LOCUS       NM_021025               1534 bp    mRNA    linear   PRI 06-JUN-2024
DEFINITION  Homo sapiens T cell leukemia homeobox 3 (TLX3), mRNA.
ACCESSION   NM_021025
VERSION     NM_021025.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1534)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   2  (bases 1 to 1534)
  AUTHORS   Yin,Y., Morgunova,E., Jolma,A., Kaasinen,E., Sahu,B.,
            Khund-Sayeed,S., Das,P.K., Kivioja,T., Dave,K., Zhong,F.,
            Nitta,K.R., Taipale,M., Popov,A., Ginno,P.A., Domcke,S., Yan,J.,
            Schubeler,D., Vinson,C. and Taipale,J.
  TITLE     Impact of cytosine methylation on DNA binding specificities of
            human transcription factors
  JOURNAL   Science 356 (6337) (2017)
   PUBMED   28473536
REFERENCE   3  (bases 1 to 1534)
  AUTHORS   Noronha,E.P., Andrade,F.G., Zampier,C., de Andrade,C.F.,
            Terra-Granado,E. and Pombo-de-Oliveira,M.S.
  CONSRTM   Brazilian Study Group for Childhood Leukaemia
  TITLE     Immunophenotyping with CD135 and CD117 predicts the FLT3, IL-7R and
            TLX3 gene mutations in childhood T-cell acute leukemia
  JOURNAL   Blood Cells Mol Dis 57, 74-80 (2016)
   PUBMED   26852660
  REMARK    GeneRIF: Immunophenotyping with CD135 and CD117 predicts the FLT3,
            IL-7R and TLX3 gene mutations in childhood T-cell acute leukemia.
REFERENCE   4  (bases 1 to 1534)
  AUTHORS   Pujato,M., Kieken,F., Skiles,A.A., Tapinos,N. and Fiser,A.
  TITLE     Prediction of DNA binding motifs from 3D models of transcription
            factors; identifying TLX3 regulated genes
  JOURNAL   Nucleic Acids Res 42 (22), 13500-13512 (2014)
   PUBMED   25428367
REFERENCE   5  (bases 1 to 1534)
  AUTHORS   Ma,J., Hua,J., Sha,Y. and Xie,Y.
  TITLE     The effect of TLX3 expression on the prognosis of pediatric T cell
            acute lymphocytic leukemia--a systematic review
  JOURNAL   Tumour Biol 35 (9), 8439-8443 (2014)
   PUBMED   24997618
  REMARK    GeneRIF: Studies suggest that homeobox protein TLX3 expression is
            not an indicator for the prognosis of pediatric T cell acute
            lymphocytic leukemia (T-ALL).
            Review article
REFERENCE   6  (bases 1 to 1534)
  AUTHORS   Ballerini,P., Blaise,A., Busson-Le Coniat,M., Su,X.Y.,
            Zucman-Rossi,J., Adam,M., van den Akker,J., Perot,C.,
            Pellegrino,B., Landman-Parker,J., Douay,L., Berger,R. and
            Bernard,O.A.
  TITLE     HOX11L2 expression defines a clinical subtype of pediatric T-ALL
            associated with poor prognosis
  JOURNAL   Blood 100 (3), 991-997 (2002)
   PUBMED   12130513
  REMARK    GeneRIF: HOX11L2 expression defines a clinical subtype of pediatric
            T-ALL associated with poor prognosis.
REFERENCE   7  (bases 1 to 1534)
  AUTHORS   Bernard,O.A., Busson-LeConiat,M., Ballerini,P., Mauchauffe,M.,
            Della Valle,V., Monni,R., Nguyen Khac,F., Mercher,T.,
            Penard-Lacronique,V., Pasturaud,P., Gressin,L., Heilig,R.,
            Daniel,M.T., Lessard,M. and Berger,R.
  TITLE     A new recurrent and specific cryptic translocation,
            t(5;14)(q35;q32), is associated with expression of the Hox11L2 gene
            in T acute lymphoblastic leukemia
  JOURNAL   Leukemia 15 (10), 1495-1504 (2001)
   PUBMED   11587205
REFERENCE   8  (bases 1 to 1534)
  AUTHORS   Lee-Kirsch,M.A., Engel,K., Paditz,E., Rosen-Wolff,A., Lee,Y.A. and
            Gahr,M.
  TITLE     Assignment of the human homeobox 11-like 2 gene (HOX11L2) to
            chromosome 5q34-->q35 by radiation hybrid mapping
  JOURNAL   Cytogenet Cell Genet 92 (3-4), 358 (2001)
   PUBMED   11435718
REFERENCE   9  (bases 1 to 1534)
  AUTHORS   Cinti,R., Fava,M., Sancandi,M., Matera,I., Ravazzolo,R. and
            Ceccherini,I.
  TITLE     Assignment of the HOX11L2 gene to human chromosome band 5q35.1 and
            of its murine homolog to mouse chromosome bands 11A4-A5 by in situ
            hybridization
  JOURNAL   Cytogenet Cell Genet 92 (3-4), 354-355 (2001)
   PUBMED   11435716
REFERENCE   10 (bases 1 to 1534)
  AUTHORS   Dear,T.N., Sanchez-Garcia,I. and Rabbitts,T.H.
  TITLE     The HOX11 gene encodes a DNA-binding nuclear transcription factor
            belonging to a distinct family of homeobox genes
  JOURNAL   Proc Natl Acad Sci U S A 90 (10), 4431-4435 (1993)
   PUBMED   8099440
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC091980.4 and BC017291.2.
            
            On Nov 22, 2018 this sequence version replaced NM_021025.3.
            
            Summary: The protein encoded by this gene is an orphan homeobox
            protein that encodes a DNA-binding nuclear transcription factor. A
            translocation [t(5;14)(q35;q32)] involving this gene is associated
            with T-cell acute lymphoblastic leukemia (T-ALL) in children and
            young adults. [provided by RefSeq, Nov 2015].
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC017291.2, BG828093.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN03465403 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000296921.6/ ENSP00000296921.5
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-36                AC091980.4         59641-59676
            37-1062             BC017291.2         1-1026
            1063-1063           AC091980.4         62061-62061
            1064-1478           BC017291.2         1028-1442
            1479-1479           AC091980.4         62477-62477
            1480-1529           BC017291.2         1444-1493
            1530-1534           AC091980.4         62528-62532
FEATURES             Location/Qualifiers
     source          1..1534
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q35.1"
     gene            1..1534
                     /gene="TLX3"
                     /gene_synonym="HOX11L2; RNX"
                     /note="T cell leukemia homeobox 3"
                     /db_xref="GeneID:30012"
                     /db_xref="HGNC:HGNC:13532"
                     /db_xref="MIM:604640"
     exon            1..539
                     /gene="TLX3"
                     /gene_synonym="HOX11L2; RNX"
                     /inference="alignment:Splign:2.1.0"
     CDS             119..994
                     /gene="TLX3"
                     /gene_synonym="HOX11L2; RNX"
                     /note="homeo box 11-like 2; homeobox protein Hox-11L2"
                     /codon_start=1
                     /product="T-cell leukemia homeobox protein 3"
                     /protein_id="NP_066305.2"
                     /db_xref="CCDS:CCDS34288.1"
                     /db_xref="GeneID:30012"
                     /db_xref="HGNC:HGNC:13532"
                     /db_xref="MIM:604640"
                     /translation="MEAPASAQTPHPHEPISFGIDQILNSPDQDSAPAPRGPDGASYL
                     GGPPGGRPGATYPSLPASFAGLGAPFEDAGSYSVNLSLAPAGVIRVPAHRPLPGAVPP
                     PLPSALPAMPSVPTVSSLGGLNFPWMESSRRFVKDRFTAAAALTPFTVTRRIGHPYQN
                     RTPPKRKKPRTSFSRVQICELEKRFHRQKYLASAERAALAKSLKMTDAQVKTWFQNRR
                     TKWRRQTAEEREAERQQASRLMLQLQHDAFQKSLNDSIQPDPLCLHNSSLFALQNLQP
                     WEEDSSKVPAVTSLV"
     exon            540..783
                     /gene="TLX3"
                     /gene_synonym="HOX11L2; RNX"
                     /inference="alignment:Splign:2.1.0"
     exon            784..1534
                     /gene="TLX3"
                     /gene_synonym="HOX11L2; RNX"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1508..1513
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TLX3"
                     /gene_synonym="HOX11L2; RNX"
                     /note="hexamer: AATAAA"
     polyA_site      1534
                     /gene="TLX3"
                     /gene_synonym="HOX11L2; RNX"
                     /note="major polyA site"
ORIGIN      
        1 gcgcactctt ggcaaagttt cagtgcgacg agaggcgccg ggcgctccat ggccgcgccg
       61 taacggggac ccagccgcct ccccgcccag cccagcccag cccttccgcc cgcccaggat
      121 ggaggcgccc gccagcgcgc agaccccgca cccgcacgag cccatcagct tcggcatcga
      181 ccagatcctt aacagcccgg accaggacag cgcacccgcc ccgcggggcc ccgacggcgc
      241 cagctacctg ggagggcccc ccgggggccg tccgggcgcc acatacccgt ctctgcccgc
      301 ctcctttgcg ggcctcggcg cgcccttcga ggacgcggga tcttacagtg tgaacctgag
      361 cctagcgccc gcaggcgtga tccgggtgcc ggcgcacagg ccgctgcccg gggccgtgcc
      421 accgcctctg ccaagcgcgc tacccgccat gccctccgtg cccacggtct ccagccttgg
      481 cggtctcaat ttcccctgga tggagagcag ccgccgcttc gtgaaagacc gcttcacagc
      541 ggcggccgca ctcacgccct tcaccgtgac ccggcgcatc ggccacccct accagaaccg
      601 gacgccgccc aagcgtaaga agccgcgcac gtccttttcc cgggtgcaga tctgcgagct
      661 ggaaaagcgc ttccatcgcc agaagtacct ggcctctgcc gagagggcgg cgctcgccaa
      721 gtccctcaaa atgacggacg cgcaggtcaa gacctggttc caaaaccgga ggaccaagtg
      781 gcggcggcag acggcggagg agcgggaggc ggagcggcag caggcgagcc ggctcatgct
      841 gcagctgcaa cacgacgcct tccaaaagag cctcaacgac tccatccagc ctgacccgct
      901 ctgtctgcac aactcgtcac tctttgctct gcagaatctg cagccctggg aggaggatag
      961 ttccaaggtt cccgctgtca cctccctggt gtgagcccac cagcgcgcac cgtcgccacg
     1021 gatcgccgcc cccacccagc cgggcgcccc ggacccccca ggcgggctgc gggggaaccg
     1081 gcgccgagag gggaaggggc cgcctagccc gagtaggccc cagggcgcgg ccacagactg
     1141 gcgggccgcg gaagggggta gggcccgagc tccgcgcggc cgcacaatcc gagcccccgc
     1201 cccgcgcccc gtcccgcccc aggcccgggc ctgacaagaa agcgccttac gtttctccgc
     1261 cccccgcccg caccccccgg gccgggcgcc tgtattatac tttgtacttt tgcccaaacg
     1321 tgtaaataat aaaaaagttt tggctttttt ctttagaaac cggccacctg cttcccccgc
     1381 gggggccgct ggaggaaggg cagccgaccc ggccgctggg ggaagtgcca ggggcccggg
     1441 gcaccctgcg tttaggctgg gtccactctt cttcttttcc gttcctttta tttaagtctt
     1501 tttatttaat aaaaaagtta gctatttcac ttaa
//
