Rodentia_A	ANCESTRAL SPECIES	1	ENSGT00940000162460	ENSGT00390000010641 #7	ENSGT01100000264273	ENSGT00940000162875 #8	ENSGT00940000162775 #9	ENSGT00940000154816.a.a #10	ENSGT00390000001189.b #11	ENSGT00940000155904.e.b #12	ENSGT00530000063359.B #13	ENSGT00940000162915 #14	ENSGT00390000003049 #15	ENSGT00950000182881.a.b.a.b #16	ENSGT00950000182939.a.b.b #18	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #27	ENSGT00940000170720 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763 #32	ENSGT01070000254034	ENSGT00940000157816 #34	ENSGT00390000009426 #35	ENSGT00940000160601 #36	ENSGT00940000158825 #37
Sciuridae	ANCESTRAL SPECIES	22	ENSGT00940000159796	ENSGT00940000162460	ENSGT00390000010641 #7	ENSGT00940000162875 #8	ENSGT00940000162775 #9	ENSGT00940000154816.a.a #10	ENSGT00390000001189.b #11	ENSGT00940000155904.e.b #12	ENSGT00530000063359.B #13	ENSGT00940000162915 #14	ENSGT00390000003049 #15	ENSGT00950000182881.a.b.a.b #16	ENSGT00950000182939.a.b.b #18	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #27	ENSGT00940000170720 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763 #32	ENSGT01070000254034	ENSGT00940000157816 #34	ENSGT00390000009426 #35	ENSGT00940000160601 #36	ENSGT00940000158825 #37
Eurasian red squirrel	MODERN SPECIES	2	NDUFV1 (ENSSVLG00005025325) #7	ENSSVLG00005025305 #8	ENSSVLG00005025291 #9	TBX10 (ENSSVLG00005025280) #10	ACY3 (ENSSVLG00005025257) #11	ALDH3B2 (ENSSVLG00005025242) #12	UNC93B1 (ENSSVLG00005025215) #13	ALDH3B1 (ENSSVLG00005025147) #14	NDUFS8 (ENSSVLG00005025114) #15	ENSSVLG00005025100 #16	ENSSVLG00005025068 #17	CHKA (ENSSVLG00005025020) #18	ENSSVLG00005024959 #19	ENSSVLG00005024928 #20	ENSSVLG00005024875 #21	LRP5 (ENSSVLG00005024864) #22	ENSSVLG00005024045 #23	GAL (ENSSVLG00005023853) #24	TESMIN (ENSSVLG00005023772) #25	CPT1A (ENSSVLG00005023707) #26	MRPL21 (ENSSVLG00005023646) #27	ENSSVLG00005023637 #28	ENSSVLG00005023620 #29	MRGPRD (ENSSVLG00005023594) #30	MRGPRF (ENSSVLG00005023569) #31	TPCN2 (ENSSVLG00005023184) #32	ENSSVLG00005023121 #33	CCND1 (ENSSVLG00005023090) #34	LTO1 (ENSSVLG00005023000) #35	FGF19 (ENSSVLG00005022961) #36	FGF4 (ENSSVLG00005022938) #37
Marmotini	ANCESTRAL SPECIES	6	ENSGT00940000159796	ENSGT00940000162460	ENSGT00390000010641 #7	ENSGT00940000162875 #8	ENSGT00940000162775 #9	ENSGT00940000154816.a.a #10	ENSGT00390000001189.b #11	ENSGT00940000155904.e.b #12	ENSGT00530000063359.B #13	ENSGT00940000162915 #14	ENSGT00390000003049 #15	ENSGT00950000182881.a.b.a.b #16	ENSGT00950000182939.a.b.b #18	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #27	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763 #32	ENSGT01070000254034	ENSGT00940000157816 #34	ENSGT00390000009426 #35	ENSGT00940000160601 #36	ENSGT00940000158825 #37	ENSGT00940000161128
Marmotini_b	ANCESTRAL SPECIES	19	ENSGT00940000160334	ENSGT00940000159796	ENSGT00940000162460	ENSGT00390000010641 #7	ENSGT00940000162875 #8	ENSGT00940000162775 #9	ENSGT00940000154816.a.a #10	ENSGT00390000001189.b #11	ENSGT00530000063359.B #13	ENSGT00940000162915 #14	ENSGT00390000003049 #15	ENSGT00950000182881.a.b.a.b #16	ENSGT00950000182939.a.b.b #18	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #27	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763 #32	ENSGT01070000254034	ENSGT00940000157816 #34	ENSGT00390000009426 #35	ENSGT00940000160601 #36	ENSGT00940000158825 #37	ENSGT00940000161128
Arctic ground squirrel	MODERN SPECIES	172	CDK2AP2 (ENSUPAG00010007891)	CABP2 (ENSUPAG00010007845)	GSTP1 (ENSUPAG00010007817)	NDUFV1 (ENSUPAG00010007803) #7	ENSUPAG00010007785 #8	ENSUPAG00010007775 #9	ENSUPAG00010007771	ACY3 (ENSUPAG00010007756) #11	UNC93B1 (ENSUPAG00010007746) #13	ALDH3B1 (ENSUPAG00010007728) #14	NDUFS8 (ENSUPAG00010007713) #15	TCIRG1 (ENSUPAG00010007691) #16	CHKA (ENSUPAG00010007654) #18	KMT5B (ENSUPAG00010007478) #20	ENSUPAG00010007475 #21	LRP5 (ENSUPAG00010007453) #22	PPP6R3 (ENSUPAG00010007337) #23	ENSUPAG00010007325 #24	CPT1A (ENSUPAG00010007209) #26	MRPL21 (ENSUPAG00010007189) #27	IGHMBP2 (ENSUPAG00010007174) #29	MRGPRD (ENSUPAG00010007168) #30	MRGPRF (ENSUPAG00010007158) #31	TPCN2 (ENSUPAG00010007118) #32	SMIM38 (ENSUPAG00010007115)	CCND1 (ENSUPAG00010007111) #34	LTO1 (ENSUPAG00010007106) #35
Squirrel	MODERN SPECIES	199	CABP2 (ENSSTOG00000014876)	GSTP1 (ENSSTOG00000025905)	NDUFV1 (ENSSTOG00000005850) #7	ENSSTOG00000021128 #8	ENSSTOG00000024208 #9	TBX10 (ENSSTOG00000011629) #10	ACY3 (ENSSTOG00000015148) #11	UNC93B1 (ENSSTOG00000011497) #13	ALDH3B1 (ENSSTOG00000015155) #14	NDUFS8 (ENSSTOG00000011500) #15	TCIRG1 (ENSSTOG00000024529) #16	CHKA (ENSSTOG00000011503) #18	ENSSTOG00000019647	KMT5B (ENSSTOG00000024331) #20	ENSSTOG00000012277 #21	LRP5 (ENSSTOG00000012285) #22	PPP6R3 (ENSSTOG00000005109) #23	GAL (ENSSTOG00000019759) #24	TESMIN (ENSSTOG00000012841) #25	CPT1A (ENSSTOG00000012856) #26	MRPL21 (ENSSTOG00000032759) #27	IGHMBP2 (ENSSTOG00000003792) #29	MRGPRF (ENSSTOG00000010947) #31	TPCN2 (ENSSTOG00000012097) #32	CCND1 (ENSSTOG00000000408) #34	LTO1 (ENSSTOG00000028728) #35	FGF19 (ENSSTOG00000021758) #36	ENSSTOG00000019792 #37	FGF3 (ENSSTOG00000023034)	ANO1 (ENSSTOG00000026271)	FADD (ENSSTOG00000033252)
Alpin marmot	MODERN SPECIES	86	PITPNM1 (ENSMMMG00000000005)	CABP2 (ENSMMMG00000000025)	GSTP1 (ENSMMMG00000000041)	NDUFV1 (ENSMMMG00000000065) #7	ENSMMMG00000000088 #8	NUDT8 (ENSMMMG00000000113)	ENSMMMG00000000133	ACY3 (ENSMMMG00000000156) #11	ALDH3B2 (ENSMMMG00000000185) #12	UNC93B1 (ENSMMMG00000000216) #13	ALDH3B1 (ENSMMMG00000000301) #14	NDUFS8 (ENSMMMG00000000351) #15	ENSMMMG00000000378 #16	CHKA (ENSMMMG00000000678) #18	KMT5B (ENSMMMG00000000789) #20	LRP5 (ENSMMMG00000001048) #22	PPP6R3 (ENSMMMG00000001095) #23	GAL (ENSMMMG00000001246) #24	TESMIN (ENSMMMG00000001259) #25	CPT1A (ENSMMMG00000001336) #26	MRPL21 (ENSMMMG00000001368) #27	IGHMBP2 (ENSMMMG00000001381) #29	MRGPRD (ENSMMMG00000001512) #30	MRGPRF (ENSMMMG00000001519) #31	TPCN2 (ENSMMMG00000001627) #32	ENSMMMG00000003260 #34	ENSMMMG00000003262 #34	LTO1 (ENSMMMG00000003272) #35	FGF19 (ENSMMMG00000003282) #36	FGF4 (ENSMMMG00000003298) #37	FGF3 (ENSMMMG00000003325)
Hystricomorpha	ANCESTRAL SPECIES	16	ENSGT00940000162460	ENSGT00390000010641 #7	ENSGT01100000264273	ENSGT00940000162875 #8	ENSGT00940000162775 #9	ENSGT00940000154816.a.a #10	ENSGT00390000001189.b #11	ENSGT00940000155904.e.b #12	ENSGT00530000063359.B #13	ENSGT00940000162915 #14	ENSGT00390000003049 #15	ENSGT00950000182881.a.b.a.b #16	ENSGT00950000182939.a.b.b #18	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #27	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763 #32	ENSGT01070000254034	ENSGT00940000157816 #34	ENSGT00390000009426 #35	ENSGT00940000160601 #36	ENSGT00940000158825 #37	ENSGT00940000161128
Hystricomorpha_a	ANCESTRAL SPECIES	12	ENSGT00940000159796	ENSGT00940000162460	ENSGT00390000010641 #7	ENSGT00940000162875 #8	ENSGT00940000162775 #9	ENSGT00940000154816.a.a #10	ENSGT00390000001189.b #11	ENSGT00940000155904.e.b #12	ENSGT00530000063359.B #13	ENSGT00940000162915 #14	ENSGT00390000003049 #15	ENSGT00950000182881.a.b.a.b #16	ENSGT00950000182939.a.b.b #18	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #27	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763 #32	ENSGT00940000157816 #34	ENSGT00390000009426 #35	ENSGT00940000160601 #36	ENSGT00940000158825 #37	ENSGT00940000161128	ENSGT00940000157182
Hystricomorpha_b	ANCESTRAL SPECIES	10	ENSGT00940000159796	ENSGT00940000162460	ENSGT00390000010641 #7	ENSGT00940000162875 #8	ENSGT00940000162775 #9	ENSGT00940000154816.a.a #10	ENSGT00390000001189.b #11	ENSGT00940000155904.e.b #12	ENSGT00530000063359.B #13	ENSGT00940000162915 #14	ENSGT00390000003049 #15	ENSGT00950000182881.a.b.a.b #16	ENSGT00950000182939.a.b.b #18	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #27	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763 #32	ENSGT00940000157816 #34	ENSGT00390000009426 #35	ENSGT00940000160601 #36	ENSGT00940000158825 #37	ENSGT00940000161128	ENSGT00940000157182
Long-tailed chinchilla	MODERN SPECIES	129	CABP2 (ENSCLAG00000015734)	GSTP1 (ENSCLAG00000015548)	NDUFV1 (ENSCLAG00000016746) #7	ENSCLAG00000016785 #8	ENSCLAG00000016240 #9	TBX10 (ENSCLAG00000015667) #10	ACY3 (ENSCLAG00000016314) #11	ALDH3B2 (ENSCLAG00000017296) #12	UNC93B1 (ENSCLAG00000016729) #13	ALDH3B1 (ENSCLAG00000016029) #14	NDUFS8 (ENSCLAG00000017156) #15	TCIRG1 (ENSCLAG00000014792) #16	CHKA (ENSCLAG00000014223) #18	KMT5B (ENSCLAG00000016628) #20	ENSCLAG00000017122 #21	LRP5 (ENSCLAG00000016254) #22	PPP6R3 (ENSCLAG00000015508) #23	GAL (ENSCLAG00000016374) #24	TESMIN (ENSCLAG00000015628) #25	CPT1A (ENSCLAG00000016594) #26	MRPL21 (ENSCLAG00000016038) #27	IGHMBP2 (ENSCLAG00000015500) #29	MRGPRD (ENSCLAG00000016417) #30	MRGPRF (ENSCLAG00000016323) #31	TPCN2 (ENSCLAG00000016178) #32	CCND1 (ENSCLAG00000014981) #34	LTO1 (ENSCLAG00000014111) #35	FGF19 (ENSCLAG00000015041) #36	ENSCLAG00000014848 #37	FGF3 (ENSCLAG00000015995)	ANO1 (ENSCLAG00000015936)
Degu	MODERN SPECIES	59	ENSODEG00000017726	NDUFV1 (ENSODEG00000017535) #7	ENSODEG00000017660 #8	ENSODEG00000017697 #9	TBX10 (ENSODEG00000017601) #10	ACY3 (ENSODEG00000017439) #11	ALDH3B2 (ENSODEG00000017453) #12	ENSODEG00000017464	UNC93B1 (ENSODEG00000017652) #13	ALDH3B1 (ENSODEG00000017474) #14	ENSODEG00000017577 #15	TCIRG1 (ENSODEG00000017607) #16	CHKA (ENSODEG00000017808) #18	ENSODEG00000017460 #20	C11orf24 (ENSODEG00000017396) #21	LRP5 (ENSODEG00000017493) #22	ENSODEG00000020451	PPP6R3 (ENSODEG00000017311) #23	GAL (ENSODEG00000017519) #24	TESMIN (ENSODEG00000017728) #25	CPT1A (ENSODEG00000017481) #26	MRPL21 (ENSODEG00000017369) #27	IGHMBP2 (ENSODEG00000017354) #29	MRGPRD (ENSODEG00000017313) #30	MRGPRF (ENSODEG00000017539) #31	ENSODEG00000017628	ENSODEG00000017365	TPCN2 (ENSODEG00000017370) #32	CCND1 (ENSODEG00000017314) #34	LTO1 (ENSODEG00000017276) #35	FGF19 (ENSODEG00000017850) #36
Guinea pig	MODERN SPECIES	42	CABP2 (ENSCPOG00000023151)	GSTP1 (ENSCPOG00000020253)	NDUFV1 (ENSCPOG00000006645) #7	ENSCPOG00000022649 #8	ENSCPOG00000002514 #9	TBX10 (ENSCPOG00000032079) #10	ACY3 (ENSCPOG00000002519) #11	ALDH3B2 (ENSCPOG00000002523) #12	UNC93B1 (ENSCPOG00000026431) #13	ALDH3B1 (ENSCPOG00000021502) #14	NDUFS8 (ENSCPOG00000001416) #15	TCIRG1 (ENSCPOG00000001417) #16	CHKA (ENSCPOG00000022236) #18	KMT5B (ENSCPOG00000002147) #20	ENSCPOG00000000621 #21	LRP5 (ENSCPOG00000008119) #22	PPP6R3 (ENSCPOG00000007353) #23	GAL (ENSCPOG00000004337) #24	TESMIN (ENSCPOG00000032989) #25	CPT1A (ENSCPOG00000004344) #26	MRPL21 (ENSCPOG00000038509) #27	IGHMBP2 (ENSCPOG00000007063) #29	MRGPRD (ENSCPOG00000025266) #30	MRGPRF (ENSCPOG00000033803) #31	TPCN2 (ENSCPOG00000002580) #32	CCND1 (ENSCPOG00000032886) #34	LTO1 (ENSCPOG00000031028) #35	FGF19 (ENSCPOG00000008147) #36	FGF4 (ENSCPOG00000013920) #37	FGF3 (ENSCPOG00000007355)	ANO1 (ENSCPOG00000011005)
Naked mole-rat female	MODERN SPECIES	14	GSTP1 (ENSHGLG00000018697)	NDUFV1 (ENSHGLG00000042428) #7	ENSHGLG00000048694	ENSHGLG00000018636 #8	NUDT8 (ENSHGLG00000047808)	TBX10 (ENSHGLG00000015945) #10	ACY3 (ENSHGLG00000015831) #11	ALDH3B2 (ENSHGLG00000010052) #12	UNC93B1 (ENSHGLG00000011769) #13	ALDH3B1 (ENSHGLG00000015602) #14	NDUFS8 (ENSHGLG00000009570) #15	TCIRG1 (ENSHGLG00000018395) #16	CHKA (ENSHGLG00000014648) #18	KMT5B (ENSHGLG00000014467) #20	C11orf24 (ENSHGLG00000018642) #21	LRP5 (ENSHGLG00000012372) #22	ENSHGLG00000010435 #23	GAL (ENSHGLG00000013095) #24	TESMIN (ENSHGLG00000006844) #25	CPT1A (ENSHGLG00000009799) #26	ENSHGLG00000041256	MRPL21 (ENSHGLG00000007657) #27	IGHMBP2 (ENSHGLG00000006468) #29	MRGPRD (ENSHGLG00000033970) #30	MRGPRF (ENSHGLG00000042564) #31	TPCN2 (ENSHGLG00000009786) #32	SMIM38 (ENSHGLG00000042963)	CCND1 (ENSHGLG00000039478) #34	ORAOV1 (ENSHGLG00000041285) #35	FGF19 (ENSHGLG00000049791) #36	FGF4 (ENSHGLG00000008219) #37