Table 3 Association analyses between 12 polymorphisms in six candidate genes and intramuscular fat content and composition traits measured in the gluteus medius (GM) and longissimus dorsi (LD) muscles of Duroc pigs1
Gene | SNP | Type | Trait | q-value | δ (SE) | A1 | MAF |
|---|---|---|---|---|---|---|---|
SSC5 (76.2–77.1 Mb) | |||||||
SLC38A1 | rs341329842 (5:77.02 Mb) | Splice region (T/C) | GM C16:0 | 0.000 | −0.61 (0.15) | C | 0.15 |
LD C16:0 | 0.161 | −0.27 (0.15) | |||||
SLC38A4 | rs333018168 (5:77.44 Mb) | Missense (G/C, Q24E) | GM C16:0 | 0.014 | −0.51 (0.19) | C | 0.13 |
LD C16:0 | 0.266 | −0.22 (0.19) | |||||
SSC9 (10.4–13.2 Mb) | |||||||
UVRAG | rs321243508 (9:10.31 Mb) | Missense (A/C, K286Q) | GM C14:0 | 0.005 | 0.07 (0.02) | C | 0.43 |
LD C14:0 | 0.001 | 0.08 (0.02) | |||||
rs328455999 (9:10.33 Mb) | Missense (G/A, R303H) | GM C14:0 | 0.005 | 0.05 (0.02) | G | 0.26 | |
LD C14:0 | 0.001 | 0.07 (0.02) | |||||
SSC14 (110–114 Mb) | |||||||
BLOC1S2 | rs335981556 (14:111.39 Mb) | Missense (G/A, L6F) | GM C18:0 | 0.001 | −0.62 (0.13) | A | 0.37 |
LD C18:0 | 0.003 | −0.50 (0.10) | |||||
GM SFA | 0.077 | −0.71 (0.32) | |||||
LD SFA | 0.030 | −0.68 (0.26) | |||||
GM UFA | 0.008 | 0.71 (0.32) | |||||
LD UFA | 0.032 | 0.67 (0.26) | |||||
KCNIP2 | rs320607389 (14:112.86 Mb) | Missense (G/A, A50V) | GM C18:0 | 0.001 | −0.58 (0.14) | G | 0.38 |
LD C18:0 | 0.003 | −0.51 (0.10) | |||||
SCD | rs698797651 (14:111.4608 Mb) | Upstream (G/GC) | GM C18:0 | 0.001 | −0.59 (0.14) | G | 0.36 |
LD C18:0 | 0.005 | −0.49 (0.10) | |||||
rs323081995 (14:111.4616 Mb) | 5′-UTR (T/C) | GM C18:0 | 0.001 | −0.63 (0.13) | C | 0.37 | |
LD C18:0 | 0.003 | −0.51 (0.10) | |||||
GM SFA | 0.049 | −0.80 (0.32) | |||||
LD SFA | 0.029 | −0.72 (0.27) | |||||
GM UFA | 0.049 | 0.80 (0.32) | |||||
LD UFA | 0.031 | 0.71 (0.27) | |||||
rs80912566 (14:111.4617 Mb) | 5′-UTR (C/T) | GM C18:0 | 0.001 | −0.61 (0.13) | T | 0.37 | |
LD C18:0 | 0.003 | −0.51 (0.10) | |||||
GM SFA | 0.049 | −0.83 (0.32) | |||||
LD SFA | 0.029 | −0.70 (0.27) | |||||
GM UFA | 0.049 | 0.83 (0.32) | |||||
LD UFA | 0.031 | 0.69 (0.26) | |||||
rs342182479 (14:111.4618 Mb) | 5′-UTR (G/A) | GM C18:0 | 0.001 | −0.62 (0.13) | A | 0.37 | |
LD C18:0 | 0.003 | −0.51 (0.10) | |||||
GM SFA | 0.049 | −0.84 (0.32) | |||||
LD SFA | 0.029 | −0.72 (0.27) | |||||
GM UFA | 0.049 | 0.84 (0.32) | |||||
LD UFA | 0.031 | 0.71 (0.26) | |||||
rs45434498 (14:111.473 Mb) | Splice region (G/A) | GM C18:0 | 0.001 | −0.61 (0.13) | A | 0.37 | |
LD C18:0 | 0.003 | −0.52 (0.10) | |||||
GM SFA | 0.049 | −0.84 (0.31) | |||||
LD SFA | 0.029 | −0.75 (0.27) | |||||
GM UFA | 0.049 | 0.84 (0.32) | |||||
LD UFA | 0.030 | 0.74 (0.26) | |||||
rs713641545 (14:111.474 Mb) | 3′-UTR (A/G) | GM C18:0 | 0.001 | −0.63 (0.13) | G | 0.37 | |
LD C18:0 | 0.003 | −0.51 (0.10) | |||||
GM SFA | 0.049 | −0.81 (0.32) | |||||
LD SFA | 0.029 | −0.73 (0.27) | |||||
GM UFA | 0.049 | 0.81 (0.32) | |||||
LD UFA | 0.031 | 0.72 (0.26) | |||||