Rodentia_A	ANCESTRAL SPECIES	7	ENSGT00940000156641 #7	ENSGT00940000158396 #8	ENSGT00940000157079.a #9	ENSGT00940000159044 #10	ENSGT00530000063113.C #11	ENSGT00390000014165.c.b #12	ENSGT00940000156866 #13	ENSGT00390000007125.b #14	ENSGT00390000014412 #15	ENSGT00940000158996 #16	ENSGT00390000005989.a #17	ENSGT00940000154979 #19	ENSGT00940000154998.a.a #20	ENSGT00640000091672	ENSGT00390000000483.a.a #21	ENSGT00940000159824 #22	ENSGT00940000155857 #23	ENSGT01030000234641.b.a.b.a.b #24	ENSGT00940000158761 #25	ENSGT00950000182938.a #26	ENSGT00940000158129 #27	ENSGT00940000153451.a.a.b #29	ENSGT00390000000537 #30	ENSGT00940000160017 #31	ENSGT00390000003426 #32	ENSGT00910000144291 #33	ENSGT00940000160186 #34	ENSGT00940000157197 #35	ENSGT00940000158553.b.b #36	ENSGT00940000161160 #37	ENSGT00940000162796
Hystricomorpha	ANCESTRAL SPECIES	30	ENSGT00390000007501	ENSGT00940000156641 #7	ENSGT00940000158396 #8	ENSGT00940000157079.a #9	ENSGT00940000159044 #10	ENSGT00530000063113.C #11	ENSGT00390000014165.c.b #12	ENSGT00940000156866 #13	ENSGT00390000007125.b #14	ENSGT00390000014412 #15	ENSGT00940000158996 #16	ENSGT00390000005989.a #17	ENSGT00940000154979 #19	ENSGT00940000154998.a.a #20	ENSGT00390000000483.a.a #21	ENSGT00940000159824 #22	ENSGT00940000155857 #23	ENSGT01030000234641.b.a.b.a.b #24	ENSGT00940000158761 #25	ENSGT00950000182938.a #26	ENSGT00940000158129 #27	ENSGT00940000153451.a.a.b.e #29	ENSGT00390000000537 #30	ENSGT00940000160017 #31	ENSGT00390000003426 #32	ENSGT00910000144291 #33	ENSGT00940000160186 #34	ENSGT00940000157197 #35	ENSGT00940000158553.b.b #36	ENSGT00940000161160 #37	ENSGT00940000162796
Hystricomorpha_a	ANCESTRAL SPECIES	28	ENSGT00390000007501	ENSGT00940000156641 #7	ENSGT00940000158396 #8	ENSGT00940000157079.a #9	ENSGT00940000159044 #10	ENSGT00530000063113.C #11	ENSGT00390000014165.c.b #12	ENSGT00940000156866 #13	ENSGT00390000007125.b #14	ENSGT00390000014412 #15	ENSGT00940000158996 #16	ENSGT00390000005989.a #17	ENSGT00940000154979 #19	ENSGT00940000154998.a.a #20	ENSGT00390000000483.a.a #21	ENSGT00940000159824 #22	ENSGT00940000155857 #23	ENSGT01030000234641.b.a.b.a.b #24	ENSGT00940000158761 #25	ENSGT00950000182938.a #26	ENSGT00940000158129 #27	ENSGT00940000153451.a.a.b.e #29	ENSGT00390000000537 #30	ENSGT00940000160017 #31	ENSGT00390000003426 #32	ENSGT00910000144291 #33	ENSGT00940000160186 #34	ENSGT00940000157197 #35	ENSGT00940000158553.b.b #36	ENSGT00940000161160 #37	ENSGT00940000162796
Hystricomorpha_b	ANCESTRAL SPECIES	19	ENSGT00390000007501	ENSGT00940000156641 #7	ENSGT00940000158396 #8	ENSGT00940000157079.a #9	ENSGT00940000159044 #10	ENSGT00530000063113.C #11	ENSGT00390000014165.c.b #12	ENSGT00940000156866 #13	ENSGT00390000007125.b #14	ENSGT00390000014412 #15	ENSGT00940000158996 #16	ENSGT00390000005989.a #17	ENSGT00940000154979 #19	ENSGT00940000154998.a.a #20	ENSGT00390000000483.a.a #21	ENSGT00940000159824 #22	ENSGT00940000155857 #23	ENSGT01030000234641.b.a.b.a.b #24	ENSGT00940000158761 #25	ENSGT00950000182938.a #26	ENSGT00940000158129 #27	ENSGT00940000153451.a.a.b.e #29	ENSGT00390000000537 #30	ENSGT00940000160017 #31	ENSGT00390000003426 #32	ENSGT00910000144291 #33	ENSGT00940000160186 #34	ENSGT00940000157197 #35	ENSGT00940000158553.b.b #36	ENSGT00940000161160 #37	ENSGT00940000162796
Long-tailed chinchilla	MODERN SPECIES	115	UBTD2 (ENSCLAG00000015134) #7	SH3PXD2B (ENSCLAG00000015389) #8	NEURL1B (ENSCLAG00000014210) #9	DUSP1 (ENSCLAG00000013473) #10	ERGIC1 (ENSCLAG00000014304) #11	RPL26L1 (ENSCLAG00000014524) #12	ATP6V0E1 (ENSCLAG00000014664) #13	CREBRF (ENSCLAG00000014588) #14	BNIP1 (ENSCLAG00000015919) #15	NKX2-5 (ENSCLAG00000013992) #16	STC2 (ENSCLAG00000013045) #17	ENSCLAG00000014408 #18	ENSCLAG00000016125 #19	CPEB4 (ENSCLAG00000013156) #20	NSG2 (ENSCLAG00000014316) #21	MSX2 (ENSCLAG00000014001) #22	DRD1 (ENSCLAG00000014757) #23	SFXN1 (ENSCLAG00000016110) #24	HRH2 (ENSCLAG00000015189) #25	CPLX2 (ENSCLAG00000013505) #26	THOC3 (ENSCLAG00000015924) #27	ENSCLAG00000014990 #28	ENSCLAG00000013733 #29	KIAA1191 (ENSCLAG00000013315) #30	ARL10 (ENSCLAG00000015048) #31	NOP16 (ENSCLAG00000015405) #32	ENSCLAG00000011930 #33	CLTB (ENSCLAG00000012751) #34	FAF2 (ENSCLAG00000013738) #35	RNF44 (ENSCLAG00000014006) #36	CDHR2 (ENSCLAG00000016212) #37
Degu	MODERN SPECIES	253	SH3PXD2B (ENSODEG00000001294) #8	ENSODEG00000001166	NEURL1B (ENSODEG00000001134) #9	DUSP1 (ENSODEG00000001126) #10	ERGIC1 (ENSODEG00000001101) #11	ATP6V0E1 (ENSODEG00000001083) #13	CREBRF (ENSODEG00000002364) #14	BNIP1 (ENSODEG00000002196) #15	NKX2-5 (ENSODEG00000002184) #16	STC2 (ENSODEG00000002102) #17	ENSODEG00000018739	ENSODEG00000002042	ENSODEG00000001973 #19	CPEB4 (ENSODEG00000001934) #20	NSG2 (ENSODEG00000001862) #21	MSX2 (ENSODEG00000001847) #22
Guinea pig	MODERN SPECIES	17	EFCAB9 (ENSCPOG00000026758)	UBTD2 (ENSCPOG00000034425) #7	SH3PXD2B (ENSCPOG00000039072) #8	NEURL1B (ENSCPOG00000040777) #9	DUSP1 (ENSCPOG00000013344) #10	ERGIC1 (ENSCPOG00000012183) #11	RPL26L1 (ENSCPOG00000012188) #12	ATP6V0E1 (ENSCPOG00000040227) #13	CREBRF (ENSCPOG00000014384) #14	BNIP1 (ENSCPOG00000006752) #15	NKX2-5 (ENSCPOG00000026347) #16	STC2 (ENSCPOG00000034039) #17	ENSCPOG00000026033 #19	CPEB4 (ENSCPOG00000015530) #20	NSG2 (ENSCPOG00000037038) #21	MSX2 (ENSCPOG00000038944) #22	DRD1 (ENSCPOG00000039492) #23	SFXN1 (ENSCPOG00000010321) #24	HRH2 (ENSCPOG00000003473) #25	CPLX2 (ENSCPOG00000033149) #26	THOC3 (ENSCPOG00000025805) #27	ENSCPOG00000023337 #29	KIAA1191 (ENSCPOG00000039242) #30	ARL10 (ENSCPOG00000001642) #31	NOP16 (ENSCPOG00000026072) #32	ENSCPOG00000034924 #33	CLTB (ENSCPOG00000035873) #34	FAF2 (ENSCPOG00000009319) #35	RNF44 (ENSCPOG00000023346) #36	CDHR2 (ENSCPOG00000026608) #37	GPRIN1 (ENSCPOG00000036169)
Naked mole-rat female	MODERN SPECIES	23	DUSP1 (ENSHGLG00000012633) #10	ERGIC1 (ENSHGLG00000050911) #11	ENSHGLG00000017100	ENSHGLG00000018219 #13	ENSHGLG00000021190	ENSHGLG00000017817 #14	BNIP1 (ENSHGLG00000018031) #15	NKX2-5 (ENSHGLG00000017269) #16	STC2 (ENSHGLG00000017592) #17	ENSHGLG00000041881 #19	CPEB4 (ENSHGLG00000008897) #20	C5orf47 (ENSHGLG00000040572)	ENSHGLG00000049916	ENSHGLG00000041184	NSG2 (ENSHGLG00000006062) #21	MSX2 (ENSHGLG00000017569) #22	ENSHGLG00000049074	ENSHGLG00000036934	DRD1 (ENSHGLG00000016781) #23	SFXN1 (ENSHGLG00000045847) #24	HRH2 (ENSHGLG00000018733) #25	CPLX2 (ENSHGLG00000033963) #26	THOC3 (ENSHGLG00000008773) #27	ENSHGLG00000034727	ENSHGLG00000036140	ENSHGLG00000006385 ##29	ENSHGLG00000040734 #29	ENSHGLG00000005591 #30	ARL10 (ENSHGLG00000005509) #31	NOP16 (ENSHGLG00000045329) #32	HIGD2A (ENSHGLG00000038701) #33
Sciuridae	ANCESTRAL SPECIES	33	ENSGT00940000156641 #7	ENSGT00940000158396 #8	ENSGT00940000157079.a #9	ENSGT00940000159044 #10	ENSGT00530000063113.C #11	ENSGT00390000014165.c.b #12	ENSGT00940000156866 #13	ENSGT00390000007125.b #14	ENSGT00390000014412 #15	ENSGT00940000158996 #16	ENSGT00390000005989.a #17	ENSGT00940000154979 #19	ENSGT00940000154998.a.a #20	ENSGT00640000091672	ENSGT00390000000483.a.a #21	ENSGT00940000159824 #22	ENSGT00940000155857 #23	ENSGT01030000234641.b.a.b.a.b #24	ENSGT00940000158761 #25	ENSGT00940000161175	ENSGT01100000263521.a.a.b.a.b.b	ENSGT00390000018500.a	ENSGT00570000079564	ENSGT00940000162246	ENSGT01090000260018.C.a	ENSGT01100000263486.a.b.a.b.b.a.a	ENSGT01090000260045.C.e.a.b	ENSGT00730000111648	ENSGT00390000010671	ENSGT01090000259995.a.a.a	ENSGT01090000260018.A.a.a.b.a
Marmotini	ANCESTRAL SPECIES	38	ENSGT00940000156641 #7	ENSGT00940000158396 #8	ENSGT00940000157079.a #9	ENSGT00940000159044 #10	ENSGT00530000063113.C #11	ENSGT00390000014165.c.b #12	ENSGT00940000156866 #13	ENSGT00390000007125.b #14	ENSGT00390000014412 #15	ENSGT00940000158996 #16	ENSGT00390000005989.a #17	ENSGT00940000154979 #19	ENSGT00940000154998.a.a #20	ENSGT00640000091672	ENSGT00390000000483.a.a #21	ENSGT00940000159824 #22	ENSGT00940000155857 #23	ENSGT01030000234641.b.a.b.a.b #24	ENSGT00940000158761 #25	ENSGT00940000161175	ENSGT01100000263521.a.a.b.a.b.b	ENSGT00390000018500.a	ENSGT01090000259995.b.b.b	ENSGT00940000162246	ENSGT01090000260045.C.e.a.b	ENSGT00730000111648	ENSGT00390000010671	ENSGT01090000259995.a.a.a	ENSGT01090000259995.a.a.b.a.b.b	ENSGT01090000260018.A.a.a.b.a	ENSGT01100000263570.A.r.c.b
Marmotini_b	ANCESTRAL SPECIES	127	ENSGT00940000156641 #7	ENSGT00940000158396 #8	ENSGT00940000157079.a #9	ENSGT00940000159044 #10	ENSGT00530000063113.C #11	ENSGT00390000014165.c.b #12	ENSGT00940000156866 #13	ENSGT00390000007125.b #14	ENSGT00390000014412 #15	ENSGT00940000158996 #16	ENSGT00390000005989.a #17	ENSGT00940000154979 #19	ENSGT00940000154998.a.a #20	ENSGT00640000091672	ENSGT00390000000483.a.a #21	ENSGT00940000159824 #22	ENSGT00940000155857 #23	ENSGT01030000234641.b.a.b.a.b #24	ENSGT00940000158761 #25	ENSGT00940000161175	ENSGT01100000263521.a.a.b.a.b.b	ENSGT00390000018500.a	ENSGT00390000010671	ENSGT01090000259995.a.a.a
Squirrel	MODERN SPECIES	209	EFCAB9 (ENSSTOG00000020218)	UBTD2 (ENSSTOG00000014298) #7	SH3PXD2B (ENSSTOG00000028124) #8	NEURL1B (ENSSTOG00000025420) #9	DUSP1 (ENSSTOG00000023698) #10	ERGIC1 (ENSSTOG00000025246) #11	RPL26L1 (ENSSTOG00000026876) #12	ATP6V0E1 (ENSSTOG00000025255) #13	CREBRF (ENSSTOG00000004368) #14	BNIP1 (ENSSTOG00000004393) #15	NKX2-5 (ENSSTOG00000004407) #16	STC2 (ENSSTOG00000004413) #17	ENSSTOG00000030887 #19	CPEB4 (ENSSTOG00000020645) #20	NSG2 (ENSSTOG00000011148) #21	MSX2 (ENSSTOG00000000399) #22	DRD1 (ENSSTOG00000029229) #23	SFXN1 (ENSSTOG00000028251) #24	HRH2 (ENSSTOG00000007422) #25	ZNF692 (ENSSTOG00000023210)	ENSSTOG00000027630	SH3BP5L (ENSSTOG00000022558)	ENSSTOG00000026307	ENSSTOG00000034328	ENSSTOG00000027395	ENSSTOG00000025133	ENSSTOG00000023132	ENSSTOG00000026543	ENSSTOG00000027260	ENSSTOG00000028591	ENSSTOG00000024525
Arctic ground squirrel	MODERN SPECIES	783																MSX2 (ENSUPAG00010005415) #22	ENSUPAG00010005411	ENSUPAG00010005401
Alpin marmot	MODERN SPECIES	31	STK10 (ENSMMMG00000010286)	ENSMMMG00000010272	UBTD2 (ENSMMMG00000010264) #7	SH3PXD2B (ENSMMMG00000010235) #8	NEURL1B (ENSMMMG00000010222) #9	ENSMMMG00000010217 #10	ERGIC1 (ENSMMMG00000010202) #11	RPL26L1 (ENSMMMG00000010196) #12	CREBRF (ENSMMMG00000010165) #14	BNIP1 (ENSMMMG00000010131) #15	NKX2-5 (ENSMMMG00000010122) #16	STC2 (ENSMMMG00000010105) #17	ENSMMMG00000010091 #19	CPEB4 (ENSMMMG00000010044) #20	NSG2 (ENSMMMG00000009989) #21	MSX2 (ENSMMMG00000009968) #22	DRD1 (ENSMMMG00000009915) #23	SFXN1 (ENSMMMG00000009889) #24	HRH2 (ENSMMMG00000009886) #25	ZNF692 (ENSMMMG00000009869)	ENSMMMG00000009866	SH3BP5L (ENSMMMG00000009857)	OR2AJ1 (ENSMMMG00000009826)	ENSMMMG00000009785	ENSMMMG00000009765	ENSMMMG00000009757	ENSMMMG00000009753	ENSMMMG00000009740	ENSMMMG00000009704	ENSMMMG00000009679	ENSMMMG00000009674
Eurasian red squirrel	MODERN SPECIES	15	UBTD2 (ENSSVLG00005013934) #7	SH3PXD2B (ENSSVLG00005013894) #8	NEURL1B (ENSSVLG00005013785) #9	DUSP1 (ENSSVLG00005013587) #10	ERGIC1 (ENSSVLG00005013430) #11	RPL26L1 (ENSSVLG00005013228) #12	ATP6V0E1 (ENSSVLG00005013162) #13	CREBRF (ENSSVLG00005013005) #14	BNIP1 (ENSSVLG00005012932) #15	NKX2-5 (ENSSVLG00005012867) #16	STC2 (ENSSVLG00005012797) #17	ENSSVLG00005012611 #19	CPEB4 (ENSSVLG00005012332) #20	C5orf47 (ENSSVLG00005012218)	NSG2 (ENSSVLG00005012146) #21	MSX2 (ENSSVLG00005012101) #22	DRD1 (ENSSVLG00005012085) #23	ENSSVLG00005011926 #24	HRH2 (ENSSVLG00005011848) #25	ZNF692 (ENSSVLG00005011774)	ZNF672 (ENSSVLG00005011715)	SH3BP5L (ENSSVLG00005011666)	LYPD8 (ENSSVLG00005011575)	ENSSVLG00005011500	ENSSVLG00005011447	ENSSVLG00005011420	ENSSVLG00005011399	ENSSVLG00005011330	ENSSVLG00005011257	ENSSVLG00005011237	ENSSVLG00005011194