Table 2

SNP allele frequencies and associations with measured traits.
SNP_ID
 Gene
 Breed
 A
 C
 G
 T
 P value
Puberty






CS2000955300001_532
 ANAPC5
 Angus
0.16
0.84
 N.S.
CS2000053300001_175
 HMOX2
 Angus

0.58
 0.42
 N.S.
CS2000507200001_1768
 ITIH2
 Angus
 0.41
 0.59

N.S.
CS2000742700001_590
 TNFAIP6
 Angus
0.86
0.14
 N.S.
CS2001189600001_489
 ITHI5
 Angus
 0.84
 0.16

N.S.
CS2000742700001_881
 TNFAIP6
 Angus

1
N.S.
FE resistance






CS2000348000001_262
 ABCB8
 Friesian
0.62
 0.38
N.S.


Jersey
0.63
 0.37
N.S.
CS2001041800001_1020
 SELP
 Friesian
 0.40
 0.60

N.S.


Jersey
 0.44
 0.56

N.S.
CS2001337000001_147
 CAMP
 Friesian
0.50
0.50
 N.S.


Jersey
0.51
0.49
 N.S.
CS2000058700002_510
 CD1D
 Friesian
 0.48
0.52
N.S.


Jersey
 0.49
0.51
N.S.
CS2001176100001_1124
 LTB4R
 Friesian

0.16
 0.84
 N.S.


Jersey

0.24
 0.76
 N.S.
CS2000288200001_809
 BCL10
 Friesian
0.93
0.07
 N.S.


Jersey
0.93
0.07
 0.004
CS2000088400007_1168
 GBP1
 Friesian
0.50
0.50
 N.S.


Jersey
0.52
0.48
 N.S.
CS2001051700001_529
 C8A
 Friesian
0.88
0.12
 N.S.


Jersey
0.75
0.25
 0.03
CS2000129600001_1471
 HRG
 Friesian
0.93
0.07
 0.05


Jersey
0.96
0.04
 N.S.
CS2001364900001_48
 LTB
 Friesian
0.74
 0.26
N.S.


Jersey
0.65
 0.35
N.S.
CS2000088400007_1687
 GBP1
 Friesian
 0.49

0.51
 N.S.


Jersey
 0.49

0.51
 N.S.
CS2000088400007_313
 GBP1
 Friesian
0.35
0.65
 N.S.


Jersey
0.29
0.71
 0.006
CS2000088400007_996
 GBP1
 Friesian
 0.50
0.50
N.S.


Jersey
 0.50
0.50
N.S.
CS2000257600002_413
 ABCC3
 Friesian
0.76
 0.24
0.008


Jersey
0.77
 0.23
N.S.
CS2000313400001_398
 OAS1
 Friesian
 0.23
0.77
N.S.


Jersey
 0.22
0.78
N.S.
CS2000348000001_980
 ABCB8
 Friesian

1
N.S.


Jersey

1
N.S.
CS2001315600002_1764
 SERPING1
 Friesian

0.54
 0.46
 N.S.


Jersey

0.56
 0.44
 N.S.
CS2000173400002_1082
 IGSF8
 Friesian

0.50
 0.50
 N.S.


Jersey

0.73
 0.27
 N.S.
CS2000058700002_496
 CD1D
 Friesian

0.50
 0.50
 N.S.


Jersey

0.50
 0.50
 N.S.
CS2000058700002_976
 CD1D
 Friesian
 0.50
0.50
N.S.


Jersey
 0.48
0.52
N.S.
CS2001406800001_259
 TAP2
 Friesian
0.70
0.30
 N.S.


Jersey
0.73
0.27
 N.S.
CS2000313400001_155
 OAS1
 Friesian
0.14
 0.86
0.04


Jersey
0.13
 0.87
N.S.
CS2000176900001_1229
 HP
 Friesian
 0.17
0.83
N.S.


Jersey
 0.35
0.65
N.S.
CS2000045400004_497
 CYP4A11
 Friesian
1

N.S.


Jersey
1

N.S.
CS2000218500001_1206
 CD44
 Friesian
 0.60
 0.40

N.S.


Jersey
 0.43
 0.57

N.S.
CS2000068700001_485
 GIMAP5
 Friesian
 0.38
0.62
N.S.


Jersey
 0.38
0.62
N.S.
Meat yield






CS2000104200001_1729
 PLG
 Angus
0.48
0.52
 N.S.


Hereford
0.53
0.47
 N.S.


Simmental
0.68
0.32
 N.S.
CS2000443600001_487
 EPHX2
 Angus
 0.98
0.02
N.S.


Hereford
 0.63
0.37
N.S.


Simmental
 0.86
0.14
N.S.
CS2001349700001_285
 ALDOB
 Angus
 0.72
0.28
N.S.


Hereford
 0.58
0.42
N.S.


Simmental
 0.43
0.57
N.S.
CS2000071200002_488
 ACADS
 Angus
 0.13
0.87
N.S.


Hereford
 0.22
0.78
N.S.


Simmental
 0.14
0.86
N.S.
CS2000660700001_630
 PHYH
 Angus
 0.24
0.76
N.S.


Hereford
 0.02
0.98
N.S.


Simmental

1
N.S.
CS2000613600001_354
 WARS2
 Angus
 0.36
0.64
N.S.


Hereford
 0.55
0.45
N.S.


Simmental
 0.18
0.82
N.S.
CS2003511700001_128
 LEP
 Angus
0.40
0.6
 N.S.


Hereford
0.31
0.69
 N.S.


Simmental
0.58
0.42
 N.S.
CS2000005800001_509
 ACP1
 Angus
0.51
0.49
 N.S.


Hereford
0.53
0.47
 N.S.


Simmental
0.50
0.50
 N.S.
CS2001330700002_10011
 TNXB
 Angus
 0.55
0.45
N.S.


Hereford
 0.49
0.51
N.S.


Simmental
 0.61
0.39
N.S.

N.S. = not significant (P > 0.05).

Allele frequencies in bold are not in Hardy-Weinberg equilibrium.

Lee et al. BMC Genomics 2006 7:298   doi:10.1186/1471-2164-7-298