Identification of eQTLs and sQTLs associated with meat quality in beef

BMC Genomics

Table 3 Splicing QTL master regulators identified in longissimus dorsi muscle. The SNP location (BTA: bp), SNP name, cluster number from Fig. 4, minor allele frequency (MAF), number of sQTLs associated with each master regulator, the proportion of DEG sQTLs, and the harboring or closest gene are shown for each eQTL master regulator

SNP location	SNP name	Cluster^a	MAF (%)	Number	% DEG	Harboring gene or closest genes^b
SNP location	SNP name	Cluster^a	MAF (%)	of sQTLs	sQTLs	Harboring gene or closest genes^b
1: 144,604,558	rs381222773	1	7	33	9.1	*PDE9A* - WDR4
2: 11,594,176	rs208227436	2	3	28	17.9	ZNF804A
2: 84,792,003	rs208053623	3	4	21	19.0	DNAH7
4: 5,827,343	rs381476620	4	42	21	33.3	ZPBP - *VWC2*
8: 92,924,658	rs382101207	5	3	23	13.0	RNF20
8: 93,336,078	BTB_01634267	5	4	20	20.0	PLEKHB2 - *SNORA19*
8: 95,762,113	rs136343964	5	3	22	13.6	OR13F1
8: 104,345,143	rs378706947	6	2	192	27.1	ALAD
14: 57,184,022	rs210798753	7	2	24	50.0	PKHD1L1
15: 25,536,733	rs209617551	8	2	34	35.3	SNORA3
15: 35,729,304	rs382501844	9	4	33	9.1	*NUCB2* - ENSBTAG00000032859
16: 75,296,157	rs41821837	10	4	20	20.0	*SYT14* - DIEXF
18: 61,257,126		11	49	25	44.0	*ENSBTAG00000000336* - ENSBTAG00000046961

^aCluster number used in Fig. 4
^bBolded genes were selected as master regulators when the associated SNP was intergenic; underlined gene names were identified as expressed in skeletal muscle in the present analysis

ISSN: 1471-2164