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Table 2 Positively selected genes and sites in ascrotal IDT and UDT mammals detected by branch-site model

From: Rapid evolution and molecular convergence in cryptorchidism-related genes associated with inherently undescended testes in mammals

Gene 2∆ (lnL) p value (< 0.05) Adjusted p value
(< 0.05)
ω value Positively selected sites† (PP > 0.8)
FLNA 90.45473  < 0.0001  < 0.0001 19.77482 6 (0.902) 432 (0.859) 1115 (0.818) 1764 (0.876) 2058 (0.999) 2399 (0.912)
DOCK1 66.31111  < 0.0001  < 0.0001 3.01947 120 (0.948) 781 (0.899) 1817 (0.927)
CSMD3 45.53421  < 0.0001  < 0.0001 22.94946 391 (0.961) 2238 (0.874) 2314 (0.813) 3022 (0.934) 3105 (0.927) 3341 (0.853) 3416 (0.828) 3565 (0.990)
MCMBP 23.477574  < 0.0001  < 0.0001 29.13722 190 (0.871) 249 (0.856) 273 (0.986) 401 (0.867)
FANCE 21.201804  < 0.0001  < 0.0001 4.29612 59 (0.818) 150 (0.994) 192 (0.998) 265 (0.863) 427 (0.896)
FBXL18 21.03184  < 0.0001  < 0.0001 33.89202 19 (0.980) 160 (0.813)
ARMC4 18.634242  < 0.0001 0.0007 4.42802 194 (0.917) 386 (0.931) 667 (0.877) 978 (0.950)
DEPTOR 18.15214  < 0.0001 0.0009 4.59605 184 (0.908)
ACTA1 17.687794  < 0.0001 0.0010 3.40263 93 (0.818) 302 (0.962)
JAG1 15.491652  < 0.0001 0.0028 4.20226 1006 (0.853) 1136 (0.926)
AIMP2 15.104846 0.0001 0.0032 22.04281  
RAF1 13.280048 0.0003 0.0077 5.13164  
CCDC73 11.117498 0.0009 0.0229 3.61345 418 (0.946) 440 (0.901) 826 (0.998) 1027 (0.966)
  1. PPs of Bayes Empirical Bayes (BEB) analysis with P > 0.8 were regarded as amino acid candidates for selection