Table 3 Regions under selection identified at the 5% local FDR (q-value) thresholds.
From: A whole genome Bayesian scan for adaptive genetic divergence in West African cattle
Interval | BTA | Position (size) in Mb | Peak Position in Mb | BF value of the SNP at the peak position (q-value of the smoothed signal) | Gene at or close to the peak |
|---|---|---|---|---|---|
1 | 1 | 3.654-12.74 (9.087) | 3.923 | 50 (0.0467) | KRTAP8-1 (3.888-3.888) |
2 | 1 | 133.1-138.6 (5.465) | 138.1 | 51 (0.0345) | BFSP2 (138.1-138.2) |
3 | 2 | 0.035-2.687 (2.652) | 0.035 | 51 (0.0001) | NA |
4 | 2 | 64.04-67.28 (3.235) | 64.25 | 31 (0.0258) | CXCR4 (64.22-64.22) |
5 | 2 | 71.48-78.32 (6.84) | 73.84 | 51 (0.0001) | SNRPG (73.75-73.75) |
6 | 2 | 117.7-129.0 (11.35) | 124.1 | 45 (0.0007) | DIS3L2 (123.844-124.15) |
7 | 2 | 140.0-140.6 (0.662) | 140.0 | 25 (0.0473) | PADI4 (139.9-139.9) |
8 | 3 | 12.39-19.72 (7.325) | 15.96 | 51 (0.0007) | SEMA4A (15.94-15.96) |
9 | 3 | 107.9-110.1 (2.219) | 108.3 | 37 (0.0246) | RNF220 (108.2-108.3) |
10 | 4 | 24.74-29.70 (4.953) | 25.47 | 38 (0.0002) | NA |
11 | 4 | 32.31-37.17 (4.860) | 35.71 | 36 (0.0009) | NA |
12 | 4 | 46.84-54.10 (7.259) | 51.86 | 26 (0.0017) | EPDR1 (51.77-51.81) |
13 | 4 | 66.29-75.27 (8.977) | 67.67 | 50 (0.0065) | NEUROD6 (67.70-67.70) |
14 | 5 | 15.625-16.745 (1.121) | 16.15 | 26 (0.0342) | NA |
15 | 5 | 26.81-31.05 (4.245) | 28.37 | 51 (0.0001) | PDE1B (28.34-28.39) |
16 | 5 | 47.89-54.39 (6.505) | 49.93 | 51 (0.0004) | DYRK2 (49.89-49.90) |
17 | 5 | 58.82-65.26 (6.44) | 61.43 | 47 (0.0001) | RBMS2 (61.40-61.46) |
18 | 6 | 89.36-105.4 (16.05) | 98.15 | 51 (0.0011) | ANTXR2 (98.00-98.24) |
19 | 7 | 11.59-13.35 (1.753) | 12.98 | 25 (0.0176) | OLFM2 (12.90-12.99) |
20 | 7 | 17.02-18.86 (1.846) | 17.90 | 51 (0.0001) | TICAM1 (17.90-17.90) |
21 | 7 | 23.53-25.51 (1.987) | 25.24 | 24 (0.0036) | CTXN3 (25.23-25.24) |
22 | 7 | 34.96-38.66 (3.703) | 36.52 | 28 (0.0001) | NA |
23 | 7 | 46.17-54.47 (8.296) | 49.91 | 51 (0.0001) | MATR3 (49.89-49.93) |
24 | 7 | 58.19-61.94 (3.745) | 59.43 | 51 (0.0001) | HTR4 (59.31-59.50) |
25 | 7 | 65.23-67.12 (1.897) | 66.43 | 28 (0.0005) | RPL35A (66.46-66.46) |
26 | 8 | 41.46-49.56 (8.100) | 43.54 | 51 (0.0011) | RFX3 (43.24-43.56) |
27 | 11 | 36.82-41.39 (4.565) | 41.08 | 33 (0.0346) | NA |
28 | 11 | 69.22-77.83 (8.614) | 72.17 | 38 (0.0126) | ALK (71.89-72.63) |
29 | 12 | 20.68-32.60 (11.93) | 23.08 | 51 (0.0009) | NA |
30 | 12 | 51.02-54.06 (3.033) | 53.56 | 40 (0.0265) | EDNRB (53.54-53.57) |
31 | 12 | 85.24-85.28 (0.034) | 85.24 | 37 (0.0498) | CDC16 (85.23-85.25) |
32 | 14 | 9.072-13.53 (4.461) | 11.38 | 50 (0.0017) | NA |
33 | 14 | 33.32-36.43 (3.108) | 34.44 | 38 (0.0022) | NA |
34 | 14 | 40.36-46.85 (6.481) | 46.08 | 35 (0.007) | TRPS1 (46.06-46.34) |
35 | 15 | 48.98-50.50 (1.522) | 50.01 | 8 (0.0451) | TRIM21 (50.07-50.08) |
36 | 18 | 9.24-12.36 (3.119) | 12.17 | 32 (0.0457) | CLDN9 (12.17-12.17) |
37 | 18 | 49.99-54.41 (4.412) | 51.08 | 41 (0.0128) | CD79A (51.08-51.08) |
38 | 19 | 25.14-29.43 (4.283) | 26.87 | 51 (0.0001) | MINK1 (26.86-26.91) |
39 | 19 | 32.87-35.72 (2.857) | 33.74 | 51 (0.0008) | TEKT3 (33.71-33.74) |
40 | 19 | 40.02-41.82 (1.798) | 41.72 | 51 (0.0401) | CASC3 (41.70-41.72) |
41 | 19 | 44.62-54.41 (9.792) | 49.62 | 51 (0.0001) | FTSJ3 (49.61-49.62) |
42 | 19 | 63.36-64.95 (1.594) | 64.26 | 51 (0.0051) | CCDC46 (64.16-64.31) |
43 | 20 | 4.040-6.339 (2.299) | 4.745 | 47 (0.0008) | ERGIC1 (4.632-4.745) |
44 | 20 | 13.97-18.06 (4.093) | 16.50 | 37 (0.0016) | RNF180 (16.31-16.56) |
45 | 21 | 45.09-50.35 (5.261) | 46.29 | 51 (0.0174) | KIAA0391 (46.20-46.33) |
46 | 21 | 65.61-66.89 (1.279) | 65.74 | 30 (0.0324) | DLK1 (65.72-65.72) |
47 | 22 | 32.32-38.56 (6.235) | 36.54 | 47 (0.0137) | MAGI1 (36.14-36.79) |
48 | 22 | 43.79-53.04 (9.249) | 51.81 | 34 (0.0451) | CCDC71 (51.80-51.80) |
49 | 23 | 25.59-30.12 (4.529) | 29.06 | 27 (0.0235) | NA |
50 | 24 | 52.78-57.25 (4.466) | 55.71 | 51 (0.0255) | NA |
51 | 25 | 27.73-30.38 (2.653) | 28.70 | 51 (0.0102) | SRCAP (28.67-28.70) |
52 | 25 | 36.33-38.47 (2.142) | 37.28 | 37 (0.0013) | MYL2 (37.32-37.33) |
53 | 25 | 41.40-42.52 (1.115) | 42.52 | 50 (0.0278) | AMZ1 (42.51-42.53) |