Rodentia_A	ANCESTRAL SPECIES	1	ENSGT00940000153062.B	ENSGT00940000159197 #7	ENSGT00510000048847 #8	ENSGT00670000099483 #9	ENSGT01020000230389.a.a.a #10	ENSGT01030000234556.b.b.c #12	ENSGT01030000234556.b.a #13	ENSGT00440000034341 #14	ENSGT01030000234556.a.a.b #15	ENSGT01030000234556.a.a.a #16	ENSGT00940000153312.B #17	ENSGT00940000153312.A.a.a #18	ENSGT00940000153312.A.a.b #19	ENSGT00390000009300.b #20	ENSGT00390000009724.l #21	ENSGT00940000160099 #22	ENSGT00390000007968 #23	ENSGT01080000257333.B #24	ENSGT00390000005544 #25	ENSGT00390000017207 #26	ENSGT00940000155231.b #27	ENSGT00390000006949 #28	ENSGT00900000141067 #29	ENSGT01050000244848.B.a.a #30	ENSGT00730000110915.a #31	ENSGT00900000143762	ENSGT00390000006115 #32	ENSGT00940000162579 #33	ENSGT00390000007799 #34	ENSGT00390000004856.w.a.a.b.a.b #35	ENSGT00940000153761.B #36
Hystricomorpha	ANCESTRAL SPECIES	5	ENSGT00940000153062.B	ENSGT00940000159197 #7	ENSGT00510000048847 #8	ENSGT00670000099483 #9	ENSGT01020000230389.a.a.a #10	ENSGT01030000234556.b.b.c #12	ENSGT01030000234556.b.a #13	ENSGT00440000034341 #14	ENSGT01030000234556.a.a.b #15	ENSGT01030000234556.a.a.a #16	ENSGT00940000153312.B #17	ENSGT00940000153312.A.a.a #18	ENSGT00940000153312.A.a.b #19	ENSGT00390000009300.b #20	ENSGT00390000009724.l #21	ENSGT00940000160099 #22	ENSGT00390000007968 #23	ENSGT01080000257333.B #24	ENSGT00390000005544 #25	ENSGT00390000017207 #26	ENSGT00940000155231.b #27	ENSGT00390000006949 #28	ENSGT00900000141067 #29	ENSGT01050000244848.B.a.a #30	ENSGT00730000110915.a #31	ENSGT00390000006115 #32	ENSGT00940000162579 #33	ENSGT00390000007799 #34	ENSGT00390000004856.w.a.a.b.a.b #35	ENSGT00940000153761.B #36	ENSGT00730000111086 #37
Hystricomorpha_a	ANCESTRAL SPECIES	10	ENSGT00940000153062.B	ENSGT00940000159197 #7	ENSGT00510000048847 #8	ENSGT00670000099483 #9	ENSGT01020000230389.a.a.a #10	ENSGT01030000234556.b.b.c #12	ENSGT01030000234556.b.a #13	ENSGT00440000034341 #14	ENSGT01030000234556.a.a.b #15	ENSGT01030000234556.a.a.a #16	ENSGT00940000153312.B #17	ENSGT00940000153312.A.a.a #18	ENSGT00940000153312.A.a.b #19	ENSGT00390000009300.b #20	ENSGT00390000009724.l #21	ENSGT00940000160099 #22	ENSGT00390000007968 #23	ENSGT01080000257333.B #24	ENSGT00390000005544 #25	ENSGT00390000017207 #26	ENSGT00940000155231.b #27	ENSGT00390000006949 #28	ENSGT00900000141067 #29	ENSGT01050000244848.B.a.a #30	ENSGT00730000110915.a #31	ENSGT00390000006115 #32	ENSGT00940000162579 #33	ENSGT00390000007799 #34	ENSGT00390000004856.w.a.a.b.a.b #35	ENSGT00940000153761.B #36	ENSGT00730000111086 #37
Hystricomorpha_b	ANCESTRAL SPECIES	23	ENSGT00940000153062.B	ENSGT00940000159197 #7	ENSGT00510000048847 #8	ENSGT00670000099483 #9	ENSGT01020000230389.a.a.a #10	ENSGT01030000234556.b.b.c #12	ENSGT01030000234556.b.a #13	ENSGT00440000034341 #14	ENSGT01030000234556.a.a.b #15	ENSGT01030000234556.a.a.a #16	ENSGT00940000153312.B #17	ENSGT00940000153312.A.a.a #18	ENSGT00940000153312.A.a.b #19	ENSGT00390000009300.b #20	ENSGT00390000009724.l #21	ENSGT00940000160099 #22	ENSGT00390000007968 #23	ENSGT01080000257333.B #24	ENSGT00390000005544 #25	ENSGT00390000017207 #26	ENSGT00940000155231.b #27	ENSGT00390000006949 #28	ENSGT00900000141067 #29	ENSGT01050000244848.B.a.a #30	ENSGT00730000110915.a #31	ENSGT00390000006115 #32	ENSGT00940000162579 #33	ENSGT00390000007799 #34	ENSGT00390000004856.w.a.a.b.a.b #35	ENSGT00940000153761.B #36	ENSGT00730000111086 #37
Long-tailed chinchilla	MODERN SPECIES	119	TMPRSS13 (ENSCLAG00000015251) #7	IL10RA (ENSCLAG00000011658) #8	SMIM35 (ENSCLAG00000011882) #9	TMPRSS4 (ENSCLAG00000012156) #10	ENSCLAG00000017818 #11	SCN4B (ENSCLAG00000013104) #12	SCN2B (ENSCLAG00000012371) #13	ENSCLAG00000015391 #14	MPZL3 (ENSCLAG00000012975) #15	MPZL2 (ENSCLAG00000013369) #16	CD3E (ENSCLAG00000012378) #17	CD3D (ENSCLAG00000013677) #18	CD3G (ENSCLAG00000013148) #19	UBE4A (ENSCLAG00000015122) #20	ENSCLAG00000013433 #21	KMT2A (ENSCLAG00000016132) #22	TTC36 (ENSCLAG00000014598) #23	TMEM25 (ENSCLAG00000012417) #24	IFT46 (ENSCLAG00000012829) #25	ARCN1 (ENSCLAG00000013503) #26	PHLDB1 (ENSCLAG00000016433) #27	TREH (ENSCLAG00000017238) #28	DDX6 (ENSCLAG00000016749) #29	CXCR5 (ENSCLAG00000014587) #30	BCL9L (ENSCLAG00000016475) #31	UPK2 (ENSCLAG00000014907) #32	FOXR1 (ENSCLAG00000017051) #33	CENATAC (ENSCLAG00000014684) #34	RPS25 (ENSCLAG00000011816) #35	TRAPPC4 (ENSCLAG00000015643) #36	SLC37A4 (ENSCLAG00000015915) #37
Degu	MODERN SPECIES	121	ENSODEG00000008922	SMIM35 (ENSODEG00000008714) #9	TMPRSS4 (ENSODEG00000007951) #10	SCN4B (ENSODEG00000013244) #12	SCN2B (ENSODEG00000008892) #13	ENSODEG00000008362 #14	ENSODEG00000013916	MPZL3 (ENSODEG00000010522) #15	MPZL2 (ENSODEG00000008668) #16	CD3E (ENSODEG00000011105) #17	CD3D (ENSODEG00000008502) #18	CD3G (ENSODEG00000008512) #19	ENSODEG00000009407	UBE4A (ENSODEG00000007578) #20	ENSODEG00000008388 #21	KMT2A (ENSODEG00000010867) #22	TTC36 (ENSODEG00000007448) #23	TMEM25 (ENSODEG00000009164) #24	IFT46 (ENSODEG00000009156) #25	ARCN1 (ENSODEG00000008811) #26	ENSODEG00000008503 #27	ENSODEG00000009600 #27	TREH (ENSODEG00000008508) #28	DDX6 (ENSODEG00000007950) #29	ENSODEG00000019480	ENSODEG00000019496	ENSODEG00000019541	ENSODEG00000019466	ENSODEG00000019472	CXCR5 (ENSODEG00000009623) #30	BCL9L (ENSODEG00000008521) #31
Guinea pig	MODERN SPECIES	19	FXYD6 (ENSCPOG00000035059)	TMPRSS13 (ENSCPOG00000011938) #7	IL10RA (ENSCPOG00000030865) #8	SMIM35 (ENSCPOG00000037236) #9	TMPRSS4 (ENSCPOG00000005899) #10	SCN4B (ENSCPOG00000003831) #12	SCN2B (ENSCPOG00000034956) #13	ENSCPOG00000010118 #14	MPZL3 (ENSCPOG00000039523) #15	ENSCPOG00000036539 #16	CD3E (ENSCPOG00000001430) #17	CD3D (ENSCPOG00000013163) #18	CD3G (ENSCPOG00000022675) #19	UBE4A (ENSCPOG00000013164) #20	ENSCPOG00000038525 #21	KMT2A (ENSCPOG00000005813) #22	TTC36 (ENSCPOG00000023702) #23	TMEM25 (ENSCPOG00000031708) #24	IFT46 (ENSCPOG00000006279) #25	ARCN1 (ENSCPOG00000023815) #26	PHLDB1 (ENSCPOG00000006424) #27	TREH (ENSCPOG00000005437) #28	DDX6 (ENSCPOG00000010587) #29	CXCR5 (ENSCPOG00000039191) #30	BCL9L (ENSCPOG00000009787) #31	UPK2 (ENSCPOG00000002222) #32	ENSCPOG00000001855 #33	CENATAC (ENSCPOG00000013290) #34	ENSCPOG00000013298 ##35	TRAPPC4 (ENSCPOG00000013301) #36	SLC37A4 (ENSCPOG00000035396) #37
Naked mole-rat female	MODERN SPECIES	24	TMPRSS13 (ENSHGLG00000019043) #7	IL10RA (ENSHGLG00000038872) #8	SMIM35 (ENSHGLG00000017558) #9	TMPRSS4 (ENSHGLG00000017567) #10	SCN4B (ENSHGLG00000050753) #12	SCN2B (ENSHGLG00000033638) #13	ENSHGLG00000017992 #14	ENSHGLG00000049594	MPZL3 (ENSHGLG00000018484) #15	ENSHGLG00000018497 #16	CD3E (ENSHGLG00000018122) #17	CD3G (ENSHGLG00000017797) #19	UBE4A (ENSHGLG00000017823) #20	CD3D (ENSHGLG00000017785) #18	ENSHGLG00000013545 #21	KMT2A (ENSHGLG00000013811) #22	ENSHGLG00000032294	TTC36 (ENSHGLG00000042848) #23	TMEM25 (ENSHGLG00000017842) #24	IFT46 (ENSHGLG00000017283) #25	ARCN1 (ENSHGLG00000039336) #26	PHLDB1 (ENSHGLG00000004051) #27	ENSHGLG00000049202	TREH (ENSHGLG00000004167) #28	ENSHGLG00000036948	ENSHGLG00000004248	DDX6 (ENSHGLG00000004316) #29	ENSHGLG00000048072	CXCR5 (ENSHGLG00000034839) #30	BCL9L (ENSHGLG00000004416) #31	ENSHGLG00000038118
Sciuridae	ANCESTRAL SPECIES	2	ENSGT00940000153062.B	ENSGT00940000159197 #7	ENSGT00510000048847 #8	ENSGT00670000099483 #9	ENSGT01020000230389.a.a.a #10	ENSGT01030000234556.b.b.c #12	ENSGT01030000234556.b.a #13	ENSGT00440000034341 #14	ENSGT01030000234556.a.a.b #15	ENSGT01030000234556.a.a.a #16	ENSGT00940000153312.B #17	ENSGT00940000153312.A.a.a #18	ENSGT00940000153312.A.a.b #19	ENSGT00390000009300.b #20	ENSGT00390000009724.l #21	ENSGT00940000160099 #22	ENSGT00390000007968 #23	ENSGT01080000257333.B #24	ENSGT00390000005544 #25	ENSGT00390000017207.d #26	ENSGT00940000155231.b #27	ENSGT00390000006949 #28	ENSGT00900000141067 #29	ENSGT01050000244848.B.a.a #30	ENSGT00730000110915.a #31	ENSGT00900000143762	ENSGT00390000006115 #32	ENSGT00940000162579 #33	ENSGT00390000007799 #34	ENSGT00390000004856.w.a.a.b.a.b #35	ENSGT00940000153761.B #36
Marmotini	ANCESTRAL SPECIES	20	ENSGT00940000153062.B	ENSGT00940000159197 #7	ENSGT00510000048847 #8	ENSGT00670000099483 #9	ENSGT01020000230389.a.a.a #10	ENSGT01030000234556.b.b.c #12	ENSGT01030000234556.b.a #13	ENSGT00440000034341 #14	ENSGT01030000234556.a.a.b #15	ENSGT01030000234556.a.a.a #16	ENSGT00940000153312.B #17	ENSGT00940000153312.A.a.a #18	ENSGT00940000153312.A.a.b #19	ENSGT00390000009300.b #20	ENSGT00390000009724.l #21	ENSGT00940000160099 #22	ENSGT00390000007968 #23	ENSGT01080000257333.B #24	ENSGT00390000005544 #25	ENSGT00390000017207.d #26	ENSGT00940000155231.b.w #27	ENSGT00390000006949 #28	ENSGT00900000141067 #29	ENSGT01050000244848.B.a.a #30	ENSGT00730000110915.a #31	ENSGT00900000143762	ENSGT00390000006115 #32	ENSGT00940000162579 #33	ENSGT00390000007799 #34	ENSGT00390000004856.w.a.a.b.a.b #35	ENSGT00940000153761.B #36
Marmotini_b	ANCESTRAL SPECIES	43	ENSGT00940000153062.B	ENSGT00940000159197 #7	ENSGT00510000048847 #8	ENSGT00670000099483 #9	ENSGT01020000230389.a.a.a #10	ENSGT01030000234556.b.b.c #12	ENSGT01030000234556.b.a #13	ENSGT00440000034341 #14	ENSGT01030000234556.a.a.b #15	ENSGT01030000234556.a.a.a #16	ENSGT00940000153312.B #17	ENSGT00940000153312.A.a.a #18	ENSGT00940000153312.A.a.b #19	ENSGT00390000009300.b #20	ENSGT00390000009724.l #21	ENSGT00940000160099 #22	ENSGT00390000007968 #23	ENSGT01080000257333.B #24	ENSGT00390000005544 #25	ENSGT00390000017207.d #26	ENSGT00940000155231.b.w #27	ENSGT00390000006949 #28	ENSGT00900000141067 #29	ENSGT01050000244848.B.a.a #30	ENSGT00730000110915.a #31	ENSGT00390000006115 #32	ENSGT00940000162579 #33	ENSGT00390000007799 #34	ENSGT00390000004856.w.a.a.b.a.b #35	ENSGT00940000153761.B #36	ENSGT00730000111086 #37
Arctic ground squirrel	MODERN SPECIES	170	ENSUPAG00010006193	TMPRSS13 (ENSUPAG00010006212) #7	IL10RA (ENSUPAG00010006230) #8	SMIM35 (ENSUPAG00010006235) #9	TMPRSS4 (ENSUPAG00010006241) #10	ENSUPAG00010006265 #12	SCN2B (ENSUPAG00010006281) #13	ENSUPAG00010006294 #14	MPZL3 (ENSUPAG00010006306) #15	MPZL2 (ENSUPAG00010006315) #16	CD3E (ENSUPAG00010006321) #17	CD3D (ENSUPAG00010006334) #18	CD3G (ENSUPAG00010006342) #19	UBE4A (ENSUPAG00010006348) #20	ENSUPAG00010006390 #21	KMT2A (ENSUPAG00010006395) #22	TTC36 (ENSUPAG00010006459) #23	TMEM25 (ENSUPAG00010006469) #24	IFT46 (ENSUPAG00010006481) #25	ARCN1 (ENSUPAG00010006510) #26	PHLDB1 (ENSUPAG00010006520) #27	TREH (ENSUPAG00010006722) #28	DDX6 (ENSUPAG00010006792) #29	CXCR5 (ENSUPAG00010006813) #30	BCL9L (ENSUPAG00010006821) #31	UPK2 (ENSUPAG00010006857) #32	ENSUPAG00010006869	FOXR1 (ENSUPAG00010006881) #33	CENATAC (ENSUPAG00010006898) #34	RPS25 (ENSUPAG00010006950) #35	TRAPPC4 (ENSUPAG00010006976) #36
Squirrel	MODERN SPECIES	142	RNF214 (ENSSTOG00000026444)	BACE1 (ENSSTOG00000020402)	CEP164 (ENSSTOG00000011380)	DSCAML1 (ENSSTOG00000011396)	FXYD2 (ENSSTOG00000028766)	FXYD6 (ENSSTOG00000023242)	TMPRSS13 (ENSSTOG00000007794) #7	IL10RA (ENSSTOG00000007838) #8	SMIM35 (ENSSTOG00000024897) #9	TMPRSS4 (ENSSTOG00000003485) #10	SCN4B (ENSSTOG00000028585) #12	SCN2B (ENSSTOG00000021064) #13	ENSSTOG00000015407 #14	MPZL3 (ENSSTOG00000015410) #15	MPZL2 (ENSSTOG00000014520) #16	KMT2A (ENSSTOG00000014405) #22	CD3D (ENSSTOG00000024175) #18	ENSSTOG00000014400 #21	TTC36 (ENSSTOG00000026783) #23	TMEM25 (ENSSTOG00000014432) #24	IFT46 (ENSSTOG00000014435) #25	ARCN1 (ENSSTOG00000014445) #26	ENSSTOG00000025149 #27	ENSSTOG00000014454 #27	TREH (ENSSTOG00000014466) #28	DDX6 (ENSSTOG00000014475) #29	CXCR5 (ENSSTOG00000025389) #30	BCL9L (ENSSTOG00000021546) #31	UPK2 (ENSSTOG00000014318) #32	FOXR1 (ENSSTOG00000014321) #33	CENATAC (ENSSTOG00000014325) #34
Alpin marmot	MODERN SPECIES	25	FXYD2 (ENSMMMG00000022796)	FXYD6 (ENSMMMG00000022790)	TMPRSS13 (ENSMMMG00000022786) #7	IL10RA (ENSMMMG00000022779) #8	SMIM35 (ENSMMMG00000022777) #9	TMPRSS4 (ENSMMMG00000022771) #10	SCN4B (ENSMMMG00000022769) #12	SCN2B (ENSMMMG00000022768) #13	ENSMMMG00000022766 #14	MPZL3 (ENSMMMG00000022765) #15	MPZL2 (ENSMMMG00000022759) #16	CD3E (ENSMMMG00000022757) #17	CD3D (ENSMMMG00000022754) #18	UBE4A (ENSMMMG00000022744) #20	ENSMMMG00000022738 #21	KMT2A (ENSMMMG00000022724) #22	TTC36 (ENSMMMG00000022722) #23	TMEM25 (ENSMMMG00000022718) #24	IFT46 (ENSMMMG00000022714) #25	ARCN1 (ENSMMMG00000022711) #26	PHLDB1 (ENSMMMG00000022601) #27	TREH (ENSMMMG00000022593) #28	DDX6 (ENSMMMG00000022580) #29	CXCR5 (ENSMMMG00000022572) #30	BCL9L (ENSMMMG00000022559) #31	ENSMMMG00000022558	UPK2 (ENSMMMG00000022555) #32	FOXR1 (ENSMMMG00000022553) #33	CENATAC (ENSMMMG00000022547) #34	ENSMMMG00000022541 ##35	ENSMMMG00000022537 #36
Eurasian red squirrel	MODERN SPECIES	2	TMPRSS13 (ENSSVLG00005023759) #7	IL10RA (ENSSVLG00005023826) #8	SMIM35 (ENSSVLG00005023865) #9	TMPRSS4 (ENSSVLG00005023934) #10	SCN4B (ENSSVLG00005024198) #12	SCN2B (ENSSVLG00005024230) #13	JAML (ENSSVLG00005024261) ##16	MPZL3 (ENSSVLG00005024358) #15	MPZL2 (ENSSVLG00005024417) #16	ENSSVLG00005024441	ENSSVLG00005024461 #17	CD3D (ENSSVLG00005024525) #18	CD3G (ENSSVLG00005024593) #19	UBE4A (ENSSVLG00005024644) #20	ENSSVLG00005024683 #21	KMT2A (ENSSVLG00005024766) #22	TTC36 (ENSSVLG00005024881) #23	TMEM25 (ENSSVLG00005012879) #24	IFT46 (ENSSVLG00005012985) #25	ARCN1 (ENSSVLG00005013104) #26	PHLDB1 (ENSSVLG00005013481) #27	TREH (ENSSVLG00005013828) #28	DDX6 (ENSSVLG00005014076) #29	CXCR5 (ENSSVLG00005014130) #30	BCL9L (ENSSVLG00005014178) #31	UPK2 (ENSSVLG00005014262) #32	FOXR1 (ENSSVLG00005014333) #33	ENSSVLG00005014434 #35	ENSSVLG00005014518 #36	SLC37A4 (ENSSVLG00005014603) #37	HYOU1 (ENSSVLG00005014785)