Rodentia_A	ANCESTRAL SPECIES	6	ENSGT00940000158140 #9	ENSGT00940000161035	ENSGT00390000011730 #10	ENSGT00940000162619 #11	ENSGT00940000162251 #12	ENSGT00390000003910 #13	ENSGT00390000001368 #14	ENSGT00940000154158.k.a ##15	ENSGT00520000055637.A.b #16	ENSGT00940000158707.a.b #17	ENSGT00390000003374 #18	ENSGT00940000155581.C #19	ENSGT00940000162066 #20	ENSGT00390000011116 #21	ENSGT00530000065415	ENSGT00530000063823.b.a #22	ENSGT00730000111190 #23	ENSGT00940000161887 #24	ENSGT00390000002290 #25	ENSGT00390000015359 #26	ENSGT00940000154511.a #27	ENSGT00950000182909.b.b.b #28	ENSGT00390000008797 #29	ENSGT00940000157348 #30	ENSGT00390000012337 #31	ENSGT00390000017259 #32	ENSGT00940000157787 #33	ENSGT00510000047505.d #34	ENSGT00940000161325 #35	ENSGT00950000183176.b.e #36	ENSGT00940000157000 #37
Sciuridae	ANCESTRAL SPECIES	5	ENSGT00940000158140 #9	ENSGT00940000161035	ENSGT00390000011730 #10	ENSGT00940000162619 #11	ENSGT00940000162251 #12	ENSGT00390000003910 #13	ENSGT00390000001368 #14	ENSGT00940000154158.l #15	ENSGT00520000055637.A.b #16	ENSGT00940000158707.a.b #17	ENSGT00390000003374 #18	ENSGT00940000155581.C #19	ENSGT00940000162066 #20	ENSGT00390000011116 #21	ENSGT00530000065415	ENSGT00530000063823.b.a #22	ENSGT00730000111190 #23	ENSGT00940000161887.f #24	ENSGT00390000002290 #25	ENSGT00390000015359 #26	ENSGT00940000154511.a #27	ENSGT00950000182909.b.b.b #28	ENSGT00390000008797 #29	ENSGT00940000157348 #30	ENSGT00390000012337 #31	ENSGT00390000017259 #32	ENSGT00940000157787 #33	ENSGT00510000047505.d #34	ENSGT00940000161325 #35	ENSGT00950000183176.b.e #36	ENSGT00940000157000 #37
Marmotini	ANCESTRAL SPECIES	17	ENSGT00940000161035	ENSGT00390000011730 #10	ENSGT00940000162619 #11	ENSGT00940000162251 #12	ENSGT00390000003910 #13	ENSGT00390000001368 #14	ENSGT00940000154158.l #15	ENSGT00520000055637.A.b #16	ENSGT00940000158707.a.b #17	ENSGT00390000003374 #18	ENSGT00940000155581.C.j #19	ENSGT00940000155581.C.i ##19	ENSGT00940000162066 #20	ENSGT00390000011116 #21	ENSGT00530000065415	ENSGT00530000063823.b.a #22	ENSGT00730000111190 #23	ENSGT00940000161887.f #24	ENSGT00390000002290 #25	ENSGT00390000015359 #26	ENSGT00940000154511.a #27	ENSGT00950000182909.b.b.b #28	ENSGT00390000008797 #29	ENSGT00940000157348 #30	ENSGT00390000012337 #31	ENSGT00390000017259 #32	ENSGT00940000157787 #33	ENSGT00510000047505.d.i #34	ENSGT00940000161325 #35	ENSGT00950000183176.b.e #36	ENSGT00940000157000 #37
Marmotini_b	ANCESTRAL SPECIES	64	ENSGT00940000158140 #9	ENSGT00940000161035	ENSGT00390000011730 #10	ENSGT00940000162619 #11	ENSGT00940000162251 #12	ENSGT00390000003910 #13	ENSGT00390000001368 #14	ENSGT00940000154158.l #15	ENSGT00520000055637.A.b #16	ENSGT00940000158707.a.b #17	ENSGT00390000003374 #18	ENSGT00940000155581.C.j #19	ENSGT00940000162066 #20	ENSGT00390000011116 #21	ENSGT00530000065415	ENSGT00530000063823.b.a #22	ENSGT00730000111190 #23	ENSGT00940000161887.f #24	ENSGT00390000002290 #25	ENSGT00390000015359 #26	ENSGT00940000154511.a #27	ENSGT00950000182909.b.b.b #28	ENSGT00390000008797 #29	ENSGT00940000157348 #30	ENSGT00390000012337 #31	ENSGT00390000017259 #32	ENSGT00940000157787 #33	ENSGT00510000047505.d.i #34	ENSGT00940000161325 #35	ENSGT00950000183176.b.e #36	ENSGT00940000157000 #37
Squirrel	MODERN SPECIES	241	EMC8 (ENSSTOG00000024929) #7	COX4I1 (ENSSTOG00000024338) #8	IRF8 (ENSSTOG00000028363) #9	MTHFSD (ENSSTOG00000013775) #10	FOXC2 (ENSSTOG00000028715) #11	FOXL1 (ENSSTOG00000024336) #12	ENSSTOG00000033877 #13	FBXO31 (ENSSTOG00000012185) #14	ENSSTOG00000014826 #15	ZCCHC14 (ENSSTOG00000006167) #16	JPH3 (ENSSTOG00000005619) #17	KLHDC4 (ENSSTOG00000016140) #18	ENSSTOG00000025706 #19	CA5A (ENSSTOG00000029850) #20	BANP (ENSSTOG00000009245) #21	ZFPM1 (ENSSTOG00000027139) #22	ZC3H18 (ENSSTOG00000022431) #23	IL17C (ENSSTOG00000022407) #24	CYBA (ENSSTOG00000020835) #25	MVD (ENSSTOG00000016332) #26	SNAI3 (ENSSTOG00000021205) #27	RNF166 (ENSSTOG00000003956) #28	CTU2 (ENSSTOG00000003978) #29	PIEZO1 (ENSSTOG00000004005) #30	CDT1 (ENSSTOG00000027593) #31	APRT (ENSSTOG00000010846) #32	GALNS (ENSSTOG00000025556) #33	TRAPPC2L (ENSSTOG00000007271) #34	PABPN1L (ENSSTOG00000020814) #35	CBFA2T3 (ENSSTOG00000021485) #36	ACSF3 (ENSSTOG00000027519) #37
Arctic ground squirrel	MODERN SPECIES	254	FOXF1 (ENSUPAG00010014974)	MTHFSD (ENSUPAG00010014981) #10	FOXC2 (ENSUPAG00010015015) #11	FOXL1 (ENSUPAG00010015020) #12	ENSUPAG00010015027 #13	FBXO31 (ENSUPAG00010015042) #14	ENSUPAG00010015075 #15	ZCCHC14 (ENSUPAG00010015093) #16	JPH3 (ENSUPAG00010015122) #17	KLHDC4 (ENSUPAG00010015135) #18	ENSUPAG00010015149 #19	ENSUPAG00010015155 #19	CA5A (ENSUPAG00010015163) #20	BANP (ENSUPAG00010015194) #21	ENSUPAG00010015213	ZFPM1 (ENSUPAG00010015217) #22	ZC3H18 (ENSUPAG00010015235) #23	IL17C (ENSUPAG00010015474) #24	CYBA (ENSUPAG00010015480) #25	MVD (ENSUPAG00010015487) #26	SNAI3 (ENSUPAG00010015507) #27	RNF166 (ENSUPAG00010015514) #28	CTU2 (ENSUPAG00010015526) #29	ENSUPAG00010015536 #30	CDT1 (ENSUPAG00010015658) #31	APRT (ENSUPAG00010015685) #32	GALNS (ENSUPAG00010015693) #33	ENSUPAG00010015728 #34	PABPN1L (ENSUPAG00010015748) #35	CBFA2T3 (ENSUPAG00010015810) #36	ACSF3 (ENSUPAG00010015909) #37
Eurasian red squirrel	MODERN SPECIES	8	ENSSVLG00005025133	IRF8 (ENSSVLG00005025108) #9	FOXF1 (ENSSVLG00005025093)	MTHFSD (ENSSVLG00005025053) #10	FOXC2 (ENSSVLG00005025014) #11	FOXL1 (ENSSVLG00005024997) #12	FBXO31 (ENSSVLG00005024985) #14	ENSSVLG00005024960 #15	ZCCHC14 (ENSSVLG00005024894) #16	JPH3 (ENSSVLG00005024840) #17	ENSSVLG00005024798	KLHDC4 (ENSSVLG00005024738) #18	SLC7A5 (ENSSVLG00005024701) #19	CA5A (ENSSVLG00005024653) #20	BANP (ENSSVLG00005024587) #21	ZFPM1 (ENSSVLG00005024272) #22	ZC3H18 (ENSSVLG00005024223) #23	IL17C (ENSSVLG00005024189) #24	CYBA (ENSSVLG00005024171) #25	MVD (ENSSVLG00005024123) #26	SNAI3 (ENSSVLG00005024096) #27	RNF166 (ENSSVLG00005024047) #28	CTU2 (ENSSVLG00005024007) #29	CDT1 (ENSSVLG00005022481) #31	APRT (ENSSVLG00005022428) #32	GALNS (ENSSVLG00005022395) #33	TRAPPC2L (ENSSVLG00005022327) #34	PABPN1L (ENSSVLG00005022098) #35	CBFA2T3 (ENSSVLG00005021892) #36	ACSF3 (ENSSVLG00005021795) #37	CDH15 (ENSSVLG00005021588)
Hystricomorpha	ANCESTRAL SPECIES	59	ENSGT00940000158140 #9	ENSGT00940000161035	ENSGT00390000011730 #10	ENSGT00940000162619 #11	ENSGT00940000162251 #12	ENSGT00390000003910 #13	ENSGT00390000001368 #14	ENSGT00940000154158.k.a.ab ##15	ENSGT00940000154158.k.a.`b ##15	ENSGT00520000055637.A.b #16	ENSGT00940000158707.a.b #17	ENSGT00390000003374 #18	ENSGT00940000155581.C #19	ENSGT00940000162066 #20	ENSGT00390000011116 #21	ENSGT00530000063823.b.a #22	ENSGT00730000111190 #23	ENSGT00940000161887 #24	ENSGT00390000002290 #25	ENSGT00390000015359 #26	ENSGT00940000154511.a #27	ENSGT00950000182909.b.b.b #28	ENSGT00390000008797 #29	ENSGT00940000157348 #30	ENSGT00390000012337 #31	ENSGT00390000017259 #32	ENSGT00940000157787 #33	ENSGT00510000047505.d #34	ENSGT00940000161325 #35	ENSGT00950000183176.b.e #36	ENSGT00940000157000 #37
Hystricomorpha_a	ANCESTRAL SPECIES	64	ENSGT00390000002407.d #8	ENSGT00940000158140 #9	ENSGT00940000161035	ENSGT00390000011730 #10	ENSGT00940000162619 #11	ENSGT00940000162251 #12	ENSGT00390000003910 #13	ENSGT00390000001368 #14	ENSGT00940000154158.k.a.ab ##15	ENSGT00520000055637.A.b #16	ENSGT00940000158707.a.b #17	ENSGT00390000003374 #18	ENSGT00940000155581.C #19	ENSGT00940000162066 #20	ENSGT00390000011116 #21	ENSGT00530000063823.b.a #22	ENSGT00730000111190 #23	ENSGT00940000161887 #24	ENSGT00390000002290 #25	ENSGT00390000015359 #26	ENSGT00940000154511.a #27	ENSGT00950000182909.b.b.b #28	ENSGT00390000008797 #29	ENSGT00940000157348 #30	ENSGT00390000012337 #31	ENSGT00390000017259 #32	ENSGT00940000157787 #33	ENSGT00510000047505.d #34	ENSGT00940000161325 #35	ENSGT00950000183176.b.e #36	ENSGT00940000157000 #37
Hystricomorpha_b	ANCESTRAL SPECIES	82	ENSGT00390000015933	ENSGT00390000006738.a #7	ENSGT00390000002407.d #8	ENSGT00940000158140 #9	ENSGT00940000161035	ENSGT00390000011730 #10	ENSGT00940000162251 #12	ENSGT00390000001368 #14	ENSGT00940000154158.k.a.ab ##15	ENSGT00520000055637.A.b #16	ENSGT00940000158707.a.b #17	ENSGT00390000003374 #18	ENSGT00940000155581.C #19	ENSGT00940000162066 #20	ENSGT00390000011116 #21	ENSGT00530000063823.b.a #22	ENSGT00730000111190 #23	ENSGT00940000161887 #24	ENSGT00390000002290 #25	ENSGT00390000015359 #26	ENSGT00940000154511.a #27	ENSGT00950000182909.b.b.b #28	ENSGT00390000008797 #29	ENSGT00940000157348 #30	ENSGT00390000012337 #31	ENSGT00390000017259 #32	ENSGT00940000157787 #33	ENSGT00510000047505.d #34	ENSGT00940000161325 #35	ENSGT00950000183176.b.e #36	ENSGT00940000157000 #37
Degu	MODERN SPECIES	256												ENSODEG00000004621	ENSODEG00000004611 #19	CA5A (ENSODEG00000004595) #20	ENSODEG00000004574 #21	ZFPM1 (ENSODEG00000004547) #22	ZC3H18 (ENSODEG00000004401) #23	IL17C (ENSODEG00000004311) #24	CYBA (ENSODEG00000004204) #25	MVD (ENSODEG00000004168) #26	SNAI3 (ENSODEG00000004154) #27	RNF166 (ENSODEG00000004145) #28	CTU2 (ENSODEG00000004093) #29	PIEZO1 (ENSODEG00000005089) #30	CDT1 (ENSODEG00000004905) #31	ENSODEG00000004857 #32	GALNS (ENSODEG00000004721) #33	ENSODEG00000004673 #34	PABPN1L (ENSODEG00000004649) #35	CBFA2T3 (ENSODEG00000004615) #36	ENSODEG00000004407
Guinea pig	MODERN SPECIES	270																ZFPM1 (ENSCPOG00000024281) #22	ZC3H18 (ENSCPOG00000031675) #23	IL17C (ENSCPOG00000033964) #24	CYBA (ENSCPOG00000001019) #25	MVD (ENSCPOG00000020861) #26	SNAI3 (ENSCPOG00000031579) #27	RNF166 (ENSCPOG00000001798) #28	CTU2 (ENSCPOG00000008782) #29	PIEZO1 (ENSCPOG00000008804) #30	CDT1 (ENSCPOG00000023857) #31	APRT (ENSCPOG00000026373) #32	GALNS (ENSCPOG00000021208) #33	TRAPPC2L (ENSCPOG00000002742) #34	PABPN1L (ENSCPOG00000025951) #35	CBFA2T3 (ENSCPOG00000023105) #36
Naked mole-rat female	DUPLICATION
Naked mole-rat female	MODERN SPECIES	26	C16orf74 (ENSHGLG00000044539)	GINS2 (ENSHGLG00000011513)	GSE1 (ENSHGLG00000014146)	CIBAR2 (ENSHGLG00000019087)	KIAA0513 (ENSHGLG00000044322)	ZDHHC7 (ENSHGLG00000010557)	USP10 (ENSHGLG00000016812)	KLHL36 (ENSHGLG00000016784)	COTL1 (ENSHGLG00000018790)	ENSHGLG00000012079	ENSHGLG00000014744	ENSHGLG00000014295 #19	ENSHGLG00000011507 #20	BANP (ENSHGLG00000009601) #21	ENSHGLG00000038403 #22	ENSHGLG00000040718 #22	ENSHGLG00000013309 #23	IL17C (ENSHGLG00000037937) #24	CYBA (ENSHGLG00000050710) #25	ENSHGLG00000043954 #26	SNAI3 (ENSHGLG00000018681) #27	RNF166 (ENSHGLG00000014545) #28	CTU2 (ENSHGLG00000015988) #29	ENSHGLG00000036225 #30	ENSHGLG00000036618 #32	GALNS (ENSHGLG00000011517) #33	TRAPPC2L (ENSHGLG00000010329) #34	PABPN1L (ENSHGLG00000043697) #35	ENSHGLG00000032090 #36	ENSHGLG00000038565 #36	ENSHGLG00000044301
Naked mole-rat female	MODERN SPECIES	26	ENSHGLG00000014169 #7	C16orf74 (ENSHGLG00000044539)	GINS2 (ENSHGLG00000011513)	GSE1 (ENSHGLG00000014146)	CIBAR2 (ENSHGLG00000019087)	KIAA0513 (ENSHGLG00000044322)	ZDHHC7 (ENSHGLG00000010557)	USP10 (ENSHGLG00000016812)	KLHL36 (ENSHGLG00000016784)	COTL1 (ENSHGLG00000018790)	ENSHGLG00000012079	ENSHGLG00000014744	ENSHGLG00000014295 #19	ENSHGLG00000011507 #20	BANP (ENSHGLG00000009601) #21	ENSHGLG00000038403 #22	ENSHGLG00000040718 #22	ENSHGLG00000013309 #23	IL17C (ENSHGLG00000037937) #24	CYBA (ENSHGLG00000050710) #25	ENSHGLG00000043954 #26	SNAI3 (ENSHGLG00000018681) #27	RNF166 (ENSHGLG00000014545) #28	CTU2 (ENSHGLG00000015988) #29	ENSHGLG00000036225 #30	ENSHGLG00000036618 #32	GALNS (ENSHGLG00000011517) #33	TRAPPC2L (ENSHGLG00000010329) #34	PABPN1L (ENSHGLG00000043697) #35	ENSHGLG00000032090 #36	ENSHGLG00000038565 #36