Rodentia_A	ANCESTRAL SPECIES	2	ENSGT00530000063335.A	ENSGT00940000155164 #7	ENSGT00940000159348 #8	ENSGT00940000158389 #9	ENSGT00940000159506 #10	ENSGT00940000153289.b #11	ENSGT00390000015688 #12	ENSGT01050000244857.C.a.a #13	ENSGT00940000160363 #15	ENSGT00940000158815 #16	ENSGT00900000143686	ENSGT00940000158068 #17	ENSGT00390000001790 #18	ENSGT01030000234515.a.b.a.b #20	ENSGT00940000158773 #21	ENSGT00940000160583 #22	ENSGT00940000156205 #23	ENSGT00940000157771 #25	ENSGT00530000063847.a #26	ENSGT00940000159268 #27	ENSGT00940000156682 #28	ENSGT00390000015368.a.b #29	ENSGT00510000048902.b #30	ENSGT00940000160523 #32	ENSGT00940000157540.A #34	ENSGT00940000156291 #35	ENSGT00950000183112.a #36	ENSGT00940000155888 #37	ENSGT00730000111392	ENSGT01030000234535.F.a	ENSGT01080000257410.A.f
Hystricomorpha	ANCESTRAL SPECIES	40	ENSGT00940000158943	ENSGT00530000063335.A	ENSGT00940000155164 #7	ENSGT00940000159348 #8	ENSGT00940000158389 #9	ENSGT00940000159506 #10	ENSGT00940000153289.b #11	ENSGT00390000015688 #12	ENSGT01050000244857.C.a.a #13	ENSGT00940000160363 #15	ENSGT00940000158815 #16	ENSGT00940000158068 #17	ENSGT00390000001790 #18	ENSGT01030000234515.a.b.a.b #20	ENSGT00940000158773 #21	ENSGT00940000160583 #22	ENSGT00940000156205 #23	ENSGT00940000157771 #25	ENSGT00530000063847.a #26	ENSGT00940000159268 #27	ENSGT00940000156682 #28	ENSGT00390000015368.a.b #29	ENSGT00510000048902.b #30	ENSGT00940000160523 #32	ENSGT00940000157540.A #34	ENSGT00940000156291 #35	ENSGT00950000183112.a #36	ENSGT00940000155888 #37	ENSGT00730000111392	ENSGT01030000234535.F.a	ENSGT01080000257410.A.f
Hystricomorpha_a	ANCESTRAL SPECIES	25	ENSGT00940000158943	ENSGT00530000063335.A	ENSGT00940000155164 #7	ENSGT00940000159348 #8	ENSGT00940000158389 #9	ENSGT00940000159506 #10	ENSGT00940000153289.b #11	ENSGT00390000015688 #12	ENSGT01050000244857.C.a.a #13	ENSGT00940000160363 #15	ENSGT00940000158815 #16	ENSGT00940000158068 #17	ENSGT00390000001790 #18	ENSGT01030000234515.a.b.a.b #20	ENSGT00940000158773 #21	ENSGT00940000160583 #22	ENSGT00940000156205 #23	ENSGT00940000157771 #25	ENSGT00530000063847.a #26	ENSGT00940000159268 #27	ENSGT00940000156682 #28	ENSGT00390000015368.a.b #29	ENSGT00510000048902.b #30	ENSGT00940000160523 #32	ENSGT00940000157540.A #34	ENSGT00940000156291 #35	ENSGT00950000183112.a #36	ENSGT00940000155888 #37	ENSGT00730000111392	ENSGT01030000234535.F.a	ENSGT01080000257410.A.f
Hystricomorpha_b	ANCESTRAL SPECIES	20	ENSGT00940000158943	ENSGT00530000063335.A	ENSGT00940000155164 #7	ENSGT00940000159348 #8	ENSGT00940000158389 #9	ENSGT00940000159506 #10	ENSGT00940000153289.b #11	ENSGT00390000015688 #12	ENSGT01050000244857.C.a.a #13	ENSGT00940000160363 #15	ENSGT00940000158815 #16	ENSGT00940000158068 #17	ENSGT00390000001790 #18	ENSGT01030000234515.a.b.a.b #20	ENSGT00940000158773 #21	ENSGT00940000160583 #22	ENSGT00940000156205 #23	ENSGT00940000157771 #25	ENSGT00530000063847.a #26	ENSGT00940000159268 #27	ENSGT00940000156682 #28	ENSGT00390000015368.a.b #29	ENSGT00510000048902.b #30	ENSGT00940000160523 #32	ENSGT00940000157540.A #34	ENSGT00940000156291 #35	ENSGT00950000183112.a #36	ENSGT00940000155888 #37	ENSGT00730000111392	ENSGT01030000234535.F.a	ENSGT01080000257410.A.f
Degu	MODERN SPECIES	43	TJP1 (ENSODEG00000015556) #7	TARS3 (ENSODEG00000014454) #8	TM2D3 (ENSODEG00000014026) #9	PCSK6 (ENSODEG00000013651) #10	SNRPA1 (ENSODEG00000014103) #11	SELENOS (ENSODEG00000014112) #12	ENSODEG00000014481 #13	ENSODEG00000014373 #14	LRRK1 (ENSODEG00000014764) #15	ALDH1A3 (ENSODEG00000015012) #16	ASB7 (ENSODEG00000014474) #17	LINS1 (ENSODEG00000015320) #18	ENSODEG00000014357 #19	CERS3 (ENSODEG00000014221) #20	ADAMTS17 (ENSODEG00000014089) #21	LYSMD4 (ENSODEG00000014842) #22	MEF2A (ENSODEG00000014682) #23	ENSODEG00000014090 #24	LRRC28 (ENSODEG00000015213) #25	TTC23 (ENSODEG00000014192) #26	SYNM (ENSODEG00000014754) #27	IGF1R (ENSODEG00000014019) #28	ENSODEG00000015288 #29	ENSODEG00000014398 #30	ENSODEG00000014516 #31	ARRDC4 (ENSODEG00000014345) #32	ENSODEG00000014492 #33	NR2F2 (ENSODEG00000014227) #34	MCTP2 (ENSODEG00000016400) #35	RGMA (ENSODEG00000014943) #36	CHD2 (ENSODEG00000016028) #37
Long-tailed chinchilla	MODERN SPECIES	123	APBA2 (ENSCLAG00000009202)	ENTREP2 (ENSCLAG00000012714)	TJP1 (ENSCLAG00000017350) #7	TARS3 (ENSCLAG00000016873) #8	TM2D3 (ENSCLAG00000012439) #9	PCSK6 (ENSCLAG00000013888) #10	SNRPA1 (ENSCLAG00000016402) #11	SELENOS (ENSCLAG00000014232) #12	CHSY1 (ENSCLAG00000010522) #13	LRRK1 (ENSCLAG00000015781) #15	ALDH1A3 (ENSCLAG00000010903) #16	ASB7 (ENSCLAG00000009854) #17	LINS1 (ENSCLAG00000010190) #18	CERS3 (ENSCLAG00000010671) #20	ADAMTS17 (ENSCLAG00000011560) #21	LYSMD4 (ENSCLAG00000008806) #22	MEF2A (ENSCLAG00000010314) #23	ENSCLAG00000013280	LRRC28 (ENSCLAG00000010143) #25	TTC23 (ENSCLAG00000013426) #26	SYNM (ENSCLAG00000012214) #27	IGF1R (ENSCLAG00000012853) #28	PGPEP1L (ENSCLAG00000012011) #29	ENSCLAG00000008778 #30	ARRDC4 (ENSCLAG00000009891) #32	NR2F2 (ENSCLAG00000010451) #34	MCTP2 (ENSCLAG00000014312) #35	RGMA (ENSCLAG00000012655) #36	CHD2 (ENSCLAG00000016269) #37	FAM174B (ENSCLAG00000017030)	ST8SIA2 (ENSCLAG00000017062)
Guinea pig	MODERN SPECIES	10	MCEE (ENSCPOG00000035430)	APBA2 (ENSCPOG00000002505)	ENTREP2 (ENSCPOG00000002510)	TJP1 (ENSCPOG00000010928) #7	TARS3 (ENSCPOG00000008850) #8	TM2D3 (ENSCPOG00000008845) #9	PCSK6 (ENSCPOG00000005722) #10	SNRPA1 (ENSCPOG00000005735) #11	SELENOS (ENSCPOG00000022558) #12	CHSY1 (ENSCPOG00000039485) #13	LRRK1 (ENSCPOG00000008329) #15	ENSCPOG00000032250 #16	ASB7 (ENSCPOG00000038812) #17	LINS1 (ENSCPOG00000002249) #18	ADAMTS17 (ENSCPOG00000009337) #21	LYSMD4 (ENSCPOG00000035578) #22	MEF2A (ENSCPOG00000008716) #23	LRRC28 (ENSCPOG00000007104) #25	TTC23 (ENSCPOG00000003733) #26	SYNM (ENSCPOG00000003728) #27	IGF1R (ENSCPOG00000005399) #28	ENSCPOG00000005390 #29	ENSCPOG00000009133 #30	ARRDC4 (ENSCPOG00000030445) #32	NR2F2 (ENSCPOG00000034464) #34	MCTP2 (ENSCPOG00000005659) #35	RGMA (ENSCPOG00000039106) #36	CHD2 (ENSCPOG00000005800) #37	ST8SIA2 (ENSCPOG00000032324)	SLCO3A1 (ENSCPOG00000010758)	SV2B (ENSCPOG00000008032)
Naked mole-rat female	DUPLICATION
Naked mole-rat female	MODERN SPECIES	6	ENSHGLG00000010825	ENSHGLG00000011310 #7	ENSHGLG00000011618 #8	TM2D3 (ENSHGLG00000012566) #9	PCSK6 (ENSHGLG00000012908) #10	SNRPA1 (ENSHGLG00000012987) #11	VIMP (ENSHGLG00000013427) #12	ENSHGLG00000013695 #13	LRRK1 (ENSHGLG00000013404) #15	ALDH1A3 (ENSHGLG00000013998) #16	ENSHGLG00000005801	ASB7 (ENSHGLG00000039786) #17	LINS (ENSHGLG00000034641) #18	CERS3 (ENSHGLG00000014885) #20	ADAMTS17 (ENSHGLG00000014955) #21	ENSHGLG00000038548 #22	ENSHGLG00000036552 #22	MEF2A (ENSHGLG00000015444) #23	ENSHGLG00000039304	LRRC28 (ENSHGLG00000041379) #25	ENSHGLG00000041295	ENSHGLG00000018053 #26	ENSHGLG00000015122 #27	ENSHGLG00000039241	ENSHGLG00000047709	ENSHGLG00000015148 #28	ENSHGLG00000015153 #29	ENSHGLG00000048628 #30	ENSHGLG00000034785	ENSHGLG00000045800	ENSHGLG00000000498
Naked mole-rat female	MODERN SPECIES	6	ENSHGLG00000011310 #7	ENSHGLG00000011618 #8	TM2D3 (ENSHGLG00000012566) #9	PCSK6 (ENSHGLG00000012908) #10	SNRPA1 (ENSHGLG00000012987) #11	VIMP (ENSHGLG00000013427) #12	ENSHGLG00000013695 #13	LRRK1 (ENSHGLG00000013404) #15	ALDH1A3 (ENSHGLG00000013998) #16	ENSHGLG00000005801	ASB7 (ENSHGLG00000039786) #17	LINS (ENSHGLG00000034641) #18	CERS3 (ENSHGLG00000014885) #20	ADAMTS17 (ENSHGLG00000014955) #21	ENSHGLG00000038548 #22	ENSHGLG00000036552 #22	MEF2A (ENSHGLG00000015444) #23	ENSHGLG00000039304	LRRC28 (ENSHGLG00000041379) #25	ENSHGLG00000041295	ENSHGLG00000018053 #26	ENSHGLG00000015122 #27	ENSHGLG00000039241	ENSHGLG00000047709	ENSHGLG00000015148 #28	ENSHGLG00000015153 #29	ENSHGLG00000048628 #30	ENSHGLG00000034785	ENSHGLG00000045800	ENSHGLG00000000498	ENSHGLG00000008276
Sciuridae	ANCESTRAL SPECIES	11	ENSGT00530000063335.A	ENSGT00940000155164 #7	ENSGT00940000159348.b #8	ENSGT00940000158389 #9	ENSGT00940000159506 #10	ENSGT00940000153289.b #11	ENSGT00390000015688 #12	ENSGT01050000244857.C.a.a #13	ENSGT00940000160363 #15	ENSGT00940000158815 #16	ENSGT00900000143686	ENSGT00940000158068 #17	ENSGT00390000001790 #18	ENSGT01030000234515.a.b.a.b #20	ENSGT00940000158773 #21	ENSGT00940000160583 #22	ENSGT00940000156205 #23	ENSGT00940000157771 #25	ENSGT00530000063847.a #26	ENSGT00940000159268 #27	ENSGT00940000156682 #28	ENSGT00390000015368.a.b #29	ENSGT00510000048902.b #30	ENSGT00940000160523 #32	ENSGT00940000157540.A #34	ENSGT00940000156291 #35	ENSGT00950000183112.a #36	ENSGT00940000155888 #37	ENSGT00730000111392	ENSGT01030000234535.F.a	ENSGT01080000257410.A.f
Marmotini	ANCESTRAL SPECIES	46	ENSGT00530000063335.A	ENSGT00940000155164 #7	ENSGT00940000159348.b #8	ENSGT00940000158389 #9	ENSGT00940000159506 #10	ENSGT00940000153289.b #11	ENSGT00390000015688 #12	ENSGT01050000244857.C.a.a #13	ENSGT00940000160363 #15	ENSGT00940000158815 #16	ENSGT00900000143686	ENSGT00940000158068 #17	ENSGT00390000001790 #18	ENSGT01030000234515.a.b.a.b #20	ENSGT00940000158773 #21	ENSGT00940000160583 #22	ENSGT00940000156205 #23	ENSGT00940000157771 #25	ENSGT00530000063847.a #26	ENSGT00940000159268 #27	ENSGT00940000156682 #28	ENSGT00390000015368.a.b #29	ENSGT00510000048902.b #30	ENSGT00940000160523 #32	ENSGT00940000157540.A #34	ENSGT00940000156291 #35	ENSGT00950000183112.a #36	ENSGT00940000155888 #37	ENSGT00730000111392	ENSGT01030000234535.F.a	ENSGT01080000257410.A.f
Alpin marmot	MODERN SPECIES	33	TARS3 (ENSMMMG00000021271) #8	TM2D3 (ENSMMMG00000021261) #9	PCSK6 (ENSMMMG00000021221) #10	SNRPA1 (ENSMMMG00000021206) #11	SELENOS (ENSMMMG00000021199) #12	CHSY1 (ENSMMMG00000021189) #13	LRRK1 (ENSMMMG00000021169) #15	ALDH1A3 (ENSMMMG00000021150) #16	ENSMMMG00000021145	ASB7 (ENSMMMG00000021137) #17	LINS1 (ENSMMMG00000021112) #18	CERS3 (ENSMMMG00000021095) #20	ENSMMMG00000021070	ADAMTS17 (ENSMMMG00000021021) #21	ENSMMMG00000021014	LYSMD4 (ENSMMMG00000021007) #22	MEF2A (ENSMMMG00000020978) #23	LRRC28 (ENSMMMG00000020957) #25	TTC23 (ENSMMMG00000020943) #26	SYNM (ENSMMMG00000020891) #27	IGF1R (ENSMMMG00000020867) #28	ENSMMMG00000020860 #29	ENSMMMG00000020824 #30	ARRDC4 (ENSMMMG00000020820) #32	ENSMMMG00000020815	NR2F2 (ENSMMMG00000020806) #34	MCTP2 (ENSMMMG00000020783) #35	ENSMMMG00000020776	RGMA (ENSMMMG00000020770) #36	CHD2 (ENSMMMG00000020748) #37	FAM174B (ENSMMMG00000020743)
Marmotini_b	ANCESTRAL SPECIES	42	ENSGT00940000158943	ENSGT00530000063335.A	ENSGT00940000155164 #7	ENSGT00940000159348.b #8	ENSGT00940000158389 #9	ENSGT00940000159506 #10	ENSGT00940000153289.b.a #11	ENSGT00390000015688 #12	ENSGT01050000244857.C.a.a #13	ENSGT00940000160363 #15	ENSGT00940000158815 #16	ENSGT00940000158068 #17	ENSGT00390000001790 #18	ENSGT01030000234515.a.b.a.b #20	ENSGT00940000158773 #21	ENSGT00940000160583 #22	ENSGT00940000156205 #23	ENSGT00940000157771 #25	ENSGT00530000063847.a #26	ENSGT00940000159268 #27	ENSGT00940000156682 #28	ENSGT00390000015368.a.b #29	ENSGT00510000048902.b #30	ENSGT00940000160523 #32	ENSGT00940000157540.A #34	ENSGT00940000156291 #35	ENSGT00950000183112.a #36	ENSGT00940000155888 #37	ENSGT00730000111392	ENSGT01030000234535.F.a	ENSGT01080000257410.A.f
Arctic ground squirrel	MODERN SPECIES	144		ENSUPAG00010009887 #8	TM2D3 (ENSUPAG00010009894) #9	PCSK6 (ENSUPAG00010009948) #10	ENSUPAG00010010022 #11	SELENOS (ENSUPAG00010010044) #12	CHSY1 (ENSUPAG00010010063) #13	LRRK1 (ENSUPAG00010010074) #15	ENSUPAG00010010103	ALDH1A3 (ENSUPAG00010010112) #16	ASB7 (ENSUPAG00010010142) #17	LINS1 (ENSUPAG00010010149) #18	CERS3 (ENSUPAG00010010153) #20	ADAMTS17 (ENSUPAG00010010165) #21	ENSUPAG00010010228	LYSMD4 (ENSUPAG00010010303) #22	MEF2A (ENSUPAG00010010308) #23	ENSUPAG00010010468	LRRC28 (ENSUPAG00010010471) #25	TTC23 (ENSUPAG00010010490) #26	SYNM (ENSUPAG00010010495) #27	IGF1R (ENSUPAG00010010504) #28	ENSUPAG00010010530 #29	ARRDC4 (ENSUPAG00010010582) #32
Squirrel	MODERN SPECIES	83	TJP1 (ENSSTOG00000011142) #7	TARS3 (ENSSTOG00000032725) #8	TM2D3 (ENSSTOG00000009090) #9	PCSK6 (ENSSTOG00000009068) #10	ENSSTOG00000031974	ENSSTOG00000009055 #11	SELENOS (ENSSTOG00000009048) #12	CHSY1 (ENSSTOG00000009033) #13	ENSSTOG00000022852	LRRK1 (ENSSTOG00000008982) #15	ALDH1A3 (ENSSTOG00000008968) #16	ASB7 (ENSSTOG00000024134) #17	LINS1 (ENSSTOG00000004562) #18	CERS3 (ENSSTOG00000004541) #20	ADAMTS17 (ENSSTOG00000004497) #21	LYSMD4 (ENSSTOG00000005427) #22	MEF2A (ENSSTOG00000028856) #23	LRRC28 (ENSSTOG00000004380) #25	TTC23 (ENSSTOG00000004362) #26	SYNM (ENSSTOG00000022419) #27	IGF1R (ENSSTOG00000011400) #28	ENSSTOG00000011427 #29	ENSSTOG00000021739 #30	ARRDC4 (ENSSTOG00000012169) #32	NR2F2 (ENSSTOG00000025965) #34	ENSSTOG00000022562	MCTP2 (ENSSTOG00000026484) #35	RGMA (ENSSTOG00000023280) #36	CHD2 (ENSSTOG00000001270) #37	ST8SIA2 (ENSSTOG00000012529)	SLCO3A1 (ENSSTOG00000012990)
Eurasian red squirrel	MODERN SPECIES	11	TM2D3 (ENSSVLG00005001095) #9	PCSK6 (ENSSVLG00005001247) #10	SNRPA1 (ENSSVLG00005001365) #11	ENSSVLG00005001386	ENSSVLG00005001395	SELENOS (ENSSVLG00005001411) #12	CHSY1 (ENSSVLG00005001428) #13	LRRK1 (ENSSVLG00005001450) #15	ALDH1A3 (ENSSVLG00005001477) #16	ENSSVLG00005001507	ASB7 (ENSSVLG00005001524) #17	LINS1 (ENSSVLG00005001550) #18	CERS3 (ENSSVLG00005001575) #20	ENSSVLG00005001603	ADAMTS17 (ENSSVLG00005001631) #21	LYSMD4 (ENSSVLG00005001675) #22	MEF2A (ENSSVLG00005001742) #23	ENSSVLG00005001869	ENSSVLG00005001915 #25	TTC23 (ENSSVLG00005001983) #26	SYNM (ENSSVLG00005002041) #27	IGF1R (ENSSVLG00005002096) #28	ENSSVLG00005002151 #29	ENSSVLG00005002216 #32	NR2F2 (ENSSVLG00005002243) #34	ENSSVLG00005002275 #35	RGMA (ENSSVLG00005002308) #36	CHD2 (ENSSVLG00005002368) #37	FAM174B (ENSSVLG00005002437)	ST8SIA2 (ENSSVLG00005002459)	SLCO3A1 (ENSSVLG00005002498)