LOCUS       NM_005193               1642 bp    mRNA    linear   PRI 02-JUN-2024
DEFINITION  Homo sapiens caudal type homeobox 4 (CDX4), mRNA.
ACCESSION   NM_005193
VERSION     NM_005193.2
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 1642)
  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 1642)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1642)
  AUTHORS   Creamer,J.P., Dege,C., Ren,Q., Ho,J.T.K., Valentine,M.C.,
            Druley,T.E. and Sturgeon,C.M.
  TITLE     Human definitive hematopoietic specification from pluripotent stem
            cells is regulated by mesodermal expression of CDX4
  JOURNAL   Blood 129 (22), 2988-2992 (2017)
   PUBMED   28408465
  REMARK    GeneRIF: Gene expression analyses on WNT-dependent KDR(+)CD235a(-)
            definitive hematopoietic mesoderm and WNT-independent
            KDR(+)CD235a(+) primitive hematopoietic mesoderm revealed strong
            CDX gene expression within definitive hematopoietic mesoderm.
            Temporal expression analyses revealed that CDX4 was expressed
            exclusively within definitive hematopoietic KDR(+)CD235a(-)
            mesoderm in a WNT- and fibroblast growth factor-dependent manner
REFERENCE   4  (bases 1 to 1642)
  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   5  (bases 1 to 1642)
  AUTHORS   Yang,X., Coulombe-Huntington,J., Kang,S., Sheynkman,G.M., Hao,T.,
            Richardson,A., Sun,S., Yang,F., Shen,Y.A., Murray,R.R., Spirohn,K.,
            Begg,B.E., Duran-Frigola,M., MacWilliams,A., Pevzner,S.J.,
            Zhong,Q., Wanamaker,S.A., Tam,S., Ghamsari,L., Sahni,N., Yi,S.,
            Rodriguez,M.D., Balcha,D., Tan,G., Costanzo,M., Andrews,B.,
            Boone,C., Zhou,X.J., Salehi-Ashtiani,K., Charloteaux,B., Chen,A.A.,
            Calderwood,M.A., Aloy,P., Roth,F.P., Hill,D.E., Iakoucheva,L.M.,
            Xia,Y. and Vidal,M.
  TITLE     Widespread Expansion of Protein Interaction Capabilities by
            Alternative Splicing
  JOURNAL   Cell 164 (4), 805-817 (2016)
   PUBMED   26871637
REFERENCE   6  (bases 1 to 1642)
  AUTHORS   Frohling,S., Scholl,C., Bansal,D. and Huntly,B.J.
  TITLE     HOX gene regulation in acute myeloid leukemia: CDX marks the spot?
  JOURNAL   Cell Cycle 6 (18), 2241-2245 (2007)
   PUBMED   17881901
  REMARK    Review article
REFERENCE   7  (bases 1 to 1642)
  AUTHORS   Bansal,D., Scholl,C., Frohling,S., McDowell,E., Lee,B.H.,
            Dohner,K., Ernst,P., Davidson,A.J., Daley,G.Q., Zon,L.I.,
            Gilliland,D.G. and Huntly,B.J.
  TITLE     Cdx4 dysregulates Hox gene expression and generates acute myeloid
            leukemia alone and in cooperation with Meis1a in a murine model
  JOURNAL   Proc Natl Acad Sci U S A 103 (45), 16924-16929 (2006)
   PUBMED   17068127
REFERENCE   8  (bases 1 to 1642)
  AUTHORS   Zambidis,E.T., Peault,B., Park,T.S., Bunz,F. and Civin,C.I.
  TITLE     Hematopoietic differentiation of human embryonic stem cells
            progresses through sequential hematoendothelial, primitive, and
            definitive stages resembling human yolk sac development
  JOURNAL   Blood 106 (3), 860-870 (2005)
   PUBMED   15831705
REFERENCE   9  (bases 1 to 1642)
  AUTHORS   Lohnes,D.
  TITLE     The Cdx1 homeodomain protein: an integrator of posterior signaling
            in the mouse
  JOURNAL   Bioessays 25 (10), 971-980 (2003)
   PUBMED   14505364
  REMARK    Review article
REFERENCE   10 (bases 1 to 1642)
  AUTHORS   Horn,J.M. and Ashworth,A.
  TITLE     A member of the caudal family of homeobox genes maps to the
            X-inactivation centre region of the mouse and human X chromosomes
  JOURNAL   Hum Mol Genet 4 (6), 1041-1047 (1995)
   PUBMED   7655457
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL450108.12.
            
            On Sep 14, 2020 this sequence version replaced NM_005193.1.
            
            Summary: This gene encodes a member of a small subfamily of
            homeobox containing transcription factors. The encoded protein may
            regulate homeobox gene expression during anteroposterior patterning
            and hematopoiesis. [provided by RefSeq, Aug 2012].
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            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 :: SRR14038194.88973.1, BC128233.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2147596, SAMEA2161674
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000373514.3/ ENSP00000362613.1
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-703               AL450108.12        78161-78863
            704-849             AL450108.12        84625-84770
            850-1642            AL450108.12        85487-86279
FEATURES             Location/Qualifiers
     source          1..1642
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="X"
                     /map="Xq13.2"
     gene            1..1642
                     /gene="CDX4"
                     /note="caudal type homeobox 4"
                     /db_xref="GeneID:1046"
                     /db_xref="HGNC:HGNC:1808"
                     /db_xref="MIM:300025"
     exon            1..703
                     /gene="CDX4"
                     /inference="alignment:Splign:2.1.0"
     CDS             202..1056
                     /gene="CDX4"
                     /note="caudal type homeobox transcription factor 4;
                     caudal-type homeobox protein 4"
                     /codon_start=1
                     /product="homeobox protein CDX-4"
                     /protein_id="NP_005184.1"
                     /db_xref="CCDS:CCDS14424.1"
                     /db_xref="GeneID:1046"
                     /db_xref="HGNC:HGNC:1808"
                     /db_xref="MIM:300025"
                     /translation="MYGSCLLEKEAGMYPGTLMSPGGDGTAGTGGTGGGGSPMPASNF
                     AAAPAFSHYMGYPHMPSMDPHWPSLGVWGSPYSPPREDWSVYPGPSSTMGTVPVNDVT
                     SSPAAFCSTDYSNLGPVGGGTSGSSLPGQAGGSLVPTDAGAAKASSPSRSRHSPYAWM
                     RKTVQVTGKTRTKEKYRVVYTDHQRLELEKEFHCNRYITIQRKSELAVNLGLSERQVK
                     IWFQNRRAKERKMIKKKISQFENSGGSVQSDSDSISPGELPNTFFTTPSAVRGFQPIE
                     IQQVIVSE"
     exon            704..849
                     /gene="CDX4"
                     /inference="alignment:Splign:2.1.0"
     exon            850..1642
                     /gene="CDX4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1616..1621
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDX4"
                     /note="hexamer: AATAAA"
     polyA_site      1642
                     /gene="CDX4"
                     /note="major polyA site"
ORIGIN      
        1 attggtggcc tatctataca gggctgctag tcacctggat accctcgtaa gaaacgtggg
       61 atggagtagc ctgaggggtg caaaagagct tgcggcacaa ctacgtactg ataagtttat
      121 tctctgctgc ttctcaaagt cgagttgggg ccttacaggg acttcaggat ggcttaggga
      181 gcgccttcta cccaagacac gatgtacgga agctgtcttt tggagaaaga agcaggcatg
      241 tacccgggca ctctcatgag ccctgggggc gacggcacag ctgggacagg cggcacaggg
      301 ggcggtggga gtccgatgcc agcctccaat ttcgctgcgg caccggcttt ctcgcactat
      361 atggggtatc ctcatatgcc cagcatggat cctcactggc cgtctctggg agtctggggc
      421 tcaccctaca gtcccccgcg agaagactgg agcgtgtatc ctgggccgtc tagtacaatg
      481 ggcacagtgc cggtgaacga cgtgacctct agccccgccg ctttctgctc gaccgactac
      541 agcaacttgg gccctgtggg cggtggaact agcggcagca gcctaccagg ccaggctggc
      601 gggtcgcttg tcccgacgga cgcaggcgcc gccaaggcca gttcccccag caggagccgc
      661 cacagcccct atgcatggat gcgcaagacg gtgcaggtga cggggaaaac caggacaaaa
      721 gaaaagtatc gtgtagttta cactgatcat caaagattgg agctggaaaa ggaattccat
      781 tgcaatagat atatcaccat ccagagaaaa tcagagctgg cagttaacct gggcctttcc
      841 gagagacagg tgaaaatctg gtttcagaat cgcagagcca aggagagaaa gatgatcaaa
      901 aagaaaatct cccagtttga gaatagtgga ggctcggtgc aaagtgactc tgactccatc
      961 agccctgggg aactacctaa cacttttttc accacaccat ctgctgttcg tggatttcaa
     1021 cctattgaga tacagcaggt tatagtctcc gaatgaaaga aagcaaagag aaatttaaag
     1081 tgcccttttt ttagtgatgt cttttgggtc tctaagctat ctacagggga gttggagcag
     1141 ggtgtaattc cctgtaaggc agtatttgga acagatggat gcacaatggg ttgaagataa
     1201 tttaggggac tcttactttt agaaactatc cccagaaaac tcctgtcacg tgctgtgcta
     1261 tatgtcagtc actcaggaat cttagtggta aggtatataa ttaaaagcta gaatcacagg
     1321 cccttccaac tctgttcaca atttcagaaa cttgcttatg aatagactgt aaaatacaat
     1381 tttgccagaa agcacatttg tgtatgtgta cttctgtttg ttatttgatg ctaggtgttt
     1441 tcttttatgc tatctttaag gagtgagaag aaggtaaacc gaagtttatc tatctttagc
     1501 tacctttcca agtgtttaat tcaaaagcta acagaatttt tataataaga taaatgtttt
     1561 aaaaatcatc agaaggtgat tctgattcca ttgtcactgc ttaacaagaa taaccaataa
     1621 aaaagacaat tttggccctc aa
//
