Table 1 Expression QTL master regulators identified in longissimus dorsi muscle. The SNP location (BTA: bp), SNP name, cluster number from Fig. 1, minor allele frequency, number of eQTLs associated with each master regulator, the proportion of DEG eQTLs, and the harboring or closest gene are shown for each eQTL master regulator
From: Identification of eQTLs and sQTLs associated with meat quality in beef
SNP location | SNP name | Clustera | MAF (%) | Number | % DEG | Harboring gene or closest genes b |
|---|---|---|---|---|---|---|
of eQTLs | eQTLs | |||||
1: 119,758,395 | rs378343630 | 1 | 4 | 62 | 0.0 | TM4SF1 |
2: 11,594,176 | rs208227436 | 2 | 3 | 26 | 7.7 | ZNF804A |
2: 25,653,736 | rs211476449 | 3 | 3 | 36 | 13.9 | GAD1 |
3: 102,943,677 | rs135786834 | 4 | 2 | 32 | 0.0 | KDM4A |
5: 27,001,953 | rs441241989 | 5 | 8 | 27 | 18.5 | CSAD |
5: 27,834,250 | rs110130901 | 5 | 8 | 25 | 24.0 | KRT7 |
5: 105,380,442 | rs207649022 | 6 | 24 | 76 | 69.7 | NTF3 - KCNA5 |
7: 92,439,344 | rs110618957 | 7 | 2 | 34 | 8.8 | POLR3G - GPR98 |
8: 95,625,807 | ARS_BFGL_N-GS_65636 | 8 | 3 | 111 | 8.1 | ENSBTAG00000047350 - OR13F1 |
8: 104,345,143 | rs378706947 | 8 | 2 | 22 | 9.1 | ALAD |
10: 8,457,276 | Bovine-HD1000002801 | 9 | 30 | 27 | 74.1 | PDE8B |
11: 46,753,639 | rs211218494 | 10 | 8 | 37 | 13.5 | PSD4 |
11: 46,785,388 | rs209448226 | 10 | 8 | 37 | 13.5 | 5S_rRNA - PAX8 |
13: 54,009,694 | rs135144232 | 11 | 4 | 24 | 8.3 | ENSBTAG00000011638 |
14: 74,732,269 | rs208451702 | 12 | 3 | 24 | 8.3 | RUNX1T1 |
15: 79,202,054 | rs41781450 | 13 | 37 | 20 | 35.0 | OR4X1 - OR4S1 |
15: 79,564,333 | rs109630111 | 13 | 24 | 36 | 2.8 | ENSBTAG00000035487 |
16: 62,544,863 | rs456174577 | 14 | 2 | 36 | 0.0 | TOR1AIP1 |
17: 30,508,078 | BTB_00676236 | 15 | 41 | 34 | 23.5 | INTU - FAT4 |
18: 56,858,212 | rs41891374 | 16 | 5 | 20 | 20.0 | C18H19ORF41 - MYH14 |
18: 57,361,426 | rs383445569 | 16 | 4 | 41 | 17.1 | KLK4 |
18: 61,257,126 | No SNP name | 17 | 49 | 133 | 2.3 | ENSBTAG00000000336 - ENSBTAG00000046961 |
19: 42,754,262 | rs377935001 | 18 | 2 | 34 | 0.0 | TTC25 |
22: 16,367,834 | rs110289782 | 19 | 11 | 24 | 50.0 | ENSBTAG00000030533 - ZNF445 |
26: 12,930,282 | rs42085062 | 20 | 4 | 23 | 26.1 | PCGF5 |
27: 31,921,721 | rs136162903 | 21 | 3 | 25 | 0.0 | KCNU1 |
28: 4,877,558 | rs207999887 | 22 | 5 | 34 | 5.9 | SNORA25 - SIPA1L2 |