Table 1 Location of the most significant QTL, limited to the top five per breed, which were associated with development of hind quarter and the genes located within these QTL within each breed
From: Genomic regions associated with muscularity in beef cattle differ in five contrasting cattle breeds
Breed | Chr | Start | End | Number of suggestive and significant SNPs | Most significant SNP | p-value | Allele frequency of + allele | Candidate genes within this QTL | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
AA | CH | HE | LM | SI | ||||||||
AA | 1 | 72069526 | 130071811 | 8 | 120584401a | 3.69 × 10−6 | 0.940 | 0.940 | 0.061 | 0.949 | 0.951 | DLG1, FAM43A, APOD, OPA1, OSTN, GHSR |
|  | 8 | 72017409 | 73103211 | 16 | 72569526b | 3.25 × 10−6 | 0.276 | 0.565 | 0.264 | 0.332 | 0.687 | ADAM28 |
|  | 10 | 5155837 | 6179062 | 11 | 5655837d | 7.60 × 10−6 | 0.032 | 0.133 | 0.000 | 0.073 | 0.036 | SFXN1, DRD1e |
|  | 23 | 20541063 | 21541072 | 2 | 21041063b | 3.34 × 10−7 | 0.995 | 0.977 | 0.000 | 0.000 | 0.005 | PTCHD4e |
|  | 24 | 35913368 | 37107434 | 16 | 36567715a | 8.07 × 10−7 | 0.918 | 0.050 | 0.958 | 0.941 | 0.903 | ENOSF1, ADCYAP1 |
CH | 2 | 35194 | 10711228 | 5128 | 6808074a | 9.07 × 10−49 | 0.000 | 0.079 | 0.000 | 0.028 | 0.004 | WDR75f, ASNSD1f, ARHGEF4f, MYO7Bf, IWS1e, NAB1f, MFSD6f, MSTNf, PMS1f, ORMDL1e, COL3A1f, COL5A2f, ANKARf, SLC40A1f |
|  | 4 | 89299122 | 90487119 | 12 | 89799122a | 4.67 × 10−6 | 0.000 | 0.007 | 0.002 | 0.000 | 0.992 | GPR37e, POT1 |
|  | 14 | 33353270 | 34360874 | 4 | 33855595a | 2.20 × 10−7 | 0.013 | 0.026 | 0.054 | 0.054 | 0.982 | PREX2 |
|  | 21 | 34538609 | 35572213 | 47 | 35062974b | 9.70 × 10−7 | 0.617 | 0.521 | 0.594 | 0.000 | 0.451 | UBL7, SEMA7A, PML |
|  | 28 | 15669176 | 18516719 | 77 | 16273851a | 2.95 × 10−8 | 0.574 | 0.827 | 0.580 | 0.416 | 0.520 | ANK3, CDK1, RHOBTB1 |
HE | 1 | 68813144 | 73614763 | 228 | 69348458b | 5.23 × 10−7 | 0.764 | 0.531 | 0.237 | 0.317 | 0.480 | KALRNe, ITGB5e |
|  | 7 | 83591608 | 84673367 | 26 | 84122153a | 3.16 × 10−7 | 0.177 | 0.851 | 0.913 | 0.000 | 0.910 | ACOT12, ATG10 |
|  | 12 | 48965278 | 50129513 | 4 | 49465278a | 1.84 × 10−6 | 0.020 | 0.995 | 0.996 | 0.983 | 0.000 | KLF12 |
|  | 13 | 2761800 | 3761897 | 2 | 3261897a | 7.44 × 10−7 | 0.681 | 0.761 | 0.795 | 0.269 | 0.695 | MRPL33 |
|  | 23 | 12056019 | 13111217 | 5 | 12571991b | 1.09 × 10−6 | 0.220 | 0.000 | 0.094 | 0.885 | 0.100 | GLO1, GLP1R |
LM | 2 | 4293223 | 12640428 | 2610 | 6622189a | 3.22 × 10−30 | 0.491 | 0.447 | 0.250 | 0.043 | 0.799 | WDR75, ASNSD1f, MYO7B, IWS1, NAB1f, MFSD6e, MSTNf, PMS1f, ORMDL1e, COL3A1f, COL5A2f, ANKARf, SLC40A1f, ZNF804A |
|  | 2 | 13916060 | 14987913 | 113 | 14446207bc | 4.83 × 10−8 | 0.567 | 0.562 | 0.374 | 0.394 | 0.523 | PDE1Ae, PPP1R1C |
|  | 5 | 59612855 | 60696179 | 7 | 60112855a | 1.58 × 10−7 | 0.000 | 0.000 | 0.000 | 0.997 | 0.996 | AMDHD1 |
|  | 11 | 12163298 | 13181229 | 7 | 12676690a | 1.56 × 10−6 | 0.486 | 0.283 | 0.000 | 0.231 | 0.163 | CYP26B1, DYSF, ZNF638 |
SI | 6 | 76112104 | 77238886 | 16 | 76612104a | 1.28 × 10−6 | 0.997 | 0.993 | 0.000 | 0.000 | 0.993 | ENSBTAG00000043492 |
|  | 7 | 103195804 | 104247192 | 3 | 103695804b | 1.78 × 10−6 | 0.000 | 0.000 | 0.000 | 0.005 | 0.005 | SLCO4C1e, SLC06A1 |
|  | 9 | 65068999 | 66303927 | 4 | 65712927a | 4.56 × 10−7 | 0.000 | 0.000 | 0.000 | 0.003 | 0.996 | TBX18e, MRAP2 |
|  | 23 | 41204249 | 42287354 | 9 | 41747427a | 1.48 × 10−7 | 0.009 | 0.008 | 0.994 | 0.962 | 0.990 | JARID2 |
|  | 25 | 22649471 | 23937019 | 6 | 23400365a | 1.00 × 10−7 | 0.985 | 0.993 | 0.000 | 0.993 | 0.998 | AQP8, ZKSCAN2 |