Rodentia_A	ANCESTRAL SPECIES	3	ENSGT00390000009142 #7	ENSGT00390000003004 #8	ENSGT00440000033742.a.b #10	ENSGT01000000215472 #11	ENSGT00390000007384 #12	ENSGT00390000016493 #13	ENSGT00390000012364 #14	ENSGT00940000153469.a.b #15	ENSGT00940000153469.a.a ##15	ENSGT00390000010581 #16	ENSGT00940000156498 #17	ENSGT00830000128449 #18	ENSGT00940000155641 #19	ENSGT00940000158838 #20	ENSGT00390000005481 #21	ENSGT00730000111057 #22	ENSGT00530000063301.a.a #23	ENSGT00390000008812.b.b #24	ENSGT00940000157411 #25	ENSGT00390000012062 #26	ENSGT00940000161810 #27	ENSGT00940000154991.b #28	ENSGT01100000263482.A.a.a.d.a.a.a.b #29	ENSGT01100000263482.A.a.a.d.a.a.a.a.b #30	ENSGT01100000263482.A.a.a.d.a.a.b #31	ENSGT01100000263482.A.a.a.c.a #32	ENSGT01030000234760 #33	ENSGT00940000158479 #34	ENSGT00940000156339 #35	ENSGT00390000012151 #36	ENSGT00940000156492 #37
Sciuridae	ANCESTRAL SPECIES	4	ENSGT00390000009142 #7	ENSGT00390000003004 #8	ENSGT00440000033742.a.b #10	ENSGT01000000215472 #11	ENSGT00390000007384 #12	ENSGT00390000016493 #13	ENSGT00390000012364 #14	ENSGT00940000153469.a.b #15	ENSGT00940000153469.a.a ##15	ENSGT00390000010581 #16	ENSGT00940000156498 #17	ENSGT00830000128449 #18	ENSGT00940000155641 #19	ENSGT00940000158838 #20	ENSGT00390000005481 #21	ENSGT00730000111057 #22	ENSGT00530000063301.a.a #23	ENSGT00390000008812.b.b #24	ENSGT00940000157411 #25	ENSGT00390000012062 #26	ENSGT00940000161810 #27	ENSGT00940000154991.b #28	ENSGT01100000263482.A.a.a.d.a.a.a.b #29	ENSGT01100000263482.A.a.a.d.a.a.a.a.b #30	ENSGT01100000263482.A.a.a.d.a.a.b #31	ENSGT01100000263482.A.a.a.c.a #32	ENSGT01030000234760 #33	ENSGT00940000158479 #34	ENSGT00940000156339 #35	ENSGT00390000012151 #36	ENSGT00940000156492 #37
Marmotini	ANCESTRAL SPECIES	39	ENSGT00390000009142 #7	ENSGT00390000003004 #8	ENSGT00440000033742.a.b #10	ENSGT01000000215472 #11	ENSGT00390000007384 #12	ENSGT00390000016493 #13	ENSGT00390000012364 #14	ENSGT00940000153469.a.b #15	ENSGT00940000153469.a.a ##15	ENSGT00390000010581 #16	ENSGT00940000156498 #17	ENSGT00830000128449 #18	ENSGT00940000155641 #19	ENSGT00940000158838 #20	ENSGT00390000005481 #21	ENSGT00730000111057 #22	ENSGT00530000063301.a.a #23	ENSGT00390000008812.b.b #24	ENSGT00940000157411 #25	ENSGT00390000012062 #26	ENSGT00940000161810 #27	ENSGT00940000154991.b #28	ENSGT01100000263482.A.a.a.d.a.a.a.b #29	ENSGT01100000263482.A.a.a.d.a.a.a.a.b #30	ENSGT01100000263482.A.a.a.d.a.a.b #31	ENSGT01100000263482.A.a.a.c.a #32	ENSGT01030000234760 #33	ENSGT00940000158479 #34	ENSGT00940000156339 #35	ENSGT00390000012151 #36	ENSGT00940000156492 #37
Alpin marmot	MODERN SPECIES	71	EVI2B (ENSMMMG00000012769) #7	EVI2A (ENSMMMG00000012771) #8	ENSMMMG00000012772 #9	RAB11FIP4 (ENSMMMG00000012781) #10	ENSMMMG00000012799 #11	COPRS (ENSMMMG00000012825) #12	UTP6 (ENSMMMG00000012830) #13	SUZ12 (ENSMMMG00000012866) #14	CRLF3 (ENSMMMG00000012930) #15	TEFM (ENSMMMG00000012960) #16	ADAP2 (ENSMMMG00000012962) #17	RNF135 (ENSMMMG00000012984) #18	RHOT1 (ENSMMMG00000013006) #19	RHBDL3 (ENSMMMG00000013354) #20	C17orf75 (ENSMMMG00000013368) #21	ZNF207 (ENSMMMG00000013387) #22	PSMD11 (ENSMMMG00000013441) #23	CDK5R1 (ENSMMMG00000013447) #24	MYO1D (ENSMMMG00000013449) #25	ENSMMMG00000013474 #26	SPACA3 (ENSMMMG00000013483) #27	ASIC2 (ENSMMMG00000013492) #28	ENSMMMG00000013509 #29	CCL7 (ENSMMMG00000013514) #30	CCL11 (ENSMMMG00000013522) #31	ENSMMMG00000013534 #32	ENSMMMG00000013542 #33	ENSMMMG00000013547 #34	CCT6B (ENSMMMG00000013567) #35	ZNF830 (ENSMMMG00000013592) #36	LIG3 (ENSMMMG00000013596) #37
Marmotini_b	DUPLICATION
Marmotini_b	ANCESTRAL SPECIES	34	ENSGT00940000160802	ENSGT00390000009142 #7	ENSGT00390000003004 #8	ENSGT00440000033742.a.b #10	ENSGT00390000007384 #12	ENSGT00390000016493 #13	ENSGT00390000012364 #14	ENSGT00940000153469.a.b #15	ENSGT00940000153469.a.a ##15	ENSGT00390000010581 #16	ENSGT00940000156498 #17	ENSGT00830000128449 #18	ENSGT00940000155641 #19	ENSGT00940000158838 #20	ENSGT00390000005481 #21	ENSGT00730000111057.q #22	ENSGT00530000063301.a.a #23	ENSGT00390000008812.b.b #24	ENSGT00940000157411 #25	ENSGT00390000012062 #26	ENSGT00940000161810 #27	ENSGT00940000154991.b #28	ENSGT00940000154991.a.b ##28	ENSGT01100000263482.A.a.a.d.a.a.a.b #29	ENSGT01100000263482.A.a.a.d.a.a.a.a.b #30	ENSGT01100000263482.A.a.a.d.a.a.b #31	ENSGT01100000263482.A.a.a.c.a #32	ENSGT01030000234760 #33	ENSGT00940000158479 #34	ENSGT00940000156339 #35	ENSGT00390000012151 #36
Squirrel	MODERN SPECIES	138	OMG (ENSSTOG00000005562)	EVI2B (ENSSTOG00000026274) #7	NF1 (ENSSTOG00000034066)	RAB11FIP4 (ENSSTOG00000010883) #10	COPRS (ENSSTOG00000025397) #12	UTP6 (ENSSTOG00000015875) #13	SUZ12 (ENSSTOG00000022754) #14	CRLF3 (ENSSTOG00000012342) #15	ATAD5 (ENSSTOG00000025411) ##15	TEFM (ENSSTOG00000012367) #16	ADAP2 (ENSSTOG00000025811) #17	RNF135 (ENSSTOG00000027338) #18	RHOT1 (ENSSTOG00000011738) #19	RHBDL3 (ENSSTOG00000000698) #20	C17orf75 (ENSSTOG00000000705) #21	ENSSTOG00000000712 #22	PSMD11 (ENSSTOG00000009686) #23	CDK5R1 (ENSSTOG00000009703) #24	MYO1D (ENSSTOG00000000438) #25	TMEM98 (ENSSTOG00000011945) #26	ASIC2 (ENSSTOG00000027185) #28	ENSSTOG00000028166 #29	CCL7 (ENSSTOG00000032557) #30	CCL11 (ENSSTOG00000012718) #31	ENSSTOG00000023292 #32	CCL1 (ENSSTOG00000007409) ##32	TMEM132E (ENSSTOG00000024193) #34	CCT6B (ENSSTOG00000027687) #35	ZNF830 (ENSSTOG00000006057) #36	LIG3 (ENSSTOG00000006065) #37	RFFL (ENSSTOG00000006115)
Arctic ground squirrel	MODERN SPECIES	63	EVI2B (ENSUPAG00010022480) #7	EVI2A (ENSUPAG00010022481) #8	RAB11FIP4 (ENSUPAG00010022484) #10	ENSUPAG00010022485 #9	COPRS (ENSUPAG00010022492) #12	ENSUPAG00010022494 #13	SUZ12 (ENSUPAG00010022503) #14	CRLF3 (ENSUPAG00010022508) #15	ATAD5 (ENSUPAG00010022514) ##15	TEFM (ENSUPAG00010022537) #16	ADAP2 (ENSUPAG00010022538) #17	RNF135 (ENSUPAG00010022541) #18	RHOT1 (ENSUPAG00010022548) #19	RHBDL3 (ENSUPAG00010023045) #20	C17orf75 (ENSUPAG00010023047) #21	ZNF207 (ENSUPAG00010023051) #22	PSMD11 (ENSUPAG00010023057) #23	CDK5R1 (ENSUPAG00010023059) #24	MYO1D (ENSUPAG00010023060) #25	TMEM98 (ENSUPAG00010023062) #26	SPACA3 (ENSUPAG00010023063) #27	ASIC2 (ENSUPAG00010023064) #28
Marmotini_b	ANCESTRAL SPECIES																	ENSGT00730000111057.r #22
Squirrel	MODERN SPECIES	573																ENSSTOG00000030534 #22
Eurasian red squirrel	MODERN SPECIES	12	OMG (ENSSVLG00005015267)	EVI2B (ENSSVLG00005015286) #7	EVI2A (ENSSVLG00005015311) #8	RAB11FIP4 (ENSSVLG00005015383) #10	COPRS (ENSSVLG00005015650) #12	UTP6 (ENSSVLG00005015715) #13	SUZ12 (ENSSVLG00005015781) #14	CRLF3 (ENSSVLG00005016089) #15	ATAD5 (ENSSVLG00005016127) ##15	TEFM (ENSSVLG00005016323) #16	ADAP2 (ENSSVLG00005016368) #17	RNF135 (ENSSVLG00005016571) #18	RHOT1 (ENSSVLG00005016781) #19	RHBDL3 (ENSSVLG00005016946) #20	C17orf75 (ENSSVLG00005017088) #21	ZNF207 (ENSSVLG00005017171) #22	ENSSVLG00005017498 #23	CDK5R1 (ENSSVLG00005017534) #24	MYO1D (ENSSVLG00005017566) #25	ENSSVLG00005017677	TMEM98 (ENSSVLG00005017715) #26	ENSSVLG00005017765 #27	ASIC2 (ENSSVLG00005017834) #28	ENSSVLG00005018047	ENSSVLG00005018082	ENSSVLG00005018128	ENSSVLG00005018180	ENSSVLG00005018242	ENSSVLG00005018284	ENSSVLG00005018440	ENSSVLG00005018536
Hystricomorpha	ANCESTRAL SPECIES	3	ENSGT00940000160802	ENSGT00390000009142 #7	ENSGT00390000003004 #8	ENSGT00440000033742.a.b #10	ENSGT00390000007384 #12	ENSGT00390000016493 #13	ENSGT00390000012364 #14	ENSGT00940000153469.a.b #15	ENSGT00940000153469.a.a ##15	ENSGT00390000010581 #16	ENSGT00940000156498 #17	ENSGT00830000128449 #18	ENSGT00940000155641 #19	ENSGT00940000158838 #20	ENSGT00390000005481 #21	ENSGT00730000111057 #22	ENSGT00530000063301.a.a #23	ENSGT00390000008812.b.b #24	ENSGT00940000157411 #25	ENSGT00390000012062 #26	ENSGT00940000161810 #27	ENSGT00940000154991.b #28	ENSGT01100000263482.A.a.a.c.a.a #32	ENSGT01100000263482.A.a.a.d.a.a.b #31	ENSGT01100000263482.A.a.a.c.a.b #32	ENSGT01030000234760 #33	ENSGT00940000158479 #34	ENSGT00940000156339 #35	ENSGT00390000012151 #36	ENSGT00940000156492 #37	ENSGT00390000012719.a
Hystricomorpha_a	ANCESTRAL SPECIES		ENSGT00940000160802	ENSGT00390000009142 #7	ENSGT00390000003004 #8	ENSGT00440000033742.a.b #10	ENSGT00390000007384 #12	ENSGT00390000016493 #13	ENSGT00390000012364 #14	ENSGT00940000153469.a.b #15	ENSGT00940000153469.a.a ##15	ENSGT00390000010581 #16	ENSGT00940000156498 #17	ENSGT00830000128449 #18	ENSGT00940000155641 #19	ENSGT00940000158838 #20	ENSGT00390000005481 #21	ENSGT00730000111057 #22	ENSGT00530000063301.a.a #23	ENSGT00390000008812.b.b #24	ENSGT00940000157411 #25	ENSGT00390000012062 #26	ENSGT00940000161810 #27	ENSGT00940000154991.b #28	ENSGT01100000263482.A.a.a.c.a.a #32	ENSGT01100000263482.A.a.a.d.a.a.b #31	ENSGT01100000263482.A.a.a.c.a.b #32	ENSGT01030000234760 #33	ENSGT00940000158479 #34	ENSGT00940000156339 #35	ENSGT00390000012151 #36	ENSGT00940000156492 #37	ENSGT00390000012719.a
Hystricomorpha_b	ANCESTRAL SPECIES		ENSGT00940000160802	ENSGT00390000009142 #7	ENSGT00390000003004 #8	ENSGT00440000033742.a.b #10	ENSGT00390000007384 #12	ENSGT00390000016493 #13	ENSGT00390000012364 #14	ENSGT00940000153469.a.b #15	ENSGT00940000153469.a.a ##15	ENSGT00390000010581 #16	ENSGT00940000156498 #17	ENSGT00830000128449 #18	ENSGT00940000155641 #19	ENSGT00940000158838 #20	ENSGT00390000005481 #21	ENSGT00730000111057 #22	ENSGT00530000063301.a.a #23	ENSGT00390000008812.b.b #24	ENSGT00940000157411 #25	ENSGT00390000012062 #26	ENSGT00940000161810 #27	ENSGT00940000154991.b #28	ENSGT01100000263482.A.a.a.c.a.a #32	ENSGT01100000263482.A.a.a.d.a.a.b #31	ENSGT01100000263482.A.a.a.c.a.b #32	ENSGT01030000234760 #33	ENSGT00940000158479 #34	ENSGT00940000156339 #35	ENSGT00390000012151 #36	ENSGT00940000156492 #37	ENSGT00390000012719.a
Long-tailed chinchilla	MODERN SPECIES	188	OMG (ENSCLAG00000012747)	EVI2B (ENSCLAG00000017819) #7	EVI2A (ENSCLAG00000013303) #8	RAB11FIP4 (ENSCLAG00000012724) #10	COPRS (ENSCLAG00000013385) #12	UTP6 (ENSCLAG00000007274) #13	SUZ12 (ENSCLAG00000008281) #14	CRLF3 (ENSCLAG00000009651) #15	ATAD5 (ENSCLAG00000009928) ##15	TEFM (ENSCLAG00000006597) #16	ADAP2 (ENSCLAG00000005862) #17	ENSCLAG00000007154 #18	RHOT1 (ENSCLAG00000007856) #19	RHBDL3 (ENSCLAG00000008877) #20	C17orf75 (ENSCLAG00000007683) #21	ZNF207 (ENSCLAG00000006441) #22	PSMD11 (ENSCLAG00000009489) #23	CDK5R1 (ENSCLAG00000017838) #24	MYO1D (ENSCLAG00000009101) #25	TMEM98 (ENSCLAG00000007965) #26	SPACA3 (ENSCLAG00000008459) #27	ASIC2 (ENSCLAG00000004876) #28	ENSCLAG00000005731 #32	ENSCLAG00000006066 #32	CCL11 (ENSCLAG00000004752) #31	ENSCLAG00000005107 #32	ENSCLAG00000006411 #33	TMEM132E (ENSCLAG00000006946) #34	CCT6B (ENSCLAG00000014724) #35	ZNF830 (ENSCLAG00000017672) #36	LIG3 (ENSCLAG00000009138) #37
Degu	MODERN SPECIES	113	NF1 (ENSODEG00000011949)	OMG (ENSODEG00000011985)	EVI2B (ENSODEG00000013035) #7	RAB11FIP4 (ENSODEG00000015676) #10	ENSODEG00000012209	COPRS (ENSODEG00000011871) #12	UTP6 (ENSODEG00000011971) #13	SUZ12 (ENSODEG00000013459) #14	ENSODEG00000013349 #15	ATAD5 (ENSODEG00000014008) ##15	ADAP2 (ENSODEG00000011944) #17	ENSODEG00000013107 #18	RHOT1 (ENSODEG00000012674) #19	RHBDL3 (ENSODEG00000012800) #20	C17orf75 (ENSODEG00000012638) #21	ZNF207 (ENSODEG00000012683) #22	ENSODEG00000013615 #23	ENSODEG00000014487 #23	CDK5R1 (ENSODEG00000020159) #24	MYO1D (ENSODEG00000012420) #25	TMEM98 (ENSODEG00000012273) #26	ENSODEG00000012654 #27	ASIC2 (ENSODEG00000012964) #28	CCL11 (ENSODEG00000013280) #31	ENSODEG00000013352 #33	TMEM132E (ENSODEG00000013225) #34	CCT6B (ENSODEG00000013365) #35	ENSODEG00000020133	ZNF830 (ENSODEG00000012121) #36	LIG3 (ENSODEG00000014335) #37	RFFL (ENSODEG00000013992)
Guinea pig	MODERN SPECIES	32	OR4K2 (ENSCPOG00000030333)	OR4Q3 (ENSCPOG00000020338)	RAB11FIP4 (ENSCPOG00000011634) #10	COPRS (ENSCPOG00000006018) #12	UTP6 (ENSCPOG00000014294) #13	ENSCPOG00000034287	SUZ12 (ENSCPOG00000024628) #14	CRLF3 (ENSCPOG00000008693) #15	ATAD5 (ENSCPOG00000011900) ##15	TEFM (ENSCPOG00000011909) #16	ADAP2 (ENSCPOG00000004369) #17	RNF135 (ENSCPOG00000004880) #18	RHOT1 (ENSCPOG00000007927) #19	RHBDL3 (ENSCPOG00000022880) #20	C17orf75 (ENSCPOG00000013162) #21	ZNF207 (ENSCPOG00000001728) #22	PSMD11 (ENSCPOG00000009798) #23	CDK5R1 (ENSCPOG00000020676) #24	MYO1D (ENSCPOG00000000149) #25	TMEM98 (ENSCPOG00000000153) #26	SPACA3 (ENSCPOG00000027605) #27	ASIC2 (ENSCPOG00000025132) #28	ENSCPOG00000033808 #32	ENSCPOG00000013468 #32	CCL7 (ENSCPOG00000013035) #30	CCL11 (ENSCPOG00000032138) #31	ENSCPOG00000033402 #32	TMEM132E (ENSCPOG00000001908) #34	CCT6B (ENSCPOG00000002794) #35	ZNF830 (ENSCPOG00000031218) #36	LIG3 (ENSCPOG00000013032) #37
Naked mole-rat female	MODERN SPECIES	12	ENSHGLG00000017502	MPO (ENSHGLG00000019104)	LPO (ENSHGLG00000018067)	MKS1 (ENSHGLG00000012631)	ENSHGLG00000037944	ENSHGLG00000045253 ##32	ENSHGLG00000010660 #16	ENSHGLG00000009908 ##15	ENSHGLG00000010534	ENSHGLG00000010961 #17	ENSHGLG00000041636 #18	RHOT1 (ENSHGLG00000011785) #19	ENSHGLG00000049011 #20	C17orf75 (ENSHGLG00000019463) #21	ENSHGLG00000002460	ZNF207 (ENSHGLG00000019501) #22	PSMD11 (ENSHGLG00000019505) #23	CDK5R1 (ENSHGLG00000037917) #24	MYO1D (ENSHGLG00000015796) #25	TMEM98 (ENSHGLG00000015858) #26	SPACA3 (ENSHGLG00000015911) #27	ASIC2 (ENSHGLG00000000958) #28	CCL2 (ENSHGLG00000034308) #32	CCL11 (ENSHGLG00000001015) #31	ENSHGLG00000001025 #30	ENSHGLG00000042122 #33	Lig3 (ENSHGLG00000001349) #37	ENSHGLG00000001734	RAD51D (ENSHGLG00000001857)	FNDC8 (ENSHGLG00000001963)	NLE1 (ENSHGLG00000002006)