Rodentia_A	ANCESTRAL SPECIES	2	ENSGT00940000155691.d	ENSGT00510000048283.d #8	ENSGT00390000001214 #9	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #12	ENSGT00390000002089.b #13	ENSGT00390000016760 #14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #25	ENSGT01030000234613.b.a.a #26	ENSGT01030000234613.b.a.b #27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #30	ENSGT00390000007463	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751 #36	ENSGT00940000159582 #37
Sciuridae	ANCESTRAL SPECIES	8	ENSGT00940000155691.d	ENSGT00510000048283.d #8	ENSGT00390000001214 #9	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #12	ENSGT00390000002089.b #13	ENSGT00390000016760 #14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862.b #23	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #25	ENSGT01030000234613.b.a.a #26	ENSGT01030000234613.b.a.b #27	ENSGT00610000087423 #28	ENSGT00940000164834	ENSGT01030000234517.H.a #30	ENSGT00390000007463	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751 #36
Marmotini	ANCESTRAL SPECIES	27	ENSGT00940000155691.d	ENSGT00510000048283.d #8	ENSGT00390000001214 #9	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #12	ENSGT00390000002089.b #13	ENSGT00390000016760 #14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862.b #23	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #25	ENSGT01030000234613.b.a.a #26	ENSGT01030000234613.b.a.b #27	ENSGT00940000164834	ENSGT01030000234517.H.a #30	ENSGT00390000007463	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751 #36	ENSGT00940000159582 #37
Alpin marmot	MODERN SPECIES	1	ADSS1 (ENSMMMG00000005086) #7	ENSMMMG00000005003 #8	ENSMMMG00000004995 #9	KIF26A (ENSMMMG00000004945) #10	ASPG (ENSMMMG00000004917) #11	TDRD9 (ENSMMMG00000004862) #12	RD3L (ENSMMMG00000004838) #13	ENSMMMG00000004833 #14	PPP1R13B (ENSMMMG00000004811) #15	ZFYVE21 (ENSMMMG00000004805) #16	XRCC3 (ENSMMMG00000004791) #17	KLC1 (ENSMMMG00000004526) #18	COA8 (ENSMMMG00000004518) #19	BAG5 (ENSMMMG00000004510) #20	TRMT61A (ENSMMMG00000004492) #21	CKB (ENSMMMG00000004465) #22	MARK3 (ENSMMMG00000004239) #23	EIF5 (ENSMMMG00000004136) #24	ENSMMMG00000004126 #25	TNFAIP2 (ENSMMMG00000004097) #26	EXOC3L4 (ENSMMMG00000004056) #27	LBHD2 (ENSMMMG00000004048) #28	ENSMMMG00000004030 #29	CDC42BPB (ENSMMMG00000003965) #30	TRAF3 (ENSMMMG00000003876) #31	RCOR1 (ENSMMMG00000003851) #32	ANKRD9 (ENSMMMG00000003841) #33	TECPR2 (ENSMMMG00000003754) #34	CINP (ENSMMMG00000003712) #35	ENSMMMG00000003710 #36	MOK (ENSMMMG00000003666) #37
Marmotini_b	ANCESTRAL SPECIES	99	ENSGT00940000155691.d	ENSGT00510000048283.d #8	ENSGT00390000001214 #9	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #12	ENSGT00390000002089.b #13	ENSGT00390000016760 #14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862.b #23	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #25	ENSGT01030000234613.b.a.a #26	ENSGT01030000234613.b.a.b #27	ENSGT00940000164834	ENSGT01030000234517.H.a #30	ENSGT00390000007463	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751 #36	ENSGT00940000159582 #37
Arctic ground squirrel	MODERN SPECIES	320	ENSUPAG00010018585	ENSUPAG00010018579	TMEM179 (ENSUPAG00010018572) #8	ENSUPAG00010018557 #9	KIF26A (ENSUPAG00010018523) #10	ASPG (ENSUPAG00010018503) #11	RD3L (ENSUPAG00010018456) #13	TDRD9 (ENSUPAG00010018401) #12	ENSUPAG00010018391 #14	PPP1R13B (ENSUPAG00010018373) #15	ZFYVE21 (ENSUPAG00010018360) #16	XRCC3 (ENSUPAG00010018352) #17	KLC1 (ENSUPAG00010018171) #18	BAG5 (ENSUPAG00010018162) #20	TRMT61A (ENSUPAG00010018157) #21	CKB (ENSUPAG00010018151) #22	MARK3 (ENSUPAG00010017955) #23	ENSUPAG00010017935 ##24	ENSUPAG00010017927 #25	TNFAIP2 (ENSUPAG00010017901) #26	EXOC3L4 (ENSUPAG00010017874) #27	ENSUPAG00010017871	CDC42BPB (ENSUPAG00010017808) #30	AMN (ENSUPAG00010017783)	TRAF3 (ENSUPAG00010017758) #31	RCOR1 (ENSUPAG00010017704) #32
Squirrel	MODERN SPECIES	221	INF2 (ENSSTOG00000022460)	TMEM179 (ENSSTOG00000022354) #8	KIF26A (ENSSTOG00000021225) #10	ASPG (ENSSTOG00000023161) #11	TDRD9 (ENSSTOG00000007890) #12	ENSSTOG00000002831	RD3L (ENSSTOG00000026241) #13	ATP5MJ (ENSSTOG00000007883) #14	PPP1R13B (ENSSTOG00000010345) #15	ZFYVE21 (ENSSTOG00000010336) #16	XRCC3 (ENSSTOG00000027100) #17	KLC1 (ENSSTOG00000014074) #18	COA8 (ENSSTOG00000019873) #19	BAG5 (ENSSTOG00000027571) #20	TRMT61A (ENSSTOG00000009792) #21	CKB (ENSSTOG00000023632) #22	MARK3 (ENSSTOG00000009776) #23	EIF5 (ENSSTOG00000003683) #24	ENSSTOG00000022018 #25	ENSSTOG00000028490	EXOC3L4 (ENSSTOG00000004186) #27	ENSSTOG00000026145	KRIT1 (ENSSTOG00000022767)	CYP51A1 (ENSSTOG00000006693)	AKAP9 (ENSSTOG00000006585)	MTERF1 (ENSSTOG00000001846)	FZD1 (ENSSTOG00000013482)	CDK14 (ENSSTOG00000013466)	PTTG1IP2 (ENSSTOG00000030927)	CLDN12 (ENSSTOG00000013464)	GTPBP10 (ENSSTOG00000008220)
Eurasian red squirrel	DUPLICATION
Eurasian red squirrel	MODERN SPECIES	11	ENSSVLG00005010617 #9	ENSSVLG00005010660	KIF26A (ENSSVLG00005010683) #10	ASPG (ENSSVLG00005010927) #11	TDRD9 (ENSSVLG00005011123) #12	RD3L (ENSSVLG00005011833) #13	ENSSVLG00005011879 #14	PPP1R13B (ENSSVLG00005011931) #15	ZFYVE21 (ENSSVLG00005012130) #16	ENSSVLG00005012176 #17	KLC1 (ENSSVLG00005012331) #18	ENSSVLG00005012491 #17	COA8 (ENSSVLG00005012532) #19	BAG5 (ENSSVLG00005012632) #20	TRMT61A (ENSSVLG00005012687) #21	ENSSVLG00005012740 #22	ENSSVLG00005012973 #23	EIF5 (ENSSVLG00005013171) #24	ENSSVLG00005013280 #25	TNFAIP2 (ENSSVLG00005013312) #26	EXOC3L4 (ENSSVLG00005013432) #27	LBHD2 (ENSSVLG00005013492) #28	CDC42BPB (ENSSVLG00005013599) #30	AMN (ENSSVLG00005013683)	TRAF3 (ENSSVLG00005013900) #31	RCOR1 (ENSSVLG00005014032) #32	ANKRD9 (ENSSVLG00005014170) #33	TECPR2 (ENSSVLG00005014246) #34	CINP (ENSSVLG00005014319) #35	ZNF839 (ENSSVLG00005014407) #36	MOK (ENSSVLG00005014536) #37
Eurasian red squirrel	MODERN SPECIES	12	RHOT1 (ENSSVLG00005016781)	RHBDL3 (ENSSVLG00005016946)	C17orf75 (ENSSVLG00005017088)	ZNF207 (ENSSVLG00005017171)	ENSSVLG00005017498	CDK5R1 (ENSSVLG00005017534)	MYO1D (ENSSVLG00005017566)	ENSSVLG00005017677	TMEM98 (ENSSVLG00005017715)	ENSSVLG00005017765	ASIC2 (ENSSVLG00005017834)	ENSSVLG00005018047	ENSSVLG00005018082	ENSSVLG00005018128	ENSSVLG00005018180	ENSSVLG00005018242 #22	ENSSVLG00005018284	ENSSVLG00005018440	ENSSVLG00005018536	ENSSVLG00005018675	ENSSVLG00005018739	PTPN18 (ENSSVLG00005018932)	ENSSVLG00005019214	ENSSVLG00005019266	GPR148 (ENSSVLG00005019335)	AMER3 (ENSSVLG00005019403)	ENSSVLG00005019688	FAM168B (ENSSVLG00005019958)	PLEKHB2 (ENSSVLG00005020018)	ENSSVLG00005020090	HS6ST1 (ENSSVLG00005020153)
Hystricomorpha	ANCESTRAL SPECIES	51	ENSGT00940000155691.d	ENSGT00510000048283.d #8	ENSGT00390000001214 #9	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00390000002089.b #13	ENSGT00940000157035 #12	ENSGT00390000016760 #14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00390000016478.i.a #24	ENSGT01030000234613.b.a.a #26	ENSGT01030000234613.b.a.b #27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #30	ENSGT00390000007463	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751 #36	ENSGT00940000159582 #37	ENSGT00390000007686.b.d
Hystricomorpha_a	ANCESTRAL SPECIES	58	ENSGT00940000155691.d	ENSGT00510000048283.d #8	ENSGT00390000001214 #9	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00390000002089.b #13	ENSGT00940000157035 #12	ENSGT00390000016760 #14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00390000016478.i.a.p.a #24	ENSGT01030000234613.b.a.a #26	ENSGT01030000234613.b.a.b #27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #30	ENSGT00390000007463	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751 #36	ENSGT00940000159582 #37	ENSGT00390000007686.b.d
Hystricomorpha_b	ANCESTRAL SPECIES	92	ENSGT00390000015553.a.b #7	ENSGT00940000155691.d	ENSGT00510000048283.d #8	ENSGT00390000001214 #9	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #12	ENSGT00390000016760 #14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00390000016478.i.a.p.a #24	ENSGT01030000234613.b.a.a #26	ENSGT01030000234613.b.a.b #27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #30	ENSGT00390000007463	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751 #36	ENSGT00940000159582 #37	ENSGT00390000007686.b.d
Degu	DUPLICATION
Degu	MODERN SPECIES	267	AKT1 (ENSODEG00000002014)	ENSODEG00000002046	ADSS1 (ENSODEG00000002065) #7	INF2 (ENSODEG00000002088)	TMEM179 (ENSODEG00000002119) #8	KIF26A (ENSODEG00000002137) #10	ASPG (ENSODEG00000002164) #11	TDRD9 (ENSODEG00000002255) #12	ENSODEG00000002459 #14	ENSODEG00000002481 #15	ZFYVE21 (ENSODEG00000002496) #16	XRCC3 (ENSODEG00000002520) #17	KLC1 (ENSODEG00000002575) #18	COA8 (ENSODEG00000002642) #19	TRMT61A (ENSODEG00000001775) #21	ENSODEG00000001805 #22	MARK3 (ENSODEG00000001890) #23	ENSODEG00000018808	ENSODEG00000002043 #24	TNFAIP2 (ENSODEG00000002077) #26	EXOC3L4 (ENSODEG00000002116) #27	CDC42BPB (ENSODEG00000002217) #30	AMN (ENSODEG00000002431)	TRAF3 (ENSODEG00000002457) #31	RCOR1 (ENSODEG00000002491) #32	ANKRD9 (ENSODEG00000002556) #33	ENSODEG00000002569 #34	CINP (ENSODEG00000002583) #35	ENSODEG00000002597 #37	WDR20 (ENSODEG00000002622)	ENSODEG00000002636
Degu	MODERN SPECIES	45	SLC25A3 (ENSODEG00000009995)	ENSODEG00000010948	APAF1 (ENSODEG00000010122)	ENSODEG00000019813	ENSODEG00000010313	ENSODEG00000010573	ENSODEG00000010991	ENSODEG00000010669	ENSODEG00000011572	BLTP3B (ENSODEG00000010196)	ENSODEG00000010649	ENSODEG00000011114	SLC17A8 (ENSODEG00000010869)	NR1H4 (ENSODEG00000012027)	ENSODEG00000010407	ENSODEG00000009780 #22	ANO4 (ENSODEG00000011009)	ENSODEG00000010202	SLC5A8 (ENSODEG00000010696)	UTP20 (ENSODEG00000013411)	ENSODEG00000010531	SPIC (ENSODEG00000010078)	ENSODEG00000010424	MYBPC1 (ENSODEG00000012077)	CHPT1 (ENSODEG00000011230)	SYCP3 (ENSODEG00000011961)	GNPTAB (ENSODEG00000012289)	DRAM1 (ENSODEG00000011613)	WASHC3 (ENSODEG00000010588)	NUP37 (ENSODEG00000011637)	PARPBP (ENSODEG00000012004)
Guinea pig	MODERN SPECIES	111	ADSS1 (ENSCPOG00000009566) #7	INF2 (ENSCPOG00000015219)	ENSCPOG00000039530 #8	KIF26A (ENSCPOG00000019833) #10	ASPG (ENSCPOG00000026114) #11	RD3L (ENSCPOG00000036429) #13	TDRD9 (ENSCPOG00000002760) #12	ENSCPOG00000033733 #14	PPP1R13B (ENSCPOG00000021000) #15	ZFYVE21 (ENSCPOG00000024426) #16	XRCC3 (ENSCPOG00000022422) #17	KLC1 (ENSCPOG00000026901) #18	COA8 (ENSCPOG00000013098) #19	BAG5 (ENSCPOG00000024833) #20	TRMT61A (ENSCPOG00000033200) #21	CKB (ENSCPOG00000032248) #22	MARK3 (ENSCPOG00000013946) #23	EIF5 (ENSCPOG00000001236) #24	TNFAIP2 (ENSCPOG00000010932) #26	EXOC3L4 (ENSCPOG00000010016) #27	LBHD2 (ENSCPOG00000030081) #28	CDC42BPB (ENSCPOG00000003812) #30	AMN (ENSCPOG00000022870)	TRAF3 (ENSCPOG00000040090) #31	RCOR1 (ENSCPOG00000011410) #32	ANKRD9 (ENSCPOG00000010220) #33	TECPR2 (ENSCPOG00000000207) #34	CINP (ENSCPOG00000034861) #35	ENSCPOG00000021691 #37	ENSCPOG00000035139	WDR20 (ENSCPOG00000002483)
Naked mole-rat female	MODERN SPECIES	18	ADSS1 (ENSHGLG00000010136) #7	ENSHGLG00000011755	TMEM179 (ENSHGLG00000047899) #8	KIF26A (ENSHGLG00000005481) #10	ASPG (ENSHGLG00000005952) #11	RD3L (ENSHGLG00000047639) #13	TDRD9 (ENSHGLG00000007727) #12	ENSHGLG00000036711 #14	PPP1R13B (ENSHGLG00000006763) #15	ZFYVE21 (ENSHGLG00000011494) #16	XRCC3 (ENSHGLG00000011996) #17	KLC1 (ENSHGLG00000006287) #18	ENSHGLG00000011330 #19	ENSHGLG00000050617 #20	TRMT61A (ENSHGLG00000005604) #21	CKB (ENSHGLG00000005770) #22	MARK3 (ENSHGLG00000007571) #23	EIF5 (ENSHGLG00000015043) #24	TNFAIP2 (ENSHGLG00000015741) #26	EXOC3L4 (ENSHGLG00000013564) #27	LBHD2 (ENSHGLG00000045160) #28	CDC42BPB (ENSHGLG00000018068) #30	AMN (ENSHGLG00000015524)	ENSHGLG00000036396	TRAF3 (ENSHGLG00000049736) #31	RCOR1 (ENSHGLG00000005778) #32	ENSHGLG00000008270 #34	CINP (ENSHGLG00000045981) #35	ENSHGLG00000032701 #36	ENSHGLG00000009939	ENSHGLG00000045892