Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles

Table 4 List of the co-localizations between QTL for IMF traits recorded in the gluteus medius (GM) muscle and cis-eQTL regulating the mRNA levels of genes expressed in the GM muscle and mapping to QTL regions¹

SSC	N	SNPs	Region (Mb)	-log₁₀ (P)	q-value	B	δ ± SE	A₁	MAF	Gene Symbol	Region (Mb)	Traits	Region(Mb)
14	7	ASGA0063513	54.2–55.3	12.62	0.000	0.00	0.68 ± 0.08	A	0.37	LGALS8	54.8	C18:0	54.6–55.3
	3	H3GA0040331	54.9–56.2	3.05	0.039	0.04	−0.25 ± 0.07	G	0.44	LYST	55.4–55.6		54.6–55.3
	21	MARC0041893	86.1–88.0	7.96	0.000	0.00	0.82 ± 0.13	A	0.32	ANXA8	88.3		81.1–87.7
	1	DBMA0000150	114.0–114.0	2.63	0.023	0.02	0.32 ± 0.10	G	0.45	TAF5	114.3	C18:0; C18:1 (n-7); SFA; UFA	110.9–114.5
	26	MARC0043866	110.5–111.9	6.10	0.000	0.00	0.42 ± 0.07	A	0.49	COX15	110.8
	6	DRGA0014486	111.7–112.6	4.23	0.001	0.00	0.33 ± 0.08	G	0.16	BLOC1S2	111.3
	42	ALGA0081091	110.9–113.8	3.03	0.004	0.02	−0.29 ± 0.08	A	0.33	HIF1AN	111.6
	37	ALGA0081091	111.4–113.8	1.98	0.035	0.24	−0.19 ± 0.08	A	0.33	FBXW4	112.6–112.7
	28	MARC0015087	111.4–113.8	3.69	0.005	0.00	0.39 ± 0.10	A	0.17	KCNIP2	112.8
	28	ALGA0081091	110.9–113.8	3.12	0.002	0.02	−0.27 ± 0.08	A	0.33	ARMH3	112.8–113.0
18	9	ASGA0079732	40.0–43.3	2.32	0.023	0.16	0.23 ± 0.08	G	0.23	AQP1	42.0	GM C20:3 (n-3)	39.4–42.3
	32	DIAS0000749	41.5–43.9	2.25	0.049	0.18	−0.32 ± 0.10	A	0.35	GGCT	42.4
	21	ALGA0116124	42.0–43.3	3.29	0.009	0.02	0.29 ± 0.08	G	0.35	FKBP14	42.9
	23	ALGA0116124	42.0–43.3	3.27	0.004	0.03	−0.27 ± 0.08	G	0.35	WIPF3	42.9–43.0

¹SSC: porcine chromosome, N: number of SNPs significantly associated with the trait under study, SNP: SNP displaying the most significant association with the trait under study, Region (Mb): region containing SNPs significantly associated with the trait under study, −log₁₀(P): decimal logarithm of the nominal P-value, q-value: q-value calculated with a false discovery rate approach, B: Bonferroni-corrected P-value, δ: effect size of the marker and its standard error (SE), A₁: minor allele, MAF: minor allele frequency.

ISSN: 1471-2164