Rodentia_A	ANCESTRAL SPECIES	15	ENSGT00940000153956.b	ENSGT00940000158630 #7	ENSGT00390000015583 #8	ENSGT00940000155032 #9	ENSGT00390000015287.h #10	ENSGT00950000182926.b.d.c.a.j #11	ENSGT00390000013106 #12	ENSGT00390000007081.a #13	ENSGT00390000007081.b #14	ENSGT00940000157331 #15	ENSGT00940000157322.a #16	ENSGT00940000154965.A #17	ENSGT00940000162611.a ##18	ENSGT00390000008787.b #20	ENSGT00940000155493 #21	ENSGT00940000160572 #22	ENSGT00390000009395 #23	ENSGT00940000158584 #24	ENSGT00940000155715 #25	ENSGT00940000162006 #26	ENSGT00940000156981 #27	ENSGT00940000156590 #28	ENSGT01100000263542.C #29	ENSGT00570000079101.a.a #31	ENSGT00500000044903 #32	ENSGT00940000158658 #33	ENSGT00940000155525 #34	ENSGT00940000162654.b	ENSGT00940000154299.e	ENSGT00940000162913.a.b	ENSGT00940000162913.a.a
Sciuridae	ANCESTRAL SPECIES	21	ENSGT00940000153956.b	ENSGT00940000158630 #7	ENSGT00390000015583 #8	ENSGT00940000155032 #9	ENSGT00390000015287.h #10	ENSGT00950000182926.b.d.c.a.j #11	ENSGT00390000013106 #12	ENSGT00390000007081.a #13	ENSGT00390000007081.b #14	ENSGT00940000157331 #15	ENSGT00940000157322.a #16	ENSGT00940000154965.A #17	ENSGT00940000162611.a ##18	ENSGT00390000008787.b #20	ENSGT00940000155493 #21	ENSGT00940000160572 #22	ENSGT00390000009395 #23	ENSGT00940000158584 #24	ENSGT00940000155715 #25	ENSGT00940000162006 #26	ENSGT00940000156981 #27	ENSGT00940000156590 #28	ENSGT01100000263542.C #29	ENSGT00570000079101.a.a #31	ENSGT00500000044903 #32	ENSGT00940000158658 #33	ENSGT00940000155525 #34	ENSGT00940000162654.b	ENSGT00940000163209.c.b.b	ENSGT00940000154299.f.b	ENSGT00940000162913.b.b
Marmotini	ANCESTRAL SPECIES	16	ENSGT00940000153956.b	ENSGT00940000158630 #7	ENSGT00390000015583 #8	ENSGT00940000155032 #9	ENSGT00390000015287.h.g.a #10	ENSGT00950000182926.b.d.c.a.j #11	ENSGT00390000013106 #12	ENSGT00390000007081.a #13	ENSGT00390000007081.b #14	ENSGT00940000157331 #15	ENSGT00940000157322.a #16	ENSGT00940000154965.A #17	ENSGT00940000162611.a ##18	ENSGT00390000008787.b #20	ENSGT00940000155493 #21	ENSGT00940000160572 #22	ENSGT00390000009395 #23	ENSGT00940000158584 #24	ENSGT00940000155715 #25	ENSGT00940000162006 #26	ENSGT00940000156981 #27	ENSGT00940000156590 #28	ENSGT01100000263542.C.h #29	ENSGT01100000263542.C.g #30	ENSGT00570000079101.a.a #31	ENSGT00500000044903 #32	ENSGT00940000158658 #33	ENSGT00940000155525 #34	ENSGT00940000162654.b	ENSGT00940000154299.f.b.a.a	ENSGT00940000162913.b.b
Marmotini_b	ANCESTRAL SPECIES	97	ENSGT00530000063604.A	ENSGT00940000153956.b	ENSGT00940000158630 #7	ENSGT00390000015583 #8	ENSGT00940000155032 #9	ENSGT00390000015287.h.g.a #10	ENSGT00950000182926.b.d.c.a.j #11	ENSGT00390000013106 #12	ENSGT00390000007081.a #13	ENSGT00390000007081.b #14	ENSGT00940000157331 #15	ENSGT00940000157322.a #16	ENSGT00940000154965.A #17	ENSGT00390000008787.b #20	ENSGT00940000155493 #21	ENSGT00940000160572 #22	ENSGT00390000009395 #23	ENSGT00940000158584 #24	ENSGT00940000155715 #25	ENSGT00940000162006 #26	ENSGT00940000156981 #27	ENSGT00940000156590 #28	ENSGT01100000263542.C.h #29	ENSGT01100000263542.C.g #30	ENSGT00570000079101.a.a #31	ENSGT00500000044903 #32	ENSGT00940000158658 #33	ENSGT00940000155525 #34	ENSGT00940000162654.b	ENSGT00940000154299.f.b.a.a	ENSGT00940000162913.b.b
Arctic ground squirrel	MODERN SPECIES	145	UBTD1 (ENSUPAG00010014630) #7	MMS19 (ENSUPAG00010014546) #8	ZDHHC16 (ENSUPAG00010014509) #9	ENSUPAG00010014471 #10	PGAM1 (ENSUPAG00010014455) #11	RRP12 (ENSUPAG00010014418) #12	FRAT2 (ENSUPAG00010014413) #13	FRAT1 (ENSUPAG00010014412) #14	ARHGAP19 (ENSUPAG00010014329) #15	SLIT1 (ENSUPAG00010014205) #16	LCOR (ENSUPAG00010014187) #17	ENSUPAG00010014178 #18	HNRNPA1L2 (ENSUPAG00010014177) #19	PIK3AP1 (ENSUPAG00010014107) #20	TM9SF3 (ENSUPAG00010014080) #21	TLL2 (ENSUPAG00010014051) #22	OPALIN (ENSUPAG00010014040) #23	DNTT (ENSUPAG00010014016) #24	BLNK (ENSUPAG00010013982) #25	ZNF518A (ENSUPAG00010013976) #26	CCNJ (ENSUPAG00010013959) #27	CC2D2B (ENSUPAG00010013905) #28	ENSUPAG00010013804 #29	ENSUPAG00010013793 #30	TCTN3 (ENSUPAG00010013786) #31	ALDH18A1 (ENSUPAG00010013742) #32	SORBS1 (ENSUPAG00010010616) #33	PDLIM1 (ENSUPAG00010010593) #34
Squirrel	MODERN SPECIES	236	ENSSTOG00000020441	ANKRD2 (ENSSTOG00000006701)	UBTD1 (ENSSTOG00000006700) #7	MMS19 (ENSSTOG00000006641) #8	ZDHHC16 (ENSSTOG00000006627) #9	EXOSC1 (ENSSTOG00000006615) #10	PGAM1 (ENSSTOG00000025955) ##11	RRP12 (ENSSTOG00000006515) #12	FRAT2 (ENSSTOG00000023988) #13	FRAT1 (ENSSTOG00000009543) #14	ARHGAP19 (ENSSTOG00000019537) #15	SLIT1 (ENSSTOG00000010816) #16	LCOR (ENSSTOG00000010811) #17	PIK3AP1 (ENSSTOG00000002786) #20	TM9SF3 (ENSSTOG00000002762) #21	TLL2 (ENSSTOG00000002746) #22	OPALIN (ENSSTOG00000012748) #23	DNTT (ENSSTOG00000012729) #24	BLNK (ENSSTOG00000012711) #25	ZNF518A (ENSSTOG00000021018) #26	CCNJ (ENSSTOG00000005634) #27	CC2D2B (ENSSTOG00000005628) #28	ENTPD1 (ENSSTOG00000022053) #30	ENSSTOG00000022100	TCTN3 (ENSSTOG00000007961) #31	ALDH18A1 (ENSSTOG00000007930) #32	SORBS1 (ENSSTOG00000004612) #33	PDLIM1 (ENSSTOG00000004592) #34	ENSSTOG00000022102	ENSSTOG00000022556	ENSSTOG00000027442
Alpin marmot	MODERN SPECIES	39	ANKRD2 (ENSMMMG00000021677)	UBTD1 (ENSMMMG00000021672) #7	MMS19 (ENSMMMG00000021617) #8	ZDHHC16 (ENSMMMG00000021606) #9	EXOSC1 (ENSMMMG00000021593) #10	PGAM1 (ENSMMMG00000021588) ##11	RRP12 (ENSMMMG00000021563) #12	FRAT2 (ENSMMMG00000021560) #13	ARHGAP19 (ENSMMMG00000021533) #15	SLIT1 (ENSMMMG00000021470) #16	LCOR (ENSMMMG00000021462) #17	ENSMMMG00000021452 ##18	ENSMMMG00000021445	PIK3AP1 (ENSMMMG00000021426) #20	ENSMMMG00000021418 #21	TLL2 (ENSMMMG00000021409) #22	OPALIN (ENSMMMG00000021401) #23	DNTT (ENSMMMG00000021389) #24	BLNK (ENSMMMG00000021371) #25	ZNF518A (ENSMMMG00000021365) #26	ENSMMMG00000021357 #27	CC2D2B (ENSMMMG00000021316) #28	ENSMMMG00000021285 #29	ENSMMMG00000021275 #30	TCTN3 (ENSMMMG00000021260) #31	ALDH18A1 (ENSMMMG00000021245) #32	SORBS1 (ENSMMMG00000019903) #33	PDLIM1 (ENSMMMG00000019890) #34	ENSMMMG00000019886	ENSMMMG00000019876	ENSMMMG00000016378
Eurasian red squirrel	MODERN SPECIES	13	MMS19 (ENSSVLG00005017214) #8	ZDHHC16 (ENSSVLG00005017379) #9	EXOSC1 (ENSSVLG00005017650) #10	PGAM1 (ENSSVLG00005017816) #11	RRP12 (ENSSVLG00005017893) #12	ENSSVLG00005018017 #13	FRAT1 (ENSSVLG00005018038) #14	ARHGAP19 (ENSSVLG00005018106) #15	ENSSVLG00005018513	SLIT1 (ENSSVLG00005018555) #16	LCOR (ENSSVLG00005019384) #17	ENSSVLG00005019472	ENSSVLG00005019543	PIK3AP1 (ENSSVLG00005019678) #20	TM9SF3 (ENSSVLG00005019967) #21	TLL2 (ENSSVLG00005020186) #22	OPALIN (ENSSVLG00005021033) #23	DNTT (ENSSVLG00005021305) #24	BLNK (ENSSVLG00005021548) #25	ZNF518A (ENSSVLG00005022030) #26	ENSSVLG00005022052 #27	CC2D2B (ENSSVLG00005022216) #28	ENSSVLG00005022558 #29	ENSSVLG00005022879 #29	TCTN3 (ENSSVLG00005023048) #31	ALDH18A1 (ENSSVLG00005023213) #32	SORBS1 (ENSSVLG00005023743) #33	PDLIM1 (ENSSVLG00005024887) #34	ENSSVLG00005025016	ENSSVLG00005025144	ENSSVLG00005025275
Hystricomorpha	ANCESTRAL SPECIES	1	ENSGT00940000153956.b	ENSGT00940000158630 #7	ENSGT00390000015583 #8	ENSGT00940000155032 #9	ENSGT00390000015287.h #10	ENSGT00950000182926.b.d.c.a.i.a ##11	ENSGT00390000013106 #12	ENSGT00390000007081.a #13	ENSGT00390000007081.b #14	ENSGT00940000157331 #15	ENSGT00940000157322.a #16	ENSGT00940000154965.A #17	ENSGT00940000162611.a ##18	ENSGT00390000008787.b #20	ENSGT00940000155493 #21	ENSGT00940000160572 #22	ENSGT00390000009395 #23	ENSGT00940000158584 #24	ENSGT00940000155715 #25	ENSGT00940000162006 #26	ENSGT00940000156981 #27	ENSGT00940000156590 #28	ENSGT01100000263542.C #29	ENSGT00570000079101.a.a #31	ENSGT00500000044903 #32	ENSGT00940000158658 #33	ENSGT00940000155525 #34	ENSGT00940000154299.e.b	ENSGT00940000162913.a.b	ENSGT00940000162913.a.a	ENSGT00740000115593
Naked mole-rat female	MODERN SPECIES	4	BTBD16 (ENSHGLG00000010643)	ENSHGLG00000043818	ENSHGLG00000009809	HTRA1 (ENSHGLG00000011897)	ENSHGLG00000014651	ENSHGLG00000045576	ENSHGLG00000041620	ENSHGLG00000014383 #16	ENSHGLG00000047493 #17	ENSHGLG00000011520 ##18	ENSHGLG00000044519	ENSHGLG00000039988	ENSHGLG00000033348	ENSHGLG00000014509 #20	TM9SF3 (ENSHGLG00000012450) #21	TLL2 (ENSHGLG00000013626) #22	OPALIN (ENSHGLG00000042100) #23	DNTT (ENSHGLG00000009905) #24	BLNK (ENSHGLG00000012499) #25	ZNF518A (ENSHGLG00000021043) #26	CCNJ (ENSHGLG00000050258) #27	CC2D2B (ENSHGLG00000014755) #28	ENSHGLG00000046208	ENTPD1 (ENSHGLG00000015966) #29	TCTN3 (ENSHGLG00000015851) #31	ALDH18A1 (ENSHGLG00000008159) #32	SORBS1 (ENSHGLG00000009457) #33	ENSHGLG00000036668	ENSHGLG00000048441	ENSHGLG00000035653	ENSHGLG00000012164 #34
Hystricomorpha_a	ANCESTRAL SPECIES	3	ENSGT00530000063604.A	ENSGT00940000153956.b	ENSGT00940000158630 #7	ENSGT00390000015583 #8	ENSGT00940000155032 #9	ENSGT00390000015287.h #10	ENSGT00950000182926.b.d.c.a.j #11	ENSGT00390000013106 #12	ENSGT00390000007081.a #13	ENSGT00940000157331 #15	ENSGT00940000157322.a #16	ENSGT00940000154965.A #17	ENSGT00940000162611.a ##18	ENSGT00390000008787.b #20	ENSGT00940000155493 #21	ENSGT00940000160572 #22	ENSGT00390000009395 #23	ENSGT00940000158584 #24	ENSGT00940000155715 #25	ENSGT00940000162006 #26	ENSGT00940000156981 #27	ENSGT00940000156590 #28	ENSGT01100000263542.C #29	ENSGT00570000079101.a.a #31	ENSGT00500000044903 #32	ENSGT00940000158658 #33	ENSGT00940000155525 #34	ENSGT00940000154299.e.b	ENSGT00940000162913.a.b	ENSGT00940000162913.a.a	ENSGT00740000115593
Guinea pig	MODERN SPECIES	1	HOGA1 (ENSCPOG00000004555)	ANKRD2 (ENSCPOG00000035324)	UBTD1 (ENSCPOG00000033582) #7	MMS19 (ENSCPOG00000006715) #8	ZDHHC16 (ENSCPOG00000006710) #9	EXOSC1 (ENSCPOG00000001173) #10	PGAM1 (ENSCPOG00000034665) ##11	RRP12 (ENSCPOG00000004215) #12	FRAT2 (ENSCPOG00000000139) #13	ARHGAP19 (ENSCPOG00000021474) #15	SLIT1 (ENSCPOG00000005743) #16	LCOR (ENSCPOG00000035033) #17	ENSCPOG00000005739 ##18	PIK3AP1 (ENSCPOG00000012888) #20	TM9SF3 (ENSCPOG00000002320) #21	TLL2 (ENSCPOG00000000539) #22	ENSCPOG00000034213 #23	DNTT (ENSCPOG00000002370) #24	BLNK (ENSCPOG00000012667) #25	ZNF518A (ENSCPOG00000006322) #26	CCNJ (ENSCPOG00000001476) #27	ENTPD1 (ENSCPOG00000003603) #29	TCTN3 (ENSCPOG00000021974) #31	ALDH18A1 (ENSCPOG00000000179) #32	SORBS1 (ENSCPOG00000002884) #33	PDLIM1 (ENSCPOG00000002869) #34	ENSCPOG00000009684	ENSCPOG00000030861	ENSCPOG00000025048	BTC (ENSCPOG00000026188)	AREG (ENSCPOG00000025893)
Hystricomorpha_b	ANCESTRAL SPECIES	14	ENSGT00530000063604.A	ENSGT00940000153956.b	ENSGT00940000158630 #7	ENSGT00390000015583 #8	ENSGT00940000155032 #9	ENSGT00390000015287.h #10	ENSGT00950000182926.b.d.c.a.j #11	ENSGT00390000013106 #12	ENSGT00390000007081.a #13	ENSGT00940000157331 #15	ENSGT00940000157322.a #16	ENSGT00940000154965.A #17	ENSGT00940000162611.a ##18	ENSGT00390000008787.b #20	ENSGT00940000155493 #21	ENSGT00940000160572 #22	ENSGT00390000009395 #23	ENSGT00940000158584 #24	ENSGT00940000155715 #25	ENSGT00940000162006 #26	ENSGT00940000156981 #27	ENSGT00940000156590 #28	ENSGT01100000263542.C #29	ENSGT00570000079101.a.a #31	ENSGT00500000044903 #32	ENSGT00940000158658 #33	ENSGT00940000155525 #34	ENSGT00940000154299.e.b	ENSGT00940000162913.a.b	ENSGT00940000162913.a.a	ENSGT00740000115593
Long-tailed chinchilla	MODERN SPECIES	214	PI4K2A (ENSCLAG00000001867)	MORN4 (ENSCLAG00000001852)	HOGA1 (ENSCLAG00000002513)	ANKRD2 (ENSCLAG00000002245)	UBTD1 (ENSCLAG00000002195) #7	MMS19 (ENSCLAG00000002928) #8	ZDHHC16 (ENSCLAG00000002570) #9	EXOSC1 (ENSCLAG00000002463) #10	ENSCLAG00000002369 #11	RRP12 (ENSCLAG00000003753) #12	ARHGAP19 (ENSCLAG00000002574) #15	SLIT1 (ENSCLAG00000009153) #16	LCOR (ENSCLAG00000008402) #17	PIK3AP1 (ENSCLAG00000002443) #20	TM9SF3 (ENSCLAG00000002078) #21	TLL2 (ENSCLAG00000007122) #22	OPALIN (ENSCLAG00000006654) #23	DNTT (ENSCLAG00000006186) #24	BLNK (ENSCLAG00000005498) #25	ZNF518A (ENSCLAG00000017653) #26	ENSCLAG00000004870	CCNJ (ENSCLAG00000003191) #27	CC2D2B (ENSCLAG00000002936) #28	ENTPD1 (ENSCLAG00000002693) #29	TCTN3 (ENSCLAG00000002407) #31	ALDH18A1 (ENSCLAG00000001841) #32	SORBS1 (ENSCLAG00000003089) #33	PDLIM1 (ENSCLAG00000002692) #34	ENSCLAG00000003305	ENSCLAG00000004211	ENSCLAG00000003682
Degu	MODERN SPECIES	51	UBTD1 (ENSODEG00000015973) #7	MMS19 (ENSODEG00000016062) #8	ZDHHC16 (ENSODEG00000017409) #9	EXOSC1 (ENSODEG00000016709) #10	RRP12 (ENSODEG00000016439) #12	FRAT2 (ENSODEG00000015971) #13	ENSODEG00000020346	ARHGAP19 (ENSODEG00000016291) #15	SLIT1 (ENSODEG00000015756) #16	LCOR (ENSODEG00000016196) #17	ENSODEG00000016073 ##18	ENSODEG00000020358	ENSODEG00000015947	PIK3AP1 (ENSODEG00000016826) #20	TM9SF3 (ENSODEG00000016318) #21	TLL2 (ENSODEG00000016117) #22	OPALIN (ENSODEG00000015705) #23	DNTT (ENSODEG00000016304) #24	BLNK (ENSODEG00000016754) #25	ENSODEG00000015777	CCNJ (ENSODEG00000016657) #27	CC2D2B (ENSODEG00000015499) #28	ENSODEG00000016353	ENTPD1 (ENSODEG00000017035) #29	TCTN3 (ENSODEG00000015591) #31	ALDH18A1 (ENSODEG00000015796) #32	ENSODEG00000015731	SORBS1 (ENSODEG00000015885) #33	ENSODEG00000015364 #34	ENSODEG00000015808	ENSODEG00000015492