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. 2013 Dec 17;14:897. doi: 10.1186/1471-2164-14-897

Table 7.

Genome-wide significant SNPs for mammary system traits

Trait SNP name Chr. Position (bp) Nearest gene Distance (bp) Heritability/-log 10 ( P ) b Threshold
Rear udder
ARS-BFGL-NGS-111920
14
44029634
LOC100337279
within
0.01330
0.00891
Hapmap50827-BTA-94026
24
2166631
LOC100336384
39,890
0.01130
0.00891
Udder texture
ARS-BFGL-NGS-104839
3
88712390
LOC100295233
within
0.00873
0.00872
BTA-41935-no-rs
17
72284836
DRG1
within
0.01670
0.00872
BTB-01236227
20
15824409
HTR1A
264,560
0.00941
0.00872
Median suspensory
BTB-00089278
2
26942975
LRP2
within
0.01080
0.00874
BTB-01007411
4
37145925
SEMA3E
960
0.00995
0.00874
ARS-BFGL-NGS-35982
5
5693439
NAP1L1
81,318
0.00941
0.00874
ARS-BFGL-NGS-29118
13
8497369
MACROD2
within
0.01490
0.00874
ARS-BFGL-NGS-52278a
12
89182471
RAB20
within
7.85b
6.02c
Fore attachment
ARS-BFGL-NGS-114960
29
36024434
NTM
448,744
0.01050
0.00965
Fore teat Placement
ARS-BFGL-NGS-113245
19
59068269
SLC39A11
within
0.01290
0.00892
Teat length
BTB-01255458
10
99270875
PDIA6
80,295
0.01030
0.00911
Rear attach height
ARS-BFGL-NGS-20052
2
107616903
CDK5R2
3,609
0.00988
0.00904
Hapmap43038-BTA-76203
6
50316616
LOC100298058
12,846
0.00997
0.00904
Rear attach Width
BTB-01478363
20
17370437
BAG1
210,690
0.00938
0.00924
Rear teat Placement
ARS-BFGL-NGS-31730
11
44265651
SH3RF3
within
0.00927
0.00864
  BTB-01230622 15 62600934 DCDC5 61,622 0.01200 0.00864

Note: Heritability and threshold were obtained using the LASSO method; -log10(P) was calculated using SMMA. aSNP detected by SMMA only; b-log10(P) obtained from SMMA; cthreshold of SMMA. Nearest gene are symbols of gene full name in the NCBI database (http://www.ncbi.nlm.nih.gov/).