Rodentia_A	ANCESTRAL SPECIES	6	ENSGT00940000156469	ENSGT00940000160021	ENSGT00940000162291	ENSGT00390000007074	ENSGT00940000153837.a.b #9	ENSGT00390000009456 #10	ENSGT00390000018876 #11	ENSGT00940000156370	ENSGT00420000029847 #12	ENSGT00420000029858	ENSGT00940000153725.a.b.a #16	ENSGT00940000157021 #17	ENSGT00390000011085 #18	ENSGT00530000063023.A.a #19	ENSGT00490000043434 #20	ENSGT00950000183051.b.a #22	ENSGT00940000156397.a.a #23	ENSGT00390000002362 #24	ENSGT00940000156256 #25	ENSGT00390000009077 #26	ENSGT00940000160728 #27	ENSGT00390000010067 #28	ENSGT00940000161356 #29	ENSGT00390000001014 #31	ENSGT00940000161310	ENSGT00940000163206.a	ENSGT00390000007315	ENSGT00390000007370	ENSGT00940000160007	ENSGT00390000009505	ENSGT00940000159061
Hystricomorpha	ANCESTRAL SPECIES	2	ENSGT00940000160297	ENSGT00390000012508	ENSGT00930000151055 #7	ENSGT00940000162407 #8	ENSGT00940000153837.a.b #9	ENSGT00390000009456 #10	ENSGT00390000018876 #11	ENSGT00940000156370	ENSGT00420000029847 #12	ENSGT00420000029858	ENSGT00940000153725.a.b.a #16	ENSGT00940000157021 #17	ENSGT00390000011085.nb #18	ENSGT00530000063023.A.a #19	ENSGT00490000043434 #20	ENSGT00950000183051.b.a #22	ENSGT00940000156397.a.a #23	ENSGT00390000002362 #24	ENSGT00940000156256 #25	ENSGT00390000009077 #26	ENSGT00940000160728 #27	ENSGT00390000010067 #28	ENSGT00940000161356 #29	ENSGT00390000001014 #31	ENSGT01050000244808.D.fb.b.a.a.a.b #32	ENSGT01050000244808.D.fb.b.a.a.a.a #33	ENSGT01050000244808.D.fb.b.b.b ##36	ENSGT01050000244808.D.fb.b.a.b #34	ENSGT00940000161974 #35	ENSGT01050000244808.D.fb.b.b.a #36	ENSGT00940000155795 #37
Naked mole-rat female	MODERN SPECIES	20	RBM42 (ENSHGLG00000008418) #7	ENSHGLG00000006342 #8	ENSHGLG00000005491 #9	FAAP24 (ENSHGLG00000047787) #10	CEP89 (ENSHGLG00000015749) #11	TDRD12 (ENSHGLG00000015608) #12	ENSHGLG00000049663 #13	ENSHGLG00000032764 #14	ENSHGLG00000033957 #15	RGS9BP (ENSHGLG00000043502) #16	ENSHGLG00000000739 #17	PDCD5 (ENSHGLG00000015879) #18	DPY19L3 (ENSHGLG00000008160) #19	ZNF507 (ENSHGLG00000014642) #20	ENSHGLG00000048014 #21	TSHZ3 (ENSHGLG00000015820) #22	ZNF536 (ENSHGLG00000013749) #23	URI1 (ENSHGLG00000009294) #24	CCNE1 (ENSHGLG00000005512) #25	C19orf12 (ENSHGLG00000013665) #26	PLEKHF1 (ENSHGLG00000015663) #27	POP4 (ENSHGLG00000043121) #28	VSTM2B (ENSHGLG00000010328) #29	ENSHGLG00000034008 #30	UQCRFS1 (ENSHGLG00000046640) #31	ENSHGLG00000049204 #32	ENSHGLG00000005888 #33	FCRL1 (ENSHGLG00000005552) #34	CD5L (ENSHGLG00000006555) #35	ENSHGLG00000008016 #36	ENSHGLG00000016598 #37
Hystricomorpha_a	ANCESTRAL SPECIES	11	ENSGT00940000160297	ENSGT00390000012508	ENSGT00930000151055 #7	ENSGT00940000162407 #8	ENSGT00940000153837.a.b #9	ENSGT00390000009456 #10	ENSGT00390000018876 #11	ENSGT00940000156370	ENSGT00420000029847 #12	ENSGT00420000029858	ENSGT00940000153725.a.b.a #16	ENSGT00940000157021 #17	ENSGT00390000011085.nb #18	ENSGT00530000063023.A.a #19	ENSGT00490000043434 #20	ENSGT00950000183051.b.a #22	ENSGT00940000156397.a.a #23	ENSGT00390000002362 #24	ENSGT00940000156256 #25	ENSGT00390000009077 #26	ENSGT00940000160728 #27	ENSGT00390000010067 #28	ENSGT00940000161356 #29	ENSGT00390000001014 #31	ENSGT01050000244808.D.fb.b.a.a.a.b #32	ENSGT01050000244808.D.fb.b.b.b ##36	ENSGT01050000244808.D.fb.b.a.b #34	ENSGT00940000161974 #35	ENSGT01050000244808.D.fb.b.b.a #36	ENSGT00940000155795 #37	ENSGT01100000263475.d.a.h
Hystricomorpha_b	ANCESTRAL SPECIES	8	ENSGT00940000160297	ENSGT00390000012508	ENSGT00930000151055 #7	ENSGT00940000162407 #8	ENSGT00940000153837.a.b #9	ENSGT00390000009456 #10	ENSGT00390000018876 #11	ENSGT00940000156370	ENSGT00420000029847 #12	ENSGT00420000029858	ENSGT00940000153725.a.b.a #16	ENSGT00940000157021 #17	ENSGT00390000011085.nb #18	ENSGT00530000063023.A.a #19	ENSGT00490000043434 #20	ENSGT00950000183051.b.a #22	ENSGT00940000156397.a.a #23	ENSGT00390000002362 #24	ENSGT00940000156256 #25	ENSGT00390000009077 #26	ENSGT00940000160728 #27	ENSGT00390000010067 #28	ENSGT00940000161356 #29	ENSGT00390000001014 #31	ENSGT01050000244808.D.fb.b.a.a.a.b #32	ENSGT01050000244808.D.fb.b.b.b ##36	ENSGT01050000244808.D.fb.b.a.b #34	ENSGT00940000161974 #35	ENSGT01050000244808.D.fb.b.b.a #36	ENSGT00940000155795 #37	ENSGT01100000263475.d.a.h
Long-tailed chinchilla	MODERN SPECIES	175	ATP4A (ENSCLAG00000013870)	HAUS5 (ENSCLAG00000011624)	RBM42 (ENSCLAG00000012865) #7	ETV2 (ENSCLAG00000011446) #8	RHPN2 (ENSCLAG00000011890) #9	FAAP24 (ENSCLAG00000013484) #10	ENSCLAG00000012488 #11	SLC7A9 (ENSCLAG00000012671)	TDRD12 (ENSCLAG00000012138) #12	NUDT19 (ENSCLAG00000015394)	RGS9BP (ENSCLAG00000017932) #16	ENSCLAG00000013353 #17	ENSCLAG00000014452 ##18	DPY19L3 (ENSCLAG00000013128) #19	ZNF507 (ENSCLAG00000012690) #20	TSHZ3 (ENSCLAG00000012902) #22	ZNF536 (ENSCLAG00000014818) #23	URI1 (ENSCLAG00000014617) #24	CCNE1 (ENSCLAG00000016202) #25	C19orf12 (ENSCLAG00000015360) #26	PLEKHF1 (ENSCLAG00000012584) #27	POP4 (ENSCLAG00000013162) #28	VSTM2B (ENSCLAG00000016538) #29	UQCRFS1 (ENSCLAG00000011437) #31	FCRL5 (ENSCLAG00000011767) #32	FCRL3 (ENSCLAG00000012604) ##36	FCRL1 (ENSCLAG00000014567) #34	CD5L (ENSCLAG00000015227) #35	ENSCLAG00000015395 #36	KIRREL1 (ENSCLAG00000013814) #37	CD1D (ENSCLAG00000013027)
Degu	MODERN SPECIES	124	ENSODEG00000014537 #8	ENSODEG00000020158	RHPN2 (ENSODEG00000014557) #9	FAAP24 (ENSODEG00000013890) #10	CEP89 (ENSODEG00000014225) #11	ENSODEG00000015062	ENSODEG00000014355	TDRD12 (ENSODEG00000014443) #12	NUDT19 (ENSODEG00000014770)	RGS9BP (ENSODEG00000020326) #16	ANKRD27 (ENSODEG00000013621) #17	ENSODEG00000013248 #18	DPY19L3 (ENSODEG00000013833) #19	ENSODEG00000013993 #20	ENSODEG00000014205	TSHZ3 (ENSODEG00000013840) #22	ZNF536 (ENSODEG00000013676) #23	URI1 (ENSODEG00000013616) #24	CCNE1 (ENSODEG00000014690) #25	ENSODEG00000020140	C19orf12 (ENSODEG00000013188) #26	ENSODEG00000020216	ENSODEG00000020166 #27	POP4 (ENSODEG00000013025) #28	VSTM2B (ENSODEG00000014510) #29	ENSODEG00000013453	UQCRFS1 (ENSODEG00000014654) #31	ENSODEG00000014952	ENSODEG00000020181	ENSODEG00000014146 ##36	CD5L (ENSODEG00000012955) #35
Guinea pig	MODERN SPECIES	56	RBM42 (ENSCPOG00000012365) #7	ENSCPOG00000013209 #8	RHPN2 (ENSCPOG00000011968) #9	FAAP24 (ENSCPOG00000011965) #10	CEP89 (ENSCPOG00000001470) #11	ENSCPOG00000011225	ENSCPOG00000030866	ENSCPOG00000034999	TDRD12 (ENSCPOG00000002876) #12	NUDT19 (ENSCPOG00000038218)	RGS9BP (ENSCPOG00000000730) #16	ANKRD27 (ENSCPOG00000000160) #17	PDCD5 (ENSCPOG00000040356) #18	DPY19L3 (ENSCPOG00000012483) #19	ENSCPOG00000012473 #20	TSHZ3 (ENSCPOG00000003591) #22	ZNF536 (ENSCPOG00000008744) #23	URI1 (ENSCPOG00000004105) #24	CCNE1 (ENSCPOG00000004836) #25	C19orf12 (ENSCPOG00000021635) #26	PLEKHF1 (ENSCPOG00000036685) #27	POP4 (ENSCPOG00000002992) #28	VSTM2B (ENSCPOG00000022127) #29	UQCRFS1 (ENSCPOG00000038582) #31	ENSCPOG00000020010 #32	ENSCPOG00000005105 ##36	FCRL1 (ENSCPOG00000031919) #34	CD5L (ENSCPOG00000002911) #35	ENSCPOG00000001646 #36	KIRREL1 (ENSCPOG00000004317) #37	ENSCPOG00000036278
Sciuridae	ANCESTRAL SPECIES	5	ENSGT00940000156469	ENSGT00940000160021	ENSGT00940000162291	ENSGT00390000007074	ENSGT00940000153837.a.b #9	ENSGT00390000009456 #10	ENSGT00390000018876 #11	ENSGT00940000156370	ENSGT00420000029847 #12	ENSGT00420000029858	ENSGT00940000153725.a.b.a #16	ENSGT00940000157021 #17	ENSGT00390000011085 #18	ENSGT00530000063023.A.a #19	ENSGT00490000043434 #20	ENSGT00950000183051.b.a #22	ENSGT00940000156397.a.a #23	ENSGT00390000002362 #24	ENSGT00940000156256 #25	ENSGT00390000009077 #26	ENSGT00940000160728 #27	ENSGT00390000010067 #28	ENSGT00940000161356 #29	ENSGT00390000001014.s #31	ENSGT00940000161310	ENSGT00940000163206.a	ENSGT00390000007315	ENSGT00390000007370	ENSGT00940000160007	ENSGT00390000009505	ENSGT00940000159061
Marmotini	ANCESTRAL SPECIES	7	ENSGT00940000156469	ENSGT00940000160021	ENSGT00940000162291	ENSGT00390000007074	ENSGT00940000153837.a.b #9	ENSGT00390000009456 #10	ENSGT00390000018876 #11	ENSGT00940000156370	ENSGT00420000029847 #12	ENSGT00420000029858	ENSGT00940000153725.a.b.a #16	ENSGT00940000157021 #17	ENSGT00390000011085 #18	ENSGT00530000063023.A.a #19	ENSGT00490000043434 #20	ENSGT00950000183051.b.a #22	ENSGT00940000156397.a.a #23	ENSGT00390000002362 #24	ENSGT00940000156256 #25	ENSGT00390000009077 #26	ENSGT00940000160728 #27	ENSGT00390000010067 #28	ENSGT00940000161356 #29	ENSGT00390000001014.s #31
Marmotini_b	ANCESTRAL SPECIES	50	ENSGT00940000156469	ENSGT00940000160021	ENSGT00940000162291	ENSGT00390000007074	ENSGT00940000153837.a.b #9	ENSGT00390000009456 #10	ENSGT00390000018876 #11	ENSGT00940000156370	ENSGT00420000029847 #12	ENSGT00420000029858	ENSGT00940000153725.a.b.a #16	ENSGT00940000157021 #17	ENSGT00390000011085 #18	ENSGT00530000063023.A.a #19	ENSGT00490000043434 #20	ENSGT00950000183051.b.a #22	ENSGT00940000156397.a.a #23	ENSGT00390000002362 #24	ENSGT00940000156256 #25	ENSGT00390000009077 #26	ENSGT00940000160728 #27	ENSGT00390000010067 #28	ENSGT00940000161356 #29	ENSGT00390000001014.s #31
Arctic ground squirrel	MODERN SPECIES	86	ENSUPAG00010010556	SLC7A10 (ENSUPAG00010010545)	LRP3 (ENSUPAG00010010534)	ENSUPAG00010010532	ENSUPAG00010010526	GPATCH1 (ENSUPAG00010010496)	RHPN2 (ENSUPAG00010010489) #9	ENSUPAG00010010487 #10	CEP89 (ENSUPAG00010010410) #11	SLC7A9 (ENSUPAG00010010354)	TDRD12 (ENSUPAG00010010237) #12	RGS9BP (ENSUPAG00010010233) #16	ANKRD27 (ENSUPAG00010010181) #17	PDCD5 (ENSUPAG00010010174) #18	ZNF507 (ENSUPAG00010010113) #20	TSHZ3 (ENSUPAG00010010104) #22	ZNF536 (ENSUPAG00010010061) #23	URI1 (ENSUPAG00010010020) #24	CCNE1 (ENSUPAG00010010001) #25	C19orf12 (ENSUPAG00010009992) #26	PLEKHF1 (ENSUPAG00010009986) #27	POP4 (ENSUPAG00010009976) #28	VSTM2B (ENSUPAG00010009950) #29	UQCRFS1 (ENSUPAG00010009946) #31
Squirrel	MODERN SPECIES	170	CEBPG (ENSSTOG00000007596)	ENSSTOG00000027963	SLC7A10 (ENSSTOG00000009450)	LRP3 (ENSSTOG00000009443)	GPATCH1 (ENSSTOG00000003720)	RHPN2 (ENSSTOG00000002103) #9	CEP89 (ENSSTOG00000019373) #11	SLC7A9 (ENSSTOG00000013674)	TDRD12 (ENSSTOG00000013638) #12	ENSSTOG00000031724	RGS9BP (ENSSTOG00000027616) #16	ANKRD27 (ENSSTOG00000013613) #17	PDCD5 (ENSSTOG00000025794) #18	DPY19L3 (ENSSTOG00000025908) #19	ZNF507 (ENSSTOG00000022278) #20	TSHZ3 (ENSSTOG00000024242) #22	ZNF536 (ENSSTOG00000013259) #23	URI1 (ENSSTOG00000009658) #24	CCNE1 (ENSSTOG00000009648) #25	C19orf12 (ENSSTOG00000020602) #26	PLEKHF1 (ENSSTOG00000023108) #27	POP4 (ENSSTOG00000011016) #28	VSTM2B (ENSSTOG00000020445) #29	ENSSTOG00000011909 #31
Alpin marmot	MODERN SPECIES	45	SLC7A10 (ENSMMMG00000006705)	LRP3 (ENSMMMG00000006727)	ENSMMMG00000006739	GPATCH1 (ENSMMMG00000006748)	RHPN2 (ENSMMMG00000006785) #9	FAAP24 (ENSMMMG00000006814) #10	CEP89 (ENSMMMG00000006832) #11	SLC7A9 (ENSMMMG00000007036)	TDRD12 (ENSMMMG00000007074) #12	NUDT19 (ENSMMMG00000007175)	RGS9BP (ENSMMMG00000007176) #16	ANKRD27 (ENSMMMG00000007203) #17	PDCD5 (ENSMMMG00000007305) #18	DPY19L3 (ENSMMMG00000007308) #19	ZNF507 (ENSMMMG00000007322) #20	TSHZ3 (ENSMMMG00000007335) #22	ZNF536 (ENSMMMG00000007356) #23	URI1 (ENSMMMG00000007374) #24	CCNE1 (ENSMMMG00000007385) #25	C19orf12 (ENSMMMG00000007391) #26	PLEKHF1 (ENSMMMG00000007421) #27	POP4 (ENSMMMG00000007446) #28	VSTM2B (ENSMMMG00000007454) #29
Eurasian red squirrel	MODERN SPECIES	8	SLC7A10 (ENSSVLG00005022473)	LRP3 (ENSSVLG00005022405)	WDR88 (ENSSVLG00005022304)	GPATCH1 (ENSSVLG00005022166)	RHPN2 (ENSSVLG00005022031) #9	ENSSVLG00005021973 #10	CEP89 (ENSSVLG00005021928) #11	SLC7A9 (ENSSVLG00005021851)	TDRD12 (ENSSVLG00005021333) #12	NUDT19 (ENSSVLG00005021230)	RGS9BP (ENSSVLG00005021208) #16	ANKRD27 (ENSSVLG00005021121) #17	ENSSVLG00005020933 #18	DPY19L3 (ENSSVLG00005020851) #19	ZNF507 (ENSSVLG00005020811) #20	TSHZ3 (ENSSVLG00005020787) #22	ZNF536 (ENSSVLG00005020746) #23	URI1 (ENSSVLG00005020418) #24	CCNE1 (ENSSVLG00005020303) #25	ENSSVLG00005020245 #26	PLEKHF1 (ENSSVLG00005020227) #27	POP4 (ENSSVLG00005020169) #28	VSTM2B (ENSSVLG00005020091) #29	ENSSVLG00005020050 #31	ENSSVLG00005020000	ENSSVLG00005019946	ENSSVLG00005019913	ENSSVLG00005019872	SHCBP1 (ENSSVLG00005019832)	ENSSVLG00005019566	VPS35 (ENSSVLG00005019175)