Murinae	ANCESTRAL SPECIES	14										ENSGT00940000158132	ENSGT00390000018904	ENSGT00390000000360.r.b.a.a #18	ENSGT00390000006885.a #19	ENSGT00390000012647.d #20	ENSGT00940000154783.f #21	ENSGT00940000160294 #22	ENSGT00390000005685 #23	ENSGT00940000158744 #24	ENSGT00510000047092 #25	ENSGT00940000159803 #26	ENSGT00390000001700.a.b.b	ENSGT00390000000062.x.b.l.b	ENSGT00390000000062.x.b.k.b	ENSGT00390000016992	ENSGT01100000263574.b.j #27	ENSGT01050000244815.B.a.a #28	ENSGT00410000025802.g.b.q.a ##34	ENSGT00530000063808.a #30	ENSGT00530000063435.a #29	ENSGT00950000183004.a.a.a.b #31	ENSGT00950000182808.b.b #32
Mus	ANCESTRAL SPECIES	9	ENSGT00940000163515.i #9	ENSGT00940000158538 #10	ENSGT00940000163515.j ##9	ENSGT01050000244868.a.a.a.b.a.b.a.a.b.c.b.f.b ##11	ENSGT00940000159832 #13	ENSGT00940000153421.a.a.a.a.b #14	ENSGT00390000005717.e.b.a #15	ENSGT00390000005717.e.b.b.b #16	ENSGT00950000183097.a.a.a #17	ENSGT00940000158132	ENSGT00390000018904	ENSGT00390000000360.r.b.a.a #18	ENSGT00390000006885.a #19	ENSGT00390000012647.d #20	ENSGT00940000154783.f #21	ENSGT00940000160294 #22	ENSGT00390000005685 #23	ENSGT00940000158744 #24	ENSGT00510000047092 #25	ENSGT00940000159803 #26	ENSGT01100000263574.b.j #27	ENSGT01050000244815.B.a.a #28	ENSGT00410000025802.g.b.q.a ##34	ENSGT00530000063808.a #30	ENSGT00530000063435.a.o #29	ENSGT00950000183004.a.a.a.b #31	ENSGT00950000182808.b.b #32	ENSGT00730000111022 #33	ENSGT00410000025802.g.a #34	ENSGT01050000244850.A.a #35	ENSGT00390000004735.A #36
Shrew mouse	MODERN SPECIES	23	Mageb16 (MGP_PahariEiJ_G0031753) #7	MGP_PahariEiJ_G0031752 #8	Fam47c (MGP_PahariEiJ_G0031751) #9	Prrg1 (MGP_PahariEiJ_G0031750) #10	MGP_PahariEiJ_G0031749 #11	Pbsn (MGP_PahariEiJ_G0031748) #12	Prkx (MGP_PahariEiJ_G0031747) #13	Tbl1x (MGP_PahariEiJ_G0031746) #14	Cldn34d (MGP_PahariEiJ_G0031745) #15	Cldn34b4 (MGP_PahariEiJ_G0031744) #16	Pls3 (MGP_PahariEiJ_G0031743) #17	Brcc3 (MGP_PahariEiJ_G0031742) #18	Mtcp1 (MGP_PahariEiJ_G0031741) #19	Cmc4 (MGP_PahariEiJ_G0031740) #20	Fundc2 (MGP_PahariEiJ_G0031739) #21	F8 (MGP_PahariEiJ_G0031738) #22	Smim9 (MGP_PahariEiJ_G0031737) #23	Mpp1 (MGP_PahariEiJ_G0031736) #24	Dkc1 (MGP_PahariEiJ_G0031735) #25	Gab3 (MGP_PahariEiJ_G0031734) #26	Or13ae2 (MGP_PahariEiJ_G0031733) #27	Or7r1 (MGP_PahariEiJ_G0031732) #28	G6pdx (MGP_PahariEiJ_G0031731) #29	Ikbkg (MGP_PahariEiJ_G0031730) #30	Fam3a (MGP_PahariEiJ_G0031729) #31	Slc10a3 (MGP_PahariEiJ_G0031728) #32	Ubl4a (MGP_PahariEiJ_G0031727) #33	Lage3 (MGP_PahariEiJ_G0031726) #34	Plxna3 (MGP_PahariEiJ_G0031725) #35	Fam50a (MGP_PahariEiJ_G0031724) #36	Gdi1 (MGP_PahariEiJ_G0031723) #37
Mus_A	ANCESTRAL SPECIES	15	ENSGT00940000163515.i #9	ENSGT00940000158538 #10	ENSGT00940000163515.j ##9	ENSGT01050000244868.a.a.a.b.a.b.a.a.b.c.b.f.b ##11	ENSGT00940000159832 #13	ENSGT00940000153421.a.a.a.a.b #14	ENSGT00390000005717.e.b.a #15	ENSGT00390000005717.e.b.b.b #16	ENSGT00950000183097.a.a.a #17	ENSGT00940000158132	ENSGT00390000018904	ENSGT00390000000360.r.b.a.a #18	ENSGT00390000006885.a #19	ENSGT00390000012647.d #20	ENSGT00940000154783.f #21	ENSGT00940000160294 #22	ENSGT00390000005685 #23	ENSGT00940000158744 #24	ENSGT00510000047092 #25	ENSGT00940000159803 #26	ENSGT00390000001700.a.b.b	ENSGT00390000000062.x.b.l.b	ENSGT00390000000062.x.b.k.b	ENSGT01100000263574.b.j #27	ENSGT01050000244815.B.a.a #28	ENSGT00410000025802.g.b.q.a ##34	ENSGT00530000063808.a #30	ENSGT00530000063435.a.o #29	ENSGT00950000183004.a.a.a.b #31	ENSGT00950000182808.b.b #32	ENSGT00730000111022 #33
Mus_B	ANCESTRAL SPECIES	14	ENSGT00940000163515.j ##9	ENSGT01050000244868.a.a.a.b.a.b.a.a.b.c.b.e ##11	ENSGT01050000244868.a.a.a.b.a.b.a.a.b.c.b.f.b ##11	ENSGT00940000159832 #13	ENSGT00940000153421.a.a.a.a.b #14	ENSGT00390000005717.e.b.a #15	ENSGT00390000005717.e.b.b.b #16	ENSGT00390000005717.e.b.b.a.e.a ##15	ENSGT00950000183097.a.a.a #17	ENSGT00940000158132	ENSGT00390000018904	ENSGT00390000000360.r.b.a.a #18	ENSGT00390000006885.a #19	ENSGT00390000012647.d #20	ENSGT00940000154783.f #21	ENSGT00940000160294 #22	ENSGT00390000005685 #23	ENSGT00940000158744 #24	ENSGT00510000047092 #25	ENSGT00940000159803 #26	ENSGT00390000001700.a.b.b.o.a	ENSGT01100000263574.b.j #27	ENSGT01050000244815.B.a.a #28	ENSGT00410000025802.g.b.q.a ##34	ENSGT00530000063808.a #30	ENSGT00530000063435.a.o #29	ENSGT00950000183004.a.a.a.b #31	ENSGT00950000182808.b.b #32	ENSGT00730000111022 #33	ENSGT00410000025802.g.a #34	ENSGT01050000244850.A.a #35
Mus_C	ANCESTRAL SPECIES	27						ENSGT00390000005717.e.b.a #15	ENSGT00390000005717.e.b.b.b #16	ENSGT00390000005717.e.b.b.a.e.a ##15	ENSGT00950000183097.a.a.a #17	ENSGT00940000158132	ENSGT00390000018904	ENSGT00390000000360.r.b.a.a #18	ENSGT00390000006885.a #19	ENSGT00390000012647.d #20	ENSGT00940000154783.f #21	ENSGT00940000160294 #22	ENSGT00390000005685 #23	ENSGT00940000158744 #24	ENSGT00510000047092 #25	ENSGT01100000263574.b.j #27	ENSGT01050000244815.B.a.a #28	ENSGT00410000025802.g.b.q.a ##34	ENSGT00530000063808.a #30	ENSGT00530000063435.a.o #29	ENSGT00950000183004.a.a.a.b #31	ENSGT00950000182808.b.b #32	ENSGT00730000111022 #33	ENSGT00410000025802.g.a #34	ENSGT01050000244850.A.a #35	ENSGT00390000004735.A #36	ENSGT00950000182994.B.a.a.a #37
Steppe mouse	MODERN SPECIES	1596																ENSMSIG00000029977 #22
spretus	MODERN SPECIES	19	MGP_SPRETEiJ_G0034369 ##11	Prkx (MGP_SPRETEiJ_G0034368) #13	Tbl1x (MGP_SPRETEiJ_G0034367) #14	Cldn34d (MGP_SPRETEiJ_G0034366) #15	Cldn34b4 (MGP_SPRETEiJ_G0034365) #16	MGP_SPRETEiJ_G0034364 ##15	MGP_SPRETEiJ_G0034363 ##15	MGP_SPRETEiJ_G0034362 ##15	Pls3 (MGP_SPRETEiJ_G0034361) #17	Rab39b (MGP_SPRETEiJ_G0034360)	Vbp1 (MGP_SPRETEiJ_G0034359)	Brcc3 (MGP_SPRETEiJ_G0034358) #18	Mtcp1 (MGP_SPRETEiJ_G0034357) #19	Cmc4 (MGP_SPRETEiJ_G0034356) #20	Fundc2 (MGP_SPRETEiJ_G0034355) #21	F8 (MGP_SPRETEiJ_G0034354) #22	Smim9 (MGP_SPRETEiJ_G0034353) #23	Mpp1 (MGP_SPRETEiJ_G0034352) #24	Dkc1 (MGP_SPRETEiJ_G0034351) #25	MGP_SPRETEiJ_G0034348 ##34	MGP_SPRETEiJ_G0034347	Or13ae2 (MGP_SPRETEiJ_G0034346) #27	Or7r1 (MGP_SPRETEiJ_G0034345) #28	MGP_SPRETEiJ_G0034344 ##34	G6pdx (MGP_SPRETEiJ_G0034343) #29	Ikbkg (MGP_SPRETEiJ_G0034342) #30	Fam3a (MGP_SPRETEiJ_G0034341) #31	Slc10a3 (MGP_SPRETEiJ_G0034340) #32	Ubl4a (MGP_SPRETEiJ_G0034339) #33	Lage3 (MGP_SPRETEiJ_G0034338) #34	Plxna3 (MGP_SPRETEiJ_G0034337) #35
Mouse	MODERN SPECIES	37	5430402E10Rik (ENSMUSG00000044121) ##11	Gm14744 (ENSMUSG00000079522) ##11	Pbsn (ENSMUSG00000000003) #12	Prkx (ENSMUSG00000035725) #13	Tbl1x (ENSMUSG00000025246) #14	Cldn34d (ENSMUSG00000079525) #15	Cldn34b4 (ENSMUSG00000073085) #16	Cldn34b3 (ENSMUSG00000071738) ##15	Pls3 (ENSMUSG00000016382) #17	Rab39b (ENSMUSG00000031202)	Vbp1 (ENSMUSG00000031197)	Brcc3 (ENSMUSG00000031201) #18	Mtcp1 (ENSMUSG00000031200) #19	Cmc4 (ENSMUSG00000090110) #20	Fundc2 (ENSMUSG00000031198) #21	F8 (ENSMUSG00000031196) #22	Smim9 (ENSMUSG00000073094) #23	Mpp1 (ENSMUSG00000031402) #24	Dkc1 (ENSMUSG00000031403) #25	Gab3 (ENSMUSG00000032750) #26	Pwwp4d (ENSMUSG00000079531)	Ctag2l2 (ENSMUSG00000079532) ##34	Pwwp4c (ENSMUSG00000079534)	Or13ae2 (ENSMUSG00000051706) #27	Or7r1 (ENSMUSG00000043715) #28	Ctag2l1 (ENSMUSG00000079536) ##34	G6pdx (ENSMUSG00000031400) #29	Ikbkg (ENSMUSG00000004221) #30	Fam3a (ENSMUSG00000031399) #31	Slc10a3 (ENSMUSG00000032806) #32	Ubl4a (ENSMUSG00000015290) #33
Ryukyu mouse	MODERN SPECIES	19	MGP_CAROLIEiJ_G0033209 #8	Fam47c (MGP_CAROLIEiJ_G0033208) #9	Prrg1 (MGP_CAROLIEiJ_G0033207) #10	MGP_CAROLIEiJ_G0033205 ##11	MGP_CAROLIEiJ_G0033206 ##11	Pbsn (MGP_CAROLIEiJ_G0033204) #12	Prkx (MGP_CAROLIEiJ_G0033203) #13	Tbl1x (MGP_CAROLIEiJ_G0033202) #14	Cldn34d (MGP_CAROLIEiJ_G0033201) #15	Cldn34b4 (MGP_CAROLIEiJ_G0033200) #16	Pls3 (MGP_CAROLIEiJ_G0033199) #17	MGP_CAROLIEiJ_G0033198 ##18	Mtcp1 (MGP_CAROLIEiJ_G0033197) #19	Cmc4 (MGP_CAROLIEiJ_G0033196) #20	Fundc2 (MGP_CAROLIEiJ_G0033195) #21	F8 (MGP_CAROLIEiJ_G0033194) #22	Smim9 (MGP_CAROLIEiJ_G0033193) #23	Mpp1 (MGP_CAROLIEiJ_G0033192) #24	Dkc1 (MGP_CAROLIEiJ_G0033191) #25	Or13ae2 (MGP_CAROLIEiJ_G0033190) #27	Or7r1 (MGP_CAROLIEiJ_G0033189) #28	G6pdx (MGP_CAROLIEiJ_G0033188) #29	Ikbkg (MGP_CAROLIEiJ_G0033187) #30	Fam3a (MGP_CAROLIEiJ_G0033186) #31	Slc10a3 (MGP_CAROLIEiJ_G0033185) #32	Ubl4a (MGP_CAROLIEiJ_G0033184) #33	Lage3 (MGP_CAROLIEiJ_G0033183) #34	Plxna3 (MGP_CAROLIEiJ_G0033182) #35	Fam50a (MGP_CAROLIEiJ_G0033181) #36	Gdi1 (MGP_CAROLIEiJ_G0033180) #37	Atp6ap1 (MGP_CAROLIEiJ_G0033179)
Rat	MODERN SPECIES	9													Vom2r75 (ENSRNOG00000022955)	Cmc4 (ENSRNOG00000056435) ##20	Fundc2 (ENSRNOG00000024066) #21	F8 (ENSRNOG00000031197) #22	Mtmr1 (ENSRNOG00000002697)	ENSRNOG00000069512	ENSRNOG00000069557	Zfp136 (ENSRNOG00000016417)	Cetn1 (ENSRNOG00000016409)	Colec12 (ENSRNOG00000016366)	ENSRNOG00000066369	Sec13-ps2 (ENSRNOG00000068190)	Thoc1 (ENSRNOG00000015332)	Usp14 (ENSRNOG00000014981)	Rock1 (ENSRNOG00000031092)	LOC120098305 (ENSRNOG00000030649)	Greb1l (ENSRNOG00000023492)	LOC103694176 (ENSRNOG00000065120)	Esco1 (ENSRNOG00000014031)