#NEXUS
[!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file.


Generated on September 18, 2025; 21:25 GMT

TreeBASE (cc) 1994-2008

Study reference:
Montfort J., Le cam A., Gabillard J., & Rescan P. 2016. Gene expression profiling
of trout regenerating muscle reveals common transcriptional signatures with hyperplastic
growth zones of the post-embryonic myotome. BMC Genomics, .

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S19807]

BEGIN TAXA;
        TITLE  Untitled_Block_of_Taxa;
        DIMENSIONS NTAX=16;
        TAXLABELS
            Anolis_carolinensis_MyoD
            Caenorhabditis_elegans_MyoD
            Gallus_gallus_MyoD
            Homo_sapiens_MyoD
            Mus_musculus_MyoD
            Oncorhynchus_mykiss_MyoD1a
            Oncorhynchus_mykiss_MyoD1b
            Oncorhynchus_mykiss_MyoD1c
            Oryzias_latipes_MyoD1
            Salmo_salar_MyoD1a
            Salmo_salar_MyoD1b
            Salmo_salar_MyoD1c
            Sparus_aurata_MyoD2
            Takifugu_rubripes_MyoD1
            Takifugu_rubripes_MyoD2
            Xenopus_laevis_MyoD
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M38271]

	TITLE Myoblast_determination_protein_1;
	LINK TAXA = Untitled_Block_of_Taxa;
	DIMENSIONS NCHAR=394;
	FORMAT DATATYPE=Protein SYMBOLS= "A C D E F G H I K L M N P Q R S T V W Y" MISSING=? GAP= -;

MATRIX
[                                       10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390    ]
[                                        .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .    ]
Anolis_carolinensis_MyoD        -------------------ME----VLGPMEM--PEGSLCSFAAASAAGED--------FYDDPC------FNTSDMHFFEDLDPRLVHVGGLLKPEEPHHHG----------------------------GPG----EADEHIRAPSGHHAAWRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSSNPNQRLPKVEILRNAIRYIESLQALLREQEDGGGSGGA--YYP--------ALEHYSGDSDASSPRSNCSDGMMDYSGPPCNSRRRNSYDS-SYYSETLSDSKQ--GKSSVVSSLDCLSSIVERISTESTACPSLPVVDSGAEGSPCSLHDGSSLS---DPGTLTASPNS-CTQLPQEATSNAASNPIYQVL-
Caenorhabditis_elegans_MyoD     MNTETSTQSAPSDTYDTSIYYNSSPRVTANDI----TTLTSFAAPAPQVLDYANTQYDIYRNQPAYYLPSYAPTAPTTFYSDFANFNVTR-----SQDFASVPAVAN-SSDVKPIIIKQEKSTPNATELIIQSRVDSQHEDTTTSTAGGAGVGG-------PRRTKFVLSVDRRKAATMRERRRLRKVNEAFEVVKQRTCPNPNQRLPKVEILRSAIDYINNLERMLQQAGKMTKIMEQNQHLQMTQQINGAPPHDYVTSSHFASS-SYNPENMFDDDDLTDSDDDRDHHKLG-----NA-------VDLRRRNSLDRLSRIVASIPNEEAMTDEQLLQPAND------VIDGEKKLE---------------------------------ML-
Gallus_gallus_MyoD              -------------------MD----LLGPMEM--TEGSLCSFTA----ADD--------FYDDPC------FNTSDMHFFEDLDPRLVHVGGLLKPEEHPHTR----------------------------APPRE-PTEEEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSTNPNQRLPKVEILRNAIRYIESLQALLREQED------A--YYP--------VLEHYSGESDASSPRSNCSDGMMEYSGPPCSSRRRNSYDS-SYYTESPNDPKH--GKSSVVSSLDCLSSIVERISTDNSTCPILPPAEAVAEGSPCSPQEGGNLS---DSGAQIPSPTN-CTPLPQESSSSSSSNPIYQVL-
Homo_sapiens_MyoD               -------------------MELLSPPLRDVDLTAPDGSLCSFAT----TDD--------FYDDPC------FDSPDLRFFEDLDPRLMHVGALLKPEEHSHFPA-------------------------AVHPAPG-AREDEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSSNPNQRLPKVEILRNAIRYIEGLQALLRDQDAAPPGAAA--FYAPGPLPPGRGGEHYSGDSDASSPRSNCSDGMMDYSGPPSGARRRNCYEG-AYYNEAPSEPRP--GKSAAVSSLDYLSSIVERISTESPAAPALLLADVPSESPPR-RQEAAAPSEGESSGDPTQSPDA-----APQCPAGANPNPIYQVL-
Mus_musculus_MyoD               -------------------MELLSPPLRDIDLTGPDGSLCSFET----ADD--------FYDDPC------FDSPDLRFFEDLDPRLVHMGALLKPEEHAHFPT-------------------------AVHPGPG-AREDEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSSNPNQRLPKVEILRNAIRYIEGLQALLRDQDAAPPGAAA--FYAPGPLPPGRGSEHYSGDSDASSPRSNCSDGMMDYSGPPSGPRRQNGYDT-AYYSEAARESRP--GKSAAVSSLDCLSSIVERISTDSPAAPALLLADAPPESPPG-PPEGASLSD-TEQGTQTPSPDA-----APQCPAGSNPNAIYQVL-
Oncorhynchus_mykiss_MyoD1a      -----------------------------MEL--P-----DIPFPITSPDD--------FYDDPC------FNTSDMHFFEDLDPRLVHVG-LLKPDDHHH-------------------------------------KEDEHIRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNDAFETLKRCTSTNPNQRLPKVDILRNAISYIESLQGLLRGA----GQEGN--YYP--------VMDHYSGDSDASSPRSNCSDGMMDFNGQSCPPRRRNKYDS-TYFNEAPNDSRH--KKNSVISSLDCLSNIVERITTDTSACPAVQ--DGSEGSSPCSPGDGSIAS---ENGAPIPSPIN-CVPALH------DPNTIYQVL-
Oncorhynchus_mykiss_MyoD1b      -----------------------------MEL--S-----DISFPVTSADD--------FYDDPC------FNTSDMHFFEDLDPRLVHVG-LLKPDDHHY-------------------------------------NEDEHIRAPSGHHQAGRCLLWACKACKRKTTNSDRRKAATMRERRRLGKVNDAFENLKRCTSNNPNQRLPKVEILRNAISYIESLQSLLRGQ----DG-EN--YYP--------VLEHYSGDSDASSPQSNCSDGMMDYNAPTCTSARRSNYDS-SYFAETPNADSRSNKNAA-VSSLDCLSNIVERISTDTSACTVLSGQEGSE-GSPCSPQEGSILS---RNGGTVPSPTN-CPQPSH------DP--IYQVL-
Oncorhynchus_mykiss_MyoD1c      -----------------------------MEL--S-----DISFPITSADD--------FYDDPC------FNTSDMHFFEDMDPRLVHVG-LLKPDDHHH-------------------------------------NEDEHIRAPSGHHQAGRCLLWACKACKRKTTNTDRRKAATMRERRRLGKVNDAFENLKRCTSNNPNQRLPKVEILRNAISYIESLQSLLRGQ----DG-EN--YYP--------SLEHYNGDSDASSPRSNCSDGMMDYNAPTCTSARRSSYES-SYFAETPNADARSKKN-AVISSLDCLSSIVERISTDTSACTMLSVQ---E-GSPCSPQEGSILS---ETGATVPSPTK-CPQPSH------DP--IYQVL-
Oryzias_latipes_MyoD1           ------------------------------------MELSDIPFPIPAADD--------FYDDPC------FNTSDMHFFEDLDPRLVHGG-LLKPDDSSSSPSSSPCSSSSSPSSV-----------LHVHQRAE-VEDDEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATLRERRRLSKVNDAFETLKRCTSANPNQRLPKVEILRNAISYIESLQALLRAGQ-----EDG--FYP--------VLEHYSGDSDASSPRSNCSDGMTDFNGPRCQTTQKGSYDGGSYFSEALNGGHR-NDRSSVVSSLDCLSSIVERISTDSSCLPATADAPASP-------AA-AALSET-ERG-PRAAP-------TSSPASSQDPNLIYQDL-
Salmo_salar_MyoD1a              -----------------------------MEL--P-----DIPFPITSPDD--------FYDDPC------FNTSDMHFFEDLDPRLVHVG-LLKPDDHHH-------------------------------------KGDEHIRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNDAFETLKRCTSTNPNQRLPKVDILRNAISYIESLQGLLRGA----GQEGN--YYP--------VMDHYSGDSDASSPRSNCSDGMMDFNDPSCPPRRRNKYDS-IYFNETPNDSRR--KKNSVISSLDCLSNIVERITTDTSACPAVQ--DGSEGSSPCSPGDGSIAS---ENGAPIPSPIN-CVPALH------DPNTIYQVL-
Salmo_salar_MyoD1b              -----------------------------MEL--S-----DISFPVTSADD--------FYDDPC------FNTSDMHFFEDLDPRLVHVG-LLKPDDHHY-------------------------------------NEDEHIRAPSGHHQAGRCLLWACKACKRKTTNSDRRKAATMRERRRLGKVNDAFENLKRCTSNNPNQRLPKVEILRNAISYIESLQSLLRGQ----GG-EN--YYP--------MLEHYSGDSDASSPQSNCSDGMMDYNTPTCTSATRSNYYS-SYFAETPNAGARSNKNAAVISSLDCLSNIVERIFTDTSASTVLSGQEGSE-GSPCSPQEGSILS---ETGAPVPSPTN-CPQPSH------DP--IYQVL-
Salmo_salar_MyoD1c              -----------------------------MEL--S-----DISFPITSADD--------FYDDPC------FNTSDMHFFEDMDPRLVHVG-LLKPDDHHH-------------------------------------NEDEHIRAPSGHHQAGRCLLWACKACKRKTTNTDRRKAATMRERRRLGKVNDAFENLKRCTSNNPNQRLPKVEILRNAISYIESLQSLLRGQ----DG-EN--YYP--------SLEHYNGDSDASSPRSNCSDGMMEYNAPTCTSARRSSYES-SYFAETPNADARSKKN-AVISSLDCLSSIVERISTDTSACTMLSVQ---E-GSPCSPQEGSILS---ETGATVPSPTK-CPQPSH------DP--IYQVL-
Sparus_aurata_MyoD2             ------------------------------------MDLSDLPFPLSSADD--------LYDDPC------FSTSDMNFFDDLDARLMHAG-LLKPEDHLHHHHHYHVPI------------------AEE--------EDEHVRAPGGLHQAGHCLLWACKACKRKTTHADRRKAATMRERRRLSRVNDAFETLKRCTASSPNQRLPKVDILRNAISYIESLQALLRT-----GRDES--FYP--------PLEHYSGDSDASSPRSNCSDGMMDFISPCSSTSENSD---GSFSNQTAYESRR--SKRSLVSSLDCLSSIVERISTDPAV-APPGD--SVVPQGPGSPQN---------------SPTG---SSPAGSSHPAEPNSIYEPL-
Takifugu_rubripes_MyoD1         ------------------------------------MELSEISFSIPAADD--------FYDDPC------FSTSDMHFFEDMDPRLVHAG-LLKPDDCCSSSSLSPSSSSASPSSL-----------LHIHHHTE-AEDDEHIRAPSGHHHAGRCLLWACKACKRKTTNVDRRKAATLRERRRLSKVNEAFETLKRCKNTNPNQRLPKGEILRNAISYIESLQALLRGGQ-----DEA--FYT--------VLEHYSGDSDASSPRSNCSDGMTDFNGPTCQSNRRGSYYS-SYFSQTPKGSLK-AER---NSSLDCLSSIVERISTATSSGPPPVDGRGSP----------------------GPLQ-------ASSPRSSREPNLIYQVL-
Takifugu_rubripes_MyoD2         ------------------------------------MDLSELVFPLS-ADD--------LYDDPC------FSSGDLNFFDDLDSRLL-----LKPEGHQHLHHHV--PS------------------AEEELEEE-TVVEEHVRAPGGLHQAGRCLLWACKACKRKTTHADRRKAATMRERRRLSKVNDAFETLKRCTASNPNQRLAKVEILRNAISYIESLQALLRTS----GQDQS--FYP--------PLEPYGADSEASSPQSNCSDGAMDYVSPCVTSNAKNN---RSRRNIQTTGDSS--SKQCLVSSLECLSSIVERISTDPTVVAPVGD--SVVPRGPGSPQS---------------SPAG---I--------------YEPL-
Xenopus_laevis_MyoD             -------------------MELLPPPLRDMEV--TEGSLCSFPT----PDD--------FYDDPC------FNTSDMSFFEDLDPRLVHVA-LLKPEDPHH-------------------------------------NEDEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSTNPNQRLPKVEILRNAIRYIESLQSLLRGQEE------S--FYP--------VLEHYSGDSDASSPRSNCSDGMTDYS-PPCGSRRRNSYDS-SFYSDSPNGLRL--GKSSVISSLDCLSSIVERISTESPVCPVIPAADSGSEGSPCSPLQGETLS---ESGIIIPSPSNPCTHLSQD-----PSSTIYQVL-
;
END;