Rodentia_A	ANCESTRAL SPECIES	16	ENSGT00390000013515	ENSGT00550000075067 #7	ENSGT00390000015418 #9	ENSGT01050000244898.a.a.a.a #10	ENSGT00940000154587.a.b #11	ENSGT00940000159179 #12	ENSGT00940000156470 #13	ENSGT00940000162150 #14	ENSGT00390000010706	ENSGT00940000155854 #15	ENSGT00940000163280 #16	ENSGT00950000185823 #17	ENSGT00940000158590 #18	ENSGT00940000160463 #19	ENSGT00950000183103.d.b #21	ENSGT00940000157036 #22	ENSGT00390000018299 #23	ENSGT00950000183005.b.d #24	ENSGT00940000162613 #25	ENSGT00940000162321 #26	ENSGT00940000160456 #27	ENSGT00940000161493 #28	ENSGT00940000161989 #29	ENSGT00390000007991 #30	ENSGT00530000063749.c.a #31	ENSGT00390000000475.sb #32	ENSGT00940000156757 #33	ENSGT00390000018061 #34	ENSGT00390000006565 #35	ENSGT00390000001700.a.a #36	ENSGT00940000160040.B #37
Sciuridae	ANCESTRAL SPECIES	23	ENSGT00390000013515	ENSGT00550000075067 #7	ENSGT00390000015418 #9	ENSGT01050000244898.a.a.a.a #10	ENSGT00940000154587.a.b #11	ENSGT00940000159179 #12	ENSGT00940000156470 #13	ENSGT00940000162150 #14	ENSGT00390000010706	ENSGT00940000155854 #15	ENSGT00940000163280 #16	ENSGT00950000185823 #17	ENSGT00940000158590 #18	ENSGT00940000160463 #19	ENSGT00950000183103.d.b #21	ENSGT00940000157036 #22	ENSGT00390000018299 #23	ENSGT00950000183005.b.d #24	ENSGT00940000162613 #25	ENSGT00940000162321 #26	ENSGT00940000160456 #27	ENSGT00940000161493 #28	ENSGT00940000161989 #29	ENSGT00390000007991 #30	ENSGT00530000063749.c.a #31	ENSGT00390000000475.sb #32	ENSGT00940000156757 #33	ENSGT00390000018061 #34	ENSGT00390000006565 #35	ENSGT00390000001700.a.a #36	ENSGT00940000160040.B #37
Eurasian red squirrel	MODERN SPECIES	7	ENSSVLG00005020712 #7	AP3D1 (ENSSVLG00005020646) #8	IZUMO4 (ENSSVLG00005020559) #9	MOB3A (ENSSVLG00005020512) #10	MKNK2 (ENSSVLG00005020381) #11	BTBD2 (ENSSVLG00005020278) #12	CSNK1G2 (ENSSVLG00005020222) #13	SCAMP4 (ENSSVLG00005020123) #14	ABHD17A (ENSSVLG00005020039) #15	KLF16 (ENSSVLG00005019996) #16	ENSSVLG00005019938 #17	ENSSVLG00005019814 #18	ENSSVLG00005019753 #19	ENSSVLG00005019621 #20	ONECUT3 (ENSSVLG00005019576) #21	TCF3 (ENSSVLG00005019501) #22	UQCR11 (ENSSVLG00005019254) #23	MBD3 (ENSSVLG00005019133) #24	MEX3D (ENSSVLG00005019086) #25	PLK5 (ENSSVLG00005018817) #26	ADAMTSL5 (ENSSVLG00005018762) #27	REEP6 (ENSSVLG00005018721) #28	PCSK4 (ENSSVLG00005018300) #29	C19orf25 (ENSSVLG00005018258) #30	APC2 (ENSSVLG00005017604) #31	RPS15 (ENSSVLG00005017411) #32	DAZAP1 (ENSSVLG00005017301) #33	GAMT (ENSSVLG00005017199) #34	NDUFS7 (ENSSVLG00005016984) #35	ENSSVLG00005016943 #36	EFNA2 (ENSSVLG00005016887) #37
Marmotini	ANCESTRAL SPECIES	24	ENSGT00390000005235	ENSGT00390000013515	ENSGT00550000075067 #7	ENSGT00390000015418 #9	ENSGT01050000244898.a.a.a.a #10	ENSGT00940000154587.a.b #11	ENSGT00940000159179 #12	ENSGT00940000156470 #13	ENSGT00940000162150 #14	ENSGT00390000010706	ENSGT00940000155854 #15	ENSGT00940000163280 #16	ENSGT00940000158590 #18	ENSGT00940000160463 #19	ENSGT00950000183103.d.b #21	ENSGT00940000157036 #22	ENSGT00390000018299 #23	ENSGT00950000183005.b.d #24	ENSGT00940000162613 #25	ENSGT00940000162321 #26	ENSGT00940000160456 #27	ENSGT00940000161493 #28	ENSGT00940000161989 #29	ENSGT00390000007991 #30	ENSGT00530000063749.c.a #31	ENSGT00390000000475.sb #32	ENSGT00940000156757 #33	ENSGT00390000018061 #34	ENSGT00390000006565 #35	ENSGT00390000001700.a.a.e #36	ENSGT00940000160040.B #37
Marmotini_b	ANCESTRAL SPECIES	9	ENSGT00390000005235	ENSGT00390000013515	ENSGT00550000075067 #7	ENSGT00390000015418 #9	ENSGT01050000244898.a.a.a.a #10	ENSGT00940000154587.a.b #11	ENSGT00940000159179 #12	ENSGT00940000156470 #13	ENSGT00940000162150 #14	ENSGT00390000010706	ENSGT00940000155854 #15	ENSGT00940000163280 #16	ENSGT00940000158590 #18	ENSGT00940000160463 #19	ENSGT00950000183103.d.b #21	ENSGT00940000157036 #22	ENSGT00390000018299 #23	ENSGT00950000183005.b.d #24	ENSGT00940000162613 #25	ENSGT00940000162321 #26	ENSGT00940000160456 #27	ENSGT00940000161493 #28	ENSGT00940000161989 #29	ENSGT00390000007991 #30	ENSGT00530000063749.c.a #31	ENSGT00390000000475.sb #32	ENSGT00940000156757 #33	ENSGT00390000018061 #34	ENSGT00390000006565 #35	ENSGT00390000001700.a.a.e #36	ENSGT00940000160040.B #37
Squirrel	MODERN SPECIES	188	SF3A2 (ENSSTOG00000007495)	PLEKHJ1 (ENSSTOG00000026258)	DOT1L (ENSSTOG00000011582)	AP3D1 (ENSSTOG00000014617) #7	IZUMO4 (ENSSTOG00000027805) #9	MOB3A (ENSSTOG00000024368) #10	MKNK2 (ENSSTOG00000012438) #11	BTBD2 (ENSSTOG00000024537) #12	CSNK1G2 (ENSSTOG00000022495) #13	SCAMP4 (ENSSTOG00000028842) #14	ABHD17A (ENSSTOG00000004712) #15	ENSSTOG00000033169 #16	REXO1 (ENSSTOG00000003257) #18	ATP8B3 (ENSSTOG00000021249) #19	ONECUT3 (ENSSTOG00000027380) #21	TCF3 (ENSSTOG00000010293) #22	UQCR11 (ENSSTOG00000021241) #23	MBD3 (ENSSTOG00000015870) #24	MEX3D (ENSSTOG00000025299) #25	ENSSTOG00000028771 #26	ADAMTSL5 (ENSSTOG00000009230) #27	REEP6 (ENSSTOG00000033173) #28	PCSK4 (ENSSTOG00000021951) #29	ENSSTOG00000027373 #30	APC2 (ENSSTOG00000024833) #31	RPS15 (ENSSTOG00000006423) #32	DAZAP1 (ENSSTOG00000006401) #33	GAMT (ENSSTOG00000022698) #34	NDUFS7 (ENSSTOG00000020105) #35	PWWP3A (ENSSTOG00000000148) #36	EFNA2 (ENSSTOG00000026755) #37
Arctic ground squirrel	MODERN SPECIES	603																TCF3 (ENSUPAG00010013147) #22	UQCR11 (ENSUPAG00010013177) #23	MBD3 (ENSUPAG00010013180) #24	MEX3D (ENSUPAG00010013193) #25	ENSUPAG00010013203 #26	ADAMTSL5 (ENSUPAG00010013226) #27	PCSK4 (ENSUPAG00010013254) #29	REEP6 (ENSUPAG00010013266) #28	C19orf25 (ENSUPAG00010013296) #30	APC2 (ENSUPAG00010013306) #31	RPS15 (ENSUPAG00010013359) #32	DAZAP1 (ENSUPAG00010013372) #33	NDUFS7 (ENSUPAG00010013413) #35	GAMT (ENSUPAG00010013430) #34	PWWP3A (ENSUPAG00010013442) #36	EFNA2 (ENSUPAG00010013457) #37
Hystricomorpha	ANCESTRAL SPECIES	19	ENSGT00390000005235	ENSGT00390000013515	ENSGT00550000075067 #7	ENSGT00390000015418 #9	ENSGT01050000244898.a.a.a.a #10	ENSGT00940000154587.a.b #11	ENSGT00940000159179 #12	ENSGT00940000156470 #13	ENSGT00940000162150 #14	ENSGT00390000010706	ENSGT00940000155854 #15	ENSGT00940000163280 #16	ENSGT00940000158590 #18	ENSGT00940000160463 #19	ENSGT00950000183103.d.b #21	ENSGT00940000157036 #22	ENSGT00390000018299 #23	ENSGT00950000183005.b.d #24	ENSGT00940000162613 #25	ENSGT00940000162321 #26	ENSGT00940000160456 #27	ENSGT00940000161493 #28	ENSGT00940000161989 #29	ENSGT00390000007991 #30	ENSGT00530000063749.c.a #31	ENSGT00390000000475.sb #32	ENSGT00940000156757 #33	ENSGT00390000018061 #34	ENSGT00390000006565 #35	ENSGT00390000001700.a.a #36	ENSGT00940000160040.B #37
Naked mole-rat female	MODERN SPECIES	21	DOT1L (ENSHGLG00000013977)	AP3D1 (ENSHGLG00000018179) #7	IZUMO4 (ENSHGLG00000045153) #9	MOB3A (ENSHGLG00000033345) #10	ENSHGLG00000040780	MKNK2 (ENSHGLG00000045644) #11	BTBD2 (ENSHGLG00000013706) #12	ENSHGLG00000040593	CSNK1G2 (ENSHGLG00000013947) #13	SCAMP4 (ENSHGLG00000017794) #14	ABHD17A (ENSHGLG00000047885) #15	KLF16 (ENSHGLG00000032359) #16	REXO1 (ENSHGLG00000009363) #18	ATP8B3 (ENSHGLG00000012356) #19	ONECUT3 (ENSHGLG00000006096) #21	TCF3 (ENSHGLG00000006992) #22	UQCR11 (ENSHGLG00000042586) #23	MBD3 (ENSHGLG00000018023) #24	MEX3D (ENSHGLG00000043689) #25	ENSHGLG00000032262	ENSHGLG00000015198 #26	ADAMTSL5 (ENSHGLG00000005884) #27	REEP6 (ENSHGLG00000008175) #28	PCSK4 (ENSHGLG00000047722) #29	C19orf25 (ENSHGLG00000010653) #30	APC2 (ENSHGLG00000018187) #31	RPS15 (ENSHGLG00000046613) #32	DAZAP1 (ENSHGLG00000017518) #33	GAMT (ENSHGLG00000017891) #34	NDUFS7 (ENSHGLG00000035555) #35	PWWP3A (ENSHGLG00000007232) #36
Hystricomorpha_a	ANCESTRAL SPECIES	15	ENSGT00390000005235	ENSGT00390000013515	ENSGT00550000075067 #7	ENSGT00390000015418 #9	ENSGT01050000244898.a.a.a.a #10	ENSGT00940000154587.a.b #11	ENSGT00940000159179 #12	ENSGT00940000156470 #13	ENSGT00940000162150 #14	ENSGT00390000010706	ENSGT00940000155854 #15	ENSGT00940000163280 #16	ENSGT00940000158590 #18	ENSGT00940000160463 #19	ENSGT00950000183103.d.b #21	ENSGT00940000157036 #22	ENSGT00390000018299 #23	ENSGT00950000183005.b.d #24	ENSGT00940000162613 #25	ENSGT00940000162321 #26	ENSGT00940000160456 #27	ENSGT00940000161493 #28	ENSGT00940000161989 #29	ENSGT00390000007991 #30	ENSGT00530000063749.c.a #31	ENSGT00390000000475.sb.ec #32	ENSGT00940000156757 #33	ENSGT00390000018061 #34	ENSGT00390000006565 #35	ENSGT00390000001700.a.a #36	ENSGT00940000160040.B #37
Hystricomorpha_b	ANCESTRAL SPECIES	17	ENSGT00390000005235	ENSGT00390000013515	ENSGT00550000075067 #7	ENSGT00390000015418 #9	ENSGT01050000244898.a.a.a.a #10	ENSGT00940000154587.a.b #11	ENSGT00940000159179 #12	ENSGT00940000156470 #13	ENSGT00940000162150 #14	ENSGT00390000010706	ENSGT00940000155854 #15	ENSGT00940000163280 #16	ENSGT00940000158590 #18	ENSGT00940000160463 #19	ENSGT00950000183103.d.b #21	ENSGT00940000157036 #22	ENSGT00390000018299 #23	ENSGT00950000183005.b.d #24	ENSGT00940000162613 #25	ENSGT00940000162321 #26	ENSGT00940000160456 #27	ENSGT00940000161493 #28	ENSGT00940000161989 #29	ENSGT00390000007991 #30	ENSGT00530000063749.c.a #31	ENSGT00390000000475.sb.ec #32	ENSGT00940000156757 #33	ENSGT00390000018061 #34	ENSGT00390000006565 #35	ENSGT00390000001700.a.a #36	ENSGT00940000160040.B #37
Long-tailed chinchilla	MODERN SPECIES	202	SF3A2 (ENSCLAG00000008987)	PLEKHJ1 (ENSCLAG00000009663)	DOT1L (ENSCLAG00000014227)	AP3D1 (ENSCLAG00000011465) #7	IZUMO4 (ENSCLAG00000014821) #9	MOB3A (ENSCLAG00000014306) #10	MKNK2 (ENSCLAG00000011365) #11	BTBD2 (ENSCLAG00000011757) #12	CSNK1G2 (ENSCLAG00000013855) #13	SCAMP4 (ENSCLAG00000006742) #14	ABHD17A (ENSCLAG00000007148) #15	ENSCLAG00000007739 #16	REXO1 (ENSCLAG00000013515) #18	ATP8B3 (ENSCLAG00000010582) #19	MBD3 (ENSCLAG00000008294) #24	TCF3 (ENSCLAG00000012013) #22	UQCR11 (ENSCLAG00000015392) #23	ENSCLAG00000017344 #26	PCSK4 (ENSCLAG00000008632) #29	C19orf25 (ENSCLAG00000007022) #30	APC2 (ENSCLAG00000009831) #31	ENSCLAG00000007248 #32	DAZAP1 (ENSCLAG00000009221) #33	GAMT (ENSCLAG00000007529) #34	NDUFS7 (ENSCLAG00000006766) #35	PWWP3A (ENSCLAG00000007894) #36	EFNA2 (ENSCLAG00000010919) #37	FAM174C (ENSCLAG00000015738)	CIRBP (ENSCLAG00000016087)	ENSCLAG00000006930	ATP5F1D (ENSCLAG00000008150)
Degu	MODERN SPECIES	91	ENSODEG00000020086	AP3D1 (ENSODEG00000013899) #7	IZUMO4 (ENSODEG00000013972) #9	MOB3A (ENSODEG00000013513) #10	MKNK2 (ENSODEG00000013380) #11	BTBD2 (ENSODEG00000012981) #12	CSNK1G2 (ENSODEG00000012762) #13	SCAMP4 (ENSODEG00000015959) #14	ADAT3 (ENSODEG00000013157)	ABHD17A (ENSODEG00000014511) #15	ENSODEG00000013602 #16	REXO1 (ENSODEG00000013331) #18	ATP8B3 (ENSODEG00000013054) #19	ENSODEG00000014280 #21	ENSODEG00000012942	TCF3 (ENSODEG00000014758) #22	UQCR11 (ENSODEG00000013639) #23	MBD3 (ENSODEG00000012920) #24	MEX3D (ENSODEG00000012631) #25	ENSODEG00000013655 #26	ADAMTSL5 (ENSODEG00000013936) #27	REEP6 (ENSODEG00000014025) #28	PCSK4 (ENSODEG00000013088) #29	C19orf25 (ENSODEG00000012919) #30	APC2 (ENSODEG00000014479) #31	ENSODEG00000013650 #32	DAZAP1 (ENSODEG00000013797) #33	GAMT (ENSODEG00000012437) #34	NDUFS7 (ENSODEG00000012622) #35	PWWP3A (ENSODEG00000012451) #36	ENSODEG00000020201
Guinea pig	MODERN SPECIES	260																TCF3 (ENSCPOG00000023586) #22	UQCR11 (ENSCPOG00000010438) #23	MBD3 (ENSCPOG00000026210) #24	ENSCPOG00000009268 #26	ADAMTSL5 (ENSCPOG00000035531) #27	REEP6 (ENSCPOG00000006605) #28	PCSK4 (ENSCPOG00000009029) #29	C19orf25 (ENSCPOG00000036334) #30	APC2 (ENSCPOG00000021628) #31	ENSCPOG00000003968 #32	DAZAP1 (ENSCPOG00000020185) #33	GAMT (ENSCPOG00000036361) #34	NDUFS7 (ENSCPOG00000036781) #35	PWWP3A (ENSCPOG00000034775) #36	EFNA2 (ENSCPOG00000019291) #37	FAM174C (ENSCPOG00000038035)