Table 2.
Individual and overlapping of the top 10 window regions (UMD3.1) among five semen traits.
| Chr | Window region (Mb) | Var (%)VE | Var (%)SC | Var (%)MS | Var (%)NMPS | Var (%)NSPE | Genes |
|---|---|---|---|---|---|---|---|
| 1 | 108.74-109.10 | – | – | 2.93 | – | – | IQCJ |
| 1 | 109.18–109.52 | – | – | 2.09 | – | – | – |
| 2 | 56.5–56.9 | 3.34 | – | – | – | – | ENSBTAG00000024632 |
| 2 | 65.04–65.35 | – | 3.61 | – | – | – | NCKAP5,LYPD1,ENSBTAG00000047466 |
| 2 | 4.2–4.57 | – | 2.94 | – | – | – | UGGT1,SAP130,AMMECR1L,POLR2D |
| 3 | 71.6–72.04 | – | 4.59 | 3.25 | 2.12 | 1.80 | – |
| 3 | 76.57–76.85 | – | 2.21 | – | – | – | – |
| 3 | 69.91–70.27 | – | – | – | 2.16 | – | LHX8,TYW3,CRYZ |
| 4 | 64.55–65.17 | – | – | 3.77 | – | – | PDE1C,PPP1R17 |
| 5 | 113.91–114.47 | 6.92 | – | – | 14.88 | 8.67 | SERHL2,RRP7A,POLDIP3,CYB5R3,ARFGAP3,PACSIN2,A4GALT,ENSBTAG00000030199,ENSBTAG0000004557,ENSBTAG00000037110 |
| 5 | 113.47–113.87 | 3.49 | – | – | 4.77 | 4.51 | SEPT3,WBP2NL,NAGA,PHETA2,SMDT1,NDUFA6,MGC127055,CYP2D14,TCF20,NFAM1,bta-mir-2442,ENSBTAG00000038146,ENSBTAG00000037632,ENSBTAG00000046721 |
| 5 | 89.79–90.27 | – | – | 16.82 | – | – | ENSBTAG00000044467 |
| 5 | 89.29–89.68 | – | – | 2.29 | – | – | SLCO1A2,SLCO1B3,ENSBTAG00000016876,ENSBTAG00000042573,SLCO1C1,PDE3A,ENSBTAG00000029126 |
| 6 | 0.62–0.94 | 10.01 | – | – | – | – | – |
| 8 | 43.78–44.28 | – | – | – | 2.52 | 1.91 | DMRT2,ENSBTAG00000043651,DMRT3, DMRT1, KANK1 |
| 9 | 95.19–95.67 | – | – | – | 2.70 | 2.55 | ARID1B,TMEM242, ZDHHC14,bta-mir-2481 |
| 10 | 21.52–21.87 | 1.55 | – | – | – | – | SLC7A8,ENSBTAG00000043704,ENSBTAG00000042621,CEBPE,C10H14orf119,ACIN1,CDH24,PSMB11,PSMB5,C10H14orf93,AJUBA,HAUS4,PRMT5,RBM23,REM2,LRP10,MMP14,MRPL52,SLC7A7,OXA1L |
| 10 | 50.75–51.1 | – | – | – | 1.49 | – | FAM81A,MYO1E |
| 11 | 18.22–18.48 | – | 19.55 | – | – | – | ENSBTAG00000045038 |
| 11 | 45.35–45.85 | – | – | 1.76 | – | – | ST6GAL2,UXS1,ENSBTAG00000044532, C11H2orf40, NCK2 |
| 15 | 85.05–85.26 | 3.75 | – | – | – | – | ENSBTAG00000048316 |
| 16 | 37.12–37.36 | 2.33 | – | – | – | – | DPT |
| 16 | 80.56–80.9 | 2.30 | – | – | – | – | NR5A2 |
| 16 | 75.75–76.06 | – | 2.03 | – | – | – | bta-mir-205,ENSBTAG00000044497 |
| 17 | 66.83–67.22 | – | 1.19 | – | – | – | WSCD2,ENSBTAG00000047446 |
| 17 | 42.47–42.81 | – | – | 16.98 | 2.42 | – | GRIA2,ENSBTAG00000047318 |
| 19 | 60.01–60.36 | – | – | 1.87 | – | – | – |
| 19 | 30.22–30.57 | – | – | – | – | 1.53 | MYH3,SCO1,ADPRM,TMEM220,PIRT |
| 20 | 4.96–5.3 | – | – | – | 2.23 | 1.46 | BOD1 |
| 20 | 34.05–34.39 | – | – | – | – | 1.51 | – |
| 21 | 25.48–25.85 | – | – | 1.95 | – | – | BTBD1,MORF4L1, CTSH,RASGRF1 |
| 22 | 14.06–14.39 | 1.63 | – | – | – | – | – |
| 22 | 60.82–61.07 | – | 1.85 | – | – | – | PLXNA1,CHCHD6 |
| 24 | 33.25–33.69 | 1.68 | – | – | 5.77 | 4.48 | LAMA3,ENSBTAG00000039850,RF00026,ANKRD29,NPC1,RMC1,RIOK3,TMEM241,CABLES1 |
| 25 | 4.82–5.13 | – | 3.49 | – | – | – | – |
| 25 | 39.26–39.54 | – | 1.43 | – | – | – | RNF216,FSCN1,ENSBTAG00000047781,ACTB,FBXL18,TNRC18,SLC29A4 |
Chr, chromosome; window region: position of window region. Recorded for each ejaculate (VE, ejaculate volume; SM: progressive sperm motility; SC, sperm concentration; NSP, number of sperm per ejaculate; NMSP, number of motile sperm). Var: the percentage of genetic variance explained by the window region; Genes: the genes located within the window region. –: no genes located in the window region or not the top 10 ranking windows for the semen trait. Var(%): the percentage of the explained variance.