Rodentia_A	ANCESTRAL SPECIES	2	ENSGT00950000182940.b.a.a #8	ENSGT01080000257410.A.f #9	ENSGT01030000234535.F.a #10	ENSGT00730000111392	ENSGT00940000155888 #11	ENSGT00950000183112.a #12	ENSGT00940000156291 #13	ENSGT00940000157540.A #14	ENSGT00940000160523 #15	ENSGT00510000048902.b #16	ENSGT00390000015368.a.b #17	ENSGT00940000156682 #18	ENSGT00940000159268 #19	ENSGT00530000063847.a #20	ENSGT00940000157771 #21	ENSGT00940000156205 #22	ENSGT00940000160583 #23	ENSGT00940000158773 #24	ENSGT01030000234515.a.b.a.b	ENSGT00390000001790 #25	ENSGT00940000158068 #26	ENSGT00900000143686	ENSGT00940000158815 #27	ENSGT00940000160363 #28	ENSGT01050000244857.C.a.a #29	ENSGT00390000015688 #30	ENSGT00940000153289.b #31	ENSGT00940000159506 #32	ENSGT00940000158389 #33	ENSGT00940000159348 #34	ENSGT00940000155164 #35
Hystricomorpha	ANCESTRAL SPECIES	40	ENSGT00950000182940.b.a.a #8	ENSGT01080000257410.A.f #9	ENSGT01030000234535.F.a #10	ENSGT00730000111392	ENSGT00940000155888 #11	ENSGT00950000183112.a #12	ENSGT00940000156291 #13	ENSGT00940000157540.A #14	ENSGT00940000160523 #15	ENSGT00510000048902.b #16	ENSGT00390000015368.a.b #17	ENSGT00940000156682 #18	ENSGT00940000159268 #19	ENSGT00530000063847.a #20	ENSGT00940000157771 #21	ENSGT00940000156205 #22	ENSGT00940000160583 #23	ENSGT00940000158773 #24	ENSGT01030000234515.a.b.a.b	ENSGT00390000001790 #25	ENSGT00940000158068 #26	ENSGT00940000158815 #27	ENSGT00940000160363 #28	ENSGT01050000244857.C.a.a #29	ENSGT00390000015688 #30	ENSGT00940000153289.b #31	ENSGT00940000159506 #32	ENSGT00940000158389 #33	ENSGT00940000159348 #34	ENSGT00940000155164 #35	ENSGT00530000063335.A #36
Hystricomorpha_a	ANCESTRAL SPECIES	25	ENSGT00950000182940.b.a.a #8	ENSGT01080000257410.A.f #9	ENSGT01030000234535.F.a #10	ENSGT00730000111392	ENSGT00940000155888 #11	ENSGT00950000183112.a #12	ENSGT00940000156291 #13	ENSGT00940000157540.A #14	ENSGT00940000160523 #15	ENSGT00510000048902.b #16	ENSGT00390000015368.a.b #17	ENSGT00940000156682 #18	ENSGT00940000159268 #19	ENSGT00530000063847.a #20	ENSGT00940000157771 #21	ENSGT00940000156205 #22	ENSGT00940000160583 #23	ENSGT00940000158773 #24	ENSGT01030000234515.a.b.a.b	ENSGT00390000001790 #25	ENSGT00940000158068 #26	ENSGT00940000158815 #27	ENSGT00940000160363 #28	ENSGT01050000244857.C.a.a #29	ENSGT00390000015688 #30	ENSGT00940000153289.b #31	ENSGT00940000159506 #32	ENSGT00940000158389 #33	ENSGT00940000159348 #34	ENSGT00940000155164 #35	ENSGT00530000063335.A #36
Guinea pig	MODERN SPECIES	10	ENSCPOG00000013090 #7	SV2B (ENSCPOG00000008032) #8	SLCO3A1 (ENSCPOG00000010758) #9	ST8SIA2 (ENSCPOG00000032324) #10	CHD2 (ENSCPOG00000005800) #11	RGMA (ENSCPOG00000039106) #12	MCTP2 (ENSCPOG00000005659) #13	NR2F2 (ENSCPOG00000034464) #14	ARRDC4 (ENSCPOG00000030445) #15	ENSCPOG00000009133 #16	ENSCPOG00000005390 #17	IGF1R (ENSCPOG00000005399) #18	SYNM (ENSCPOG00000003728) #19	TTC23 (ENSCPOG00000003733) #20	LRRC28 (ENSCPOG00000007104) #21	MEF2A (ENSCPOG00000008716) #22	LYSMD4 (ENSCPOG00000035578) #23	ADAMTS17 (ENSCPOG00000009337) #24	LINS1 (ENSCPOG00000002249) #25	ASB7 (ENSCPOG00000038812) #26	ENSCPOG00000032250 #27	LRRK1 (ENSCPOG00000008329) #28	CHSY1 (ENSCPOG00000039485) #29	SELENOS (ENSCPOG00000022558) #30	SNRPA1 (ENSCPOG00000005735) #31	PCSK6 (ENSCPOG00000005722) #32	TM2D3 (ENSCPOG00000008845) #33	TARS3 (ENSCPOG00000008850) #34	TJP1 (ENSCPOG00000010928) #35	ENTREP2 (ENSCPOG00000002510) #36	APBA2 (ENSCPOG00000002505) #37
Hystricomorpha_b	ANCESTRAL SPECIES	20	ENSGT00950000182940.b.a.a #8	ENSGT01080000257410.A.f #9	ENSGT01030000234535.F.a #10	ENSGT00730000111392	ENSGT00940000155888 #11	ENSGT00950000183112.a #12	ENSGT00940000156291 #13	ENSGT00940000157540.A #14	ENSGT00940000160523 #15	ENSGT00510000048902.b #16	ENSGT00390000015368.a.b #17	ENSGT00940000156682 #18	ENSGT00940000159268 #19	ENSGT00530000063847.a #20	ENSGT00940000157771 #21	ENSGT00940000156205 #22	ENSGT00940000160583 #23	ENSGT00940000158773 #24	ENSGT01030000234515.a.b.a.b	ENSGT00390000001790 #25	ENSGT00940000158068 #26	ENSGT00940000158815 #27	ENSGT00940000160363 #28	ENSGT01050000244857.C.a.a #29	ENSGT00390000015688 #30	ENSGT00940000153289.b #31	ENSGT00940000159506 #32	ENSGT00940000158389 #33	ENSGT00940000159348 #34	ENSGT00940000155164 #35	ENSGT00530000063335.A #36
Long-tailed chinchilla	MODERN SPECIES	123	SLCO3A1 (ENSCLAG00000012887) #9	ST8SIA2 (ENSCLAG00000017062) #10	FAM174B (ENSCLAG00000017030)	CHD2 (ENSCLAG00000016269) #11	RGMA (ENSCLAG00000012655) #12	MCTP2 (ENSCLAG00000014312) #13	NR2F2 (ENSCLAG00000010451) #14	ARRDC4 (ENSCLAG00000009891) #15	ENSCLAG00000008778 #16	PGPEP1L (ENSCLAG00000012011) #17	IGF1R (ENSCLAG00000012853) #18	SYNM (ENSCLAG00000012214) #19	TTC23 (ENSCLAG00000013426) #20	LRRC28 (ENSCLAG00000010143) #21	ENSCLAG00000013280	MEF2A (ENSCLAG00000010314) #22	LYSMD4 (ENSCLAG00000008806) #23	ADAMTS17 (ENSCLAG00000011560) #24	CERS3 (ENSCLAG00000010671)	LINS1 (ENSCLAG00000010190) #25	ASB7 (ENSCLAG00000009854) #26	ALDH1A3 (ENSCLAG00000010903) #27	LRRK1 (ENSCLAG00000015781) #28	CHSY1 (ENSCLAG00000010522) #29	SELENOS (ENSCLAG00000014232) #30	SNRPA1 (ENSCLAG00000016402) #31	PCSK6 (ENSCLAG00000013888) #32	TM2D3 (ENSCLAG00000012439) #33	TARS3 (ENSCLAG00000016873) #34	TJP1 (ENSCLAG00000017350) #35	ENTREP2 (ENSCLAG00000012714) #36
Degu	MODERN SPECIES	43	ENSODEG00000014647	CHD2 (ENSODEG00000016028) #11	RGMA (ENSODEG00000014943) #12	MCTP2 (ENSODEG00000016400) #13	NR2F2 (ENSODEG00000014227) #14	ENSODEG00000014492	ARRDC4 (ENSODEG00000014345) #15	ENSODEG00000014516	ENSODEG00000014398 #16	ENSODEG00000015288 #17	IGF1R (ENSODEG00000014019) #18	SYNM (ENSODEG00000014754) #19	TTC23 (ENSODEG00000014192) #20	LRRC28 (ENSODEG00000015213) #21	ENSODEG00000014090	MEF2A (ENSODEG00000014682) #22	LYSMD4 (ENSODEG00000014842) #23	ADAMTS17 (ENSODEG00000014089) #24	CERS3 (ENSODEG00000014221)	ENSODEG00000014357	LINS1 (ENSODEG00000015320) #25	ASB7 (ENSODEG00000014474) #26	ALDH1A3 (ENSODEG00000015012) #27	LRRK1 (ENSODEG00000014764) #28	ENSODEG00000014373	ENSODEG00000014481 #29	SELENOS (ENSODEG00000014112) #30	SNRPA1 (ENSODEG00000014103) #31	PCSK6 (ENSODEG00000013651) #32	TM2D3 (ENSODEG00000014026) #33	TARS3 (ENSODEG00000014454) #34
Naked mole-rat female	MODERN SPECIES	6	ENSHGLG00000005942	ENSHGLG00000008276	ENSHGLG00000000498	ENSHGLG00000045800	ENSHGLG00000034785	ENSHGLG00000048628 #16	ENSHGLG00000015153 #17	ENSHGLG00000015148 #18	ENSHGLG00000047709	ENSHGLG00000039241	ENSHGLG00000015122 #19	ENSHGLG00000018053 #20	ENSHGLG00000041295	LRRC28 (ENSHGLG00000041379) #21	ENSHGLG00000039304	MEF2A (ENSHGLG00000015444) #22	ENSHGLG00000036552 #23	ENSHGLG00000038548 #23	ADAMTS17 (ENSHGLG00000014955) #24	CERS3 (ENSHGLG00000014885)	LINS (ENSHGLG00000034641) #25	ASB7 (ENSHGLG00000039786) #26	ENSHGLG00000005801	ALDH1A3 (ENSHGLG00000013998) #27	LRRK1 (ENSHGLG00000013404) #28	ENSHGLG00000013695 #29	VIMP (ENSHGLG00000013427) #30	SNRPA1 (ENSHGLG00000012987) #31	PCSK6 (ENSHGLG00000012908) #32	TM2D3 (ENSHGLG00000012566) #33	ENSHGLG00000011618 #34
Sciuridae	ANCESTRAL SPECIES	11	ENSGT00950000182940.b.a.a #8	ENSGT01080000257410.A.f #9	ENSGT01030000234535.F.a #10	ENSGT00730000111392	ENSGT00940000155888 #11	ENSGT00950000183112.a #12	ENSGT00940000156291 #13	ENSGT00940000157540.A #14	ENSGT00940000160523 #15	ENSGT00510000048902.b #16	ENSGT00390000015368.a.b #17	ENSGT00940000156682 #18	ENSGT00940000159268 #19	ENSGT00530000063847.a #20	ENSGT00940000157771 #21	ENSGT00940000156205 #22	ENSGT00940000160583 #23	ENSGT00940000158773 #24	ENSGT01030000234515.a.b.a.b	ENSGT00390000001790 #25	ENSGT00940000158068 #26	ENSGT00900000143686	ENSGT00940000158815 #27	ENSGT00940000160363 #28	ENSGT01050000244857.C.a.a #29	ENSGT00390000015688 #30	ENSGT00940000153289.b #31	ENSGT00940000159506 #32	ENSGT00940000158389 #33	ENSGT00940000159348.b #34	ENSGT00940000155164 #35
Marmotini	ANCESTRAL SPECIES	46	ENSGT00950000182940.b.a.a #8	ENSGT01080000257410.A.f #9	ENSGT01030000234535.F.a #10	ENSGT00730000111392	ENSGT00940000155888 #11	ENSGT00950000183112.a #12	ENSGT00940000156291 #13	ENSGT00940000157540.A #14	ENSGT00940000160523 #15	ENSGT00510000048902.b #16	ENSGT00390000015368.a.b #17	ENSGT00940000156682 #18	ENSGT00940000159268 #19	ENSGT00530000063847.a #20	ENSGT00940000157771 #21	ENSGT00940000156205 #22	ENSGT00940000160583 #23	ENSGT00940000158773 #24	ENSGT01030000234515.a.b.a.b	ENSGT00390000001790 #25	ENSGT00940000158068 #26	ENSGT00900000143686	ENSGT00940000158815 #27	ENSGT00940000160363 #28	ENSGT01050000244857.C.a.a #29	ENSGT00390000015688 #30	ENSGT00940000153289.b #31	ENSGT00940000159506 #32	ENSGT00940000158389 #33	ENSGT00940000159348.b #34	ENSGT00940000155164 #35
Alpin marmot	MODERN SPECIES	33	ST8SIA2 (ENSMMMG00000020737) #10	FAM174B (ENSMMMG00000020743)	CHD2 (ENSMMMG00000020748) #11	RGMA (ENSMMMG00000020770) #12	ENSMMMG00000020776	MCTP2 (ENSMMMG00000020783) #13	NR2F2 (ENSMMMG00000020806) #14	ENSMMMG00000020815	ARRDC4 (ENSMMMG00000020820) #15	ENSMMMG00000020824 #16	ENSMMMG00000020860 #17	IGF1R (ENSMMMG00000020867) #18	SYNM (ENSMMMG00000020891) #19	TTC23 (ENSMMMG00000020943) #20	LRRC28 (ENSMMMG00000020957) #21	MEF2A (ENSMMMG00000020978) #22	LYSMD4 (ENSMMMG00000021007) #23	ENSMMMG00000021014	ADAMTS17 (ENSMMMG00000021021) #24	ENSMMMG00000021070	CERS3 (ENSMMMG00000021095)	LINS1 (ENSMMMG00000021112) #25	ASB7 (ENSMMMG00000021137) #26	ENSMMMG00000021145	ALDH1A3 (ENSMMMG00000021150) #27	LRRK1 (ENSMMMG00000021169) #28	CHSY1 (ENSMMMG00000021189) #29	SELENOS (ENSMMMG00000021199) #30	SNRPA1 (ENSMMMG00000021206) #31	PCSK6 (ENSMMMG00000021221) #32	TM2D3 (ENSMMMG00000021261) #33
Marmotini_b	ANCESTRAL SPECIES	42	ENSGT00950000182940.b.a.a #8	ENSGT01080000257410.A.f #9	ENSGT01030000234535.F.a #10	ENSGT00730000111392	ENSGT00940000155888 #11	ENSGT00950000183112.a #12	ENSGT00940000156291 #13	ENSGT00940000157540.A #14	ENSGT00940000160523 #15	ENSGT00510000048902.b #16	ENSGT00390000015368.a.b #17	ENSGT00940000156682 #18	ENSGT00940000159268 #19	ENSGT00530000063847.a #20	ENSGT00940000157771 #21	ENSGT00940000156205 #22	ENSGT00940000160583 #23	ENSGT00940000158773 #24	ENSGT01030000234515.a.b.a.b	ENSGT00390000001790 #25	ENSGT00940000158068 #26	ENSGT00940000158815 #27	ENSGT00940000160363 #28	ENSGT01050000244857.C.a.a #29	ENSGT00390000015688 #30	ENSGT00940000153289.b.a #31	ENSGT00940000159506 #32	ENSGT00940000158389 #33	ENSGT00940000159348.b #34	ENSGT00940000155164 #35	ENSGT00530000063335.A #36
Squirrel	MODERN SPECIES	83	SV2B (ENSSTOG00000011621) #8	SLCO3A1 (ENSSTOG00000012990) #9	ST8SIA2 (ENSSTOG00000012529) #10	CHD2 (ENSSTOG00000001270) #11	RGMA (ENSSTOG00000023280) #12	MCTP2 (ENSSTOG00000026484) #13	ENSSTOG00000022562	NR2F2 (ENSSTOG00000025965) #14	ARRDC4 (ENSSTOG00000012169) #15	ENSSTOG00000021739 #16	ENSSTOG00000011427 #17	IGF1R (ENSSTOG00000011400) #18	SYNM (ENSSTOG00000022419) #19	TTC23 (ENSSTOG00000004362) #20	LRRC28 (ENSSTOG00000004380) #21	MEF2A (ENSSTOG00000028856) #22	LYSMD4 (ENSSTOG00000005427) #23	ADAMTS17 (ENSSTOG00000004497) #24	CERS3 (ENSSTOG00000004541)	LINS1 (ENSSTOG00000004562) #25	ASB7 (ENSSTOG00000024134) #26	ALDH1A3 (ENSSTOG00000008968) #27	LRRK1 (ENSSTOG00000008982) #28	ENSSTOG00000022852	CHSY1 (ENSSTOG00000009033) #29	SELENOS (ENSSTOG00000009048) #30	ENSSTOG00000009055 #31	ENSSTOG00000031974	PCSK6 (ENSSTOG00000009068) #32	TM2D3 (ENSSTOG00000009090) #33	TARS3 (ENSSTOG00000032725) #34
Arctic ground squirrel	MODERN SPECIES	144									ARRDC4 (ENSUPAG00010010582) #15	ENSUPAG00010010530 #17	IGF1R (ENSUPAG00010010504) #18	SYNM (ENSUPAG00010010495) #19	TTC23 (ENSUPAG00010010490) #20	LRRC28 (ENSUPAG00010010471) #21	ENSUPAG00010010468	MEF2A (ENSUPAG00010010308) #22	LYSMD4 (ENSUPAG00010010303) #23	ENSUPAG00010010228	ADAMTS17 (ENSUPAG00010010165) #24	CERS3 (ENSUPAG00010010153)	LINS1 (ENSUPAG00010010149) #25	ASB7 (ENSUPAG00010010142) #26	ALDH1A3 (ENSUPAG00010010112) #27	ENSUPAG00010010103	LRRK1 (ENSUPAG00010010074) #28	CHSY1 (ENSUPAG00010010063) #29	SELENOS (ENSUPAG00010010044) #30	ENSUPAG00010010022 #31	PCSK6 (ENSUPAG00010009948) #32	TM2D3 (ENSUPAG00010009894) #33	ENSUPAG00010009887 #34
Eurasian red squirrel	DUPLICATION
Eurasian red squirrel	MODERN SPECIES	11	ENSSVLG00005002515	SLCO3A1 (ENSSVLG00005002498) #9	ST8SIA2 (ENSSVLG00005002459) #10	FAM174B (ENSSVLG00005002437)	CHD2 (ENSSVLG00005002368) #11	RGMA (ENSSVLG00005002308) #12	ENSSVLG00005002275 #13	NR2F2 (ENSSVLG00005002243) #14	ENSSVLG00005002216 #15	ENSSVLG00005002151 #17	IGF1R (ENSSVLG00005002096) #18	SYNM (ENSSVLG00005002041) #19	TTC23 (ENSSVLG00005001983) #20	ENSSVLG00005001915 #21	ENSSVLG00005001869	MEF2A (ENSSVLG00005001742) #22	LYSMD4 (ENSSVLG00005001675) #23	ADAMTS17 (ENSSVLG00005001631) #24	ENSSVLG00005001603	CERS3 (ENSSVLG00005001575)	LINS1 (ENSSVLG00005001550) #25	ASB7 (ENSSVLG00005001524) #26	ENSSVLG00005001507	ALDH1A3 (ENSSVLG00005001477) #27	LRRK1 (ENSSVLG00005001450) #28	CHSY1 (ENSSVLG00005001428) #29	SELENOS (ENSSVLG00005001411) #30	ENSSVLG00005001395	ENSSVLG00005001386	SNRPA1 (ENSSVLG00005001365) #31	PCSK6 (ENSSVLG00005001247) #32
Eurasian red squirrel	MODERN SPECIES	16	DEFB110 (ENSSVLG00005010300)	TFAP2D (ENSSVLG00005010245)	TFAP2B (ENSSVLG00005010190)	ENSSVLG00005010145	PKHD1 (ENSSVLG00005009423)	IL17A (ENSSVLG00005009355)	IL17F (ENSSVLG00005009322)	MCM3 (ENSSVLG00005009178)	ENSSVLG00005009141	EFHC1 (ENSSVLG00005008978)	TRAM2 (ENSSVLG00005008921)	ENSSVLG00005008875	ENSSVLG00005008845	ENSSVLG00005008800	TMEM14A (ENSSVLG00005008760)	ENSSVLG00005008692 #22	GSTA3 (ENSSVLG00005008617)	ENSSVLG00005008575	GSTA4 (ENSSVLG00005008538)	CILK1 (ENSSVLG00005008509)	FBXO9 (ENSSVLG00005008390)	GCM1 (ENSSVLG00005008319)	ELOVL5 (ENSSVLG00005008217)	GCLC (ENSSVLG00005008060)	KLHL31 (ENSSVLG00005008026)	LRRC1 (ENSSVLG00005008009)	MLIP (ENSSVLG00005007746)	TINAG (ENSSVLG00005007583)	FAM83B (ENSSVLG00005007545)	HCRTR2 (ENSSVLG00005007503)	GFRAL (ENSSVLG00005007462)