp)
1
|
Nearest and most significant SNPs of GWAS |
Traits |
Raw
p
value |
Reference |
||
---|---|---|---|---|---|---|---|
Distance | Name | Position (bp) 2 | |||||
SAA3 |
Chr29: 26668046–26671801 |
49.5 Kb |
ARS-BFGL-NGS-24998 |
26721324 |
PP |
2.96E-08 |
Cole et al., BMC Genomics, 2011[8] |
|
|
4.2 Mb |
UA-IFASA-8605 |
30901735 |
FP, PP |
4.90E-13, 1.50E-16 |
|
HEATR7B2 |
Chr20: 33455667–33528569 |
23.2 Kb |
ARS-BFGL-BAC-2469 |
33433160 |
PP |
1.21E-08 |
Jiang et al., Plos One, 2010[6] |
|
|
2.6 Mb |
rs41640170 |
36097136 |
PP |
1E-6.88 |
Schopen et al., J Dairy Sci, 2011[9] |
TRIB3 |
Chr13: 61176217–61187210 |
2.1 Mb |
BFGL-NGS-119420 |
59101909 |
FP, PP |
1.14E-21, 3.49E-18 |
Cole et al., BMC Genomics, 2011[8] |
|
|
9.3 Mb |
rs29021058 |
70524323 |
PP |
0.0018 |
Kolbehdari et al., J Anim Breed Genet, 2009[5] |
SESN2 |
Chr2: 125698159–125714128 |
2.0 Mb |
ARS-BFGL-NGS-69013 |
123717269 |
FP, PP |
1.46E-11, 3.26E-09 |
Cole et al., BMC Genomics, 2011[8] |
|
|
2.7 Mb |
BTA-31250-no-rs |
128437731 |
FP, PP |
3.75E-10, 1.26E-24 |
|
CHAC1 |
Chr10: 36598393–36600764 |
0.16 Mb |
Hapmap53714-rs29017586 |
36758715 |
FP, PP |
9.84E-07, 6.64E-12 |
Cole et al., BMC Genomics, 2011[8] |
NR4A1 |
Chr5: 27977006–27992869 |
0.99 Mb |
ARS-BFGL-NGS-5790 |
26986116 |
FP, PP |
3.26E-14, 9.43E-28 |
Cole et al., BMC Genomics, 2011[8] |
SAA1 |
Chr29: 26693328–26696498 |
24.8 Kb |
ARS-BFGL-NGS-24998 |
26721324 |
PP |
2.96E-08 |
Cole et al., BMC Genomics, 2011[8] |
|
|
4.2 Mb |
UA-IFASA-8605 |
30901735 |
FP, PP |
4.90E-13, 1.50E-16 |
|
ATF3 |
Chr16: 72820025–72832974 |
1.9 Mb |
ARS-BFGL-NGS-70836 |
74741746 |
PP |
3.58E-07 |
Cole et al., BMC Genomics, 2011[8] |
|
|
3.3 Mb |
ARS-BFGL-NGS-85980 |
76091078 |
FP, PP |
6.46E-07, 8.33E-09 |
|
RPL23A |
Chr11: 21526905–21574655 |
0.5 Mb |
ARS-BFGL-NGS-100459 |
22128569 |
PP |
1.03E-24 |
Cole et al., BMC Genomics, 2011[8] |
|
|
4.0 Mb |
BTB-01766447 |
17484533 |
FP, PP |
4.51E-18, 8.90E-11 |
|
CDH16 |
Chr18: 34733117–34743031 |
0.75 Mb |
ARS-BFGL-NGS-107749 |
33986486 |
FP, PP |
2.54E-13, 3.55E-18 |
Cole et al., BMC Genomics, 2011[8] |
VEGFA |
Chr23: 17255946–17269998 |
2.9 Mb |
ARS-BFGL-NGS-29490 |
20166517 |
FP, PP |
4.05E-20, 2.32E-26 |
Cole et al., BMC Genomics, 2011[8] |
|
|
1.8 Mb |
rs29016156 |
15422973 |
PP |
0.00099 |
Kolbehdari et al., J Anim Breed Genet, 2009[5] |
|
|
0.19 Mb |
rs41640789 |
17061460 |
FP |
0.00012 |
Kolbehdari et al., J Anim Breed Genet, 2009[5] |
BoLA-DQB |
Chr23: 25375269–25388620 |
4.9 Mb |
ARS-BFGL-NGS-72191 |
30279220 |
FP, PP |
8.46E-17, 1.09E-28 |
Cole et al., BMC Genomics, 2011[8] |
ARID1B |
Chr9: 94882343–95271883 |
0.37 Mb |
ARS-BFGL-NGS-81082 |
94511747 |
FP, PP |
3.00E-11, 2.37E-08 |
Cole et al., BMC Genomics, 2011[8] |
PTHLH |
Chr5: 82246521–82258858 |
1.5 Mb |
Hapmap51303-BTA-74377 |
83790390 |
FP |
1.20E-06 |
Jiang et al., Plos One, 2010[6] |
|
|
0.63 Mb |
ARS-BFGL-NGS-29557 |
81612132 |
FP, PP |
2.97E-13, 5.97E-25 |
Cole et al., BMC Genomics, 2011[8] |
|
|
6.2 Mb |
rs41590827 |
76049666 |
PP |
0.00013 |
Kolbehdari et al., J Anim Breed Genet, 2009[5] |
|
|
9.9 Mb |
rs41569048 |
92162494 |
PP |
1E-4.72 |
Schopen et al., J Dairy Sci, 2011[9] |
H4 |
Chr23: 31665561–31667068 |
1.4 Mb |
ARS-BFGL-NGS-72191 |
30279220 |
FP, PP |
8.46E-17, 1.09E-28 |
Cole et al., BMC Genomics, 2011[8] |
FAM71A |
Chr16: 72811910–72814133 |
2.5 Mb |
ARS-BFGL-NGS-85980 |
76091078 |
FP, PP |
6.46E-07, 8.33E-09 |
Cole et al., BMC Genomics, 2011[8] |
THBS4 |
Chr10: 10945424–10999244 |
0.90 Mb |
BTB-00411816 |
11899342 |
FP, PP |
2.71E-14, 3.45E-25 |
Cole et al., BMC Genomics, 2011[8] |
DDIT3 |
Chr5: 56285007–56307931 |
0.46 Mb |
ARS-BFGL-NGS-14781 |
56766165 |
FP |
5.54E-10 |
Cole et al., BMC Genomics, 2011[8] |
M-SAA3.2 |
Chr29: 26755567–26759547 |
34.2 Kb |
ARS-BFGL-NGS-24998 |
26721324 |
PP |
2.96E-08 |
Cole et al., BMC Genomics, 2011[8] |
|
|
4.1 Mb |
UA-IFASA-8605 |
30901735 |
FP, PP |
7.90E-13, 1.50E-16 |
|
HIST1H2AC |
Chr23: 31579046–31589230 |
0.95 Mb |
BTA-68781-no-rs |
30711619 |
FP, PP |
1.17E-17, 6.08E-27 |
Cole et al., BMC Genomics, 2011[8] |
P4HA2 | Chr7: 23480314–23513315 | 1.1 Mb | Hapmap49309-BTA-78604 | 24655689 | PP | 4.34E-14 | Cole et al., BMC Genomics, 2011[8] |
1,2Means the position on the bovine genome sequence of UMD3.1.66.
PP: protein percentage; FP: fat percentage.