Rodentia_A	ANCESTRAL SPECIES	18	ENSGT00390000005801 #7	ENSGT00530000063576.B #8	ENSGT00940000157222 #9	ENSGT00390000018110 #10	ENSGT00940000162862 #11	ENSGT00940000154181.a #12	ENSGT00940000153446.a.a #13	ENSGT00940000158008 #14	ENSGT00390000012138.a.b.t.ab ##15	ENSGT00390000010783 #16	ENSGT00420000029792 #17	ENSGT00390000017478 #18	ENSGT00940000159321 #19	ENSGT00940000160344 #20	ENSGT00940000154984.C #21	ENSGT00940000160530 #22	ENSGT00940000154684 #27	ENSGT00940000162275 #28	ENSGT00500000044936 #29	ENSGT00530000063692.a #30	ENSGT00390000008918.b ##31	ENSGT00940000154697.b #32	ENSGT00390000008918.a.b ##31	ENSGT00940000154697.a.b #33	ENSGT00940000158703 #34	ENSGT00940000157094 #35	ENSGT00950000183212.A #37	ENSGT00940000153773.a.b.b	ENSGT00900000143156.a	ENSGT01090000260040.a.a.a.r	ENSGT00940000153773.a.b.a.b
Sciuridae	ANCESTRAL SPECIES	17	ENSGT00530000063576.B #8	ENSGT00940000157222 #9	ENSGT00390000018110 #10	ENSGT00940000162862 #11	ENSGT00940000154181.a #12	ENSGT00940000153446.a.a #13	ENSGT00940000158008 #14	ENSGT00390000012138.a.b.s.a.b #15	ENSGT00390000012138.a.a.j.b ##15	ENSGT00390000010783 #16	ENSGT00420000029792 #17	ENSGT00390000017478 #18	ENSGT00940000159321 #19	ENSGT00940000160344 #20	ENSGT00940000154984.C #21	ENSGT00940000160530 #22	ENSGT00940000154684 #27	ENSGT00940000162275 #28	ENSGT00500000044936 #29	ENSGT00530000063692.a #30	ENSGT00390000008918.b ##31	ENSGT00940000154697.b #32	ENSGT00390000008918.a.b ##31	ENSGT00940000154697.a.b #33	ENSGT00940000158703 #34	ENSGT00940000157094 #35	ENSGT00950000183212.A #37	ENSGT00940000153773.a.b.b	ENSGT00900000143156.a	ENSGT01090000260040.a.a.a.r	ENSGT00940000153773.a.b.a.b
Marmotini	ANCESTRAL SPECIES	10	ENSGT00390000005801 #7	ENSGT00530000063576.B #8	ENSGT00940000157222 #9	ENSGT00390000018110 #10	ENSGT00940000162862 #11	ENSGT00940000154181.a #12	ENSGT00940000153446.a.a #13	ENSGT00940000158008 #14	ENSGT00390000012138.a.a.j.b ##15	ENSGT00390000010783 #16	ENSGT00420000029792 #17	ENSGT00390000017478 #18	ENSGT00940000159321 #19	ENSGT00940000160344 #20	ENSGT00940000154984.C #21	ENSGT00940000160530 #22	ENSGT00940000154684 #27	ENSGT00940000162275 #28	ENSGT00500000044936 #29	ENSGT00530000063692.a #30	ENSGT00390000008918.a.b ##31	ENSGT00940000154697.b #32	ENSGT00940000154697.a.b #33	ENSGT00940000158703 #34	ENSGT00940000157094 #35	ENSGT00950000183212.A #37	ENSGT00940000153773.a.b.b	ENSGT00900000143156.a	ENSGT01090000260040.a.a.a.r	ENSGT00940000153773.a.b.a.b	ENSGT01090000260040.a.a.b
Marmotini_b	ANCESTRAL SPECIES	6	ENSGT00390000005801 #7	ENSGT00530000063576.B #8	ENSGT00940000157222 #9	ENSGT00390000018110 #10	ENSGT00940000162862 #11	ENSGT00940000154181.a #12	ENSGT00940000153446.a.a #13	ENSGT00940000158008 #14	ENSGT00390000012138.a.a.j.b ##15	ENSGT00390000010783 #16	ENSGT00420000029792 #17	ENSGT00390000017478 #18	ENSGT00940000159321 #19	ENSGT00940000160344 #20	ENSGT00940000154984.C #21	ENSGT00940000160530 #22	ENSGT00940000154684 #27	ENSGT00940000162275 #28	ENSGT00500000044936 #29	ENSGT00530000063692.a #30	ENSGT00390000008918.a.b ##31	ENSGT00940000154697.a.b #33	ENSGT00940000158703 #34	ENSGT00940000157094 #35	ENSGT00950000183212.A #37	ENSGT00940000153773.a.b.b	ENSGT01090000260040.a.a.b	ENSGT00390000003465.b.b	ENSGT00940000155788	ENSGT00940000158862	ENSGT00390000013305.a.b
Arctic ground squirrel	MODERN SPECIES	1	MTERF3 (ENSUPAG00010013471) #7	PTDSS1 (ENSUPAG00010013461) #8	SDC2 (ENSUPAG00010013453) #9	CPQ (ENSUPAG00010013448) #10	TSPYL5 (ENSUPAG00010013417) #11	MTDH (ENSUPAG00010013325) #12	LAPTM4B (ENSUPAG00010013282) #13	MATN2 (ENSUPAG00010013247) #14	ENSUPAG00010013235 #15	ERICH5 (ENSUPAG00010013227) #16	RIDA (ENSUPAG00010013221) #17	POP1 (ENSUPAG00010013195) #18	NIPAL2 (ENSUPAG00010013172) #19	KCNS2 (ENSUPAG00010013167) #20	STK3 (ENSUPAG00010013132) #21	OSR2 (ENSUPAG00010013120) #22	ENSUPAG00010013114 #23	ENSUPAG00010013107 #24	ENSUPAG00010013097 #25	ENSUPAG00010013083 #26	VPS13B (ENSUPAG00010012963) #27	ENSUPAG00010012936 #28	RGS22 (ENSUPAG00010012884) #29	FBXO43 (ENSUPAG00010012872) #30	ENSUPAG00010012856 #31	ENSUPAG00010012851 #32	ENSUPAG00010012820 #33	RNF19A (ENSUPAG00010012809) #34	ANKRD46 (ENSUPAG00010012805) #35	ENSUPAG00010012795 #36	SNX31 (ENSUPAG00010012764) #37
Squirrel	MODERN SPECIES	70	PTDSS1 (ENSSTOG00000008027) #8	SDC2 (ENSSTOG00000008050) #9	CPQ (ENSSTOG00000012223) #10	TSPYL5 (ENSSTOG00000005767) #11	MTDH (ENSSTOG00000005068) #12	LAPTM4B (ENSSTOG00000022846) #13	MATN2 (ENSSTOG00000011440) #14	ENSSTOG00000030813 ##15	ERICH5 (ENSSTOG00000011450) #16	ENSSTOG00000011452 #17	POP1 (ENSSTOG00000011455) #18	NIPAL2 (ENSSTOG00000000646) #19	KCNS2 (ENSSTOG00000024646) #20	STK3 (ENSSTOG00000000651) #21	ENSSTOG00000029048	OSR2 (ENSSTOG00000021263) #22	ENSSTOG00000027003 ##24	VPS13B (ENSSTOG00000015651) #27	COX6C (ENSSTOG00000015672) #28	RGS22 (ENSSTOG00000015674) #29	FBXO43 (ENSSTOG00000027663) #30	POLR2K (ENSSTOG00000006123) ##31	SPAG1 (ENSSTOG00000006135) #33	RNF19A (ENSSTOG00000006177) #34	ENSSTOG00000024280 #35	SNX31 (ENSSTOG00000016392) #37	PABPC1 (ENSSTOG00000016395)	ENSSTOG00000034817	ENSSTOG00000023864	ZNF706 (ENSSTOG00000022580)	ENSSTOG00000031885
Alpin marmot	MODERN SPECIES	18						MTDH (ENSMMMG00000015702) #12	ENSMMMG00000015749	LAPTM4B (ENSMMMG00000015757) #13	MATN2 (ENSMMMG00000015779) #14	ENSMMMG00000015872 ##15	RIDA (ENSMMMG00000015899) #17	POP1 (ENSMMMG00000015905) #18	NIPAL2 (ENSMMMG00000015942) #19	KCNS2 (ENSMMMG00000015951) #20	STK3 (ENSMMMG00000015954) #21	OSR2 (ENSMMMG00000015987) #22	VPS13B (ENSMMMG00000016018) #27	COX6C (ENSMMMG00000016076) #28	RGS22 (ENSMMMG00000016089) #29	FBXO43 (ENSMMMG00000016105) #30	ENSMMMG00000016111 ##31	ENSMMMG00000016116 #32	ENSMMMG00000016121 #33	RNF19A (ENSMMMG00000016129) #34	ANKRD46 (ENSMMMG00000016148) #35	SNX31 (ENSMMMG00000016151) #37	PABPC1 (ENSMMMG00000016183)	ENSMMMG00000016188	GRHL2 (ENSMMMG00000016231)	NCALD (ENSMMMG00000016254)	RRM2B (ENSMMMG00000016263)
Eurasian red squirrel	MODERN SPECIES		TSPYL5 (ENSSVLG00005002014) #11	ENSSVLG00005002034 #12	ENSSVLG00005002083	ENSSVLG00005002092	LAPTM4B (ENSSVLG00005002108) #13	MATN2 (ENSSVLG00005002132) #14	ENSSVLG00005002166 #15	ENSSVLG00005002192	ENSSVLG00005002202	ERICH5 (ENSSVLG00005002215) #16	ENSSVLG00005002234 #17	POP1 (ENSSVLG00005002246) #18	NIPAL2 (ENSSVLG00005002294) #19	KCNS2 (ENSSVLG00005002345) #20	STK3 (ENSSVLG00005002365) #21	OSR2 (ENSSVLG00005002406) #22	VPS13B (ENSSVLG00005002505) #27	ENSSVLG00005002791	ENSSVLG00005002798	ENSSVLG00005002811	ENSSVLG00005002823	ENSSVLG00005002835 #28	RGS22 (ENSSVLG00005002884) #29	FBXO43 (ENSSVLG00005003116) #30	ENSSVLG00005003136 ##31	ENSSVLG00005003160 #32	ENSSVLG00005003189 #33	RNF19A (ENSSVLG00005003226) #34	ENSSVLG00005003243 #35	SNX31 (ENSSVLG00005003271) #37	PABPC1 (ENSSVLG00005003305)
Hystricomorpha	ANCESTRAL SPECIES	12	ENSGT00390000005801 #7	ENSGT00530000063576.B #8	ENSGT00940000157222 #9	ENSGT00390000018110 #10	ENSGT00940000162862 #11	ENSGT00940000154181.a #12	ENSGT00940000153446.a.a #13	ENSGT00940000158008 #14	ENSGT00390000012138.a.b.t.ab ##15	ENSGT00390000010783 #16	ENSGT00420000029792 #17	ENSGT00390000017478 #18	ENSGT00940000159321 #19	ENSGT00940000160344 #20	ENSGT00940000154984.C #21	ENSGT00940000160530 #22	ENSGT00940000154684 #27	ENSGT00940000162275 #28	ENSGT00500000044936 #29	ENSGT00530000063692.a #30	ENSGT00390000008918.b ##31	ENSGT00940000154697.a.b #33	ENSGT00940000158703 #34	ENSGT00940000157094.hb #35	ENSGT00950000183212.A #37	ENSGT00940000153773.a.b.b	ENSGT01090000260040.a.a.b	ENSGT00390000003465.b.b	ENSGT01100000263484.B.b.b	ENSGT00390000007776	ENSGT00390000011748
Naked mole-rat female	MODERN SPECIES	13	ENSHGLG00000021132	ENSHGLG00000050956	ENSHGLG00000008700 #12	ENSHGLG00000041488 #13	MATN2 (ENSHGLG00000010275) #14	ENSHGLG00000010022	ENSHGLG00000033730	RPL30 (ENSHGLG00000034047) ##15	ERICH5 (ENSHGLG00000005192) #16	HRSP12 (ENSHGLG00000035354) #17	POP1 (ENSHGLG00000006029) #18	ENSHGLG00000047572	NIPAL2 (ENSHGLG00000040382) #19	KCNS2 (ENSHGLG00000039128) #20	STK3 (ENSHGLG00000008473) #21	OSR2 (ENSHGLG00000011216) #22	VPS13B (ENSHGLG00000012549) #27	COX6C (ENSHGLG00000017404) #28	RGS22 (ENSHGLG00000018462) #29	ENSHGLG00000018671	FBXO43 (ENSHGLG00000017578) #30	ENSHGLG00000004285	SPAG1 (ENSHGLG00000004354) #33	RNF19A (ENSHGLG00000004447) #34	ENSHGLG00000004487	ANKRD46 (ENSHGLG00000004526) #35	SNX31 (ENSHGLG00000005963) #37	PABPC1 (ENSHGLG00000007713)	ENSHGLG00000009040	ENSHGLG00000033770	ENSHGLG00000047813
Hystricomorpha_a	ANCESTRAL SPECIES	9	ENSGT00390000005801 #7	ENSGT00530000063576.B #8	ENSGT00940000157222 #9	ENSGT00390000018110 #10	ENSGT00940000162862 #11	ENSGT00940000154181.a #12	ENSGT00940000153446.a.a #13	ENSGT00940000158008 #14	ENSGT00390000012138.a.b.t.ab ##15	ENSGT00390000010783 #16	ENSGT00420000029792 #17	ENSGT00390000017478 #18	ENSGT00940000159321 #19	ENSGT00940000160344 #20	ENSGT00940000154984.C #21	ENSGT00940000160530 #22	ENSGT00940000154684 #27	ENSGT00940000162275 #28	ENSGT00500000044936 #29	ENSGT00530000063692.a #30	ENSGT00390000008918.b ##31	ENSGT00940000154697.a.b #33	ENSGT00940000158703 #34	ENSGT00940000157094.hb #35	ENSGT00950000183212.A #37	ENSGT00940000153773.a.b.b	ENSGT01090000260040.a.a.b	ENSGT00390000003465.b.b	ENSGT01100000263484.B.b.b	ENSGT00390000007776	ENSGT00390000011748
Guinea pig	MODERN SPECIES		GDF6 (ENSCPOG00000010549)	UQCRB (ENSCPOG00000037355)	MTERF3 (ENSCPOG00000003487) #7	PTDSS1 (ENSCPOG00000003491) #8	SDC2 (ENSCPOG00000036427) #9	CPQ (ENSCPOG00000007260) #10	MTDH (ENSCPOG00000037219) #12	LAPTM4B (ENSCPOG00000020368) #13	MATN2 (ENSCPOG00000003062) #14	RPL30 (ENSCPOG00000030315) ##15	RIDA (ENSCPOG00000036991) #17	POP1 (ENSCPOG00000002901) #18	NIPAL2 (ENSCPOG00000032021) #19	KCNS2 (ENSCPOG00000026156) #20	STK3 (ENSCPOG00000010689) #21	OSR2 (ENSCPOG00000020572) #22	ENSCPOG00000019380	VPS13B (ENSCPOG00000014447) #27	COX6C (ENSCPOG00000014456) #28	RGS22 (ENSCPOG00000002153) #29	FBXO43 (ENSCPOG00000002160) #30	POLR2K (ENSCPOG00000036717) ##31	SPAG1 (ENSCPOG00000002162) #33	RNF19A (ENSCPOG00000007313) #34	ANKRD46 (ENSCPOG00000032374) #35	SNX31 (ENSCPOG00000012914) #37	PABPC1 (ENSCPOG00000012917)	YWHAZ (ENSCPOG00000040522)	ZNF706 (ENSCPOG00000037379)	TRHR (ENSCPOG00000011339)	NUDCD1 (ENSCPOG00000036228)
Hystricomorpha_b	ANCESTRAL SPECIES	25	ENSGT00390000005801 #7	ENSGT00530000063576.B #8	ENSGT00940000157222 #9	ENSGT00390000018110 #10	ENSGT00940000162862 #11	ENSGT00940000154181.a #12	ENSGT00940000153446.a.a #13	ENSGT00940000158008 #14	ENSGT00390000012138.a.b.t.ab ##15	ENSGT00390000010783 #16	ENSGT00420000029792 #17	ENSGT00390000017478 #18	ENSGT00940000159321 #19	ENSGT00940000160344 #20	ENSGT00940000154984.C #21	ENSGT00940000160530 #22	ENSGT00940000154684 #27	ENSGT00940000162275 #28	ENSGT00500000044936 #29	ENSGT00530000063692.a #30	ENSGT00390000008918.b ##31	ENSGT00940000154697.a.b #33	ENSGT00940000158703 #34	ENSGT00940000157094.hb #35	ENSGT00950000183212.A #37	ENSGT00940000153773.a.b.b	ENSGT01090000260040.a.a.b	ENSGT00390000003465.b.b	ENSGT01100000263484.B.b.b	ENSGT00390000007776	ENSGT00390000011748
Long-tailed chinchilla	MODERN SPECIES	124	PTDSS1 (ENSCLAG00000005033) #8	SDC2 (ENSCLAG00000006071) #9	CPQ (ENSCLAG00000007372) #10	TSPYL5 (ENSCLAG00000007761) #11	ENSCLAG00000007799	MTDH (ENSCLAG00000007884) #12	LAPTM4B (ENSCLAG00000005642) #13	MATN2 (ENSCLAG00000005911) #14	RPL30 (ENSCLAG00000006288) ##15	ERICH5 (ENSCLAG00000006781) #16	RIDA (ENSCLAG00000006938) #17	POP1 (ENSCLAG00000007208) #18	NIPAL2 (ENSCLAG00000008008) #19	KCNS2 (ENSCLAG00000018060) #20	STK3 (ENSCLAG00000012018) #21	OSR2 (ENSCLAG00000012733) #22	VPS13B (ENSCLAG00000004590) #27	COX6C (ENSCLAG00000004170) #28	RGS22 (ENSCLAG00000004565) #29	FBXO43 (ENSCLAG00000007471) #30	POLR2K (ENSCLAG00000010033) ##31	SPAG1 (ENSCLAG00000013379) #33	RNF19A (ENSCLAG00000015646) #34	ENSCLAG00000017008 #35	SNX31 (ENSCLAG00000011888) #37	PABPC1 (ENSCLAG00000009676)	YWHAZ (ENSCLAG00000004303)	ENSCLAG00000005116	ZNF706 (ENSCLAG00000005214)	TRHR (ENSCLAG00000005381)	NUDCD1 (ENSCLAG00000005542)
Degu	MODERN SPECIES	159					ENSODEG00000018842	ENSODEG00000018863	MTDH (ENSODEG00000003805) #12	LAPTM4B (ENSODEG00000003827) #13	MATN2 (ENSODEG00000003867) #14	ENSODEG00000003943 ##15	RIDA (ENSODEG00000003956) #17	POP1 (ENSODEG00000003984) #18	NIPAL2 (ENSODEG00000004019) #19	KCNS2 (ENSODEG00000004047) #20	STK3 (ENSODEG00000004108) #21	OSR2 (ENSODEG00000004176) #22	ENSODEG00000004192	ENSODEG00000004228 #27	ENSODEG00000004243 #28	RGS22 (ENSODEG00000004270) #29	ENSODEG00000004346	ENSODEG00000004358 ##31	SPAG1 (ENSODEG00000004385) #33	ENSODEG00000019080 #34	ENSODEG00000003147 #35	SNX31 (ENSODEG00000003171) #37	ENSODEG00000003229	YWHAZ (ENSODEG00000003295)	ENSODEG00000003308	ENSODEG00000003317	ENSODEG00000003325