Rodentia_A	ANCESTRAL SPECIES	4	ENSGT00940000161214 #7	ENSGT00940000157309 #8	ENSGT00940000157098 #9	ENSGT00390000010948 #10	ENSGT01040000240451.a.b.a #11	ENSGT00940000159587 #12	ENSGT00390000016293 #13	ENSGT00940000161297 #14	ENSGT00390000017840 #15	ENSGT00950000182905.a.a.b #16	ENSGT00940000158208 #17	ENSGT00940000154770 #18	ENSGT00940000160351 #19	ENSGT00940000158956 #20	ENSGT00530000063603.A #21	ENSGT00390000006679.a #22	ENSGT01070000253775.a.d.b #23	ENSGT00940000160422 #25	ENSGT00940000161404 #26	ENSGT00940000156890.a.a #27	ENSGT00940000159439 #28	ENSGT00860000136110	ENSGT00390000003427 #29	ENSGT00530000064137.a.a #30	ENSGT01090000261933	ENSGT00390000006305 #31	ENSGT00550000075017 #32	ENSGT00950000182860.a.b.a #33	ENSGT00940000160235 #34	ENSGT00940000162107 #35	ENSGT00940000160065 #36
Sciuridae	ANCESTRAL SPECIES	14	ENSGT00940000161214 #7	ENSGT00940000157309 #8	ENSGT00940000157098 #9	ENSGT00390000010948 #10	ENSGT01040000240451.a.b.a #11	ENSGT00940000159587 #12	ENSGT00390000016293 #13	ENSGT00940000161297 #14	ENSGT00390000017840 #15	ENSGT00950000182905.a.a.b #16	ENSGT00940000158208 #17	ENSGT00940000154770 #18	ENSGT00940000160351 #19	ENSGT00940000158956 #20	ENSGT00530000063603.A #21	ENSGT00390000006679.a #22	ENSGT01070000253775.a.d.b.i #23	ENSGT01070000253775.a.d.b.j #24	ENSGT00940000160422 #25	ENSGT00940000161404 #26	ENSGT00940000156890.a.a #27	ENSGT00940000159439 #28	ENSGT00860000136110	ENSGT00390000003427 #29	ENSGT00530000064137.a.a #30	ENSGT01090000261933	ENSGT00390000006305 #31	ENSGT00550000075017 #32	ENSGT00950000182860.a.b.a #33	ENSGT00940000160235 #34	ENSGT00940000162107 #35
Eurasian red squirrel	MODERN SPECIES	14	TAFA2 (ENSSVLG00005017243) #7	SLC16A7 (ENSSVLG00005017200) #8	LRIG3 (ENSSVLG00005016786) #9	ATP23 (ENSSVLG00005016743) #10	CTDSP2 (ENSSVLG00005016687) #11	AVIL (ENSSVLG00005016505) #12	ENSSVLG00005016349 #13	EEF1AKMT3 (ENSSVLG00005016307) #14	METTL1 (ENSSVLG00005016268) #15	CYP27B1 (ENSSVLG00005016149) #16	MARCHF9 (ENSSVLG00005016118) #17	CDK4 (ENSSVLG00005015967) #18	TSPAN31 (ENSSVLG00005015825) #19	AGAP2 (ENSSVLG00005015393) #20	OS9 (ENSSVLG00005015079) #21	B4GALNT1 (ENSSVLG00005014897) #22	ENSSVLG00005014760 #23	ENSSVLG00005014611 #24	ARHGEF25 (ENSSVLG00005014310) #25	DTX3 (ENSSVLG00005014198) #26	PIP4K2C (ENSSVLG00005014089) #27	KIF5A (ENSSVLG00005013715) #28	DCTN2 (ENSSVLG00005013297) #29	MBD6 (ENSSVLG00005013192) #30	DDIT3 (ENSSVLG00005013130) #31	MARS1 (ENSSVLG00005012921) #32	ARHGAP9 (ENSSVLG00005011907) #33	GLI1 (ENSSVLG00005011547) #34	INHBE (ENSSVLG00005011485) #35	INHBC (ENSSVLG00005011429) #36	R3HDM2 (ENSSVLG00005011028) #37
Marmotini	ANCESTRAL SPECIES	4	ENSGT00940000157309 #8	ENSGT00940000157098 #9	ENSGT00390000004428.a.l.a.b	ENSGT00390000010948 #10	ENSGT01040000240451.a.b.a #11	ENSGT00940000159587 #12	ENSGT00390000016293 #13	ENSGT00940000161297 #14	ENSGT00390000017840 #15	ENSGT00950000182905.a.a.b #16	ENSGT00940000158208 #17	ENSGT00940000154770 #18	ENSGT00940000160351 #19	ENSGT00940000158956 #20	ENSGT00530000063603.A #21	ENSGT00390000006679.a #22	ENSGT01070000253775.a.d.b.i #23	ENSGT00940000160422 #25	ENSGT00940000161404 #26	ENSGT00940000156890.a.a #27	ENSGT00940000159439 #28	ENSGT00860000136110	ENSGT00390000003427 #29	ENSGT00530000064137.a.a #30	ENSGT01090000261933	ENSGT00390000006305.e #31	ENSGT00550000075017 #32	ENSGT00950000182860.a.b.a #33	ENSGT00940000160235 #34	ENSGT00940000162107 #35	ENSGT00940000160065 #36
Marmotini_b	ANCESTRAL SPECIES	3	ENSGT00940000157309 #8	ENSGT00940000157098 #9	ENSGT00390000004428.a.l.a.b	ENSGT00390000010948 #10	ENSGT01040000240451.a.b.a #11	ENSGT00940000159587 #12	ENSGT00390000016293 #13	ENSGT00940000161297 #14	ENSGT00390000017840 #15	ENSGT00950000182905.a.a.b #16	ENSGT00940000158208 #17	ENSGT00940000154770.bb #18	ENSGT00940000160351 #19	ENSGT00940000158956 #20	ENSGT00530000063603.A #21	ENSGT00390000006679.a #22	ENSGT01070000253775.a.d.b.i #23	ENSGT01070000253775.a.d.b.j #24	ENSGT00940000160422 #25	ENSGT00940000161404 #26	ENSGT00940000156890.a.a #27	ENSGT00860000136110	ENSGT00940000159439 #28	ENSGT00390000003427 #29	ENSGT00530000064137.a.a #30	ENSGT00390000006305.e #31	ENSGT00550000075017 #32	ENSGT00950000182860.a.b.a #33	ENSGT00940000160235 #34	ENSGT00940000162107 #35	ENSGT00940000160065 #36
Arctic ground squirrel	MODERN SPECIES	197		LRIG3 (ENSUPAG00010017739) #9	ENSUPAG00010017731	ENSUPAG00010017722 #10	CTDSP2 (ENSUPAG00010017709) #11	AVIL (ENSUPAG00010017677) #12	TSFM (ENSUPAG00010017664) #13	EEF1AKMT3 (ENSUPAG00010017654) #14	METTL1 (ENSUPAG00010017651) #15	CYP27B1 (ENSUPAG00010017630) #16	MARCHF9 (ENSUPAG00010017626) #17	ENSUPAG00010017617 #18	TSPAN31 (ENSUPAG00010017607) #19	AGAP2 (ENSUPAG00010017556) #20	OS9 (ENSUPAG00010017513) #21	B4GALNT1 (ENSUPAG00010017501) #22	ENSUPAG00010017441 #23	ARHGEF25 (ENSUPAG00010017411) #25	DTX3 (ENSUPAG00010017398) #26	PIP4K2C (ENSUPAG00010017376) #27	ENSUPAG00010017369	KIF5A (ENSUPAG00010017316) #28	DCTN2 (ENSUPAG00010017296) #29	MBD6 (ENSUPAG00010017279) #30	ENSUPAG00010017275 #31	MARS1 (ENSUPAG00010017243) #32	GLI1 (ENSUPAG00010017222) #34	ARHGAP9 (ENSUPAG00010017207) #33	INHBE (ENSUPAG00010017202) #35	INHBC (ENSUPAG00010017199) #36	R3HDM2 (ENSUPAG00010016815) #37
Squirrel	MODERN SPECIES	246	LRIG3 (ENSSTOG00000002283) #9	ATP23 (ENSSTOG00000001187) #10	CTDSP2 (ENSSTOG00000023365) #11	AVIL (ENSSTOG00000001162) #12	EEF1AKMT3 (ENSSTOG00000024160) #14	TSFM (ENSSTOG00000001159) #13	METTL1 (ENSSTOG00000001154) #15	CYP27B1 (ENSSTOG00000001146) #16	ENSSTOG00000001142 #18	TSPAN31 (ENSSTOG00000001138) #19	MARCHF9 (ENSSTOG00000021963) #17	AGAP2 (ENSSTOG00000001113) #20	OS9 (ENSSTOG00000001100) #21	ENSSTOG00000031108	ENSSTOG00000014458	B4GALNT1 (ENSSTOG00000001087) #22	ENSSTOG00000020554 #24	ARHGEF25 (ENSSTOG00000001189) #25	DTX3 (ENSSTOG00000026285) #26	PIP4K2C (ENSSTOG00000001081) #27	KIF5A (ENSSTOG00000001164) #28	DCTN2 (ENSSTOG00000001156) #29	ENSSTOG00000001143 #30	ENSSTOG00000019858 #31	MARS1 (ENSSTOG00000001128) #32	ARHGAP9 (ENSSTOG00000001107) #33	GLI1 (ENSSTOG00000020366) #34	INHBE (ENSSTOG00000025066) #35	INHBC (ENSSTOG00000001097) #36	ENSSTOG00000013424 #37	STAC3 (ENSSTOG00000013409)
Alpin marmot	MODERN SPECIES	11	LRIG3 (ENSMMMG00000010368) #9	ENSMMMG00000010406	ATP23 (ENSMMMG00000010425) #10	CTDSP2 (ENSMMMG00000010438) #11	AVIL (ENSMMMG00000010450) #12	TSFM (ENSMMMG00000010500) #13	EEF1AKMT3 (ENSMMMG00000010507) #14	METTL1 (ENSMMMG00000010517) #15	CYP27B1 (ENSMMMG00000010536) #16	MARCHF9 (ENSMMMG00000010562) #17	CDK4 (ENSMMMG00000010571) #18	TSPAN31 (ENSMMMG00000010594) #19	AGAP2 (ENSMMMG00000010604) #20	OS9 (ENSMMMG00000010642) #21	ENSMMMG00000010692	B4GALNT1 (ENSMMMG00000010698) #22	ENSMMMG00000010726 #23	ARHGEF25 (ENSMMMG00000010788) #25	DTX3 (ENSMMMG00000010875) #26	PIP4K2C (ENSMMMG00000010891) #27	KIF5A (ENSMMMG00000010904) #28	ENSMMMG00000011019	DCTN2 (ENSMMMG00000011027) #29	MBD6 (ENSMMMG00000011054) #30	ENSMMMG00000011091	ENSMMMG00000011094 #31	MARS1 (ENSMMMG00000011099) #32	ARHGAP9 (ENSMMMG00000011136) #33	GLI1 (ENSMMMG00000011156) #34	INHBE (ENSMMMG00000011176) #35	INHBC (ENSMMMG00000011180) #36
Hystricomorpha	ANCESTRAL SPECIES	9	ENSGT00940000161214 #7	ENSGT00940000157309 #8	ENSGT00940000157098 #9	ENSGT00390000010948 #10	ENSGT01040000240451.a.b.a #11	ENSGT00940000159587 #12	ENSGT00390000016293 #13	ENSGT00940000161297 #14	ENSGT00390000017840 #15	ENSGT00950000182905.a.a.b #16	ENSGT00940000158208 #17	ENSGT00940000154770 #18	ENSGT00940000160351 #19	ENSGT00940000158956 #20	ENSGT00530000063603.A #21	ENSGT00390000006679.a #22	ENSGT01070000253775.a.d.b #23	ENSGT00940000160422 #25	ENSGT00940000161404 #26	ENSGT00940000156890.a.a #27	ENSGT00940000159439 #28	ENSGT00390000003427 #29	ENSGT00530000064137.a.a #30	ENSGT00390000006305 #31	ENSGT00550000075017 #32	ENSGT00950000182860.a.b.a #33	ENSGT00940000160235 #34	ENSGT00940000162107 #35	ENSGT00940000160065 #36	ENSGT00940000155609 #37	ENSGT00950000183092.a
Naked mole-rat female	MODERN SPECIES	8	ENSHGLG00000049232	ENSHGLG00000000518	ENSHGLG00000039977 #10	CTDSP2 (ENSHGLG00000005482) #11	AVIL (ENSHGLG00000006939) #12	TSFM (ENSHGLG00000035817) #13	EEF1AKMT3 (ENSHGLG00000014041) #14	METTL1 (ENSHGLG00000040341) #15	CYP27B1 (ENSHGLG00000018056) #16	MARCHF9 (ENSHGLG00000031879) #17	CDK4 (ENSHGLG00000034505) #18	TSPAN31 (ENSHGLG00000009305) #19	AGAP2 (ENSHGLG00000009759) #20	OS9 (ENSHGLG00000018868) #21	ENSHGLG00000032575	B4GALNT1 (ENSHGLG00000016963) #22	ENSHGLG00000015674 #23	ENSHGLG00000044481	ENSHGLG00000035780 ##23	ARHGEF25 (ENSHGLG00000018169) #25	DTX3 (ENSHGLG00000033032) #26	PIP4K2C (ENSHGLG00000016024) #27	ENSHGLG00000043824	DCTN2 (ENSHGLG00000013797) #29	ENSHGLG00000047970 #30	ENSHGLG00000041807	MARS1 (ENSHGLG00000013493) #32	INHBE (ENSHGLG00000032463) #35	ENSHGLG00000042046	NDUFA4L2 (ENSHGLG00000045559)	ENSHGLG00000050142
Hystricomorpha_a	ANCESTRAL SPECIES	7	ENSGT00940000161214 #7	ENSGT00940000157309 #8	ENSGT00940000157098 #9	ENSGT00390000010948 #10	ENSGT01040000240451.a.b.a #11	ENSGT00940000159587 #12	ENSGT00390000016293 #13	ENSGT00940000161297 #14	ENSGT00390000017840 #15	ENSGT00950000182905.a.a.b #16	ENSGT00940000158208 #17	ENSGT00940000154770 #18	ENSGT00940000160351 #19	ENSGT00940000158956 #20	ENSGT00530000063603.A #21	ENSGT00390000006679.a #22	ENSGT01070000253775.a.d.b #23	ENSGT00940000160422 #25	ENSGT00940000161404 #26	ENSGT00940000156890.a.a #27	ENSGT00940000159439 #28	ENSGT00390000003427 #29	ENSGT00530000064137.a.a #30	ENSGT00390000006305 #31	ENSGT00550000075017 #32	ENSGT00950000182860.a.b.a #33	ENSGT00940000160235 #34	ENSGT00940000162107 #35	ENSGT00940000160065 #36	ENSGT00940000155609 #37	ENSGT00950000183092.a
Guinea pig	MODERN SPECIES	9	TAFA2 (ENSCPOG00000035228) #7	SLC16A7 (ENSCPOG00000010219) #8	LRIG3 (ENSCPOG00000011502) #9	ATP23 (ENSCPOG00000039300) #10	CTDSP2 (ENSCPOG00000039281) #11	AVIL (ENSCPOG00000012226) #12	TSFM (ENSCPOG00000037732) #13	EEF1AKMT3 (ENSCPOG00000011497) #14	METTL1 (ENSCPOG00000000066) #15	CYP27B1 (ENSCPOG00000019603) #16	MARCHF9 (ENSCPOG00000002671) #17	CDK4 (ENSCPOG00000033131) #18	TSPAN31 (ENSCPOG00000011494) #19	AGAP2 (ENSCPOG00000022267) #20	OS9 (ENSCPOG00000002667) #21	B4GALNT1 (ENSCPOG00000003202) #22	ENSCPOG00000033620 #23	ARHGEF25 (ENSCPOG00000020097) #25	PIP4K2C (ENSCPOG00000022071) #27	KIF5A (ENSCPOG00000012882) #28	DCTN2 (ENSCPOG00000012879) #29	MBD6 (ENSCPOG00000012873) #30	DDIT3 (ENSCPOG00000012871) #31	MARS1 (ENSCPOG00000012866) #32	ARHGAP9 (ENSCPOG00000014343) #33	GLI1 (ENSCPOG00000005414) #34	INHBE (ENSCPOG00000031115) #35	INHBC (ENSCPOG00000033593) #36	R3HDM2 (ENSCPOG00000009217) #37	STAC3 (ENSCPOG00000006200)	NDUFA4L2 (ENSCPOG00000035802)
Hystricomorpha_b	ANCESTRAL SPECIES	13	ENSGT00940000161214 #7	ENSGT00940000157309 #8	ENSGT00940000157098 #9	ENSGT00390000010948 #10	ENSGT01040000240451.a.b.a #11	ENSGT00940000159587 #12	ENSGT00390000016293 #13	ENSGT00940000161297 #14	ENSGT00390000017840 #15	ENSGT00950000182905.a.a.b #16	ENSGT00940000158208 #17	ENSGT00940000154770 #18	ENSGT00940000160351 #19	ENSGT00940000158956 #20	ENSGT00530000063603.A #21	ENSGT00390000006679.a #22	ENSGT01070000253775.a.d.b #23	ENSGT00940000160422 #25	ENSGT00940000161404 #26	ENSGT00940000156890.a.a #27	ENSGT00940000159439 #28	ENSGT00390000003427 #29	ENSGT00530000064137.a.a #30	ENSGT00390000006305 #31	ENSGT00550000075017 #32	ENSGT00950000182860.a.b.a #33	ENSGT00940000160235 #34	ENSGT00940000162107 #35	ENSGT00940000160065 #36	ENSGT00940000155609 #37	ENSGT00950000183092.a
Degu	MODERN SPECIES	327	ENSODEG00000018814	ENSODEG00000002068	ATP23 (ENSODEG00000002049) #10	ENSODEG00000002035	ENSODEG00000002015 #11	AVIL (ENSODEG00000001940) #12	TSFM (ENSODEG00000001882) #13	EEF1AKMT3 (ENSODEG00000001854) #14	METTL1 (ENSODEG00000001799) #15	CYP27B1 (ENSODEG00000001745) #16	MARCHF9 (ENSODEG00000001713) #17	ENSODEG00000001702 #18	TSPAN31 (ENSODEG00000001691) #19	AGAP2 (ENSODEG00000001675) #20	OS9 (ENSODEG00000001586) #21	B4GALNT1 (ENSODEG00000002156) #22	ENSODEG00000002108 #23	ARHGEF25 (ENSODEG00000002032) #25	DTX3 (ENSODEG00000001975) #26	PIP4K2C (ENSODEG00000001958) #27	KIF5A (ENSODEG00000001884) #28	DCTN2 (ENSODEG00000001844) #29	ENSODEG00000001830 #30	ENSODEG00000001814 #30	DDIT3 (ENSODEG00000001801) #31	MARS1 (ENSODEG00000001752) #32	ARHGAP9 (ENSODEG00000001619) #33	GLI1 (ENSODEG00000001558) #34	INHBE (ENSODEG00000001543) #35	INHBC (ENSODEG00000001532) #36	ENSODEG00000001520 #37
Long-tailed chinchilla	MODERN SPECIES	165	TAFA2 (ENSCLAG00000015199) #7	SLC16A7 (ENSCLAG00000011812) #8	LRIG3 (ENSCLAG00000010704) #9	ATP23 (ENSCLAG00000010629) #10	CTDSP2 (ENSCLAG00000015950) #11	AVIL (ENSCLAG00000009924) #12	TSFM (ENSCLAG00000009226) #13	EEF1AKMT3 (ENSCLAG00000012713) #14	METTL1 (ENSCLAG00000014968) #15	CYP27B1 (ENSCLAG00000013845) #16	TSPAN31 (ENSCLAG00000013511) #19	CDK4 (ENSCLAG00000012995) #18	MARCHF9 (ENSCLAG00000012609) #17	AGAP2 (ENSCLAG00000009332) #20	OS9 (ENSCLAG00000010151) #21	B4GALNT1 (ENSCLAG00000009160) #22	ENSCLAG00000011703 #23	ARHGEF25 (ENSCLAG00000010120) #25	DTX3 (ENSCLAG00000008560) #26	PIP4K2C (ENSCLAG00000012549) #27	KIF5A (ENSCLAG00000011917) #28	DCTN2 (ENSCLAG00000010761) #29	MBD6 (ENSCLAG00000010083) #30	DDIT3 (ENSCLAG00000009376) #31	MARS1 (ENSCLAG00000012164) #32	ARHGAP9 (ENSCLAG00000015213) #33	GLI1 (ENSCLAG00000010833) #34	INHBE (ENSCLAG00000013199) #35	INHBC (ENSCLAG00000015051) #36	R3HDM2 (ENSCLAG00000011997) #37	STAC3 (ENSCLAG00000017371)