Rodentia_A	ANCESTRAL SPECIES	4	ENSGT00950000182885.A.b	ENSGT00940000156429.x #7	ENSGT00940000156786 #9	ENSGT00390000017998	ENSGT00940000161088 #10	ENSGT00390000001116 #11	ENSGT00940000160214 #13	ENSGT00940000158153 #14	ENSGT00940000157212.B #16	ENSGT00940000156088	ENSGT00950000183039.A #17	ENSGT00390000001285 #18	ENSGT00530000063626.b #19	ENSGT00940000157998 #20	ENSGT00940000157777 #21	ENSGT00940000155040.b #22	ENSGT00550000074930 #23	ENSGT00940000157033 #24	ENSGT00940000155811 #26	ENSGT00940000153832.f.`b.a.a ##27	ENSGT00940000153832.f.`b.b ##27	ENSGT00940000153832.f.z.b #27	ENSGT00940000153832.f.z.a #28	ENSGT00730000110905.b #30	ENSGT00940000158580 #33	ENSGT00530000063539.b.m.b #34	ENSGT00730000111164 #35	ENSGT00390000012080 #37	ENSGT00940000154429.r.f	ENSGT00390000004106	ENSGT00510000048550
Sciuridae	ANCESTRAL SPECIES	14	ENSGT00950000182885.A.b	ENSGT00940000156429.x #7	ENSGT00940000156786 #9	ENSGT00390000017998	ENSGT00940000161088 #10	ENSGT00390000001116 #11	ENSGT00940000160214 #13	ENSGT00940000158153 #14	ENSGT00940000157212.B #16	ENSGT00940000156088	ENSGT00950000183039.A #17	ENSGT00390000001285 #18	ENSGT00530000063626.b #19	ENSGT00940000157998 #20	ENSGT00940000157777 #21	ENSGT00940000155040.b #22	ENSGT00550000074930 #23	ENSGT00940000157033 #24	ENSGT00940000155811 #26	ENSGT00940000153832.f.z.a.b.a #29	ENSGT00730000110905.b #30	ENSGT00940000158580 #33	ENSGT00530000063539.b.m.b #34	ENSGT00730000111164 #35	ENSGT00390000012080 #37	ENSGT00940000154429.r.f	ENSGT00390000004106	ENSGT00510000048550	ENSGT00950000183124.B	ENSGT00390000007831	ENSGT00940000158113
Eurasian red squirrel	MODERN SPECIES	14	TBC1D15 (ENSSVLG00005021829) #7	ENSSVLG00005021775 #8	RAB21 (ENSSVLG00005021742) #9	THAP2 (ENSSVLG00005021691) #10	ZFC3H1 (ENSSVLG00005021620) #11	ENSSVLG00005021584 #12	LGR5 (ENSSVLG00005021355) #13	TSPAN8 (ENSSVLG00005021206) #14	ENSSVLG00005021178 #15	PTPRR (ENSSVLG00005020729) #16	KCNMB4 (ENSSVLG00005017550) #17	CNOT2 (ENSSVLG00005017415) #18	MYRFL (ENSSVLG00005016658) #19	RAB3IP (ENSSVLG00005016537) #20	BEST3 (ENSSVLG00005016331) #21	LRRC10 (ENSSVLG00005016313) #22	CCT2 (ENSSVLG00005016241) #23	FRS2 (ENSSVLG00005016214) #24	ENSSVLG00005016198 #25	YEATS4 (ENSSVLG00005016130) #26	ENSSVLG00005016075 #27	ENSSVLG00005015994 #28	ENSSVLG00005015935 #29	CPSF6 (ENSSVLG00005015843) #30	ENSSVLG00005015790 #31	ENSSVLG00005015766 #32	CPM (ENSSVLG00005015669) #33	ENSSVLG00005015364 #34	SLC35E3 (ENSSVLG00005015217) #35	ENSSVLG00005015165 #36	NUP107 (ENSSVLG00005014845) #37
Marmotini	ANCESTRAL SPECIES	4	ENSGT00950000182885.A.b	ENSGT00940000156429.x #7	ENSGT00940000156786 #9	ENSGT00390000017998	ENSGT00940000161088 #10	ENSGT00390000001116 #11	ENSGT00940000160214 #13	ENSGT00940000158153 #14	ENSGT00940000157212.B #16	ENSGT00940000156088	ENSGT00950000183039.A #17	ENSGT00390000001285 #18	ENSGT00530000063626.b #19	ENSGT00940000157998 #20	ENSGT00940000157777 #21	ENSGT00940000155040.b #22	ENSGT00550000074930 #23	ENSGT00940000157033 #24	ENSGT00940000155811 #26	ENSGT00940000153832.f.z.a.b.a.a.a #29	ENSGT00730000110905.b #30	ENSGT00940000158580 #33	ENSGT00530000063539.b.m.b #34	ENSGT00730000111164 #35	ENSGT00390000012080 #37	ENSGT00940000154429.r.f	ENSGT00390000004106	ENSGT00510000048550	ENSGT00950000183124.B	ENSGT00390000007831	ENSGT00940000158113
Marmotini_b	ANCESTRAL SPECIES	3	ENSGT00950000182885.A.b	ENSGT00940000156429.x #7	ENSGT00940000156786 #9	ENSGT00390000017998	ENSGT00940000161088 #10	ENSGT00390000001116 #11	ENSGT00940000160214 #13	ENSGT00940000158153 #14	ENSGT00940000157212.B #16	ENSGT00940000156088	ENSGT00950000183039.A #17	ENSGT00390000001285 #18	ENSGT00530000063626.b #19	ENSGT00940000157998 #20	ENSGT00940000157777 #21	ENSGT00940000155040.b #22	ENSGT00550000074930 #23	ENSGT00940000157033 #24	ENSGT00940000155811 #26	ENSGT00940000153832.f.z.a.b.a.a.a #29	ENSGT00730000110905.b #30	ENSGT00940000158580 #33	ENSGT00530000063539.b.m.b #34	ENSGT00730000111164 #35	ENSGT00390000012080 #37	ENSGT00940000154429.r.f	ENSGT00390000004106	ENSGT00510000048550	ENSGT00950000183124.B	ENSGT00390000007831	ENSGT00940000158113
Arctic ground squirrel	MODERN SPECIES	45	TBC1D15 (ENSUPAG00010023431) #7	RAB21 (ENSUPAG00010023430) #9	TMEM19 (ENSUPAG00010023429)	THAP2 (ENSUPAG00010023428) #10	ZFC3H1 (ENSUPAG00010023427) #11	LGR5 (ENSUPAG00010023426) #13	TSPAN8 (ENSUPAG00010023425) #14	PTPRR (ENSUPAG00010023424) #16	ENSUPAG00010023422	PTPRB (ENSUPAG00010023420)	KCNMB4 (ENSUPAG00010023419) #17	CNOT2 (ENSUPAG00010023418) #18	MYRFL (ENSUPAG00010023416) #19	RAB3IP (ENSUPAG00010023415) #20	BEST3 (ENSUPAG00010023414) #21	LRRC10 (ENSUPAG00010023413) #22	CCT2 (ENSUPAG00010023412) #23	FRS2 (ENSUPAG00010023411) #24	YEATS4 (ENSUPAG00010023410) #26	ENSUPAG00010023409 #28	ENSUPAG00010023408 ##27	ENSUPAG00010023407	ENSUPAG00010023406 #29	CPSF6 (ENSUPAG00010023405) #30	CPM (ENSUPAG00010023404) #33	ENSUPAG00010023340 #34	SLC35E3 (ENSUPAG00010023335) #35	NUP107 (ENSUPAG00010023330) #37	RAP1B (ENSUPAG00010023328)	MDM1 (ENSUPAG00010023318)	IL22 (ENSUPAG00010023317)
Squirrel	MODERN SPECIES	145									PTPRR (ENSSTOG00000013134) #16	PTPRB (ENSSTOG00000013109)	KCNMB4 (ENSSTOG00000020934) #17	CNOT2 (ENSSTOG00000011114) #18	MYRFL (ENSSTOG00000020113) #19	RAB3IP (ENSSTOG00000014751) #20	BEST3 (ENSSTOG00000014743) #21	LRRC10 (ENSSTOG00000014043) #22	CCT2 (ENSSTOG00000014029) #23	FRS2 (ENSSTOG00000014028) #24	YEATS4 (ENSSTOG00000014144) #26	LYZ (ENSSTOG00000021850) #29	CPSF6 (ENSSTOG00000014133) #30	CPM (ENSSTOG00000011119) #33	ENSSTOG00000014702 #34	SLC35E3 (ENSSTOG00000003925) #35	NUP107 (ENSSTOG00000003887) #37	RAP1B (ENSSTOG00000011240)	MDM1 (ENSSTOG00000022138)	IL22 (ENSSTOG00000012773)	IL26 (ENSSTOG00000001787)	IFNG (ENSSTOG00000014955)	DYRK2 (ENSSTOG00000007947)
Alpin marmot	MODERN SPECIES	11	TBC1D15 (ENSMMMG00000002788) #7	RAB21 (ENSMMMG00000002825) #9	TMEM19 (ENSMMMG00000002867)	THAP2 (ENSMMMG00000002891) #10	ZFC3H1 (ENSMMMG00000002907) #11	LGR5 (ENSMMMG00000003006) #13	TSPAN8 (ENSMMMG00000003202) #14	PTPRR (ENSMMMG00000003258) #16	PTPRB (ENSMMMG00000003307)	ENSMMMG00000003480	KCNMB4 (ENSMMMG00000003501) #17	CNOT2 (ENSMMMG00000003525) #18	MYRFL (ENSMMMG00000003789) #19	RAB3IP (ENSMMMG00000003831) #20	BEST3 (ENSMMMG00000003884) #21	LRRC10 (ENSMMMG00000003894) #22	CCT2 (ENSMMMG00000003897) #23	FRS2 (ENSMMMG00000003923) #24	ENSMMMG00000003957 #29	ENSMMMG00000003974 #29	ENSMMMG00000003984	CPSF6 (ENSMMMG00000003993) #30	CPM (ENSMMMG00000004128) #33	ENSMMMG00000004147	SLC35E3 (ENSMMMG00000004186) #35	NUP107 (ENSMMMG00000004234) #37	RAP1B (ENSMMMG00000005985)	MDM1 (ENSMMMG00000006024)	IL22 (ENSMMMG00000006326)	IL26 (ENSMMMG00000006341)	IFNG (ENSMMMG00000006348)
Hystricomorpha	ANCESTRAL SPECIES	9	ENSGT00950000182885.A.b	ENSGT00940000156429.x #7	ENSGT00940000156786 #9	ENSGT00390000017998	ENSGT00940000161088 #10	ENSGT00390000001116 #11	ENSGT00940000160214 #13	ENSGT00940000158153 #14	ENSGT00940000157212.B #16	ENSGT00940000156088	ENSGT00950000183039.A #17	ENSGT00390000001285 #18	ENSGT00530000063626.b #19	ENSGT00940000157998 #20	ENSGT00940000157777 #21	ENSGT00940000155040.b #22	ENSGT00550000074930 #23	ENSGT00940000157033 #24	ENSGT00940000155811.g #26	ENSGT00940000153832.f.`b.a.a ##27	ENSGT00940000153832.f.`b.b ##27	ENSGT00730000110905.b #30	ENSGT00940000158580 #33	ENSGT00530000063539.b.m.b #34	ENSGT00730000111164 #35	ENSGT00390000012080 #37	ENSGT00940000154429.r.f	ENSGT00390000004106	ENSGT00510000048550	ENSGT00950000183124.B	ENSGT00390000007831
Hystricomorpha_a	ANCESTRAL SPECIES	7	ENSGT00950000182885.A.b	ENSGT00940000156429.x #7	ENSGT00940000156786 #9	ENSGT00390000017998	ENSGT00940000161088 #10	ENSGT00390000001116 #11	ENSGT00940000160214 #13	ENSGT00940000158153 #14	ENSGT00940000157212.B #16	ENSGT00940000156088	ENSGT00950000183039.A #17	ENSGT00390000001285 #18	ENSGT00530000063626.b #19	ENSGT00940000157998 #20	ENSGT00940000157777 #21	ENSGT00940000155040.b #22	ENSGT00550000074930 #23	ENSGT00940000157033 #24	ENSGT00940000155811.g #26	ENSGT00940000153832.f.`b.a.a ##27	ENSGT00940000153832.f.`b.b ##27	ENSGT00730000110905.b #30	ENSGT00940000158580 #33	ENSGT00530000063539.b.m.b #34	ENSGT00730000111164 #35	ENSGT00390000012080 #37	ENSGT00940000154429.r.f.b	ENSGT00390000004106	ENSGT00510000048550	ENSGT00950000183124.B	ENSGT00390000007831
Hystricomorpha_b	ANCESTRAL SPECIES	13	ENSGT00950000182885.A.b	ENSGT00940000156429.x #7	ENSGT00940000156786 #9	ENSGT00390000017998	ENSGT00940000161088 #10	ENSGT00390000001116 #11	ENSGT00940000160214 #13	ENSGT00940000158153 #14	ENSGT00940000157212.B #16	ENSGT00940000156088	ENSGT00950000183039.A #17	ENSGT00390000001285 #18	ENSGT00530000063626.b #19	ENSGT00940000157998 #20	ENSGT00940000157777 #21	ENSGT00940000155040.b #22	ENSGT00550000074930 #23	ENSGT00940000157033 #24	ENSGT00940000155811.g #26	ENSGT00940000153832.f.`b.a.a ##27	ENSGT00940000153832.f.`b.b ##27	ENSGT00730000110905.b #30	ENSGT00940000158580 #33	ENSGT00530000063539.b.m.b #34	ENSGT00730000111164 #35	ENSGT00390000012080 #37	ENSGT00940000154429.r.f.b	ENSGT00390000004106	ENSGT00510000048550	ENSGT00950000183124.B	ENSGT00390000007831
Long-tailed chinchilla	MODERN SPECIES	112	TPH2 (ENSCLAG00000005112)	TBC1D15 (ENSCLAG00000008349) #7	RAB21 (ENSCLAG00000014056) #9	ENSCLAG00000015447	THAP2 (ENSCLAG00000013769) #10	ZFC3H1 (ENSCLAG00000007646) #11	LGR5 (ENSCLAG00000007212) #13	TSPAN8 (ENSCLAG00000006059) #14	PTPRR (ENSCLAG00000007361) #16	PTPRB (ENSCLAG00000005366)	KCNMB4 (ENSCLAG00000015315) #17	CNOT2 (ENSCLAG00000014354) #18	MYRFL (ENSCLAG00000006967) #19	RAB3IP (ENSCLAG00000005722) #20	BEST3 (ENSCLAG00000006021) #21	LRRC10 (ENSCLAG00000017615) #22	CCT2 (ENSCLAG00000007009) #23	FRS2 (ENSCLAG00000006060) #24	ENSCLAG00000005802 #26	LYZ (ENSCLAG00000009779) ##27	ENSCLAG00000009188 #28	ADH4 (ENSCLAG00000012980)	ADH5 (ENSCLAG00000015753)	METAP1 (ENSCLAG00000006599)	ENSCLAG00000004478	TSPAN5 (ENSCLAG00000006295)	RAP1GDS1 (ENSCLAG00000004545)	ENSCLAG00000005449	UNC5C (ENSCLAG00000009041)	BMPR1B (ENSCLAG00000009761)	PDLIM5 (ENSCLAG00000006359)
Degu	MODERN SPECIES	88	ENSODEG00000019110	TMEM19 (ENSODEG00000007134)	THAP2 (ENSODEG00000007099) #10	ENSODEG00000007051 #11	ENSODEG00000006640 #11	ENSODEG00000005318	LGR5 (ENSODEG00000005026) #13	ENSODEG00000005914	PTPRR (ENSODEG00000004892) #16	PTPRB (ENSODEG00000005212)	ENSODEG00000004686	KCNMB4 (ENSODEG00000004677) #17	CNOT2 (ENSODEG00000004532) #18	ENSODEG00000004175 #20	BEST3 (ENSODEG00000004391) #21	LRRC10 (ENSODEG00000004356) #22	FRS2 (ENSODEG00000004174) #24	ENSODEG00000019177	ENSODEG00000005231	ENSODEG00000005050 #26	LYZ (ENSODEG00000004742) ##27	ENSODEG00000004658 ##27	ENSODEG00000004418 #30	ENSODEG00000004291	ENSODEG00000004028 #34	SLC35E3 (ENSODEG00000004570) #35	NUP107 (ENSODEG00000004100) #37	RAP1B (ENSODEG00000004031)	DYRK2 (ENSODEG00000008824)	ENSODEG00000008629	ENSODEG00000019564