Rodentia_A	ANCESTRAL SPECIES	20	ENSGT00940000155626 #7	ENSGT00940000156021 #8	ENSGT00940000156043 #9	ENSGT00390000003601.b #10	ENSGT00940000158757 #11	ENSGT00940000162578	ENSGT00390000011192 #13	ENSGT00940000158643 #14	ENSGT00940000153284.b #15	ENSGT00390000013532.j #16	ENSGT00390000013532.i #17	ENSGT00390000008110 #18	ENSGT00390000014817 #19	ENSGT00940000156935 #20	ENSGT00510000048509 #21	ENSGT00530000063690.a.b.a.b #22	ENSGT00530000063690.a.b.a.a #23	ENSGT00610000086058.a #24	ENSGT00390000012305.a #25	ENSGT00950000182808.a.a.b.b #26	ENSGT00390000017860.b #27	ENSGT00940000155951.b #28	ENSGT00940000160857 #29	ENSGT00940000160022 #30	ENSGT00940000156074 #31	ENSGT00940000157059 #32	ENSGT00940000157103 #33	ENSGT00940000156728 #34	ENSGT00390000018121 #35	ENSGT00940000154713.B	ENSGT00900000143503
Sciuridae	ANCESTRAL SPECIES	19	ENSGT00940000155626 #7	ENSGT00940000156021 #8	ENSGT00940000156043 #9	ENSGT00390000003601.b #10	ENSGT00940000158757 #11	ENSGT00940000162578	ENSGT00390000011192 #13	ENSGT00940000158643 #14	ENSGT00940000153284.b #15	ENSGT00390000013532.j #16	ENSGT00390000013532.i #17	ENSGT00390000008110 #18	ENSGT00390000014817 #19	ENSGT00940000156935 #20	ENSGT00510000048509 #21	ENSGT00530000063690.a.b.a.b #22	ENSGT00530000063690.a.b.a.a #23	ENSGT00610000086058.a #24	ENSGT00390000012305.a #25	ENSGT00950000182808.a.a.b.b #26	ENSGT00390000017860.b #27	ENSGT00940000155951.b #28	ENSGT00940000160857 #29	ENSGT00940000160022 #30	ENSGT00940000156074 #31	ENSGT00940000157059 #32	ENSGT00940000157103 #33	ENSGT00940000156728 #34	ENSGT00390000018121 #35	ENSGT00900000143503	ENSGT00940000154245.B #36
Marmotini	ANCESTRAL SPECIES	26	ENSGT00940000155626 #7	ENSGT00940000156021 #8	ENSGT00940000156043 #9	ENSGT00390000003601.b #10	ENSGT00940000158757 #11	ENSGT00940000162578	ENSGT00390000011192 #13	ENSGT00940000158643 #14	ENSGT00940000153284.b #15	ENSGT00390000013532.j #16	ENSGT00390000013532.i #17	ENSGT00390000008110 #18	ENSGT00390000014817 #19	ENSGT00940000156935 #20	ENSGT00510000048509 #21	ENSGT00530000063690.a.b.a.b #22	ENSGT00530000063690.a.b.a.a #23	ENSGT00610000086058.a #24	ENSGT00390000012305.a #25	ENSGT00950000182808.a.a.b.b #26	ENSGT00390000017860.b #27	ENSGT00940000155951.b #28	ENSGT00940000160857 #29	ENSGT00940000160022 #30	ENSGT00940000156074 #31	ENSGT00940000157059 #32	ENSGT00940000157103 #33	ENSGT00940000156728 #34	ENSGT00390000018121.i #35	ENSGT00940000154245.B #36	ENSGT00940000159024 #37
Marmotini_b	ANCESTRAL SPECIES	48	ENSGT00940000155626 #7	ENSGT00940000156021 #8	ENSGT00940000156043 #9	ENSGT00390000003601.b #10	ENSGT00940000158757 #11	ENSGT01060000248700 #12	ENSGT00390000011192 #13	ENSGT00940000158643 #14	ENSGT00940000153284.b #15	ENSGT00390000013532.j #16	ENSGT00390000013532.i #17	ENSGT00390000008110 #18	ENSGT00390000014817 #19	ENSGT00940000156935 #20	ENSGT00510000048509 #21	ENSGT00530000063690.a.b.a.b #22	ENSGT00530000063690.a.b.a.a #23	ENSGT00610000086058.a #24	ENSGT00390000012305.a #25	ENSGT00950000182808.a.a.b.b #26	ENSGT00390000017860.b #27	ENSGT00940000155951.b #28	ENSGT00940000160857 #29	ENSGT00940000160022 #30	ENSGT00940000156074 #31	ENSGT00940000157059 #32	ENSGT00940000157103 #33	ENSGT00940000156728 #34	ENSGT00390000018121.i #35	ENSGT00940000154245.B #36	ENSGT00940000159024 #37
Arctic ground squirrel	MODERN SPECIES	2	KIT (ENSUPAG00010020754) #7	PDGFRA (ENSUPAG00010020707) #8	GSX2 (ENSUPAG00010020700) #9	CHIC2 (ENSUPAG00010020698) #10	LNX1 (ENSUPAG00010020578) #11	ENSUPAG00010020429 #12	SCFD2 (ENSUPAG00010020412) #13	RASL11B (ENSUPAG00010020408) #14	USP46 (ENSUPAG00010020388) #15	ENSUPAG00010020376 #16	ENSUPAG00010020374 #17	SGCB (ENSUPAG00010020369) #18	LRRC66 (ENSUPAG00010020366) #19	DCUN1D4 (ENSUPAG00010020336) #20	CWH43 (ENSUPAG00010020291) #21	OCIAD2 (ENSUPAG00010020280) #22	OCIAD1 (ENSUPAG00010020236) #23	FRYL (ENSUPAG00010020086) #24	ENSUPAG00010020079 #25	ENSUPAG00010020074 #26	SLAIN2 (ENSUPAG00010020060) #27	TEC (ENSUPAG00010020011) #28	TXK (ENSUPAG00010019947) #29	NIPAL1 (ENSUPAG00010019941) #30	CNGA1 (ENSUPAG00010019928) #31	NFXL1 (ENSUPAG00010019911) #32	CORIN (ENSUPAG00010019864) #33	ATP10D (ENSUPAG00010019845) #34	COMMD8 (ENSUPAG00010019840) #35	GABRB1 (ENSUPAG00010019831) #36	GABRA4 (ENSUPAG00010019816) #37
Squirrel	MODERN SPECIES	82	PDGFRA (ENSSTOG00000011314) #8	GSX2 (ENSSTOG00000023286) #9	CHIC2 (ENSSTOG00000023668) #10	LNX1 (ENSSTOG00000012178) #11	ENSSTOG00000012166 #12	SCFD2 (ENSSTOG00000012162) #13	RASL11B (ENSSTOG00000027610) #14	ENSSTOG00000033365	USP46 (ENSSTOG00000012149) #15	ENSSTOG00000004581 #16	ENSSTOG00000032283 #17	SGCB (ENSSTOG00000004569) #18	LRRC66 (ENSSTOG00000022844) #19	DCUN1D4 (ENSSTOG00000013799) #20	CWH43 (ENSSTOG00000014976) #21	OCIAD2 (ENSSTOG00000014971) #22	OCIAD1 (ENSSTOG00000014963) #23	FRYL (ENSSTOG00000007280) #24	ZAR1 (ENSSTOG00000031847) #25	SLC10A4 (ENSSTOG00000027820) #26	SLAIN2 (ENSSTOG00000007212) #27	TEC (ENSSTOG00000015809) #28	TXK (ENSSTOG00000015802) #29	NIPAL1 (ENSSTOG00000010605) #30	CNGA1 (ENSSTOG00000001278) #31	NFXL1 (ENSSTOG00000001258) #32	CORIN (ENSSTOG00000001240) #33	ENSSTOG00000001229 #34	ENSSTOG00000029527 #34	ENSSTOG00000031460 #35	GABRB1 (ENSSTOG00000008575) #36
Alpin marmot	MODERN SPECIES	9	GSX2 (ENSMMMG00000020460) #9	CHIC2 (ENSMMMG00000020457) #10	LNX1 (ENSMMMG00000020305) #11	ENSMMMG00000020140	SCFD2 (ENSMMMG00000020102) #13	RASL11B (ENSMMMG00000020096) #14	ENSMMMG00000020094	ENSMMMG00000020086	USP46 (ENSMMMG00000020069) #15	ENSMMMG00000020060 #16	ENSMMMG00000020059 #17	SGCB (ENSMMMG00000020055) #18	LRRC66 (ENSMMMG00000020043) #19	DCUN1D4 (ENSMMMG00000020029) #20	CWH43 (ENSMMMG00000019997) #21	OCIAD2 (ENSMMMG00000019984) #22	OCIAD1 (ENSMMMG00000019868) #23	FRYL (ENSMMMG00000019781) #24	ENSMMMG00000019771 #25	ENSMMMG00000019763 #26	SLAIN2 (ENSMMMG00000019758) #27	TEC (ENSMMMG00000019700) #28	TXK (ENSMMMG00000019614) #29	NIPAL1 (ENSMMMG00000019609) #30	CNGA1 (ENSMMMG00000019576) #31	NFXL1 (ENSMMMG00000019525) #32	CORIN (ENSMMMG00000019455) #33	ENSMMMG00000019438 #34	ENSMMMG00000019428 #34	COMMD8 (ENSMMMG00000019422) #35	GABRB1 (ENSMMMG00000019411) #36
Eurasian red squirrel	MODERN SPECIES	18	PDGFRA (ENSSVLG00005022004) #8	GSX2 (ENSSVLG00005022055) #9	CHIC2 (ENSSVLG00005022117) #10	ENSSVLG00005022179	LNX1 (ENSSVLG00005022254) #11	FIP1L1 (ENSSVLG00005022448)	SCFD2 (ENSSVLG00005022776) #13	RASL11B (ENSSVLG00005022855) #14	ENSSVLG00005022878	USP46 (ENSSVLG00005022950) #15	SPATA18 (ENSSVLG00005023119) #16	SGCB (ENSSVLG00005023300) #18	LRRC66 (ENSSVLG00005023343) #19	ENSSVLG00005023431 #20	CWH43 (ENSSVLG00005023619) #21	OCIAD2 (ENSSVLG00005023758) #22	OCIAD1 (ENSSVLG00005023852) #23	FRYL (ENSSVLG00005023963) #24	ZAR1 (ENSSVLG00005023995) #25	SLC10A4 (ENSSVLG00005024018) #26	SLAIN2 (ENSSVLG00005024044) #27	TEC (ENSSVLG00005024112) #28	TXK (ENSSVLG00005024163) #29	ENSSVLG00005024245 #30	CNGA1 (ENSSVLG00005024292) #31	NFXL1 (ENSSVLG00005024329) #32	CORIN (ENSSVLG00005024434) #33	ATP10D (ENSSVLG00005024815) #34	COMMD8 (ENSSVLG00005024853) #35	ENSSVLG00005024866	GABRB1 (ENSSVLG00005024897) #36
Hystricomorpha	ANCESTRAL SPECIES	26	ENSGT00940000155626 #7	ENSGT00940000156021 #8	ENSGT00940000156043 #9	ENSGT00390000003601.b #10	ENSGT00940000158757 #11	ENSGT01060000248700 #12	ENSGT00940000162578	ENSGT00390000011192 #13	ENSGT00940000158643 #14	ENSGT00940000153284.b #15	ENSGT00390000013532.j #16	ENSGT00390000013532.i #17	ENSGT00390000008110 #18	ENSGT00940000156935 #20	ENSGT00510000048509 #21	ENSGT00530000063690.a.b.a.b #22	ENSGT00530000063690.a.b.a.a #23	ENSGT00610000086058.a #24	ENSGT00390000012305.a #25	ENSGT00950000182808.a.a.b.b #26	ENSGT00390000017860.b #27	ENSGT00940000155951.b #28	ENSGT00940000160857 #29	ENSGT00940000160022 #30	ENSGT00940000156074 #31	ENSGT00940000157059 #32	ENSGT00940000157103 #33	ENSGT00940000156728 #34	ENSGT00390000018121 #35	ENSGT00940000154245.B #36	ENSGT00940000159024 #37
Naked mole-rat female	DUPLICATION
Naked mole-rat female	MODERN SPECIES	1	FIP1L1 (ENSHGLG00000018937) #12	SCFD2 (ENSHGLG00000008861) #13	ENSHGLG00000035001	RASL11B (ENSHGLG00000018686) #14	ENSHGLG00000048480	USP46 (ENSHGLG00000018346) #15	ENSHGLG00000015649	SPATA18 (ENSHGLG00000040259) #16	ENSHGLG00000038499	ENSHGLG00000040271 #19	ENSHGLG00000017366 #20	ENSHGLG00000031874	ENSHGLG00000021184	CWH43 (ENSHGLG00000017904) #21	ENSHGLG00000033110	ENSHGLG00000009214 #22	OCIAD1 (ENSHGLG00000005766) #23	ENSHGLG00000007948 #24	ENSHGLG00000045336 #24	ENSHGLG00000039998 #25	SLC10A4 (ENSHGLG00000013563) #26	ENSHGLG00000000325	SLAIN2 (ENSHGLG00000019447) #27	ENSHGLG00000043919	ENSHGLG00000042797	TEC (ENSHGLG00000015780) #28	ENSHGLG00000013808 #29	NIPAL1 (ENSHGLG00000044376) #30	CNGA1 (ENSHGLG00000018977) #31	NFXL1 (ENSHGLG00000014142) #32	CORIN (ENSHGLG00000006527) #33
Naked mole-rat female	MODERN SPECIES	8	ENSHGLG00000012561	ENSHGLG00000040461	ZFC3H1 (ENSHGLG00000014297)	LGR5 (ENSHGLG00000004903)	TSPAN8 (ENSHGLG00000009287)	ENSHGLG00000048295	PTPRR (ENSHGLG00000005019)	ENSHGLG00000035838	PTPRB (ENSHGLG00000017872)	ENSHGLG00000004965	ENSHGLG00000039489	ENSHGLG00000008390	ENSHGLG00000012413	ENSHGLG00000016095	ENSHGLG00000015773	ENSHGLG00000033107 #22	BEST3 (ENSHGLG00000005639)	ENSHGLG00000032589	ENSHGLG00000008737	FRS2 (ENSHGLG00000004690)	ENSHGLG00000020270	YEATS4 (ENSHGLG00000005930)	ENSHGLG00000000765	ENSHGLG00000000750	ENSHGLG00000032896	ENSHGLG00000036390	ENSHGLG00000000792	ENSHGLG00000041415	ENSHGLG00000000831	Mdm2 (ENSHGLG00000000856)	ENSHGLG00000041090
Hystricomorpha_a	ANCESTRAL SPECIES	23	ENSGT00940000156710	ENSGT00940000155626 #7	ENSGT00940000156021 #8	ENSGT00940000156043 #9	ENSGT00390000003601.b #10	ENSGT00940000158757 #11	ENSGT00940000162578	ENSGT00390000011192 #13	ENSGT00940000158643 #14	ENSGT00940000153284.b #15	ENSGT00390000013532.j #16	ENSGT00390000013532.i #17	ENSGT00390000008110 #18	ENSGT00940000156935 #20	ENSGT00510000048509 #21	ENSGT00530000063690.a.b.a.b #22	ENSGT00530000063690.a.b.a.a #23	ENSGT00610000086058.a #24	ENSGT00390000012305.a #25	ENSGT00950000182808.a.a.b.b #26	ENSGT00390000017860.b #27	ENSGT00940000155951.b #28	ENSGT00940000160857 #29	ENSGT00940000160022 #30	ENSGT00940000156074 #31	ENSGT00940000157059 #32	ENSGT00940000157103 #33	ENSGT00940000156728 #34	ENSGT00390000018121 #35	ENSGT00940000154245.B #36	ENSGT00940000159024 #37
Guinea pig	MODERN SPECIES	24	SRD5A3 (ENSCPOG00000011801)	KDR (ENSCPOG00000010001)	KIT (ENSCPOG00000011411) #7	PDGFRA (ENSCPOG00000011782) #8	GSX2 (ENSCPOG00000005837) #9	CHIC2 (ENSCPOG00000040036) #10	LNX1 (ENSCPOG00000010775) #11	ENSCPOG00000010770	SCFD2 (ENSCPOG00000039431) #13	RASL11B (ENSCPOG00000010760) #14	USP46 (ENSCPOG00000007660) #15	ENSCPOG00000011469 #16	SGCB (ENSCPOG00000030752) #18	DCUN1D4 (ENSCPOG00000008945) #20	CWH43 (ENSCPOG00000014177) #21	ENSCPOG00000019887 #22	OCIAD1 (ENSCPOG00000011863) #23	FRYL (ENSCPOG00000009647) #24	SLC10A4 (ENSCPOG00000009644) #26	SLAIN2 (ENSCPOG00000002806) #27	TEC (ENSCPOG00000008836) #28	TXK (ENSCPOG00000014571) #29	NIPAL1 (ENSCPOG00000036596) #30	CNGA1 (ENSCPOG00000024444) #31	NFXL1 (ENSCPOG00000014371) #32	CORIN (ENSCPOG00000006957) #33	ATP10D (ENSCPOG00000006948) #34	COMMD8 (ENSCPOG00000015113) #35	GABRB1 (ENSCPOG00000035961) #36	GABRA4 (ENSCPOG00000009388) #37	GABRA2 (ENSCPOG00000023215)
Hystricomorpha_b	ANCESTRAL SPECIES	76	ENSGT00940000156710	ENSGT00940000155626 #7	ENSGT00940000156021 #8	ENSGT00940000156043 #9	ENSGT00390000003601.b #10	ENSGT00940000158757 #11	ENSGT01060000248700 #12	ENSGT00390000011192 #13	ENSGT00940000158643 #14	ENSGT00940000153284.b #15	ENSGT00390000013532.j #16	ENSGT00390000013532.i #17	ENSGT00390000008110 #18	ENSGT00940000156935 #20	ENSGT00510000048509 #21	ENSGT00530000063690.a.b.a.b #22	ENSGT00530000063690.a.b.a.a #23	ENSGT00610000086058.a #24	ENSGT00390000012305.a #25	ENSGT00950000182808.a.a.b.b #26
Long-tailed chinchilla	MODERN SPECIES	154	TMEM165 (ENSCLAG00000005359)	SRD5A3 (ENSCLAG00000014169)	KDR (ENSCLAG00000010052)	KIT (ENSCLAG00000006440) #7	PDGFRA (ENSCLAG00000005250) #8	CHIC2 (ENSCLAG00000005438) #10	LNX1 (ENSCLAG00000005760) #11	ENSCLAG00000003675 #12	SCFD2 (ENSCLAG00000006610) #13	RASL11B (ENSCLAG00000005450) #14	USP46 (ENSCLAG00000006241) #15	ENSCLAG00000006715 #16	SGCB (ENSCLAG00000008014) #18	DCUN1D4 (ENSCLAG00000008724) #20	CWH43 (ENSCLAG00000011864) #21	OCIAD2 (ENSCLAG00000012791) #22	OCIAD1 (ENSCLAG00000004026) #23	FRYL (ENSCLAG00000004818) #24	SLC10A4 (ENSCLAG00000009043) #26
Degu	MODERN SPECIES	60	LNX1 (ENSODEG00000010836) #11	ENSODEG00000009001 #12	ENSODEG00000019669	ENSODEG00000008819	SCFD2 (ENSODEG00000010104) #13	RASL11B (ENSODEG00000010294) #14	USP46 (ENSODEG00000009787) #15	ENSODEG00000008705	ENSODEG00000019795	ENSODEG00000009441 #16	ENSODEG00000009977 #17	SGCB (ENSODEG00000009784) #18	ENSODEG00000009044 #20	ENSODEG00000009096	CWH43 (ENSODEG00000009451) #21	OCIAD2 (ENSODEG00000010340) #22	ENSODEG00000010537	OCIAD1 (ENSODEG00000009198) #23	FRYL (ENSODEG00000009331) #24	ENSODEG00000008772 #25	SLC10A4 (ENSODEG00000010331) #26	ENSODEG00000008159	VSNL1 (ENSODEG00000008555)	SMC6 (ENSODEG00000008987)	GEN1 (ENSODEG00000010156)	MSGN1 (ENSODEG00000009615)	ENSODEG00000019755	KCNS3 (ENSODEG00000009066)	RDH14 (ENSODEG00000008458)	NT5C1B (ENSODEG00000008929)	OSR1 (ENSODEG00000008728)