Rodentia_A ANCESTRAL SPECIES 20 ENSGT00940000159983 ENSGT00390000002398 ENSGT00390000005197.a.b ENSGT01100000263563.c.b ENSGT00390000015965 ENSGT00390000000214.a.b ENSGT00940000157221 #13 ENSGT00940000160197 #15 ENSGT00940000153404.b #16 ENSGT00940000153648.b #17 ENSGT00390000013778 #18 ENSGT00940000159709 #19 ENSGT00940000156247 #20 ENSGT00940000157949 #21 ENSGT00900000143434 ENSGT00940000157456 #22 ENSGT00940000163662 #23 ENSGT00940000162884 #24 ENSGT00940000162201 #25 ENSGT00390000010054.b #26 ENSGT00390000017929 #27 ENSGT00940000155358 #28 ENSGT00590000083165 #29 ENSGT00730000111066 #30 ENSGT00940000157489 #31 ENSGT00390000015224.c.b.a.k.b.a ##32 ENSGT00390000006234 #33 ENSGT00390000015355 #34 ENSGT00390000018294 #35 ENSGT00670000098059 #36 ENSGT00940000155155 #37 Sciuridae ANCESTRAL SPECIES 19 ENSGT00940000159983 ENSGT00390000002398 ENSGT00390000005197.a.b ENSGT01100000263563.c.b ENSGT00390000015965 ENSGT00390000000214.a.b ENSGT00940000157221 #13 ENSGT00940000160197 #15 ENSGT00940000153404.b #16 ENSGT00940000153648.b #17 ENSGT00390000013778 #18 ENSGT00940000159709 #19 ENSGT00940000156247 #20 ENSGT00940000157949 #21 ENSGT00900000143434 ENSGT00940000157456 #22 ENSGT00940000163662 #23 ENSGT00940000162884 #24 ENSGT00940000162201 #25 ENSGT00990000210295 ENSGT00390000010054.b #26 ENSGT00390000017929 #27 ENSGT00940000155358 #28 ENSGT00590000083165 #29 ENSGT00730000111066 #30 ENSGT00940000157489 #31 ENSGT00390000015224.c.b.a.k.a.a.b ##32 ENSGT00390000006234 #33 ENSGT00390000015355 #34 ENSGT00390000018294 #35 ENSGT00670000098059 #36 Marmotini ANCESTRAL SPECIES 26 ENSGT00940000159983 ENSGT00390000002398 ENSGT00390000005197.a.b ENSGT01100000263563.c.b ENSGT00390000015965 ENSGT00390000000214.a.b ENSGT00940000157221 #13 ENSGT00940000160197 #15 ENSGT00940000153404.b #16 ENSGT00940000153648.b #17 ENSGT00390000013778 #18 ENSGT00940000159709 #19 ENSGT00940000156247 #20 ENSGT00940000157949 #21 ENSGT00900000143434 ENSGT00940000157456 #22 ENSGT00940000163662 #23 ENSGT00940000162884 #24 ENSGT00940000162201 #25 ENSGT00390000010054.b #26 ENSGT00390000017929 #27 ENSGT00940000155358 #28 ENSGT00590000083165 #29 ENSGT00730000111066 #30 ENSGT00940000157489 #31 ENSGT00390000015224.c.b.a.k.a.a.b ##32 ENSGT00390000015224.c.b.a.l #32 ENSGT00390000006234 #33 ENSGT00390000015355 #34 ENSGT00390000018294.k.a #35 ENSGT00670000098059 #36 Marmotini_b ANCESTRAL SPECIES 48 ENSGT01030000234945 #12 ENSGT00940000157221 #13 ENSGT00950000182841.b.a.a.b.b.p.a #14 ENSGT00940000160197 #15 ENSGT00940000153404.b #16 ENSGT00940000153648.b #17 ENSGT00390000013778 #18 ENSGT00940000159709 #19 ENSGT00940000156247 #20 ENSGT00940000157949 #21 ENSGT00940000157456 #22 ENSGT00940000163662 #23 ENSGT00940000162884 #24 ENSGT00940000162201 #25 ENSGT00390000010054.b #26 ENSGT00390000017929 #27 ENSGT00940000155358 #28 ENSGT00590000083165 #29 ENSGT00730000111066 #30 ENSGT00940000157489 #31 ENSGT00390000015224.c.b.a.k.a.a.b ##32 ENSGT00390000006234 #33 ENSGT00390000015355 #34 ENSGT00390000018294.k.a #35 ENSGT00670000098059 #36 ENSGT00940000155155 #37 Arctic ground squirrel MODERN SPECIES 2 ENSUPAG00010016796 #12 PCDH7 (ENSUPAG00010016798) #13 ENSUPAG00010016821 #14 ARAP2 (ENSUPAG00010016832) #15 DTHD1 (ENSUPAG00010016950) #16 NWD2 (ENSUPAG00010016964) #17 C4orf19 (ENSUPAG00010016983) #18 RELL1 (ENSUPAG00010016993) #19 PGM2 (ENSUPAG00010017012) #20 TBC1D1 (ENSUPAG00010017027) #21 KLF3 (ENSUPAG00010017209) #22 TLR10 (ENSUPAG00010017218) #23 TLR1 (ENSUPAG00010017233) #24 TLR6 (ENSUPAG00010017235) #25 FAM114A1 (ENSUPAG00010017240) #26 TMEM156 (ENSUPAG00010017254) #27 KLHL5 (ENSUPAG00010017266) #28 WDR19 (ENSUPAG00010017295) #29 RFC1 (ENSUPAG00010017359) #30 KLB (ENSUPAG00010018497) #31 ENSUPAG00010018508 #32 LIAS (ENSUPAG00010018541) #33 UGDH (ENSUPAG00010018571) #34 ENSUPAG00010018587 #35 UBE2K (ENSUPAG00010018605) #36 PDS5A (ENSUPAG00010018683) #37 Squirrel MODERN SPECIES 82 PCDH7 (ENSSTOG00000009192) #13 ENSSTOG00000029131 #14 ENSSTOG00000028351 ARAP2 (ENSSTOG00000019405) #15 DTHD1 (ENSSTOG00000003003) #16 NWD2 (ENSSTOG00000019543) #17 C4orf19 (ENSSTOG00000003425) #18 RELL1 (ENSSTOG00000001374) #19 PGM2 (ENSSTOG00000008176) #20 ENSSTOG00000020687 #21 KLF3 (ENSSTOG00000010881) #22 TLR1 (ENSSTOG00000021581) #24 TLR6 (ENSSTOG00000025480) #25 FAM114A1 (ENSSTOG00000001171) #26 TMEM156 (ENSSTOG00000004246) #27 KLHL5 (ENSSTOG00000007013) #28 WDR19 (ENSSTOG00000007054) #29 RFC1 (ENSSTOG00000007088) #30 KLB (ENSSTOG00000002069) #31 ENSSTOG00000002077 ##32 LIAS (ENSSTOG00000002082) #33 UGDH (ENSSTOG00000002096) #34 SMIM14 (ENSSTOG00000034581) ##35 UBE2K (ENSSTOG00000012447) #36 PDS5A (ENSSTOG00000012451) #37 N4BP2 (ENSSTOG00000020354) Alpin marmot MODERN SPECIES 9 SMIM20 (ENSMMMG00000017386) RBPJ (ENSMMMG00000017407) CCKAR (ENSMMMG00000017438) STIM2 (ENSMMMG00000017470) ENSMMMG00000017503 ENSMMMG00000017519 #13 ARAP2 (ENSMMMG00000017527) #15 DTHD1 (ENSMMMG00000017544) #16 NWD2 (ENSMMMG00000017559) #17 ENSMMMG00000017574 C4orf19 (ENSMMMG00000017577) #18 RELL1 (ENSMMMG00000017587) #19 PGM2 (ENSMMMG00000017606) #20 TBC1D1 (ENSMMMG00000017620) #21 ENSMMMG00000017716 KLF3 (ENSMMMG00000017721) #22 TLR10 (ENSMMMG00000017725) #23 TLR1 (ENSMMMG00000017739) #24 TLR6 (ENSMMMG00000017761) #25 FAM114A1 (ENSMMMG00000017765) #26 TMEM156 (ENSMMMG00000017773) #27 KLHL5 (ENSMMMG00000017784) #28 WDR19 (ENSMMMG00000017829) #29 RFC1 (ENSMMMG00000017905) #30 KLB (ENSMMMG00000017911) #31 ENSMMMG00000017920 ENSMMMG00000017936 #32 LIAS (ENSMMMG00000017957) #33 UGDH (ENSMMMG00000017978) #34 ENSMMMG00000018002 #35 UBE2K (ENSMMMG00000018022) #36 Eurasian red squirrel DUPLICATION Eurasian red squirrel MODERN SPECIES 18 ENSSVLG00005011695 ENSSVLG00005011631 ENSSVLG00005011572 #12 PCDH7 (ENSSVLG00005011515) #13 ENSSVLG00005011423 ##14 ARAP2 (ENSSVLG00005010880) #15 DTHD1 (ENSSVLG00005010509) #16 ENSSVLG00005010441 #17 ENSSVLG00005010374 #17 C4orf19 (ENSSVLG00005010352) #18 RELL1 (ENSSVLG00005010318) #19 ENSSVLG00005010293 PGM2 (ENSSVLG00005010275) #20 TBC1D1 (ENSSVLG00005010172) #21 ENSSVLG00005010135 ENSSVLG00005010086 #22 ENSSVLG00005010070 TLR10 (ENSSVLG00005010051) #23 TLR1 (ENSSVLG00005010028) #24 TLR6 (ENSSVLG00005009982) #25 ENSSVLG00005009942 TMEM156 (ENSSVLG00005009879) #27 KLHL5 (ENSSVLG00005009665) #28 WDR19 (ENSSVLG00005009349) #29 RFC1 (ENSSVLG00005009235) #30 KLB (ENSSVLG00005009120) #31 ENSSVLG00005009038 ##32 LIAS (ENSSVLG00005008848) #33 UGDH (ENSSVLG00005008677) #34 ENSSVLG00005008623 ENSSVLG00005008568 #35 Eurasian red squirrel MODERN SPECIES 57 ENSSVLG00005020536 #22 ENSSVLG00005020551 ENSSVLG00005020569 ENSSVLG00005020585 ENSSVLG00005020631 ENSSVLG00005020710 Hystricomorpha ANCESTRAL SPECIES 26 ENSGT00950000183177.a.a.b ENSGT00940000159983 ENSGT00390000002398 ENSGT00390000005197.a.b ENSGT01100000263563.c.b ENSGT00390000015965 ENSGT00390000000214.a.b ENSGT00940000157221 #13 ENSGT00940000160197 #15 ENSGT00940000153404.b #16 ENSGT00940000153648.b #17 ENSGT00390000013778 #18 ENSGT00940000159709 #19 ENSGT00940000156247 #20 ENSGT00940000157949 #21 ENSGT00940000157456 #22 ENSGT00940000163662 #23 ENSGT00940000162884 #24 ENSGT00940000162201 #25 ENSGT00390000010054.b #26 ENSGT00390000017929 #27 ENSGT00940000155358 #28 ENSGT00590000083165 #29 ENSGT00730000111066 #30 ENSGT00940000157489 #31 ENSGT00390000015224.c.b.a.k.b.a ##32 ENSGT00390000006234 #33 ENSGT00390000015355 #34 ENSGT00390000018294 #35 ENSGT00670000098059 #36 ENSGT00940000155155 #37 Hystricomorpha_a ANCESTRAL SPECIES 23 ENSGT00950000183177.a.a.b ENSGT00940000159983 ENSGT00390000002398 ENSGT00390000005197.a.b ENSGT01100000263563.c.b ENSGT00390000015965 ENSGT00390000000214.a.b ENSGT00940000157221 #13 ENSGT00940000160197 #15 ENSGT00940000153404.b #16 ENSGT00940000153648.b #17 ENSGT00390000013778 #18 ENSGT00940000159709 #19 ENSGT00940000156247 #20 ENSGT00940000157949 #21 ENSGT00940000157456 #22 ENSGT00940000163662 #23 ENSGT00940000162884 #24 ENSGT00940000162201 #25 ENSGT00390000010054.b #26 ENSGT00390000017929 #27 ENSGT00940000155358 #28 ENSGT00590000083165 #29 ENSGT00730000111066 #30 ENSGT00940000157489 #31 ENSGT00390000015224.c.b.a.k.b.a ##32 ENSGT00390000006234 #33 ENSGT00390000015355 #34 ENSGT00390000018294 #35 ENSGT00940000166010 ENSGT00670000098059 #36 Hystricomorpha_b ANCESTRAL SPECIES 37 ENSGT00950000183177.a.a.b ENSGT00940000159983 ENSGT00390000002398 ENSGT00390000005197.a.b ENSGT01100000263563.c.b ENSGT00390000015965 ENSGT00390000000214.a.b ENSGT00940000157221 #13 ENSGT00940000160197 #15 ENSGT00940000153404.b #16 ENSGT00940000153648.b #17 ENSGT00390000013778 #18 ENSGT00940000159709 #19 ENSGT00940000156247 #20 ENSGT00940000157949 #21 ENSGT00940000157456 #22 ENSGT00940000163662 #23 ENSGT00940000162884 #24 ENSGT00940000162201 #25 ENSGT00390000010054.b #26 ENSGT00390000017929 #27 ENSGT00940000155358 #28 ENSGT00590000083165 #29 ENSGT00730000111066 #30 ENSGT00940000157489 #31 ENSGT00390000015224.c.b.a.k.b.a ##32 ENSGT00390000006234 #33 ENSGT00390000015355 #34 ENSGT00390000018294 #35 ENSGT00940000166010 ENSGT00670000098059 #36 Long-tailed chinchilla MODERN SPECIES 150 SLC34A2 (ENSCLAG00000002636) SEL1L3 (ENSCLAG00000002362) SMIM20 (ENSCLAG00000002089) RBPJ (ENSCLAG00000002065) CCKAR (ENSCLAG00000001729) TBC1D19 (ENSCLAG00000001699) STIM2 (ENSCLAG00000002849) PCDH7 (ENSCLAG00000002605) #13 ARAP2 (ENSCLAG00000012467) #15 DTHD1 (ENSCLAG00000011952) #16 NWD2 (ENSCLAG00000010818) #17 C4orf19 (ENSCLAG00000010706) #18 RELL1 (ENSCLAG00000010401) #19 PGM2 (ENSCLAG00000010266) #20 TBC1D1 (ENSCLAG00000002236) #21 KLF3 (ENSCLAG00000004459) #22 TLR10 (ENSCLAG00000004336) #23 TLR1 (ENSCLAG00000017579) #24 TLR6 (ENSCLAG00000017630) #25 FAM114A1 (ENSCLAG00000003993) #26 TMEM156 (ENSCLAG00000003928) #27 KLHL5 (ENSCLAG00000002937) #28 WDR19 (ENSCLAG00000002775) #29 RFC1 (ENSCLAG00000001564) #30 KLB (ENSCLAG00000001476) #31 ENSCLAG00000001418 ##32 LIAS (ENSCLAG00000001354) #33 UGDH (ENSCLAG00000001307) #34 SMIM14 (ENSCLAG00000002664) #35 ENSCLAG00000006068 ENSCLAG00000006013 Degu MODERN SPECIES 199 ENSODEG00000002273 ##16 NWD2 (ENSODEG00000002293) #17 RELL1 (ENSODEG00000002376) #19 ENSODEG00000002408 #20 TBC1D1 (ENSODEG00000002549) #21 ENSODEG00000018891 KLF3 (ENSODEG00000002620) #22 ENSODEG00000002637 FAM114A1 (ENSODEG00000003086) #26 KLHL5 (ENSODEG00000003160) #28 WDR19 (ENSODEG00000003235) #29 RFC1 (ENSODEG00000003452) #30 KLB (ENSODEG00000003829) #31 ENSODEG00000003855 ##32 LIAS (ENSODEG00000003971) #33 ENSODEG00000003708 #34 ENSODEG00000003741 UBE2K (ENSODEG00000003840) #36 PDS5A (ENSODEG00000003973) #37 ENSODEG00000019119 N4BP2 (ENSODEG00000004780) ENSODEG00000004818 Guinea pig MODERN SPECIES 24 RANBP2 (ENSCPOG00000000392) CCDC138 (ENSCPOG00000000393) EDAR (ENSCPOG00000011862) SH3RF3 (ENSCPOG00000001631) SEPTIN10 (ENSCPOG00000004533) ENSCPOG00000030940 ENSCPOG00000032789 ENSCPOG00000038259 ENSCPOG00000033829 ENSCPOG00000038611 NWD2 (ENSCPOG00000008345) #17 C4orf19 (ENSCPOG00000035167) #18 RELL1 (ENSCPOG00000009761) #19 PGM2 (ENSCPOG00000013611) #20 TBC1D1 (ENSCPOG00000013615) #21 KLF3 (ENSCPOG00000030471) #22 TLR10 (ENSCPOG00000015283) #23 TLR1 (ENSCPOG00000012205) #24 TLR6 (ENSCPOG00000005088) #25 FAM114A1 (ENSCPOG00000013554) #26 TMEM156 (ENSCPOG00000013560) #27 KLHL5 (ENSCPOG00000004478) #28 WDR19 (ENSCPOG00000004240) #29 RFC1 (ENSCPOG00000004248) #30 KLB (ENSCPOG00000004539) #31 ENSCPOG00000004543 ##32 LIAS (ENSCPOG00000004547) #33 UGDH (ENSCPOG00000004550) #34 ENSCPOG00000039840 UBE2K (ENSCPOG00000014798) #36 ENSCPOG00000023886 Naked mole-rat female MODERN SPECIES 1 ENSHGLG00000037767 NWD2 (ENSHGLG00000000298) #17 ENSHGLG00000040844 #18 ENSHGLG00000040492 #18 ENSHGLG00000043452 #19 PGM2 (ENSHGLG00000001842) #20 ENSHGLG00000002323 ENSHGLG00000003063 ENSHGLG00000000606 ENSHGLG00000019811 ENSHGLG00000033549 ENSHGLG00000034348 ENSHGLG00000043517 #21 ENSHGLG00000044532 #21 ENSHGLG00000019798 KLF3 (ENSHGLG00000049437) #22 ENSHGLG00000000855 ENSHGLG00000019856 #24 ENSHGLG00000001742 TLR6 (ENSHGLG00000050436) #25 FAM114A1 (ENSHGLG00000002258) #26 TMEM156 (ENSHGLG00000002626) #27 ENSHGLG00000033489 KLHL5 (ENSHGLG00000001944) #28 WDR19 (ENSHGLG00000002756) #29 ENSHGLG00000002546 #30 ENSHGLG00000032109 KLB (ENSHGLG00000002389) #31 ENSHGLG00000002318 ##32 LIAS (ENSHGLG00000002264) #33 UGDH (ENSHGLG00000002204) #34