Rodentia_A	ANCESTRAL SPECIES	5	ENSGT00940000153783.b.b.c.a.a.a #7	ENSGT00940000153783.b.b.c.b ##7	ENSGT00940000153783.b.b.c.a.b ##7	ENSGT00550000074917 #8	ENSGT00940000159828 #9	ENSGT00940000157053 #11	ENSGT00940000161858 #12	ENSGT00950000183084.b.b #13	ENSGT00940000162610 #15	ENSGT00510000047914.b #16	ENSGT00940000162172 #17	ENSGT00940000156311 #18	ENSGT00970000194716	ENSGT00940000156022.b #20	ENSGT00390000001652.f.b #21	ENSGT00950000183153.c.b.a.a #22	ENSGT00940000159593 #23	ENSGT00940000155387 #24	ENSGT00730000111162 #25	ENSGT00390000006126 #26	ENSGT01090000260076.a #27	ENSGT00940000153270.b.b #28	ENSGT00390000001750 #29	ENSGT00390000003511 #30	ENSGT00390000011058.b #31	ENSGT00940000155929 #33	ENSGT01050000244976.b.a #34	ENSGT00940000156634 #35	ENSGT00940000160327 #36	ENSGT00940000159448 #37	ENSGT00550000074851
Sciuridae	ANCESTRAL SPECIES	12	ENSGT00950000182930.B	ENSGT00860000135739	ENSGT00940000153783.b.b.c.a.a.a #7	ENSGT00550000074917 #8	ENSGT00940000159828 #9	ENSGT00940000157053 #11	ENSGT00940000161858 #12	ENSGT00950000183084.b.b #13	ENSGT00940000162610 #15	ENSGT00510000047914.b #16	ENSGT00940000162172 #17	ENSGT00940000156311 #18	ENSGT00970000194716	ENSGT00940000156022.b #20	ENSGT00390000001652.f.b #21	ENSGT00950000183153.c.b.a.a #22	ENSGT00940000159593 #23	ENSGT00940000155387 #24	ENSGT00730000111162 #25	ENSGT00390000006126 #26	ENSGT01090000260076.a #27	ENSGT00940000153270.b.b #28	ENSGT00390000001750 #29	ENSGT00390000003511 #30	ENSGT00390000011058.b #31	ENSGT00940000155929 #33	ENSGT01050000244976.b.a #34	ENSGT00940000156634 #35	ENSGT00940000160327 #36	ENSGT00940000159448 #37	ENSGT00550000074851
Marmotini	ANCESTRAL SPECIES	57	ENSGT00950000182930.B	ENSGT00860000135739	ENSGT00940000153783.b.b.c.a.a.a.a #7	ENSGT00550000074917 #8	ENSGT00940000159828 #9	ENSGT00940000157053 #11	ENSGT00940000161858 #12	ENSGT00950000183084.b.b #13	ENSGT00940000162610 #15	ENSGT00510000047914.b #16	ENSGT00940000162172 #17	ENSGT00940000156311 #18	ENSGT00900000143836 #19	ENSGT00940000156022.b #20	ENSGT00390000001652.f.b #21	ENSGT00950000183153.c.b.a.a #22	ENSGT00940000159593 #23	ENSGT00940000155387 #24	ENSGT00730000111162 #25	ENSGT00390000006126 #26	ENSGT01090000260076.a #27	ENSGT00940000153270.b.b #28	ENSGT00390000001750 #29	ENSGT00390000003511 #30	ENSGT00390000011058.b #31	ENSGT00940000155929 #33	ENSGT01050000244976.b.a #34	ENSGT00940000156634 #35	ENSGT00940000160327 #36	ENSGT00940000159448 #37	ENSGT00550000074851
Alpin marmot	MODERN SPECIES	65	EIF4A2 (ENSMMMG00000009054) #7	RFC4 (ENSMMMG00000009263) #8	ADIPOQ (ENSMMMG00000009299) #9	ENSMMMG00000009302 #10	ST6GAL1 (ENSMMMG00000009312) #11	RTP1 (ENSMMMG00000009324) #12	MASP1 (ENSMMMG00000009332) #13	ENSMMMG00000009397 #14	ENSMMMG00000009405 #15	SST (ENSMMMG00000009413) #16	RTP2 (ENSMMMG00000009435) #17	BCL6 (ENSMMMG00000009441) #18	ENSMMMG00000009454 #19	LPP (ENSMMMG00000009476) #20	TPRG1 (ENSMMMG00000009493) #21	TP63 (ENSMMMG00000009524) #22	P3H2 (ENSMMMG00000010050) #23	CLDN1 (ENSMMMG00000010077) #24	CLDN16 (ENSMMMG00000010089) #25	TMEM207 (ENSMMMG00000010116) #26	IL1RAP (ENSMMMG00000010137) #27	GMNC (ENSMMMG00000010205) #28	OSTN (ENSMMMG00000010224) #29	UTS2B (ENSMMMG00000010236) #30	CCDC50 (ENSMMMG00000010258) #31	ENSMMMG00000010324 #32	ENSMMMG00000010336 #33	MB21D2 (ENSMMMG00000010348) #34	PLAAT1 (ENSMMMG00000010364) #35	ATP13A5 (ENSMMMG00000010381) #36	ATP13A4 (ENSMMMG00000010493) #37
Marmotini_b	ANCESTRAL SPECIES	79	ENSGT00950000182930.B	ENSGT00860000135739	ENSGT00940000153783.b.b.c.a.a.a.a #7	ENSGT00550000074917 #8	ENSGT00940000159828 #9	ENSGT00940000157053 #11	ENSGT00940000161858 #12	ENSGT00950000183084.b.b #13	ENSGT00940000162610 #15	ENSGT00510000047914.b #16	ENSGT00940000162172 #17	ENSGT00940000156311 #18	ENSGT00900000143836 #19	ENSGT00940000156022.b #20	ENSGT00390000001652.f.b #21	ENSGT00950000183153.c.b.a.a #22	ENSGT00940000159593 #23	ENSGT00940000155387 #24	ENSGT00730000111162 #25	ENSGT00390000006126 #26	ENSGT01090000260076.a #27
Squirrel	MODERN SPECIES	178	FETUB (ENSSTOG00000012584)	HRG (ENSSTOG00000012587)	KNG1 (ENSSTOG00000027812)	ENSSTOG00000012601 #7	ENSSTOG00000012616 #8	ADIPOQ (ENSSTOG00000016020) #9	ST6GAL1 (ENSSTOG00000015751) #11	RTP1 (ENSSTOG00000010261) #12	MASP1 (ENSSTOG00000010265) #13	ENSSTOG00000010275 #15	SST (ENSSTOG00000015070) #16	RTP2 (ENSSTOG00000025837) #17	BCL6 (ENSSTOG00000000843) #18	LPP (ENSSTOG00000004791) #20	TPRG1 (ENSSTOG00000013052) #21	TP63 (ENSSTOG00000013771) #22	P3H2 (ENSSTOG00000006501) #23	CLDN1 (ENSSTOG00000009637) #24	CLDN16 (ENSSTOG00000008723) #25
Arctic ground squirrel	MODERN SPECIES	67	ENSUPAG00010001535	EIF4A2 (ENSUPAG00010001415) #7	RFC4 (ENSUPAG00010001386) #8	ADIPOQ (ENSUPAG00010001377) #9	ST6GAL1 (ENSUPAG00010001354) #11	RTP1 (ENSUPAG00010001348) #12	ENSUPAG00010001334 #14	MASP1 (ENSUPAG00010001243) #13	ENSUPAG00010001238 #15	SST (ENSUPAG00010001221) #16	RTP2 (ENSUPAG00010001211) #17	BCL6 (ENSUPAG00010001190) #18	ENSUPAG00010001184 #19	LPP (ENSUPAG00010001116) #20	TPRG1 (ENSUPAG00010001096) #21	TP63 (ENSUPAG00010000340) #22	P3H2 (ENSUPAG00010000290) #23	CLDN1 (ENSUPAG00010000275) #24	CLDN16 (ENSUPAG00010000249) #25	TMEM207 (ENSUPAG00010000237) #26	IL1RAP (ENSUPAG00010000152) #27
Eurasian red squirrel	MODERN SPECIES	1	ENSSVLG00005008819 #7	RFC4 (ENSSVLG00005008782) #8	ENSSVLG00005008759	ADIPOQ (ENSSVLG00005008730) #9	ST6GAL1 (ENSSVLG00005008652) #11	RTP1 (ENSSVLG00005008628) #12	MASP1 (ENSSVLG00005008564) #13	ENSSVLG00005008533 #15	SST (ENSSVLG00005008514) #16	RTP2 (ENSSVLG00005008485) #17	ENSSVLG00005008392 #18	ENSSVLG00005008361	LPP (ENSSVLG00005008318) #20	TPRG1 (ENSSVLG00005008266) #21	ENSSVLG00005008233	TP63 (ENSSVLG00005007416) #22	P3H2 (ENSSVLG00005006989) #23	CLDN1 (ENSSVLG00005006941) #24	CLDN16 (ENSSVLG00005006918) #25	TMEM207 (ENSSVLG00005006891) #26	IL1RAP (ENSSVLG00005006739) #27	GMNC (ENSSVLG00005006667) #28	OSTN (ENSSVLG00005006607) #29	UTS2B (ENSSVLG00005006554) #30	ENSSVLG00005006532	CCDC50 (ENSSVLG00005006494) #31	FGF12 (ENSSVLG00005006414) #33	MB21D2 (ENSSVLG00005006368) #34	ENSSVLG00005006347	PLAAT1 (ENSSVLG00005006328) #35	ATP13A5 (ENSSVLG00005006143) #36
Hystricomorpha	ANCESTRAL SPECIES	6	ENSGT00950000182930.A.b	ENSGT00950000182930.A.a	ENSGT00950000182930.B	ENSGT00940000153783.b.b.c.a.b ##7	ENSGT00550000074917 #8	ENSGT00940000159828 #9	ENSGT00940000157053 #11	ENSGT00940000161858 #12	ENSGT00950000183084.b.b #13	ENSGT00510000047914.b #16	ENSGT00940000162172 #17	ENSGT00940000156311 #18	ENSGT00900000143836 #19	ENSGT00940000156022.b #20	ENSGT00390000001652.f.b #21	ENSGT00950000183153.c.b.a.a #22	ENSGT00940000159593 #23	ENSGT00940000155387 #24	ENSGT00730000111162 #25	ENSGT00390000006126 #26	ENSGT01090000260076.a #27	ENSGT00940000153270.b.b #28	ENSGT00390000001750 #29	ENSGT00390000003511 #30	ENSGT00390000011058.b #31	ENSGT00940000155929 #33	ENSGT01050000244976.b.a #34	ENSGT00940000156634 #35	ENSGT00940000160327 #36	ENSGT00940000159448 #37	ENSGT00550000074851
Hystricomorpha_a	ANCESTRAL SPECIES	4	ENSGT00950000182930.A.b	ENSGT00950000182930.A.a	ENSGT00950000182930.B	ENSGT00940000153783.b.b.c.a.b ##7	ENSGT00550000074917 #8	ENSGT00940000159828 #9	ENSGT00940000157053 #11	ENSGT00940000161858 #12	ENSGT00950000183084.b.b #13	ENSGT00510000047914.b #16	ENSGT00940000162172 #17	ENSGT00940000156311 #18	ENSGT01100000266402	ENSGT00940000156022.b #20	ENSGT00390000001652.f.b #21	ENSGT00950000183153.c.b.a.a #22	ENSGT00940000159593 #23	ENSGT00940000155387 #24	ENSGT00730000111162 #25	ENSGT00390000006126 #26	ENSGT01090000260076.a #27	ENSGT00940000153270.b.b #28	ENSGT00390000001750 #29	ENSGT00390000011058.b #31	ENSGT00940000155929 #33	ENSGT01050000244976.b.a #34	ENSGT00940000156634 #35	ENSGT00940000160327 #36	ENSGT00940000159448 #37	ENSGT00550000074851	ENSGT00940000159619.a
Guinea pig	MODERN SPECIES	7	FETUB (ENSCPOG00000011207)	HRG (ENSCPOG00000025939)	KNG1 (ENSCPOG00000012757)	ENSCPOG00000011183 ##7	RFC4 (ENSCPOG00000011191) #8	ADIPOQ (ENSCPOG00000036737) #9	ST6GAL1 (ENSCPOG00000001200) #11	RTP1 (ENSCPOG00000001203) #12	MASP1 (ENSCPOG00000015723) #13	SST (ENSCPOG00000009662) #16	RTP2 (ENSCPOG00000009665) #17	BCL6 (ENSCPOG00000004090) #18	ENSCPOG00000033304	LPP (ENSCPOG00000015584) #20	TPRG1 (ENSCPOG00000007437) #21	TP63 (ENSCPOG00000014770) #22	P3H2 (ENSCPOG00000004329) #23	CLDN1 (ENSCPOG00000037018) #24	CLDN16 (ENSCPOG00000008643) #25	IL1RAP (ENSCPOG00000008554) #27	GMNC (ENSCPOG00000019517) #28	OSTN (ENSCPOG00000024963) #29	CCDC50 (ENSCPOG00000013365) #31	FGF12 (ENSCPOG00000038518) #33	MB21D2 (ENSCPOG00000011028) #34	PLAAT1 (ENSCPOG00000008871) #35	ATP13A5 (ENSCPOG00000008873) #36	ATP13A4 (ENSCPOG00000008886) #37	OPA1 (ENSCPOG00000005925)	HES1 (ENSCPOG00000036195)	CPN2 (ENSCPOG00000037149)
Hystricomorpha_b	ANCESTRAL SPECIES	9	ENSGT00950000182930.A.b	ENSGT00950000182930.A.a	ENSGT00950000182930.B	ENSGT00940000153783.b.b.c.a.b ##7	ENSGT00550000074917 #8	ENSGT00940000159828 #9	ENSGT00940000157053 #11	ENSGT00940000161858 #12	ENSGT00950000183084.b.b #13	ENSGT00510000047914.b #16	ENSGT00940000162172 #17	ENSGT00940000156311 #18	ENSGT01100000266402	ENSGT00940000156022.b #20	ENSGT00390000001652.f.b #21	ENSGT00950000183153.c.b.a.a #22	ENSGT00940000159593 #23	ENSGT00940000155387 #24	ENSGT00730000111162 #25	ENSGT00390000006126 #26	ENSGT01090000260076.a #27	ENSGT00940000153270.b.b #28	ENSGT00390000001750 #29	ENSGT00390000011058.b #31	ENSGT00940000155929 #33	ENSGT01050000244976.b.a #34	ENSGT00940000156634 #35	ENSGT00940000160327 #36	ENSGT00940000159448 #37	ENSGT00550000074851	ENSGT00940000159619.a
Degu	MODERN SPECIES	169	DNAJB11 (ENSODEG00000001870)	AHSG (ENSODEG00000001885)	HRG (ENSODEG00000001904)	KNG1 (ENSODEG00000001927)	RFC4 (ENSODEG00000001999) #8	ADIPOQ (ENSODEG00000002012) #9	ST6GAL1 (ENSODEG00000002040) #11	RTP1 (ENSODEG00000000396) #12	MASP1 (ENSODEG00000000434) #13	ENSODEG00000000479	SST (ENSODEG00000000486) #16	RTP2 (ENSODEG00000000495) #17	BCL6 (ENSODEG00000000516) #18	LPP (ENSODEG00000000601) #20	TPRG1 (ENSODEG00000000645) #21	TP63 (ENSODEG00000000698) #22	P3H2 (ENSODEG00000000751) #23	CLDN1 (ENSODEG00000000775) #24	CLDN16 (ENSODEG00000000787) #25	TMEM207 (ENSODEG00000000814) #26	IL1RAP (ENSODEG00000000880) #27	ENSODEG00000000947	GMNC (ENSODEG00000000968) #28	OSTN (ENSODEG00000000984) #29	CCDC50 (ENSODEG00000001028) #31	ENSODEG00000018632	FGF12 (ENSODEG00000000898) #33	ENSODEG00000000915 #34	PLAAT1 (ENSODEG00000000928) #35	ATP13A5 (ENSODEG00000000942) #36
Long-tailed chinchilla	MODERN SPECIES	127	FETUB (ENSCLAG00000015483)	HRG (ENSCLAG00000015542)	ENSCLAG00000017074	EIF4A2 (ENSCLAG00000014891) ##7	RFC4 (ENSCLAG00000014582) #8	ADIPOQ (ENSCLAG00000016452) #9	ST6GAL1 (ENSCLAG00000015941) #11	RTP1 (ENSCLAG00000013765) #12	MASP1 (ENSCLAG00000012518) #13	SST (ENSCLAG00000015832) #16	RTP2 (ENSCLAG00000014964) #17	ENSCLAG00000017951	BCL6 (ENSCLAG00000012339) #18	LPP (ENSCLAG00000015949) #20	TPRG1 (ENSCLAG00000013300) #21	TP63 (ENSCLAG00000012538) #22	P3H2 (ENSCLAG00000012801) #23	CLDN1 (ENSCLAG00000013178) #24	CLDN16 (ENSCLAG00000012605) #25	IL1RAP (ENSCLAG00000012363) #27	GMNC (ENSCLAG00000011473) #28	OSTN (ENSCLAG00000013977) #29	CCDC50 (ENSCLAG00000014114) #31	FGF12 (ENSCLAG00000011409) #33	MB21D2 (ENSCLAG00000014657) #34	PLAAT1 (ENSCLAG00000012403) #35	ATP13A5 (ENSCLAG00000012908) #36	ATP13A4 (ENSCLAG00000012524) #37	OPA1 (ENSCLAG00000012734)	HES1 (ENSCLAG00000015321)	CPN2 (ENSCLAG00000018106)
Naked mole-rat female	MODERN SPECIES	27	ST6GAL1 (ENSHGLG00000037893) #11	ENSHGLG00000036874	RTP1 (ENSHGLG00000013919) #12	MASP1 (ENSHGLG00000013470) #13	ENSHGLG00000048542	ENSHGLG00000046703 #15	ENSHGLG00000012948 #15	SST (ENSHGLG00000019161) #16	RTP2 (ENSHGLG00000016449) #17	BCL6 (ENSHGLG00000016440) #18	ENSHGLG00000021340 #19	LPP (ENSHGLG00000016385) #20	ENSHGLG00000036742	ENSHGLG00000042236	ENSHGLG00000039972 #21	TP63 (ENSHGLG00000016277) #22	P3H2 (ENSHGLG00000019175) #23	CLDN1 (ENSHGLG00000038289) #24	CLDN16 (ENSHGLG00000018130) #25	ENSHGLG00000035223	TMEM207 (ENSHGLG00000037564) #26	IL1RAP (ENSHGLG00000018108) #27	ENSHGLG00000036963 #27	ENSHGLG00000019218	GMNC (ENSHGLG00000017131) #28	ENSHGLG00000040250	ENSHGLG00000016933	ENSHGLG00000016923	OSTN (ENSHGLG00000039251) #29	ENSHGLG00000042558 #30	CCDC50 (ENSHGLG00000016906) #31