Rodentia_A	ANCESTRAL SPECIES	6	ENSGT00940000160500 #13	ENSGT00390000006319 #10	ENSGT01100000263479.D.a.c.b.a.a ##11	ENSGT01100000263479.D.a.c.b.a.b ##11	ENSGT00390000002861 #12	ENSGT00940000171483	ENSGT00990000204044	ENSGT00730000111056 #14	ENSGT00940000161202.b #15	ENSGT00940000160262 #16	ENSGT00940000153981.B #17	ENSGT00390000010703 #18	ENSGT00950000183199.a.b #19	ENSGT00940000159960 #20	ENSGT00940000157292 #21	ENSGT00520000055635.c.b #22	ENSGT00940000162624 #23	ENSGT00390000008714.b #24	ENSGT00940000160115 #25	ENSGT00940000161799 #26	ENSGT00940000158852 #27	ENSGT00940000160476 #28	ENSGT00390000010549 #29	ENSGT00940000163212.A #30	ENSGT00940000161180 #31	ENSGT00940000154363.A #32	ENSGT00390000013102.f #34	ENSGT00940000161904 #35	ENSGT00530000063351.a.b #36	ENSGT01100000263479.D.a.c.b.b #11	ENSGT00530000063351.a.a.z ##36
Hystricomorpha	ANCESTRAL SPECIES	2	ENSGT00940000153348.C #7	ENSGT00530000063174.b #8	ENSGT00940000161895 #9	ENSGT00940000160500 #13	ENSGT00390000006319 #10	ENSGT01100000263479.D.a.c.b.b #11	ENSGT00390000002861 #12	ENSGT00730000111056 #14	ENSGT00940000161202.b #15	ENSGT00940000160262 #16	ENSGT00940000153981.B #17	ENSGT00390000010703 #18	ENSGT00950000183199.a.b #19	ENSGT00940000159960 #20	ENSGT00940000157292 #21	ENSGT00520000055635.c.b #22	ENSGT00940000162624 #23	ENSGT00390000008714.b #24	ENSGT00940000160115 #25	ENSGT00940000161799 #26	ENSGT00940000158852 #27	ENSGT00940000160476 #28	ENSGT00390000010549 #29	ENSGT00940000163212.A #30	ENSGT00940000161180 #31	ENSGT00940000154363.A #32	ENSGT00390000013102.f #34	ENSGT00940000161904 #35	ENSGT00530000063351.a.b #36	ENSGT00530000063351.a.a.z ##36	ENSGT00530000063351.b ##36
Naked mole-rat female	MODERN SPECIES	21	EXOSC5 (ENSHGLG00000008975) #7	BCKDHA (ENSHGLG00000050952) #8	B3GNT8 (ENSHGLG00000010364) #9	ERICH4 (ENSHGLG00000048703) #10	ENSHGLG00000011199 #11	ENSHGLG00000009638 #12	ATP5SL (ENSHGLG00000039004) #13	LIPE (ENSHGLG00000002222) #14	CNFN (ENSHGLG00000046457) #15	MEGF8 (ENSHGLG00000010524) #16	TMEM145 (ENSHGLG00000010011) #17	PRR19 (ENSHGLG00000003163) #18	PAFAH1B3 (ENSHGLG00000003652) #19	CIC (ENSHGLG00000019229) #20	ERF (ENSHGLG00000003539) #21	GSK3A (ENSHGLG00000004094) #22	ZNF526 (ENSHGLG00000002054) #23	DEDD2 (ENSHGLG00000002113) #24	POU2F2 (ENSHGLG00000002691) #25	ZNF574 (ENSHGLG00000003903) #26	GRIK5 (ENSHGLG00000004011) #27	ATP1A3 (ENSHGLG00000004227) #28	RABAC1 (ENSHGLG00000006853) #29	ERFL (ENSHGLG00000002910) #30	ARHGEF1 (ENSHGLG00000003059) #31	CD79A (ENSHGLG00000001725) #32	ENSHGLG00000040845 #33	ENSHGLG00000050295 #34	ENSHGLG00000002035 #35	LYPD4 (ENSHGLG00000002114) #36	ENSHGLG00000045941 #37
Hystricomorpha_a	ANCESTRAL SPECIES	39	ENSGT00940000153348.C #7	ENSGT00530000063174.b #8	ENSGT00940000161895 #9	ENSGT00940000160500 #13	ENSGT00390000006319 #10	ENSGT01100000263479.D.a.c.a ##11	ENSGT00390000002861 #12	ENSGT00730000111056 #14	ENSGT00940000161202.b #15	ENSGT00940000160262 #16	ENSGT00940000153981.B #17	ENSGT00390000010703 #18	ENSGT00950000183199.a.b #19	ENSGT00940000159960 #20	ENSGT00940000157292 #21	ENSGT00520000055635.c.b #22	ENSGT00940000162624 #23	ENSGT00390000008714.b #24	ENSGT00940000160115 #25	ENSGT00940000161799 #26	ENSGT00940000158852 #27	ENSGT00940000160476 #28	ENSGT00390000010549 #29	ENSGT00940000163212.A #30	ENSGT00940000161180 #31	ENSGT00940000154363.A #32	ENSGT00390000013102.f #34	ENSGT00940000161904 #35	ENSGT00530000063351.a.b #36	ENSGT00530000063351.a.a.z ##36	ENSGT00530000063351.b ##36
Guinea pig	MODERN SPECIES	80	IDO1 (ENSCPOG00000014771)	ENSCPOG00000015304	ENSCPOG00000008853	ENSCPOG00000030322 #11	ENSCPOG00000012967	ENSCPOG00000007329 #11	CXCL17 (ENSCPOG00000039366) #12	LIPE (ENSCPOG00000020887) #14	CNFN (ENSCPOG00000034761) #15	MEGF8 (ENSCPOG00000012979) #16	TMEM145 (ENSCPOG00000012974) #17	PRR19 (ENSCPOG00000024016) #18	PAFAH1B3 (ENSCPOG00000004397) #19	CIC (ENSCPOG00000004391) #20	ENSCPOG00000001808 #21	GSK3A (ENSCPOG00000026896) #22	ZNF526 (ENSCPOG00000034474) #23	DEDD2 (ENSCPOG00000019827) #24	POU2F2 (ENSCPOG00000000781) #25	ZNF574 (ENSCPOG00000000780) #26	GRIK5 (ENSCPOG00000018909) #27	ATP1A3 (ENSCPOG00000010576) #28	RABAC1 (ENSCPOG00000021982) #29	ENSCPOG00000031488 #31	ENSCPOG00000034092 #31	CD79A (ENSCPOG00000011889) #32	RPS19 (ENSCPOG00000025140) #34	DMRTC2 (ENSCPOG00000001805) #35	LYPD4 (ENSCPOG00000001804) #36	ENSCPOG00000030020 ##36	TEX101 (ENSCPOG00000000483) ##36
Hystricomorpha_b	ANCESTRAL SPECIES	49	ENSGT00940000153348.C #7	ENSGT00530000063174.b #8	ENSGT00940000161895 #9	ENSGT00940000160500 #13	ENSGT00390000006319 #10	ENSGT01100000263479.D.a.c.a ##11	ENSGT00390000002861 #12	ENSGT00730000111056 #14	ENSGT00940000161202.b #15	ENSGT00940000160262 #16	ENSGT00940000153981.B #17	ENSGT00390000010703 #18	ENSGT00950000183199.a.b #19	ENSGT00940000159960 #20	ENSGT00940000157292 #21	ENSGT00520000055635.c.b #22	ENSGT00940000162624 #23	ENSGT00390000008714.b #24	ENSGT00940000160115 #25	ENSGT00940000161799 #26	ENSGT00940000158852 #27	ENSGT00940000160476 #28	ENSGT00390000010549 #29	ENSGT00940000163212.A #30	ENSGT00940000161180 #31	ENSGT00940000154363.A #32	ENSGT00390000013102.f #34	ENSGT00940000161904 #35	ENSGT00530000063351.a.b #36	ENSGT00530000063351.a.a.z ##36	ENSGT00530000063351.b ##36
Long-tailed chinchilla	MODERN SPECIES	262	EXOSC5 (ENSCLAG00000001186) #7	BCKDHA (ENSCLAG00000000736) #8	B3GNT8 (ENSCLAG00000001017) #9	DMAC2 (ENSCLAG00000001090) #13	ERICH4 (ENSCLAG00000000843) #10	ENSCLAG00000001267 ##11	CXCL17 (ENSCLAG00000001312) #12	LIPE (ENSCLAG00000001355) #14	CNFN (ENSCLAG00000001511) #15	MEGF8 (ENSCLAG00000002648) #16	TMEM145 (ENSCLAG00000003087) #17	PRR19 (ENSCLAG00000000685) #18	PAFAH1B3 (ENSCLAG00000000723) #19	CIC (ENSCLAG00000000862) #20	ERF (ENSCLAG00000002511) #21	GSK3A (ENSCLAG00000002825) #22	ZNF526 (ENSCLAG00000002951) #23	DEDD2 (ENSCLAG00000002983) #24	POU2F2 (ENSCLAG00000004593) #25	ZNF574 (ENSCLAG00000006252) #26	GRIK5 (ENSCLAG00000006835) #27	ATP1A3 (ENSCLAG00000001351) #28	RABAC1 (ENSCLAG00000001671) #29	ERFL (ENSCLAG00000001752) #30	ENSCLAG00000001895 #31	CD79A (ENSCLAG00000001020) #32	RPS19 (ENSCLAG00000001110) #34	DMRTC2 (ENSCLAG00000001131) #35	LYPD4 (ENSCLAG00000001144) #36	TEX101 (ENSCLAG00000001178) ##36	ENSCLAG00000001219
Degu	MODERN SPECIES	238				ENSODEG00000010092 ##11	ENSODEG00000010781 #11	ENSODEG00000019766	CXCL17 (ENSODEG00000010054) #12	LIPE (ENSODEG00000009773) #14	CNFN (ENSODEG00000010917) #15	MEGF8 (ENSODEG00000010413) #16	TMEM145 (ENSODEG00000010150) #17	PRR19 (ENSODEG00000009341) #18	PAFAH1B3 (ENSODEG00000011390) #19	CIC (ENSODEG00000011664) #20	ERF (ENSODEG00000009178) #21	GSK3A (ENSODEG00000014312) #22	ZNF526 (ENSODEG00000019954) #23	DEDD2 (ENSODEG00000010982) #24	POU2F2 (ENSODEG00000011310) #25	ZNF574 (ENSODEG00000013318) #26	GRIK5 (ENSODEG00000012165) #27	ATP1A3 (ENSODEG00000009220) #28	RABAC1 (ENSODEG00000008871) #29	ERFL (ENSODEG00000009283) #30	ARHGEF1 (ENSODEG00000009700) #31	CD79A (ENSODEG00000009588) #32	RPS19 (ENSODEG00000009249) ##34	DMRTC2 (ENSODEG00000009170) #35	LYPD4 (ENSODEG00000009945) #36	ENSODEG00000009641 ##36	ENSODEG00000009652
Sciuridae	ANCESTRAL SPECIES	5	ENSGT00940000160500 #13	ENSGT00390000006319 #10	ENSGT01100000263479.D.a.c.b.a.a ##11	ENSGT01100000263479.D.a.c.b.a.b ##11	ENSGT00390000002861 #12	ENSGT00940000171483	ENSGT00990000204044	ENSGT00730000111056 #14	ENSGT00940000161202.b #15	ENSGT00940000160262 #16	ENSGT00940000153981.B #17	ENSGT00390000010703 #18	ENSGT00950000183199.a.b #19	ENSGT00940000159960 #20	ENSGT00940000157292 #21	ENSGT00520000055635.c.b #22	ENSGT00940000162624 #23	ENSGT00390000008714.b #24	ENSGT00940000160115 #25	ENSGT00940000161799 #26	ENSGT00940000158852 #27	ENSGT00940000160476 #28	ENSGT00390000010549 #29	ENSGT00940000163212.A #30	ENSGT00940000161180 #31	ENSGT00940000154363.A #32	ENSGT00390000013102.e.b ##34	ENSGT00940000161904 #35	ENSGT00530000063351.a.b #36	ENSGT01100000263479.D.a.c.b.b.a #11	ENSGT00530000063351.a.a.z ##36
Eurasian red squirrel	MODERN SPECIES	8	DMAC2 (ENSSVLG00005023559) #13	ERICH4 (ENSSVLG00005023663) #10	ENSSVLG00005023751 ##11	ENSSVLG00005024022	ENSSVLG00005024078 ##11	CXCL17 (ENSSVLG00005024192) #12	ENSSVLG00005024214	LIPE (ENSSVLG00005024237) #14	CNFN (ENSSVLG00005024319) #15	MEGF8 (ENSSVLG00005024356) #16	TMEM145 (ENSSVLG00005024411) #17	PRR19 (ENSSVLG00005024445) #18	PAFAH1B3 (ENSSVLG00005024469) #19	CIC (ENSSVLG00005024515) #20	ERF (ENSSVLG00005024686) #21	GSK3A (ENSSVLG00005024717) #22	ZNF526 (ENSSVLG00005024751) #23	DEDD2 (ENSSVLG00005024774) #24	POU2F2 (ENSSVLG00005024957) #25	ZNF574 (ENSSVLG00005025008) #26	GRIK5 (ENSSVLG00005025036) #27	ATP1A3 (ENSSVLG00005025087) #28	RABAC1 (ENSSVLG00005025214) #29	ERFL (ENSSVLG00005025238) #30	ARHGEF1 (ENSSVLG00005025285) #31	CD79A (ENSSVLG00005025331) #32	RPS19 (ENSSVLG00005025346) ##34	DMRTC2 (ENSSVLG00005025370) #35	LYPD4 (ENSSVLG00005025397) #36	ENSSVLG00005025430 #11	CD177 (ENSSVLG00005025475) ##36
Marmotini	ANCESTRAL SPECIES	7	ENSGT00940000160500 #13	ENSGT00390000006319 #10	ENSGT01100000263479.D.a.c.b.b.b #11	ENSGT01100000263479.D.a.c.b.a.b ##11	ENSGT00390000002861 #12	ENSGT00940000171483	ENSGT00990000204044	ENSGT00730000111056 #14	ENSGT00940000161202.b #15	ENSGT00940000160262 #16	ENSGT00940000153981.B #17	ENSGT00390000010703 #18	ENSGT00950000183199.a.b #19	ENSGT00940000159960 #20	ENSGT00940000157292 #21	ENSGT00520000055635.c.b #22	ENSGT00940000162624 #23	ENSGT00390000008714.b #24	ENSGT00940000160115 #25	ENSGT00940000161799 #26	ENSGT00940000158852 #27	ENSGT00940000160476 #28	ENSGT00390000010549 #29	ENSGT00940000163212.A #30	ENSGT00940000161180 #31	ENSGT00940000154363.A #32	ENSGT00390000013102.f #34	ENSGT00940000161904 #35	ENSGT00530000063351.a.b #36	ENSGT01100000263479.D.a.c.b.b.a #11	ENSGT00530000063351.a.a.z ##36
Alpin marmot	MODERN SPECIES	45	ERICH4 (ENSMMMG00000019627) #10	ENSMMMG00000019076 #11	ENSMMMG00000018966 ##11	CXCL17 (ENSMMMG00000018960) #12	ENSMMMG00000018958	ENSMMMG00000018948	LIPE (ENSMMMG00000018935) #14	CNFN (ENSMMMG00000018928) #15	MEGF8 (ENSMMMG00000018897) #16	TMEM145 (ENSMMMG00000018870) #17	ENSMMMG00000018865	PRR19 (ENSMMMG00000018862) #18	PAFAH1B3 (ENSMMMG00000018822) #19	CIC (ENSMMMG00000018746) #20	ERF (ENSMMMG00000018735) #21	GSK3A (ENSMMMG00000018714) #22	ZNF526 (ENSMMMG00000018710) #23	DEDD2 (ENSMMMG00000018702) #24	POU2F2 (ENSMMMG00000018186) #25	ZNF574 (ENSMMMG00000018163) #26	GRIK5 (ENSMMMG00000018145) #27	ATP1A3 (ENSMMMG00000018094) #28	RABAC1 (ENSMMMG00000018088) #29	ERFL (ENSMMMG00000018083) #30	ARHGEF1 (ENSMMMG00000016411) #31	CD79A (ENSMMMG00000016388) #32	RPS19 (ENSMMMG00000016380) ##34	DMRTC2 (ENSMMMG00000016375) #35	LYPD4 (ENSMMMG00000016374) #36	ENSMMMG00000016289 #11	CD177 (ENSMMMG00000016255) ##36
Marmotini_b	ANCESTRAL SPECIES	49				ENSGT01100000263479.D.a.c.b.a.a ##11	ENSGT00390000002861 #12	ENSGT00940000171483	ENSGT00990000204044	ENSGT00730000111056 #14	ENSGT00940000161202.b #15	ENSGT00940000160262 #16	ENSGT00940000153981.B #17	ENSGT00390000010703 #18	ENSGT00950000183199.a.b #19	ENSGT00940000159960 #20	ENSGT00940000157292 #21	ENSGT00520000055635.c.b #22	ENSGT00940000162624 #23	ENSGT00390000008714.b #24	ENSGT00940000160115 #25	ENSGT00940000161799 #26	ENSGT00940000158852 #27	ENSGT00940000160476 #28	ENSGT00390000010549 #29	ENSGT00940000163212.A #30	ENSGT00940000161180 #31	ENSGT00940000154363.A #32	ENSGT00390000013102.f #34	ENSGT00940000161904 #35	ENSGT00530000063351.a.b #36	ENSGT01100000263479.D.a.c.b.b.a #11	ENSGT00530000063351.a.a.z ##36
Squirrel	MODERN SPECIES	306							CXCL17 (ENSSTOG00000011599) #12	Lipe (ENSSTOG00000011564) #14	CNFN (ENSSTOG00000020414) #15	MEGF8 (ENSSTOG00000000868) #16	TMEM145 (ENSSTOG00000022861) #17	PRR19 (ENSSTOG00000024823) #18	PAFAH1B3 (ENSSTOG00000000864) #19	CIC (ENSSTOG00000000852) #20	ERF (ENSSTOG00000000849) #21	GSK3A (ENSSTOG00000000841) #22	ZNF526 (ENSSTOG00000019390) #23	DEDD2 (ENSSTOG00000020972) #24	POU2F2 (ENSSTOG00000021390) #25	ZNF574 (ENSSTOG00000028612) #26	GRIK5 (ENSSTOG00000011995) #27	ATP1A3 (ENSSTOG00000004030) #28	RABAC1 (ENSSTOG00000022795) #29	ENSSTOG00000032462 #21	ARHGEF1 (ENSSTOG00000003526) #31	CD79A (ENSSTOG00000003518) #32	ENSSTOG00000003502 ##34	DMRTC2 (ENSSTOG00000003484) #35	LYPD3 (ENSSTOG00000003599)	ENSSTOG00000028708	ETHE1 (ENSSTOG00000023958)
Arctic ground squirrel	MODERN SPECIES	297				ENSUPAG00010001516 ##11	CXCL17 (ENSUPAG00010001506) #12	ENSUPAG00010001502	ENSUPAG00010001487	LIPE (ENSUPAG00010001422) #14	CNFN (ENSUPAG00010001399) #15	MEGF8 (ENSUPAG00010001326) #16	TMEM145 (ENSUPAG00010001258) #17	PRR19 (ENSUPAG00010001251) #18	PAFAH1B3 (ENSUPAG00010001213) #19	CIC (ENSUPAG00010000939) #20	ERF (ENSUPAG00010000918) #21	GSK3A (ENSUPAG00010000883) #22	ZNF526 (ENSUPAG00010000881) #23	DEDD2 (ENSUPAG00010000870) #24	POU2F2 (ENSUPAG00010000238) #25	ZNF574 (ENSUPAG00010000222) #26	GRIK5 (ENSUPAG00010000202) #27	ATP1A3 (ENSUPAG00010000095) #28	RABAC1 (ENSUPAG00010000053) #29	ERFL (ENSUPAG00010021971) #30	ARHGEF1 (ENSUPAG00010021957) #31	CD79A (ENSUPAG00010021954) #32	RPS19 (ENSUPAG00010021947) #34	DMRTC2 (ENSUPAG00010021944) #35	LYPD4 (ENSUPAG00010021943) #36	ENSUPAG00010021938 #11	ENSUPAG00010021937 ##36