Rodentia_A	ANCESTRAL SPECIES		ENSGT00950000183056.A.a #10	ENSGT00530000067301 #11	ENSGT00390000004173 #12	ENSGT01070000253847 #13	ENSGT00940000159599 #14	ENSGT00940000161879	ENSGT00720000109135	ENSGT00620000087993.a.b #15	ENSGT00940000157260 #17	ENSGT00520000055567.b #16	ENSGT00860000134004	ENSGT00940000157740 #18	ENSGT00940000163172 #19	ENSGT00940000153295.a.n #20	ENSGT00390000007879 #21	ENSGT00950000182802.B.a.a.a.a.i.b #22	ENSGT00940000159314 #23	ENSGT00940000155194 #24	ENSGT00390000013174 #25	ENSGT00940000156585 #26	ENSGT01090000260040.b.b.b.a #27	ENSGT00950000183172.B #28	ENSGT00390000004191 #29	ENSGT00390000015719.c #30	ENSGT00940000155361 #31	ENSGT00390000016565 #32	ENSGT00900000143263	ENSGT00390000017418	ENSGT00940000160747 #33	ENSGT00940000156338 #34	ENSGT00950000182900.B #35
Hystricomorpha	ANCESTRAL SPECIES	4	ENSGT00940000156072 #7	ENSGT00940000156529 #8	ENSGT00940000158412.j #9	ENSGT00950000183056.A.a #10	ENSGT00530000067301 #11	ENSGT00390000004173 #12	ENSGT01070000253847 #13	ENSGT00940000159599 #14	ENSGT00620000087993.a.b #15	ENSGT00940000157260 #17	ENSGT00520000055567.b #16	ENSGT00940000157740 #18	ENSGT00940000163172 #19	ENSGT00940000153295.a.n #20	ENSGT00390000007879 #21	ENSGT00950000182802.B.a.a.a.a.i.b #22	ENSGT00940000159314 #23	ENSGT00940000155194 #24	ENSGT00390000013174 #25	ENSGT00940000156585 #26	ENSGT01090000260040.b.b.b.a #27	ENSGT00950000183172.B #28	ENSGT00390000004191 #29	ENSGT00390000015719.c #30	ENSGT00940000155361 #31	ENSGT00390000016565 #32	ENSGT00390000017418	ENSGT00940000160747 #33	ENSGT00940000156338 #34	ENSGT00950000182900.B #35	ENSGT00390000007371 #36
Hystricomorpha_a	ANCESTRAL SPECIES	1	ENSGT00940000156072 #7	ENSGT00940000156529 #8	ENSGT00940000158412.j #9	ENSGT00950000183056.A.a #10	ENSGT00530000067301 #11	ENSGT00390000004173 #12	ENSGT01070000253847 #13	ENSGT00940000159599 #14	ENSGT00620000087993.a.b #15	ENSGT00940000157260 #17	ENSGT00520000055567.b #16	ENSGT00940000157740 #18	ENSGT00940000163172 #19	ENSGT00940000153295.a.n #20	ENSGT00390000007879 #21	ENSGT00950000182802.B.a.a.a.a.i.b #22	ENSGT00940000159314 #23	ENSGT00940000155194 #24	ENSGT00390000013174 #25	ENSGT00940000156585 #26	ENSGT01090000260040.b.b.b.a #27	ENSGT00950000183172.B #28	ENSGT00390000004191 #29	ENSGT00390000015719.c #30	ENSGT00940000155361 #31	ENSGT00390000016565 #32	ENSGT00390000017418	ENSGT00940000160747 #33	ENSGT00940000156338 #34	ENSGT00950000182900.B #35	ENSGT00390000007371 #36
Hystricomorpha_b	ANCESTRAL SPECIES	7	ENSGT00940000156072 #7	ENSGT00940000156529 #8	ENSGT00940000158412.j #9	ENSGT00950000183056.A.a #10	ENSGT00530000067301 #11	ENSGT00390000004173 #12	ENSGT01070000253847 #13	ENSGT00940000159599 #14	ENSGT00620000087993.a.b #15	ENSGT00940000157260 #17	ENSGT00520000055567.b #16	ENSGT00940000157740 #18	ENSGT00940000163172 #19	ENSGT00940000153295.a.n #20	ENSGT00390000007879 #21	ENSGT00950000182802.B.a.a.a.a.i.b #22	ENSGT00940000159314 #23	ENSGT00940000155194 #24	ENSGT00390000013174 #25	ENSGT00940000156585 #26	ENSGT01090000260040.b.b.b.a #27	ENSGT00950000183172.B #28	ENSGT00390000004191 #29	ENSGT00390000015719.c #30	ENSGT00940000155361 #31	ENSGT00390000016565 #32	ENSGT00390000017418	ENSGT00940000160747 #33	ENSGT00940000156338 #34	ENSGT00950000182900.B #35	ENSGT00390000007371 #36
Long-tailed chinchilla	MODERN SPECIES	159	SLC30A2 (ENSCLAG00000010472) #7	TRIM63 (ENSCLAG00000009429) #8	PDIK1L (ENSCLAG00000010649) #9	FAM110D (ENSCLAG00000010682) #10	C1orf232 (ENSCLAG00000011904) #11	ZNF593 (ENSCLAG00000011066) #12	ZNF593OS (ENSCLAG00000010913) #13	CNKSR1 (ENSCLAG00000006569) #14	CEP85 (ENSCLAG00000008438) #15	UBXN11 (ENSCLAG00000009843) #16	SH3BGRL3 (ENSCLAG00000007979) #17	CRYBG2 (ENSCLAG00000009319) #18	ZNF683 (ENSCLAG00000014629) #19	LIN28A (ENSCLAG00000013508) #20	DHDDS (ENSCLAG00000009304) #21	HMGN2 (ENSCLAG00000008674) #22	RPS6KA1 (ENSCLAG00000012043) #23	ARID1A (ENSCLAG00000008499) #24	PIGV (ENSCLAG00000011353) #25	ZDHHC18 (ENSCLAG00000015099) #26	SFN (ENSCLAG00000018088) #27	GPN2 (ENSCLAG00000015368) #28	GPATCH3 (ENSCLAG00000012064) #29	NR0B2 (ENSCLAG00000012438) #30	NUDC (ENSCLAG00000008191) #31	KDF1 (ENSCLAG00000009636) #32	TENT5B (ENSCLAG00000010180) #33	SLC9A1 (ENSCLAG00000011250) #34	WDTC1 (ENSCLAG00000012710) #35	TMEM222 (ENSCLAG00000014379) #36	SYTL1 (ENSCLAG00000011750) #37
Guinea pig	MODERN SPECIES	25	SLC30A2 (ENSCPOG00000003475) #7	TRIM63 (ENSCPOG00000022922) #8	PDIK1L (ENSCPOG00000011692) #9	FAM110D (ENSCPOG00000039832) #10	C1orf232 (ENSCPOG00000030787) #11	ZNF593OS (ENSCPOG00000031348) #13	ZNF593 (ENSCPOG00000035949) #12	CNKSR1 (ENSCPOG00000007056) #14	CEP85 (ENSCPOG00000007069) #15	SH3BGRL3 (ENSCPOG00000007077) #17	UBXN11 (ENSCPOG00000024029) #16	CRYBG2 (ENSCPOG00000007086) #18	ZNF683 (ENSCPOG00000030245) #19	ENSCPOG00000019646 #20	DHDDS (ENSCPOG00000008087) #21	HMGN2 (ENSCPOG00000039945) #22	RPS6KA1 (ENSCPOG00000003945) #23	ENSCPOG00000021806	ARID1A (ENSCPOG00000010387) #24	ENSCPOG00000033509 #25	ZDHHC18 (ENSCPOG00000010395) #26	SFN (ENSCPOG00000035257) #27	GPN2 (ENSCPOG00000002848) #28	GPATCH3 (ENSCPOG00000010404) #29	NR0B2 (ENSCPOG00000010409) #30	NUDC (ENSCPOG00000010413) #31	KDF1 (ENSCPOG00000022999) #32	TENT5B (ENSCPOG00000032542) #33	SLC9A1 (ENSCPOG00000035897) #34	WDTC1 (ENSCPOG00000012347) #35	TMEM222 (ENSCPOG00000020198) #36
Naked mole-rat female	MODERN SPECIES	15	ENSHGLG00000011488	ENSHGLG00000012382	ENSHGLG00000016465	ENSHGLG00000046414	ITPRIPL2 (ENSHGLG00000037760)	COQ7 (ENSHGLG00000018991)	ENSHGLG00000018929	ENSHGLG00000010031	ENSHGLG00000040318	CCP110 (ENSHGLG00000018807)	VPS35L (ENSHGLG00000018818)	KNOP1 (ENSHGLG00000049260)	IQCK (ENSHGLG00000014331)	ENSHGLG00000049053	GPR139 (ENSHGLG00000034334)	ENSHGLG00000050561 #22	ENSHGLG00000009974	UMOD (ENSHGLG00000006685)	PDILT (ENSHGLG00000008450)	ACSM5 (ENSHGLG00000010732)	ENSHGLG00000011441	ENSHGLG00000037112	ENSHGLG00000012971	ENSHGLG00000006014	ENSHGLG00000049216	ENSHGLG00000007282	ENSHGLG00000049148	ENSHGLG00000007912	BFAR (ENSHGLG00000008907)	PARN (ENSHGLG00000010886)	MRTFB (ENSHGLG00000019009)
Sciuridae	ANCESTRAL SPECIES																	ENSGT00950000182802.B.a.a.a.a.i.b #22
Eurasian red squirrel	DUPLICATION
Eurasian red squirrel	MODERN SPECIES	64																ENSSVLG00005021080 #22
Eurasian red squirrel	MODERN SPECIES	13	FBXL3 (ENSSVLG00005001661)	MYCBP2 (ENSSVLG00005001417)	ENSSVLG00005001299	SCEL (ENSSVLG00005001157)	ENSSVLG00005000937	EDNRB (ENSSVLG00005000870)	POU4F1 (ENSSVLG00005000848)	OBI1 (ENSSVLG00005000825)	RBM26 (ENSSVLG00005000683)	ENSSVLG00005000577	NDFIP2 (ENSSVLG00005000536)	ENSSVLG00005000512	ENSSVLG00005000442	SLITRK1 (ENSSVLG00005000428)	ENSSVLG00005000392	ENSSVLG00005000367 #22	SLITRK6 (ENSSVLG00005000356)	ENSSVLG00005000242	ENSSVLG00005000212	ENSSVLG00005020345	ENSSVLG00005020332	ENSSVLG00005020318	ENSSVLG00005019830	ENSSVLG00005019781	ENSSVLG00005019733	ENSSVLG00005019701	ENSSVLG00005019663	WASF3 (ENSSVLG00005019562)	ENSSVLG00005019373	CDK8 (ENSSVLG00005019288)	RNF6 (ENSSVLG00005019198)
Eurasian red squirrel	MODERN SPECIES	12	MBD5 (ENSSVLG00005003333)	EPC2 (ENSSVLG00005003372)	KIF5C (ENSSVLG00005003411)	LYPD6B (ENSSVLG00005003456)	LYPD6 (ENSSVLG00005003472)	MMADHC (ENSSVLG00005003507)	ENSSVLG00005003548	RND3 (ENSSVLG00005003560)	ENSSVLG00005003570	RBM43 (ENSSVLG00005003593)	ENSSVLG00005003611	ENSSVLG00005003622	TNFAIP6 (ENSSVLG00005003640)	RIF1 (ENSSVLG00005003716)	NEB (ENSSVLG00005004118)	ENSSVLG00005004729 #22	ENSSVLG00005004741	CACNB4 (ENSSVLG00005005336)	ENSSVLG00005007179	STAM2 (ENSSVLG00005007197)	FMNL2 (ENSSVLG00005007277)	ENSSVLG00005007428	PRPF40A (ENSSVLG00005007429)	ENSSVLG00005007524	RPRM (ENSSVLG00005007559)	ENSSVLG00005007594	KCNJ3 (ENSSVLG00005007729)	NR4A2 (ENSSVLG00005007787)	GPD2 (ENSSVLG00005007886)	ENSSVLG00005008042	ERMN (ENSSVLG00005008084)
Marmotini	ANCESTRAL SPECIES		ENSGT00940000158412 #9	ENSGT00950000183056.A.a #10	ENSGT00530000067301 #11	ENSGT00390000004173 #12	ENSGT01070000253847 #13	ENSGT00940000159599 #14	ENSGT00940000161879	ENSGT00620000087993.a.b #15	ENSGT00940000157260 #17	ENSGT00520000055567.b #16	ENSGT01090000260447	ENSGT00940000157740 #18	ENSGT00940000163172 #19	ENSGT00940000153295.a.n #20	ENSGT00390000007879 #21	ENSGT00950000182802.B.a.a.a.a.i.b #22	ENSGT00940000159314 #23	ENSGT00940000155194 #24	ENSGT00390000013174 #25	ENSGT00940000156585 #26	ENSGT01090000260040.b.b.b.a #27	ENSGT00950000183172.B #28	ENSGT00390000004191 #29	ENSGT00390000015719.c #30	ENSGT00940000155361 #31	ENSGT00390000016565 #32	ENSGT00900000143263	ENSGT00390000017418	ENSGT00940000160747 #33	ENSGT00940000156338 #34	ENSGT00950000182900.B #35
Alpin marmot	MODERN SPECIES	11	SYN3 (ENSMMMG00000016926)	TIMP3 (ENSMMMG00000016936)	FBXO7 (ENSMMMG00000016939)	BPIFC (ENSMMMG00000016944)	RTCB (ENSMMMG00000016958)	PRDM4 (ENSMMMG00000016969)	PWP1 (ENSMMMG00000016996)	ABTB3 (ENSMMMG00000017014)	CRY1 (ENSMMMG00000017030)	MTERF2 (ENSMMMG00000017043)	TMEM263 (ENSMMMG00000017048)	RIC8B (ENSMMMG00000017060)	RFX4 (ENSMMMG00000017077)	ENSMMMG00000017101	POLR3B (ENSMMMG00000017120)	ENSMMMG00000017137 #22	TCP11L2 (ENSMMMG00000017141)	ENSMMMG00000017150	CKAP4 (ENSMMMG00000017154)	NUAK1 (ENSMMMG00000017169)	C12orf75 (ENSMMMG00000017181)	APPL2 (ENSMMMG00000017187)	WASHC4 (ENSMMMG00000017204)	ALDH1L2 (ENSMMMG00000017239)	NOPCHAP1 (ENSMMMG00000017266)	SLC41A2 (ENSMMMG00000017275)	CHST11 (ENSMMMG00000017290)	TXNRD1 (ENSMMMG00000017295)	ENSMMMG00000017345	NFYB (ENSMMMG00000017353)	HCFC2 (ENSMMMG00000017365)
Marmotini_b	ANCESTRAL SPECIES		ENSGT00950000183056.A.a #10	ENSGT00530000067301 #11	ENSGT00390000004173 #12	ENSGT01070000253847 #13	ENSGT00940000159599 #14	ENSGT00940000161879	ENSGT00720000109135	ENSGT00620000087993.a.b #15	ENSGT00940000157260 #17	ENSGT00520000055567.b #16	ENSGT01090000260447	ENSGT00940000157740 #18	ENSGT00940000163172 #19	ENSGT00940000153295.a.n #20	ENSGT00390000007879 #21	ENSGT00950000182802.B.a.a.a.a.i.b #22	ENSGT00940000159314 #23	ENSGT00940000155194 #24	ENSGT00390000013174 #25	ENSGT00940000156585 #26	ENSGT01090000260040.b.b.b.a #27	ENSGT00950000183172.B #28	ENSGT00390000004191 #29	ENSGT00390000015719.c #30	ENSGT00940000155361 #31	ENSGT00390000016565 #32	ENSGT00390000017418	ENSGT00940000160747 #33	ENSGT00940000156338 #34	ENSGT00950000182900.B #35	ENSGT00390000007371 #36
Squirrel	MODERN SPECIES	74	TRIM63 (ENSSTOG00000004982) #8	PDIK1L (ENSSTOG00000004995) #9	FAM110D (ENSSTOG00000023295) #10	C1orf232 (ENSSTOG00000030099) #11	ZNF593 (ENSSTOG00000022153) #12	ZNF593OS (ENSSTOG00000032687) #13	CNKSR1 (ENSSTOG00000020206) #14	CATSPER4 (ENSSTOG00000028150)	ENSSTOG00000033310	CEP85 (ENSSTOG00000005057) #15	SH3BGRL3 (ENSSTOG00000005087) #17	UBXN11 (ENSSTOG00000005110) #16	CRYBG2 (ENSSTOG00000025229) #18	ENSSTOG00000004329 #20	DHDDS (ENSSTOG00000004335) #21	HMGN2 (ENSSTOG00000030691) #22	RPS6KA1 (ENSSTOG00000004355) #23	ENSSTOG00000022501 #24	ENSSTOG00000031355 #24	PIGV (ENSSTOG00000021148) #25	ZDHHC18 (ENSSTOG00000015208) #26	SFN (ENSSTOG00000015213) #27	GPN2 (ENSSTOG00000015216) #28	GPATCH3 (ENSSTOG00000015220) #29	NR0B2 (ENSSTOG00000024249) #30	NUDC (ENSSTOG00000021201) #31	KDF1 (ENSSTOG00000015233) #32	TENT5B (ENSSTOG00000022787) #33	ENSSTOG00000021677	ENSSTOG00000025429	SLC9A1 (ENSSTOG00000009815) #34