Rodentia_A	ANCESTRAL SPECIES	5	ENSGT00940000154143.f #7	ENSGT01050000244950.a.a.a #8	ENSGT00940000158837 #9	ENSGT00940000154578.A.d #10	ENSGT00940000154311.a.b #11	ENSGT00940000159893 #12	ENSGT01030000234625.D #13	ENSGT00940000156712 #14	ENSGT00940000156797 #15	ENSGT00940000158470 #16	ENSGT00940000158054 #17	ENSGT00530000062962.a.a #18	ENSGT00940000157879 #19	ENSGT00390000017916 #20	ENSGT00390000012731.a.b #21	ENSGT00940000155248 #22	ENSGT00390000001856 #23	ENSGT00900000143497	ENSGT01090000259987.b.b.a.b #24	ENSGT00940000154419.b	ENSGT00710000106813.A #26	ENSGT00940000160130 #27	ENSGT00940000157406 #28	ENSGT00930000151029 #29	ENSGT00940000158398	ENSGT00390000008796	ENSGT00390000016972.b.j.a.a	ENSGT00730000111263	ENSGT00940000158330	ENSGT00390000012807	ENSGT00940000160658
Hystricomorpha	ANCESTRAL SPECIES	18	ENSGT00940000154143.f #7	ENSGT01050000244950.a.a.a #8	ENSGT00940000158837 #9	ENSGT00940000154578.A.d #10	ENSGT00940000154311.a.b #11	ENSGT00940000159893 #12	ENSGT01030000234625.D #13	ENSGT00940000156712 #14	ENSGT00940000156797 #15	ENSGT00940000158470 #16	ENSGT00940000158054 #17	ENSGT00530000062962.a.a #18	ENSGT00940000157879 #19	ENSGT00390000017916 #20	ENSGT00390000012731.a.b #21	ENSGT00940000155248 #22	ENSGT00390000001856 #23	ENSGT00900000143497	ENSGT01090000259987.b.b.a.b #24	ENSGT00940000154419.b	ENSGT00710000106813.A #26	ENSGT00940000160130 #27	ENSGT00940000157406 #28	ENSGT00930000151029 #29	ENSGT01020000230359.B #30	ENSGT01020000230359.A #31	ENSGT00530000063779.B #33	ENSGT00950000183072.a #34	ENSGT00390000005979.a #35	ENSGT00390000008686.c #36	ENSGT00920000149157 #37
Hystricomorpha_a	ANCESTRAL SPECIES	36	ENSGT00940000154143.f #7	ENSGT01050000244950.a.a.a #8	ENSGT00940000158837 #9	ENSGT00940000154578.A.d #10	ENSGT00940000154311.a.b #11	ENSGT00940000159893 #12	ENSGT01030000234625.D #13	ENSGT00940000156712 #14	ENSGT00940000156797 #15	ENSGT00940000158470 #16	ENSGT00940000158054 #17	ENSGT00530000062962.a.a #18	ENSGT00940000157879 #19	ENSGT00390000017916 #20	ENSGT00390000012731.a.b #21	ENSGT00940000155248 #22	ENSGT00390000001856 #23	ENSGT01090000259987.b.b.a.b #24	ENSGT00710000106813.A #26	ENSGT00940000160130 #27	ENSGT00940000157406 #28	ENSGT00930000151029 #29	ENSGT01020000230359.B #30	ENSGT01020000230359.A #31	ENSGT00530000063779.B #33	ENSGT00950000183072.a #34	ENSGT00390000005979.a #35	ENSGT00390000008686.c #36	ENSGT00920000149157 #37	ENSGT00940000161553	ENSGT00940000154992.b
Hystricomorpha_b	ANCESTRAL SPECIES	32	ENSGT00940000154143.f #7	ENSGT01050000244950.a.a.a #8	ENSGT00940000158837 #9	ENSGT00940000154578.A.d #10	ENSGT00940000154311.a.b #11	ENSGT00940000159893 #12	ENSGT01030000234625.D #13	ENSGT00940000156712 #14	ENSGT00940000156797 #15	ENSGT00940000158470 #16	ENSGT00940000158054 #17	ENSGT00530000062962.a.a #18	ENSGT00940000157879 #19	ENSGT00390000017916 #20	ENSGT00390000012731.a.b #21	ENSGT00940000155248 #22	ENSGT00390000001856 #23	ENSGT01090000259987.b.b.a.b #24	ENSGT00710000106813.A #26	ENSGT00940000160130 #27	ENSGT00940000157406 #28	ENSGT00930000151029 #29	ENSGT01020000230359.B #30	ENSGT01020000230359.A #31	ENSGT00530000063779.B #33	ENSGT00950000183072.a #34	ENSGT00390000005979.a #35	ENSGT00390000008686.c #36	ENSGT00920000149157 #37	ENSGT00940000161553	ENSGT00940000154992.b
Long-tailed chinchilla	MODERN SPECIES	134	WDR5B (ENSCLAG00000017883) #7	KPNA1 (ENSCLAG00000010516) #8	PARP9 (ENSCLAG00000009939) #9	DTX3L (ENSCLAG00000010981) #10	PARP14 (ENSCLAG00000009862) #11	HSPBAP1 (ENSCLAG00000010939) #12	SLC49A4 (ENSCLAG00000012057) #13	SEMA5B (ENSCLAG00000014814) #14	PDIA5 (ENSCLAG00000015554) #15	SEC22A (ENSCLAG00000013594) #16	ADCY5 (ENSCLAG00000009501) #17	HACD2 (ENSCLAG00000010576) #18	MYLK (ENSCLAG00000011810) #19	CCDC14 (ENSCLAG00000014825) #20	ENSCLAG00000012814 #21	KALRN (ENSCLAG00000009409) #22	UMPS (ENSCLAG00000014945) #23	ITGB5 (ENSCLAG00000012736) #24	ENSCLAG00000010170 #25	ENSCLAG00000009772 #26	SLC12A8 (ENSCLAG00000011051) #27	ZNF148 (ENSCLAG00000011127) #28	SNX4 (ENSCLAG00000015678) #29	CCR8 (ENSCLAG00000014415) #30	CX3CR1 (ENSCLAG00000014102) #31	ENSCLAG00000014747 #32	XIRP1 (ENSCLAG00000017823) #33	CSRNP1 (ENSCLAG00000010879) #34	TTC21A (ENSCLAG00000013763) #35	GORASP1 (ENSCLAG00000010087) #36	WDR48 (ENSCLAG00000017373) #37
Degu	MODERN SPECIES	188	PARP14 (ENSODEG00000008430) #11	HSPBAP1 (ENSODEG00000007295) #12	SLC49A4 (ENSODEG00000011339) #13	SEMA5B (ENSODEG00000008076) #14	PDIA5 (ENSODEG00000006957) #15	SEC22A (ENSODEG00000006813) #16	ADCY5 (ENSODEG00000006735) #17	ENSODEG00000008102	ENSODEG00000007320 #18	ENSODEG00000007054	ENSODEG00000019662	MYLK (ENSODEG00000007628) #19	ENSODEG00000007317	CCDC14 (ENSODEG00000007691) #20	ENSODEG00000007511 #21	KALRN (ENSODEG00000006501) #22	ENSODEG00000007279	UMPS (ENSODEG00000008657) #23	ITGB5 (ENSODEG00000008371) #24	ENSODEG00000007015 #26	ENSODEG00000006678	ENSODEG00000019397	SLC12A8 (ENSODEG00000008849) #27	ZNF148 (ENSODEG00000006659) #28	ENSODEG00000006296	ENSODEG00000007249 #29	ENSODEG00000006693	CX3CR1 (ENSODEG00000019304) #31	CSRNP1 (ENSODEG00000006413) #34	TTC21A (ENSODEG00000006879) #35	GORASP1 (ENSODEG00000009484) #36
Guinea pig	MODERN SPECIES	87	ENSCPOG00000005713 #7	KPNA1 (ENSCPOG00000007925) #8	PARP9 (ENSCPOG00000022546) #9	DTX3L (ENSCPOG00000027004) #10	PARP14 (ENSCPOG00000020020) #11	HSPBAP1 (ENSCPOG00000000075) #12	SLC49A4 (ENSCPOG00000008927) #13	SEMA5B (ENSCPOG00000022428) #14	PDIA5 (ENSCPOG00000009168) #15	SEC22A (ENSCPOG00000009176) #16	ADCY5 (ENSCPOG00000013929) #17	HACD2 (ENSCPOG00000033371) #18	MYLK (ENSCPOG00000004740) #19	CCDC14 (ENSCPOG00000014386) #20	ENSCPOG00000026523 #21	KALRN (ENSCPOG00000012451) #22	UMPS (ENSCPOG00000007985) #23	ITGB5 (ENSCPOG00000009608) #24	HEG1 (ENSCPOG00000037030) #26	SLC12A8 (ENSCPOG00000012476) #27	ZNF148 (ENSCPOG00000008835) #28	ENSCPOG00000038702	SNX4 (ENSCPOG00000009282) #29	CCR8 (ENSCPOG00000011883) #30	CX3CR1 (ENSCPOG00000033203) #31	ENSCPOG00000038030 #33	CSRNP1 (ENSCPOG00000030887) #34	TTC21A (ENSCPOG00000014079) #35	GORASP1 (ENSCPOG00000030918) #36	WDR48 (ENSCPOG00000010820) #37	SCN11A (ENSCPOG00000030301)
Naked mole-rat female	MODERN SPECIES	11	PARP14 (ENSHGLG00000001930) #11	HSPBAP1 (ENSHGLG00000001996) #12	SLC49A4 (ENSHGLG00000002042) #13	SEMA5B (ENSHGLG00000002109) #14	ENSHGLG00000002278 #15	SEC22A (ENSHGLG00000002346) #16	ADCY5 (ENSHGLG00000002391) #17	ENSHGLG00000050538 #18	MYLK (ENSHGLG00000000906) #19	ENSHGLG00000048936	CCDC14 (ENSHGLG00000001004) #20	ENSHGLG00000001029 #21	ENSHGLG00000046407	ENSHGLG00000012259	ENSHGLG00000020711	KALRN (ENSHGLG00000018826) #22	UMPS (ENSHGLG00000011551) #23	ENSHGLG00000047740	ITGB5 (ENSHGLG00000011184) #24	ENSHGLG00000037460	ENSHGLG00000016690 #26	ZNF148 (ENSHGLG00000011875) #28	ENSHGLG00000014404 #29	ENSHGLG00000017413	ENSHGLG00000047149	ENSHGLG00000019031	ENSHGLG00000021278 #30	CX3CR1 (ENSHGLG00000016099) #31	XIRP1 (ENSHGLG00000021303) #33	CSRNP1 (ENSHGLG00000011052) #34	TTC21A (ENSHGLG00000007505) #35
Sciuridae	ANCESTRAL SPECIES	12	ENSGT00940000154143.f #7	ENSGT01050000244950.a.a.a #8	ENSGT00940000158837 #9	ENSGT00940000154578.A.d #10	ENSGT00940000154311.a.b #11	ENSGT00940000159893 #12	ENSGT01030000234625.D #13	ENSGT00940000156712 #14	ENSGT00940000156797 #15	ENSGT00940000158470 #16	ENSGT00940000158054 #17	ENSGT00530000062962.a.a #18	ENSGT00940000157879 #19	ENSGT00390000017916 #20	ENSGT00390000012731.a.b #21	ENSGT00940000155248 #22	ENSGT00390000001856 #23	ENSGT00900000143497	ENSGT01090000259987.b.b.a.b #24	ENSGT00710000106813.A #26	ENSGT00940000160130 #27	ENSGT00940000157406 #28	ENSGT00930000151029 #29	ENSGT00940000158398	ENSGT00390000008796	ENSGT00390000016972.b.j.a.a	ENSGT00730000111263	ENSGT00940000158330	ENSGT00390000012807	ENSGT00940000160658	ENSGT00680000101538
Marmotini	ANCESTRAL SPECIES	13	ENSGT00940000154143.f #7	ENSGT01050000244950.a.a.a #8	ENSGT00940000158837 #9	ENSGT00940000154578.A.d #10	ENSGT00940000154311.a.b #11	ENSGT00940000159893 #12	ENSGT01030000234625.D #13	ENSGT00940000156712 #14	ENSGT00940000156797 #15	ENSGT00940000158470 #16	ENSGT00940000158054 #17	ENSGT00530000062962.a.a #18	ENSGT00940000157879 #19	ENSGT00390000017916 #20	ENSGT00390000012731.a.b #21	ENSGT00940000155248 #22	ENSGT00390000001856 #23	ENSGT00900000143497	ENSGT01090000259987.b.b.a.b #24	ENSGT00710000106813.A #26	ENSGT00940000160130 #27	ENSGT00940000157406 #28	ENSGT00930000151029 #29	ENSGT00940000158398	ENSGT00390000008796	ENSGT00390000016972.b.j.a.a	ENSGT00730000111263	ENSGT00940000158330	ENSGT00390000012807	ENSGT00940000160658	ENSGT00680000101538
Alpin marmot	DUPLICATION
Alpin marmot	MODERN SPECIES	19	PARP9 (ENSMMMG00000013448) #9	DTX3L (ENSMMMG00000013433) #10	PARP14 (ENSMMMG00000013397) #11	HSPBAP1 (ENSMMMG00000013384) #12	SLC49A4 (ENSMMMG00000013367) #13	SEMA5B (ENSMMMG00000013335) #14	PDIA5 (ENSMMMG00000013311) #15	SEC22A (ENSMMMG00000013291) #16	ADCY5 (ENSMMMG00000013268) #17	HACD2 (ENSMMMG00000013260) #18	ENSMMMG00000013256 #19	ENSMMMG00000013234 #19	ENSMMMG00000013225	CCDC14 (ENSMMMG00000013192) #20	ENSMMMG00000013183 #21	ENSMMMG00000013014 #22	ENSMMMG00000012981	ENSMMMG00000012738 #22	UMPS (ENSMMMG00000012713) #23	ENSMMMG00000012704	ITGB5 (ENSMMMG00000012679) #24	ENSMMMG00000012665 #26	SLC12A8 (ENSMMMG00000012328) #27	ZNF148 (ENSMMMG00000012274) #28	ENSMMMG00000012255	SNX4 (ENSMMMG00000012229) #29	GNG5B (ENSMMMG00000012223)	ENSMMMG00000012176	ENSMMMG00000012158	XXYLT1 (ENSMMMG00000012143)	ACAP2 (ENSMMMG00000011132)
Alpin marmot	MODERN SPECIES	19	PARP14 (ENSMMMG00000013397) #11	HSPBAP1 (ENSMMMG00000013384) #12	SLC49A4 (ENSMMMG00000013367) #13	SEMA5B (ENSMMMG00000013335) #14	PDIA5 (ENSMMMG00000013311) #15	SEC22A (ENSMMMG00000013291) #16	ADCY5 (ENSMMMG00000013268) #17	HACD2 (ENSMMMG00000013260) #18	ENSMMMG00000013256 #19	ENSMMMG00000013234 #19	ENSMMMG00000013225	CCDC14 (ENSMMMG00000013192) #20	ENSMMMG00000013183 #21	ENSMMMG00000013014 #22	ENSMMMG00000012981	ENSMMMG00000012738 #22	UMPS (ENSMMMG00000012713) #23	ENSMMMG00000012704	ITGB5 (ENSMMMG00000012679) #24	ENSMMMG00000012665 #26	SLC12A8 (ENSMMMG00000012328) #27	ZNF148 (ENSMMMG00000012274) #28	ENSMMMG00000012255	SNX4 (ENSMMMG00000012229) #29	GNG5B (ENSMMMG00000012223)	ENSMMMG00000012176	ENSMMMG00000012158	XXYLT1 (ENSMMMG00000012143)	ACAP2 (ENSMMMG00000011132)	ENSMMMG00000011097	APOD (ENSMMMG00000011088)
Marmotini_b	ANCESTRAL SPECIES	36	ENSGT00940000154143.f #7	ENSGT01050000244950.a.a.a #8	ENSGT00940000158837 #9	ENSGT00940000154578.A.d #10	ENSGT00940000154311.a.b #11	ENSGT00940000159893 #12	ENSGT01030000234625.D #13	ENSGT00940000156712 #14	ENSGT00940000156797 #15	ENSGT00940000158470 #16	ENSGT00940000158054 #17	ENSGT00530000062962.a.a #18	ENSGT00940000157879 #19	ENSGT00390000017916 #20	ENSGT00390000012731.a.b #21	ENSGT00940000155248 #22	ENSGT00390000001856 #23	ENSGT01090000259987.b.b.a.b #24	ENSGT00710000106813.A #26	ENSGT00940000160130 #27	ENSGT00940000157406 #28	ENSGT00930000151029 #29	ENSGT00940000158398	ENSGT00390000008796	ENSGT00390000016972.b.j.a.a	ENSGT00730000111263	ENSGT00940000158330	ENSGT00390000012807	ENSGT00940000160658	ENSGT00680000101538	ENSGT00730000110943.C
Arctic ground squirrel	MODERN SPECIES	5	DTX3L (ENSUPAG00010020577) #10	PARP14 (ENSUPAG00010020584) #11	HSPBAP1 (ENSUPAG00010020596) #12	SLC49A4 (ENSUPAG00010020601) #13	SEMA5B (ENSUPAG00010020613) #14	PDIA5 (ENSUPAG00010020647) #15	SEC22A (ENSUPAG00010020661) #16	ADCY5 (ENSUPAG00010020679) #17	HACD2 (ENSUPAG00010020688) #18	ENSUPAG00010020694 #19	ENSUPAG00010020696 #19	ENSUPAG00010020699	ENSUPAG00010020702	CCDC14 (ENSUPAG00010020712) #20	ENSUPAG00010020746 #21	KALRN (ENSUPAG00010020772) #22	ENSUPAG00010021372	UMPS (ENSUPAG00010021377) #23	ITGB5 (ENSUPAG00010021380) #24	ENSUPAG00010021393	ENSUPAG00010021397	HEG1 (ENSUPAG00010021402) #26	SLC12A8 (ENSUPAG00010021430) #27	ZNF148 (ENSUPAG00010021634) #28	ENSUPAG00010021644 #29	ENSUPAG00010021655	OSBPL11 (ENSUPAG00010021663)	ENSUPAG00010021670	LMLN (ENSUPAG00010021673)	ENSUPAG00010021677	IQCG (ENSUPAG00010021682)
Squirrel	MODERN SPECIES	325							SEMA5B (ENSSTOG00000010313) #14	PDIA5 (ENSSTOG00000000040) #15	SEC22A (ENSSTOG00000000042) #16	ADCY5 (ENSSTOG00000000043) #17	HACD2 (ENSSTOG00000023651) #18	MYLK (ENSSTOG00000000046) #19	CCDC14 (ENSSTOG00000004201) #20	ENSSTOG00000004225 #21	ENSSTOG00000033153	KALRN (ENSSTOG00000005605) #22	UMPS (ENSSTOG00000005682) #23	ITGB5 (ENSSTOG00000007965) #24	HEG1 (ENSSTOG00000019628) #26	SLC12A8 (ENSSTOG00000028300) #27	ZNF148 (ENSSTOG00000027082) #28
Eurasian red squirrel	MODERN SPECIES	1	WDR5B (ENSSVLG00005006686) #7	KPNA1 (ENSSVLG00005006713) #8	PARP9 (ENSSVLG00005006786) #9	DTX3L (ENSSVLG00005006929) #10	PARP14 (ENSSVLG00005006958) #11	HSPBAP1 (ENSSVLG00005007004) #12	SLC49A4 (ENSSVLG00005007048) #13	SEMA5B (ENSSVLG00005007095) #14	PDIA5 (ENSSVLG00005007242) #15	SEC22A (ENSSVLG00005007307) #16	ADCY5 (ENSSVLG00005007362) #17	ENSSVLG00005007470 #18	MYLK (ENSSVLG00005007634) #19	CCDC14 (ENSSVLG00005008304) #20	ENSSVLG00005008547 #21	KALRN (ENSSVLG00005008718) #22	ENSSVLG00005009580	UMPS (ENSSVLG00005009595) #23	ITGB5 (ENSSVLG00005009637) #24	ENSSVLG00005009672	HEG1 (ENSSVLG00005009706) #26	SLC12A8 (ENSSVLG00005009841) #27	ZNF148 (ENSSVLG00005009954) #28	SNX4 (ENSSVLG00005010065) #29	ENSSVLG00005010146	OSBPL11 (ENSSVLG00005010177)	LMLN (ENSSVLG00005010315)	ENSSVLG00005010878	IQCG (ENSSVLG00005010949)	LRCH3 (ENSSVLG00005011278)	FYTTD1 (ENSSVLG00005011692)