Rodentia_A	ANCESTRAL SPECIES	13	ENSGT00730000111135 #7	ENSGT00390000013474.a #8	ENSGT00390000004153 #9	ENSGT00910000144296 #10	ENSGT00940000156851 #11	ENSGT01030000234635.a.b.a.b.b.a.a #12	ENSGT00940000156582 #13	ENSGT00940000154298.a.a #14	ENSGT00390000001859 #15	ENSGT00940000161025 #16	ENSGT00940000161457 #17	ENSGT00940000159938 #18	ENSGT00940000161308 #19	ENSGT00940000158266 #20	ENSGT00940000161503 #21	ENSGT00940000161653 #22	ENSGT00940000157270 #23	ENSGT00940000160027 #24	ENSGT00940000161892 #25	ENSGT00950000182919.C #26	ENSGT00940000153147.m.a.a.a.b.a.b #28	ENSGT00950000182892.a.a.b #29	ENSGT00940000156112 #30	ENSGT00390000010116 #31	ENSGT00940000162151 #32	ENSGT00940000157883.a.b.e.a	ENSGT00680000100059 #33	ENSGT00940000156791 #34	ENSGT00940000157618 #35	ENSGT00950000183140.a.b #36	ENSGT00940000159964 #37
Hystricomorpha	ANCESTRAL SPECIES	20	ENSGT00730000111135 #7	ENSGT00390000013474.a #8	ENSGT00390000004153 #9	ENSGT00910000144296.t #10	ENSGT00940000156851 #11	ENSGT01030000234635.a.b.a.b.b.a.a #12	ENSGT00940000156582 #13	ENSGT00940000154298.a.a #14	ENSGT00390000001859 #15	ENSGT00940000161025 #16	ENSGT00940000161457 #17	ENSGT00940000159938 #18	ENSGT00940000161308 #19	ENSGT00940000158266 #20	ENSGT00940000161503 #21	ENSGT00940000161653 #22	ENSGT00940000157270 #23	ENSGT00940000160027 #24	ENSGT00940000161892 #25	ENSGT00950000182919.C #26	ENSGT00940000154808.a.a	ENSGT00950000182892.a.a.b #29	ENSGT00940000156112 #30	ENSGT00390000010116 #31	ENSGT00940000162151 #32	ENSGT00680000100059 #33	ENSGT00940000156791 #34	ENSGT00940000157618 #35	ENSGT00950000183140.a.b #36	ENSGT00940000159964 #37	ENSGT00940000155850
Hystricomorpha_a	ANCESTRAL SPECIES	17	ENSGT00730000111135 #7	ENSGT00390000013474.a #8	ENSGT00390000004153 #9	ENSGT00910000144296.t #10	ENSGT00940000156851 #11	ENSGT01030000234635.a.b.a.b.b.a.a #12	ENSGT00940000156582 #13	ENSGT00940000154298.a.a #14	ENSGT00390000001859 #15	ENSGT00940000161025 #16	ENSGT00940000161457 #17	ENSGT00940000159938 #18	ENSGT00940000161308 #19	ENSGT00940000158266 #20	ENSGT00940000161503 #21	ENSGT00940000161653 #22	ENSGT00940000157270 #23	ENSGT00940000160027 #24	ENSGT00940000161892 #25	ENSGT00950000182919.C #26	ENSGT00940000154808.a.a	ENSGT00950000182892.a.a.b #29	ENSGT00940000156112 #30	ENSGT00390000010116 #31	ENSGT00940000162151 #32	ENSGT00680000100059 #33	ENSGT00940000156791 #34	ENSGT00940000157618 #35	ENSGT00950000183140.a.b #36	ENSGT00940000159964 #37	ENSGT00940000155850
Guinea pig	MODERN SPECIES	3	CIR1 (ENSCPOG00000010275) #7	SCRN3 (ENSCPOG00000010281) #8	GPR155 (ENSCPOG00000010286) #9	ENSCPOG00000034131 #10	CHRNA1 (ENSCPOG00000000036) #11	ENSCPOG00000002789 #12	ATF2 (ENSCPOG00000004637) #13	ATP5MC3 (ENSCPOG00000040161) #14	LNPK (ENSCPOG00000010971) #15	EVX2 (ENSCPOG00000006711) #16	HOXD13 (ENSCPOG00000006722) #17	HOXD12 (ENSCPOG00000005496) #18	ENSCPOG00000019766 #19	HOXD10 (ENSCPOG00000011368) #20	HOXD9 (ENSCPOG00000015006) #21	HOXD8 (ENSCPOG00000015005) #22	HOXD4 (ENSCPOG00000036552) #23	HOXD3 (ENSCPOG00000034932) #24	HOXD1 (ENSCPOG00000005509) #25	MTX2 (ENSCPOG00000011099) #26	ENSCPOG00000027250 #27	ENSCPOG00000004251 #28	NFE2L2 (ENSCPOG00000031261) #29	AGPS (ENSCPOG00000000679) #30	ENSCPOG00000000681 #31	PDE11A (ENSCPOG00000000682) #32	RBM45 (ENSCPOG00000000684) #33	OSBPL6 (ENSCPOG00000002816) #34	ENSCPOG00000003900 #35	PJVK (ENSCPOG00000037882) #36	FKBP7 (ENSCPOG00000037159) #37
Hystricomorpha_b	ANCESTRAL SPECIES	24	ENSGT00730000111135 #7	ENSGT00390000013474.a #8	ENSGT00390000004153 #9	ENSGT00910000144296.t #10	ENSGT00940000156851 #11	ENSGT01030000234635.a.b.a.b.b.a.a #12	ENSGT00940000156582 #13	ENSGT00940000154298.a.a #14	ENSGT00390000001859 #15	ENSGT00940000161025 #16	ENSGT00940000161457 #17	ENSGT00940000159938 #18	ENSGT00940000161308 #19	ENSGT00940000158266 #20	ENSGT00940000161503 #21	ENSGT00940000161653 #22	ENSGT00940000157270 #23	ENSGT00940000160027 #24	ENSGT00940000161892 #25	ENSGT00950000182919.C #26	ENSGT00940000154808.a.a	ENSGT00950000182892.a.a.b #29	ENSGT00940000156112 #30	ENSGT00390000010116 #31	ENSGT00940000162151 #32	ENSGT00680000100059 #33	ENSGT00940000156791 #34	ENSGT00940000157618 #35	ENSGT00950000183140.a.b #36	ENSGT00940000159964 #37	ENSGT00940000155850
Long-tailed chinchilla	MODERN SPECIES	110	KLKB1 (ENSCLAG00000016848)	F11 (ENSCLAG00000012318)	MTNR1A (ENSCLAG00000015269)	FAT1 (ENSCLAG00000013169)	ENSCLAG00000015923	ZFP42 (ENSCLAG00000011822)	TRIML2 (ENSCLAG00000011159)	TRIML1 (ENSCLAG00000014494)	LNPK (ENSCLAG00000015033) #15	EVX2 (ENSCLAG00000014389) #16	HOXD13 (ENSCLAG00000013095) #17	HOXD12 (ENSCLAG00000013058) #18	ENSCLAG00000012563 #19	HOXD10 (ENSCLAG00000012482) #20	HOXD9 (ENSCLAG00000012447) #21	ENSCLAG00000011108 #22	HOXD4 (ENSCLAG00000014461) #23	ENSCLAG00000013605 #24	HOXD1 (ENSCLAG00000012505) #25	MTX2 (ENSCLAG00000011598) #26	ENSCLAG00000011088	HNRNPA3 (ENSCLAG00000012855) #28	NFE2L2 (ENSCLAG00000013122) #29	ENSCLAG00000012626	ENSCLAG00000013627	AGPS (ENSCLAG00000013279) #30	ENSCLAG00000017938 #31	ENSCLAG00000013714 #31	PDE11A (ENSCLAG00000013013) #32	RBM45 (ENSCLAG00000015215) #33	OSBPL6 (ENSCLAG00000011433) #34
Degu	MODERN SPECIES	106	ENSODEG00000008975 ##10	ENSODEG00000019598	CHRNA1 (ENSODEG00000010458) #11	CHN1 (ENSODEG00000008560) #12	ATF2 (ENSODEG00000010947) #13	ENSODEG00000010951 #14	ENSODEG00000010385	LNPK (ENSODEG00000010046) #15	ENSODEG00000008992	EVX2 (ENSODEG00000010771) #16	HOXD13 (ENSODEG00000008793) #17	HOXD12 (ENSODEG00000008376) #18	ENSODEG00000010934 #19	HOXD10 (ENSODEG00000010382) #20	HOXD9 (ENSODEG00000008626) #21	ENSODEG00000010496 #22	HOXD4 (ENSODEG00000010297) #23	HOXD3 (ENSODEG00000009722) #24	HOXD1 (ENSODEG00000008961) #25	ENSODEG00000008879	MTX2 (ENSODEG00000008062) #26	ENSODEG00000009697	ENSODEG00000009265	NFE2L2 (ENSODEG00000010043) #29	AGPS (ENSODEG00000008272) #30	ENSODEG00000020058 #31	ENSODEG00000019592 #31	PDE11A (ENSODEG00000010682) #32	ENSODEG00000019574	RBM45 (ENSODEG00000007959) #33	ENSODEG00000019659
Naked mole-rat female	MODERN SPECIES	22	GPR155 (ENSHGLG00000012529) #9	ENSHGLG00000036822 ##10	ENSHGLG00000039411 ##10	CHRNA1 (ENSHGLG00000015432) #11	ENSHGLG00000016114 #12	ENSHGLG00000018805 #13	Atp5mc3 (ENSHGLG00000033165) #14	ENSHGLG00000040802	LNPK (ENSHGLG00000004015) #15	EVX2 (ENSHGLG00000004218) #16	HOXD13 (ENSHGLG00000050884) #17	HOXD12 (ENSHGLG00000005403) #18	HOXD11 (ENSHGLG00000034527) #19	HOXD9 (ENSHGLG00000007185) #21	HOXD10 (ENSHGLG00000033462) #20	ENSHGLG00000003577 #22	HOXD4 (ENSHGLG00000037842) #23	HOXD3 (ENSHGLG00000003761) #24	HOXD1 (ENSHGLG00000004072) #25	MTX2 (ENSHGLG00000004177) #26	ENSHGLG00000012734	ENSHGLG00000046644	ENSHGLG00000036655	HNRNPA3 (ENSHGLG00000005451) #28	NFE2L2 (ENSHGLG00000006475) #29	AGPS (ENSHGLG00000007541) #30	ENSHGLG00000036841 #31	TTC30B (ENSHGLG00000042840) #31	ENSHGLG00000005226 #32	ENSHGLG00000006609	ENSHGLG00000007342 #33
Sciuridae	ANCESTRAL SPECIES	10	ENSGT00730000111135 #7	ENSGT00390000013474.a #8	ENSGT00390000004153 #9	ENSGT00910000144296 #10	ENSGT00940000156851 #11	ENSGT01030000234635.a.b.a.b.b.a.a #12	ENSGT00940000156582 #13	ENSGT00940000154298.a.a.xb #14	ENSGT00390000001859 #15	ENSGT00940000161025 #16	ENSGT00940000161457 #17	ENSGT00940000159938 #18	ENSGT00940000161308 #19	ENSGT00940000158266 #20	ENSGT00940000161503 #21	ENSGT00940000161653 #22	ENSGT00940000157270 #23	ENSGT00940000160027 #24	ENSGT00940000161892 #25	ENSGT00950000182919.C #26	ENSGT00940000153147.m.a.a.a.b.a.b #28	ENSGT00950000182892.a.a.b #29	ENSGT00940000156112 #30	ENSGT00390000010116 #31	ENSGT00940000162151 #32	ENSGT00940000157883.a.b.e.a	ENSGT00680000100059 #33	ENSGT00940000156791 #34	ENSGT00940000157618 #35	ENSGT00950000183140.a.b #36	ENSGT00940000159964 #37
Marmotini	ANCESTRAL SPECIES	2	ENSGT00730000111135 #7	ENSGT00390000013474.a #8	ENSGT00390000004153 #9	ENSGT00910000144296 #10	ENSGT00940000156851 #11	ENSGT01030000234635.a.b.a.b.b.a.a #12	ENSGT00940000156582 #13	ENSGT00940000154298.a.a.xb.a #14	ENSGT00390000001859 #15	ENSGT00940000161025 #16	ENSGT00940000161457 #17	ENSGT00940000159938 #18	ENSGT00940000161308 #19	ENSGT00940000158266 #20	ENSGT00940000161503 #21	ENSGT00940000161653 #22	ENSGT00940000157270 #23	ENSGT00940000160027 #24	ENSGT00940000161892 #25	ENSGT00950000182919.C #26	ENSGT00940000153147.m.a.a.a.b.a.b #28	ENSGT00950000182892.a.a.b #29	ENSGT00940000156112 #30	ENSGT00390000010116.gb #31	ENSGT00940000162151 #32	ENSGT00940000157883.a.b.e.a	ENSGT00680000100059 #33	ENSGT00940000156791 #34	ENSGT00940000157618 #35	ENSGT00950000183140.a.b #36	ENSGT00940000159964 #37
Alpin marmot	MODERN SPECIES	5	ENSMMMG00000023702 #8	GPR155 (ENSMMMG00000023705) #9	ENSMMMG00000023714	WIPF1 (ENSMMMG00000023716) #10	CHRNA1 (ENSMMMG00000023717) #11	CHN1 (ENSMMMG00000023718) #12	ENSMMMG00000023730	ATF2 (ENSMMMG00000023733) #13	ENSMMMG00000023748 #14	LNPK (ENSMMMG00000023755) #15	HOXD13 (ENSMMMG00000023759) #17	HOXD12 (ENSMMMG00000023760) #18	ENSMMMG00000023762 #19	HOXD10 (ENSMMMG00000023763) #20	HOXD9 (ENSMMMG00000023764) #21	ENSMMMG00000023765 #22	HOXD4 (ENSMMMG00000023767) #23	HOXD3 (ENSMMMG00000023768) #24	MTX2 (ENSMMMG00000023772) #26	NFE2L2 (ENSMMMG00000023776) #29	AGPS (ENSMMMG00000023778) #30
Marmotini_b	ANCESTRAL SPECIES	10	ENSGT00730000111135 #7	ENSGT00390000013474.a #8	ENSGT00390000004153 #9	ENSGT00910000144296 #10	ENSGT00940000156851 #11	ENSGT01030000234635.a.b.a.b.b.a.a #12	ENSGT00940000156582 #13	ENSGT00940000154298.a.a.xb.a #14	ENSGT00390000001859 #15	ENSGT00940000161025 #16	ENSGT00940000161457 #17	ENSGT00940000159938 #18	ENSGT00940000161308 #19	ENSGT00940000158266 #20	ENSGT00940000161503 #21	ENSGT00940000161653 #22	ENSGT00940000157270 #23	ENSGT00940000160027 #24	ENSGT00940000161892 #25	ENSGT00950000182919.C #26	ENSGT00940000153147.m.a.a.a.b.a.b #28	ENSGT00950000182892.a.a.b #29	ENSGT00940000156112 #30	ENSGT00390000010116.gb #31	ENSGT00940000162151 #32	ENSGT00940000157883.a.b.e.a	ENSGT00680000100059 #33	ENSGT00940000156791 #34	ENSGT00940000157618 #35	ENSGT00950000183140.a.b #36	ENSGT00940000159964 #37
Squirrel	MODERN SPECIES	109	OLA1 (ENSSTOG00000015547)	CIR1 (ENSSTOG00000001233) #7	SCRN3 (ENSSTOG00000001236) #8	GPR155 (ENSSTOG00000001239) #9	ENSSTOG00000004271 #10	CHRNA1 (ENSSTOG00000004281) #11	CHN1 (ENSSTOG00000004301) #12	ATF2 (ENSSTOG00000014079) #13	ENSSTOG00000013572 #14	LNPK (ENSSTOG00000014498) #15	EVX2 (ENSSTOG00000014512) #16	HOXD13 (ENSSTOG00000004117) #17	HOXD12 (ENSSTOG00000004918) #18	HOXD10 (ENSSTOG00000003935) #20	HOXD9 (ENSSTOG00000026761) #21	ENSSTOG00000023453 #22	HOXD4 (ENSSTOG00000029055) #23	HOXD3 (ENSSTOG00000014680) #24	HOXD1 (ENSSTOG00000012230) #25	MTX2 (ENSSTOG00000014688) #26	ENSSTOG00000030884	HNRNPA3 (ENSSTOG00000025125) #28	NFE2L2 (ENSSTOG00000000313) #29	AGPS (ENSSTOG00000012623) #30	ENSSTOG00000003267 #31	PDE11A (ENSSTOG00000012639) #32	ENSSTOG00000008853	RBM45 (ENSSTOG00000002708) #33	OSBPL6 (ENSSTOG00000006092) #34	PRKRA (ENSSTOG00000006156) #35	PJVK (ENSSTOG00000028411) #36
Arctic ground squirrel	MODERN SPECIES	323				WIPF1 (ENSUPAG00010020649) #10	CHRNA1 (ENSUPAG00010020641) #11	CHN1 (ENSUPAG00010020575) #12	ATF2 (ENSUPAG00010020491) #13	ENSUPAG00010020485 #14	LNPK (ENSUPAG00010020452) #15	EVX2 (ENSUPAG00010020442) #16	HOXD13 (ENSUPAG00010020441) #17	HOXD12 (ENSUPAG00010020440) #18	HOXD11 (ENSUPAG00010020439) #19	HOXD10 (ENSUPAG00010020434) #20	HOXD9 (ENSUPAG00010020431) #21	HOXD8 (ENSUPAG00010020425) #22	HOXD4 (ENSUPAG00010020416) #23	HOXD3 (ENSUPAG00010020410) #24	HOXD1 (ENSUPAG00010020407) #25	ENSUPAG00010020400	MTX2 (ENSUPAG00010020394) #26
Eurasian red squirrel	MODERN SPECIES	12	SCRN3 (ENSSVLG00005002703) #8	GPR155 (ENSSVLG00005002750) #9	WIPF1 (ENSSVLG00005002786) #10	CHRNA1 (ENSSVLG00005002856) #11	CHN1 (ENSSVLG00005003041) #12	ENSSVLG00005003279 #13	ENSSVLG00005003430 #14	ENSSVLG00005003466	LNPK (ENSSVLG00005003500) #15	EVX2 (ENSSVLG00005003539) #16	HOXD13 (ENSSVLG00005003554) #17	HOXD12 (ENSSVLG00005003565) #18	HOXD11 (ENSSVLG00005003581) #19	HOXD10 (ENSSVLG00005003599) #20	HOXD9 (ENSSVLG00005003618) #21	HOXD8 (ENSSVLG00005003645) #22	HOXD4 (ENSSVLG00005003676) #23	HOXD1 (ENSSVLG00005003762) #25	MTX2 (ENSSVLG00005003812) #26	ENSSVLG00005003881 #28	ENSSVLG00005003903 #29	AGPS (ENSSVLG00005003959) #30	ENSSVLG00005003996 #31	ENSSVLG00005004006 #31	ENSSVLG00005004018 #31	PDE11A (ENSSVLG00005004050) #32	ENSSVLG00005004113	RBM45 (ENSSVLG00005004137) #33	OSBPL6 (ENSSVLG00005004465) #34	PRKRA (ENSSVLG00005005027) #35	PJVK (ENSSVLG00005005095) #36