Table 2. Closest SNP, confidence interval, and protein-coding gene content of semilandmark QTL.
| QTL | Closest SNP | Chr | Left | Pos | Right | Replic. | nPCGa | nCG.2Db | nCG.3D | CG.Semic |
|---|---|---|---|---|---|---|---|---|---|---|
| SH1 | gnf01.075.385 | 1 | 42.33 | 43.62 | 44.33 | 2D, 3D | 56 | 4 | ||
| SH2 | rs3722345 | 2 | 51.09 | 51.09 | 60.54 | 2D, 3D | 243 | 2 | 2 | |
| SH3 | rs6274061 | 3 | 12.01 | 20.01 | 21.01 | 81 | 2 | |||
| SH4 | rs3676039 | 3 | 59.01 | 65.01 | 77.01 | 115 | 2 | Lef1 | ||
| SH5 | rs3711477 | 4 | 52.01 | 52.20 | 53.01 | 3D | 12 | 1 | ||
| SH6 | UT_4_132.137715 | 4 | 81.01 | 83.01 | 84.01 | 44 | Rere | |||
| SH7 | rs13478154 | 5 | 13.50 | 15.71 | 17.50 | 2D, 3D | 75 | 6 | 9 | Shh, Drc1, Ift172 |
| SH8 | rs13478388 | 5 | 43.50 | 52.50 | 56.50 | 2D, 3D | 345 | 12 | 6 | Ambn, Fras1, Prkg2, Dmp1, Idua, Fgfrl1, Mn1, Kctd10 |
| SH9 | CEL-6_86289708 | 6 | 41.55 | 43.00 | 43.00 | 2D, 3D | 3 | 4 | 3 | |
| SH10 | rs3658783 | 6 | 84.00 | 88.00 | 89.28 | |||||
| SH11 | rs13479427 | 7 | 43.05 | 55.02 | 57.20 | 477 | Akap13, Kif7, Serpinh1, Folr1 | |||
| SH12 | rs6386110 | 8 | 22.38 | 25.52 | 27.52 | 2D, 3D | 69 | 1 | 7 | |
| SH13 | rs3721056 | 9 | 43.10 | 44.47 | 71.10 | 2D, 3D | 366 | 2 | 2 | Atr, Ryk |
| SH14 | rs3686911 | 10 | 3.03 | 3.18 | 9.03 | 48 | ||||
| SH15 | mCV24217147 | 10 | 67.03 | 70.03 | 71.12 | 2D, 3D | 24 | 3 | 1 | |
| SH16 | rs3700830 | 11 | 12.08 | 16.08 | 17.08 | 52 | ||||
| SH17 | rs13481127 | 11 | 48.08 | 49.08 | 54.08 | 2D, 3D | 116 | |||
| SH18 | rs3672597 | 11 | 82.08 | 84.08 | 86.08 | 2D, 3D | 106 | |||
| SH19 | rs13481321 | 12 | 6.90 | 7.99 | 8.95 | 3D | 44 | |||
| SH20 | rs3693942 | 13 | 25.00 | 26.00 | 26.52 | 2D, 3D | 36 | |||
| SH21 | CEL-15_36490596 | 15 | 13.68 | 13.68 | 14.99 | 2D, 3D | 32 | |||
| SH22 | rs4204106 | 16 | 33.03 | 48.03 | 53.31 | 2D, 3D | 177 | |||
| SH23 | rs6298471 | 17 | 16.03 | 18.14 | 21.14 | 314 |
QTL, quantitative trait loci; Chr, chromosome; Pos, position; Replic, replication, nPCG, number of protein coding genes; nCG, number of candidate genes; SH, shape etc.
a
Number of protein-coding genes in the interval.
b
Number of candidate genes annotated for “mandible” in the MGI databases in the QTL confidence interval from 2D or 3D datasets.
c
Candidate genes annotated for “mandible” in the MGI databases in the QTL confidence interval for the semilandmark analysis. Candidates with nonsynonymous or splice-site variants between AJ and C57BL/6J are indicated in bold.