#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 July 11, 2025; 19:48 GMT

TreeBASE (cc) 1994-2008

Study reference:
Linguiti G., Antonacci R., Tasco G., Grande F., Casadio R., Massari S., Castelli
V., Consiglio A., Lefranc M., & Ciccarese S. 2016. Genomic and expression analyses
of Tursiops truncatus T cell receptor gamma (TRG) and alpha/delta (TRA/TRD) loci
reveal a similar basic public γδ repertoire in dolphin and human.
BMC Genomics, .

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S19396]

[ The following blocks are input data for analysis step 18490 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep18490;
        DIMENSIONS NTAX=11;
        TAXLABELS
            Camelus_dromedarius_TRGC1_F
            Camelus_dromedarius_TRGC2_F
            Homo_sapiens_TRGC1_F
            Homo_sapiens_TRGC2_F
            Ovis_aries_TRGC1_F
            Ovis_aries_TRGC2_F
            Ovis_aries_TRGC3_F
            Ovis_aries_TRGC4_F
            Ovis_aries_TRGC5_F
            Ovis_aries_TRGC6_F
            Tursiops_truncatus_TRGC_F
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M36818]

	TITLE Tursiops_truncatus_4B_al_Cgamma2;
	LINK TAXA = TaxaForAnalysisStep18490;
	DIMENSIONS NCHAR=662;
	FORMAT DATATYPE=DNA SYMBOLS= "A C G T" 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       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660  ]
[                                        .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .  ]
Camelus_dromedarius_TRGC1_F     -CTAGCGACCTTGATGCAGACGTTTCCCCCAAGCCCACTATTTTCCTGCCTTCAATTGCTGAAATAAACCTCCATCGGGCTGGAACGTATCTTTGTCTTCTGGAGAACTTCTTCCCTGGTGTTATTAAGGTTTCCTGGAAAGAAAAGAATGACAACAGGATTCTGCAGTCCCAGCAGGGAGACACCGTGAAGACCAGCAACACGTACATGAAGCTGAGCTGGCTGACCGTGCCTGAAAAGTCCATGGATAAAGAACACATATGTGTCGTCAAACACGAGAAAAATAAAAAAGGAATTGATCAACAGATTCTTTTTCCTTCCATTAATC-AAGTTGTCACTTTAGTTACTGCT------------------------------ACTCCAGAGCCGACAAATGATTGTTTGAAAGCTAAAAGCAAGGGCACTGCTGTTGATTCTACAAAAGCTTGTCCAGAAGATGACAGTGAAGCCGCT----GTTGTTAATTCTACAAAAGCCTGTCTGAAAGATGAAAACGACACAGTGCGGCTGCAGCGCGAGAGCACGTCCGCCTACTACGCGTACCTCCTCCTGCTGCTCAAGAGCGGGCTCTACTTCTGCGTCGTCGCCTTCCTCCTGCTGCGGAGAACAGCCGTGTGCGGGCACGGGAAGGGCTCG
Camelus_dromedarius_TRGC2_F     GATAGAGGGTTTGATGCAGACATGGGCCCCAAGCCCACTATTTTTCTGCCTTCAGTTGCTGAAATAAACCACCATCGGGCTGGAACGTATCTTTGTCTTCTGGAGGACTTTTTCCCTGATATTATTAAGGTTTCCTGGAAAGAAAAGAATGACAACAGGATTCTGCAGTCCCAGCAGGGAGACACCGTGAAGACCAGCAACACGTACATGAAGCTGAGCTGGCTGACCGTGCCTGAAAAGTCCATGGATAAAGAACACGTATGTGTCGTCAAACACAGGAACAATAGAGGAGAAACTGGTCAAGAGATATATTTTCCTTCAATAAATA-AAGTTGTCACCTCGATTGTCACT------------------------------ACTACTGATTCTCCAAACGATTGTTTGAAGGATGAAAAAGAAGGCATTGTTAGTGATTCTACAAAAGCCTGCCCAAGAGATGGAAGTGAAGCCACT----GGAATTAATTCTACAAAAGCTTGCCTGAAAGATGAAAGCAACACAGTGCGGCTGCAGCGCGAGAGCACGTCCGCCTACTACGCGTACCTCCTCCTGCTGCTCAAGAGCGGGCTCTACTTCTGCGTCGTCGCCTTCCTCCTGCTGCGGAGAACAGCCGTGTGGGGGCACGGGAAGGGCTCG
Homo_sapiens_TRGC1_F            GATAAACAACTTGATGCAGATGTTTCCCCCAAGCCCACTATTTTTCTTCCTTCAATTGCTGAAACAAAGCTCCAGAAGGCTGGAACATACCTTTGTCTTCTTGAGAAATTTTTCCCTGATGTTATTAAGATACATTGGCAAGAAAAGAAGAGCAACACGATTCTGGGATCCCAGGAGGGGAACACCATGAAGACTAACGACACATACATGAAATTTAGCTGGTTAACGGTGCCAGAAAAGTCACTGGACAAAGAACACAGATGTATCGTCAGACATGAGAATAATAAAAACGGAGTTGATCAAGAAATTATCTTTCCTCCAATAAAGA-CAGATGTCATCACAATGG----------------------------------------------------------------------------------------------------------------------------------------------ATCCCAAAGACAATTGTTCAAAAGATGCAAATGATACACTACTGCTGCAGCTCACAAACACCTCTGCATATTACATGTACCTCCTCCTGCTCCTCAAGAGTGTGGTCTATTTTGCCATCATCACCTGCTGTCTGCTTAGAAGAACGGCTTTCTGCTGCAATGGAGAGAAATCA
Homo_sapiens_TRGC2_F            GATAAACAACTTGATGCAGATGTTTCCCCCAAGCCCACTATTTTTCTTCCTTCAATTGCTGAAACAAAACTCCAGAAGGCTGGAACATACCTTTGTCTTCTTGAGAAATTTTTCCCAGATATTATTAAGATACATTGGCAAGAAAAGAAGAGCAACACGATTCTGGGATCCCAGGAGGGGAACACCATGAAGACTAACGACACATACATGAAATTTAGCTGGTTAACGGTGCCAGAAGAGTCACTGGACAAAGAACACAGATGTATCGTCAGACATGAGAATAATAAAAACGGAATTGATCAAGAAATTATCTTTCCTCCAATAAAGACAGGATGTCACCACAGTGG------------------------------------------------------------------------------------------ATCCCAAAGACAGTTATTCAAAAGATGCAAATGATGTCATC----ACAATGGATCCCAAAGACAATTGGTCAAAAGATGCAAATGATACACTACTGCTGCAGCTCACAAACACCTCTGCATATTACATGTACCTCCTCCTGCTCCTCAAGAGTGTGGTCTATTTTGCCATCATCACCTGCTGTCTGCTTGGAAGAACGGCTTTCTGCTGCAATGGAGAGAAATCA
Ovis_aries_TRGC1_F              -AGAGAAACCTTGCTGCAGACACTTCCCCCAAGCCCACTGTTTTTCTTCCTTCAATTGCCGAAATCAACCATGATAATGCTGGAACATATCTTTGTCTCCTGGAGAAATTTTTCCCTGATGTGATTACAGTGTCTTGGAGAGTAAAAAATGACAAAAGAGCTCTGCCATCCCAGCAGGGAAACACCATGAAGACCAAGGACACATACATGAAGCTCAGCTGGCTGACCGTGACCGAAAACTCTATGGATAAACAACATGTGTGTGTTGTCAAACACCAGAAAAATATAGGAGGAATTGATCAAGAGATTATTTTTCCTTCAATAAAAG-AAGTTGTCACCTCAGCTGTCACT----------------------------------------------------------------------------------------------------------------------------------ACTACTAAGCCTCCAAATGATTGTTTGACTGATGAAAGCAGTGCCCTGCGGCTGCAGCTCACGACCACCTCTGCCTATAACACCTACCTCTTACTCCTCCTCCTGAGCACAGTCTACTTTGTGGTCATCATTTCCTGTGTGTTTAGGAGAACCGGCGTCTGGAGTGACTGGAAGATCTCT
Ovis_aries_TRGC2_F              GAGAGAAACCTTGCTGCAGACACTTCCCCCAAGCCCACTGTTTTTCTTCCTTCAATTGCCGAAATCAACCATGATAATGCTGGAACATATCTTTGTCTCCTGGAGAAATTTTTCCCTGATGTGATTACAGTGTCTTGGAGAGTAAAAAATGACAAAAGAGCTCTGCCATCCCAGCAGGGAAACACCATGAAGACCAAGGACACATACATGAAGCTCAGCTGGCTGACCGTGACCGAAAACTCTATGGATAAACAACATGTGTGTGTTGTCAAACACCAGAAAAATATAGGAGGAATTGATCAAGAGATTATTTTTCCTTCAATAAAAG-AAGTTGTCACCTCAGCTGTCACTACTACTGAGCCTCCAACTACTGAGCCTCCAACTACTGAGCCTCCAAATGATTGTTTGACTGATGAAAGCAAAGTTACAGGTACTGGTTCTAAAACAGCTTGTCTGAAAGACGAACGTGAAGTCACT-GGTGATACTAATTCTACAAAGGCATGTCAGGAAGGTGAAAGCAGTGCCCTGCGGCTGCAGCTCACGACCACCTCTGCCTATTACACCTACCTCTTACTCCTCCTCCTGAGCACAGTCTACTTTGTTGTCATCATTTCCTGTGTGTTTAGGAGAACCGGCAACTGCTGTGACGGGAAGATCTCG
Ovis_aries_TRGC3_F              GATAGAGACCTTGATAAAGACATGTCTCCCAAGCCCACTATGTTTCTTCCTTCGATTACGGAAATCAAGCGTGATAATAGTGGAACATATCTTTGTCTTCTGGAGGACTTTTTCCCTCATGTTATTAAGGTTTATTGGAGAGAAAAAAGAGGCAACAAAGTTTTGCCATCCCAGGAGGGAAAAACCATTAAGACTCTTGACACATACATGAAGTTCAGCTGGCTGACTGTGTCTGGAAACTCCATGGATAAAGAACACATGTGTATCGTCAAACATGAGAAAAATAAAAGAGGAACCAATCAAGAGATTCTTTTTCCGGCAGTGAATG-AAGTTGTCTCTTCAGTTGTCACT------------------------------ACTACTAAACCTCCAAATGATGGTTTGAAGGATAAAAG------------------------------------------TGAAAAACAAGTCCCT----GTTGCAAATTCTACAAAAGCATGTCTGAAAGATGAAAACAATACCCTGCAGCTGCAGCTCATGAGCACCTCTGCCTATTACACATACCTCCTCCTCCTCATTAAGAGCACAGCCTACTTTGCCATCATCACCTCCTGTGTGTTCAGGAGAACAGGCGTCTGTGGCAATCAGAAGAGCTCG
Ovis_aries_TRGC4_F              AATAGAAACCTTGCTACAGACCTTTCACCCAAGCCCATTATTTTTCTTCCTTCAATTGCTGAAATCAACCACAGTAAAACTGGAACATACCTTTGTCTTCTGGAGAAATTTTTCCCTGATATTATTAAGGTTTATTGGAAAGAAAAGGATGGCAACAGAGCTCTGCCATCCCAGCAGGGAAATACCATGAACACCACTGACACATACATGAAGCTCAGCTGGCTGACCGTGACTGAAAACTCCATGGATAAAGAACATATCTGTGTCGTCCAACATGAGAGAAATATAAGAGGAATTAATCAAGAGATTCTTTTTCCTTCAATAAATG-AAGTTGTCAGCTCAATTGTCCCT------------------------------ACCACTGAGTCTCCCAGTGACTGTTTAAACCAGGAAAGCAAAGTTACCGGCACTGGTTCTAAAAAAGCTTGTCTGAAAGATGAAAGCGAAGTCACT-GCTGATAATAATTCTACAAAAGTGTGTCTGGAAGATGAAAGCAATACCCTGCAGCTGCAGCTCATGAACACCTCTGCCTATTACACATACCTCCTCCTCCTCCTCAAGAGTGTGGTCTACTTTATCATCATCACCTCCTGTGTGTTTCGGAGAACAGGCATGTGCTGTGATGGGAAGAACTTG
Ovis_aries_TRGC5_F              GATAGAAGGCTTGATGGAGACTTGTTTCCCAAGCCCACTATATTTTTTCCTTCAGTTGAGGAAGTAAAACGCCATAGTGCTGGAACACATCTTTGCCTTCTTCAGAATTTTTTCCCTGATGCTATTAAGGTACAATGGAAAGAAAAGAATGGCAATACAATTCTGGAATCCCATCAGGGAAATATCATCAAGACTAATGACACATACATGAAATTCAGCTGGCTGACTCTGACTAAAAAGGCAATGGGAAAAGAACATGTATGTATCGTCAAACATGAGAATAACAAAGGAGGACGTGATCAAGAGATTCTTTTTTCTCCAGTTAACA-AAGAGGTTG----------------------------------------------------------------------------------------------------------------------------------------------------------CTACACATGCCTGCATGAAAAAAGGAAGTGATACCCTGCAGCTGCAGTTTGCGAGCACCTCTGCCTATTATACCTACCTCCTCCTCCTCCTCAAGAGCATGATCTACTTCTCCATCATCGCCTTCTGTGTGTTCTGGAGGATAGGCATCTTCAGCAATGGGAAGATTTTC
Ovis_aries_TRGC6_F              -ATAAAAACCTTCCTACAGATATCATCCCCAAACCCACAATTTTTCTTCCTTCAATTAATGAGGTCAACCATCAACAGACTGCAACATATCTTTGTCTCCTGGAAAATTTTTTCCCTGACGTTATTAAGGTTTCTTGGAAAGAGAAGAATGGCAAAAGAGTTCTGCCATCCCAGCAGGGAAATACCATGAAGACCAATAACACATACATGAAGTTCAGCTGGCTGACAGTGACAGAAGACTCCATGAAGAAAGAGCACATGTGTATCGTCAGACTTGAGAAAAACGCAGGAGGAAAAGATCAAGAGATTCTTTTTCCTGCAGTGAATG-AAGTTTTCAGCCCAGTTGTCGCT------------------------------ACTACTGAGCCTCCGGATGATTGTTTGCAAGATGAAAGTGAAGTCACTGATACTGATTTTACAAAAGTTTGTTCAAGAGGTGAAAGTGTCTCTTCTAGAAGTCACCGATTCTACAAAAGCATGTCTGAAA----------ATACCGTGGAGCTGCAGTTGGCGTACAACTCTGCTTACTACACCTACCTCCTCCTCCTCCTCAAGAGTGCCATCTACTTTGTCACCAGCTCCTGCTGTGTTTTTAGGAGAACAGGTGTCTGCCATGATGGGAAGAGCTCG
Tursiops_truncatus_TRGC_F       -ATAGAAGCCTTGATGGAGACATGTCTCCCAAGCCCACTATATTTCTTCCTTCGATTGATGAAATAAACCTCCATGAGGCTGGAACACATCTTTGCCTTCTCGAGAAGTTTTTCCCTGATGTCATTAAGGTCTATTGGAAAGAAAAGAATGGCAACAAAGTTCTGGAATCCCAGCAGGGAAATATCATCAAGACTAATGATACATACATGAAATTCAGCTGGCTGACCGTGACTAAAAATTCAATGGATAATGAACTCGTATGTATCGTCAAACACGAGAATAATAAAAGAGGAATTGATCAAGAGATTCTTTTCCCTTCAATTGAGA-ATAAGGTCA----------------------------------------------------------------------------------------------------------------------------------------------------------CTACACATGCCTGCGTGAAAAAAGGAAGTGATTCCCTGCAGCTGCAGCTCACGAACACCTGTGCCTGCTACACCTACCTCCTTCTCCTCCTCAAGAGCTTGGTCTACTTTGTCATCATCTCCTTCTGTGTGTGTAGAAGAACAGCCGTCTGCGGCCATGGGAAGAGCTCG
;
END;

[ The following blocks are output data for analysis step 18490 ]
BEGIN TREES;
      TITLE Tursiops_truncatus_4B_tr_Cgamma2;
      LINK TAXA = TaxaForAnalysisStep18490;
      TREE '4B_tr_Cgamma2' = [&R] (((((Ovis_aries_TRGC1_F:1.0,Ovis_aries_TRGC2_F:1.0)1.00:1.0,Ovis_aries_TRGC4_F:1.0)0.75:1.0,(Ovis_aries_TRGC6_F:1.0,Ovis_aries_TRGC3_F:1.0)0.44:1.0)0.93:1.0,(Camelus_dromedarius_TRGC1_F:1.0,Camelus_dromedarius_TRGC2_F:1.0)1.00:1.0)0.73:1.0,((Homo_sapiens_TRGC1_F:1.0,Homo_sapiens_TRGC2_F:1.0)1.00:1.0,(Ovis_aries_TRGC5_F:1.0,Tursiops_truncatus_TRGC_F:1.0)0.99:1.0)0.73:1.0);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr96522]


END;