LOCUS       NM_001265               3448 bp    mRNA    linear   PRI 19-AUG-2024
DEFINITION  Homo sapiens caudal type homeobox 2 (CDX2), transcript variant 1,
            mRNA.
ACCESSION   NM_001265
VERSION     NM_001265.6
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 3448)
  AUTHORS   Mukohyama,J., Koizumi,M., Yamashita,K., Yoshimi,A., Shida,D. and
            Kakeji,Y.
  TITLE     Knockdown of CDX2 Induces microRNA-221 Up-regulation in Human Colon
            Cancer Cells
  JOURNAL   Anticancer Res 44 (8), 3553-3556 (2024)
   PUBMED   39060046
  REMARK    GeneRIF: Knockdown of CDX2 Induces microRNA-221 Up-regulation in
            Human Colon Cancer Cells.
REFERENCE   2  (bases 1 to 3448)
  AUTHORS   Lee,J.A., Park,H.E., Jin,H.Y., Jin,L., Cho,N.Y., Bae,J.M., Kim,J.H.
            and Kang,G.H.
  TITLE     Concomitant expression patterns of CDX2 and SATB2 as prognostic
            factors in stage III colorectal cancers
  JOURNAL   Ann Diagn Pathol 71, 152289 (2024)
   PUBMED   38555678
  REMARK    GeneRIF: Concomitant expression patterns of CDX2 and SATB2 as
            prognostic factors in stage III colorectal cancers.
REFERENCE   3  (bases 1 to 3448)
  AUTHORS   Zhang,M., Zhang,Z., Jiao,L., Liang,L., Bo,W., Zhang,M., Li,X.,
            Fu,X. and Wang,X.
  TITLE     Combined Use of Helicobacter pylori Genotyping and CDX2 Expression
            as a Predictor of Malignant Potential in Gastric Intestinal
            Metaplasia
  JOURNAL   Ann Clin Lab Sci 54 (1), 9-16 (2024)
   PUBMED   38514066
  REMARK    GeneRIF: Combined Use of Helicobacter pylori Genotyping and CDX2
            Expression as a Predictor of Malignant Potential in Gastric
            Intestinal Metaplasia.
REFERENCE   4  (bases 1 to 3448)
  AUTHORS   Freund,J.N., Duluc,I., Reimund,J.M., Gross,I. and Domon-Dell,C.
  TITLE     Extending the functions of the homeotic transcription factor Cdx2
            in the digestive system through nontranscriptional activities
  JOURNAL   World J Gastroenterol 21 (5), 1436-1443 (2015)
   PUBMED   25663763
  REMARK    Review article
REFERENCE   5  (bases 1 to 3448)
  AUTHORS   Olsen,J., Espersen,M.L., Jess,P., Kirkeby,L.T. and Troelsen,J.T.
  TITLE     The clinical perspectives of CDX2 expression in colorectal cancer:
            a qualitative systematic review
  JOURNAL   Surg Oncol 23 (3), 167-176 (2014)
   PUBMED   25126956
  REMARK    Review article
REFERENCE   6  (bases 1 to 3448)
  AUTHORS   Witek,M.E., Snook,A.E., Lin,J.E., Blomain,E.S., Xiang,B.,
            Magee,M.S. and Waldman,S.A.
  TITLE     A novel CDX2 isoform regulates alternative splicing
  JOURNAL   PLoS One 9 (8), e104293 (2014)
   PUBMED   25101906
  REMARK    Erratum:[PLoS One. 2014;9(10):e112164. Magee, Michael [corrected to
            Magee, Michael S]]
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 3448)
  AUTHORS   Drummond,F., Putt,W., Fox,M. and Edwards,Y.H.
  TITLE     Cloning and chromosome assignment of the human CDX2 gene
  JOURNAL   Ann Hum Genet 61 (Pt 5), 393-400 (1997)
   PUBMED   9459001
REFERENCE   8  (bases 1 to 3448)
  AUTHORS   Inoue,H., Riggs,A.C., Tanizawa,Y., Ueda,K., Kuwano,A., Liu,L.,
            Donis-Keller,H. and Permutt,M.A.
  TITLE     Isolation, characterization, and chromosomal mapping of the human
            insulin promoter factor 1 (IPF-1) gene
  JOURNAL   Diabetes 45 (6), 789-794 (1996)
   PUBMED   8635654
REFERENCE   9  (bases 1 to 3448)
  AUTHORS   German,M.S., Wang,J., Fernald,A.A., Espinosa,R. 3rd, Le Beau,M.M.
            and Bell,G.I.
  TITLE     Localization of the genes encoding two transcription factors, LMX1
            and CDX3, regulating insulin gene expression to human chromosomes 1
            and 13
  JOURNAL   Genomics 24 (2), 403-404 (1994)
   PUBMED   7698771
REFERENCE   10 (bases 1 to 3448)
  AUTHORS   Suh,E., Chen,L., Taylor,J. and Traber,P.G.
  TITLE     A homeodomain protein related to caudal regulates
            intestine-specific gene transcription
  JOURNAL   Mol Cell Biol 14 (11), 7340-7351 (1994)
   PUBMED   7935448
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL591024.14.
            
            On May 17, 2019 this sequence version replaced NM_001265.5.
            
            Summary: This gene is a member of the caudal-related homeobox
            transcription factor gene family. The encoded protein is a major
            regulator of intestine-specific genes involved in cell growth an
            differentiation. This protein also plays a role in early embryonic
            development of the intestinal tract. Aberrant expression of this
            gene is associated with intestinal inflammation and tumorigenesis.
            [provided by RefSeq, Jan 2012].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript 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 :: SRR6380201.133355.11, BC014461.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540, SAMN03267769
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000381020.8/ ENSP00000370408.6
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-850               AL591024.14        26442-27291         c
            851-996             AL591024.14        22846-22991         c
            997-3448            AL591024.14        18894-21345         c
FEATURES             Location/Qualifiers
     source          1..3448
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="13"
                     /map="13q12.2"
     gene            1..3448
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /note="caudal type homeobox 2"
                     /db_xref="GeneID:1045"
                     /db_xref="HGNC:HGNC:1806"
                     /db_xref="MIM:600297"
     exon            1..850
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /inference="alignment:Splign:2.1.0"
     CDS             310..1251
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /note="isoform 1 is encoded by transcript variant 1;
                     caudal type homeobox transcription factor 2; homeobox
                     protein CDX-2; caudal-type homeobox protein 2; homeobox
                     protein miniCDX2"
                     /codon_start=1
                     /product="homeobox protein CDX-2 isoform 1"
                     /protein_id="NP_001256.4"
                     /db_xref="CCDS:CCDS9328.1"
                     /db_xref="GeneID:1045"
                     /db_xref="HGNC:HGNC:1806"
                     /db_xref="MIM:600297"
                     /translation="MYVSYLLDKDVSMYPSSVRHSGGLNLAPQNFVSPPQYPDYGGYH
                     VAAAAAAAANLDSAQSPGPSWPAAYGAPLREDWNGYAPGGAAAAANAVAHGLNGGSPA
                     AAMGYSSPADYHPHHHPHHHPHHPAAAPSCASGLLQTLNPGPPGPAATAAAEQLSPGG
                     QRRNLCEWMRKPAQQSLGSQVKTRTKDKYRVVYTDHQRLELEKEFHYSRYITIRRKAE
                     LAATLGLSERQVKIWFQNRRAKERKINKKKLQQQQQQQPPQPPPPPPQPPQPQPGPLR
                     SVPEPLSPVSSLQASVPGSVPGVLGPTGGVLNPTVTQ"
     exon            851..996
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /inference="alignment:Splign:2.1.0"
     exon            997..3448
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1976..1981
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /note="hexamer: TATAAA"
     polyA_site      1993
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /note="major polyA site"
     regulatory      2197..2202
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /note="hexamer: AAGAAA"
     regulatory      2207..2212
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /note="hexamer: GATAAA"
     polyA_site      2230
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
     polyA_site      2249
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
     regulatory      2285..2290
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /note="hexamer: AATGAA"
     polyA_site      2309
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
     regulatory      3425..3430
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
                     /note="hexamer: AATAAA"
     polyA_site      3448
                     /gene="CDX2"
                     /gene_synonym="CDX-3; CDX2/AS; CDX3"
ORIGIN      
        1 aatcacggaa ggccgccggc ctggggctcc gcacgccagc ctgtggcggg tcttccccgc
       61 ctctgcagcc tagtgggaag gaggtgggag gaaagaagga agaaagggag ggagggagga
      121 ggcaggccag agggagggac cgcctcggag gcagaagagc cgcgaggagc cagcggagca
      181 ccgcgggctg gggcgcagcc acccgccgct cctcgagtcc cctcgcccct ttcccttcgt
      241 gccccccggc agcctccagc gtcggtcccc aggcagcatg gtgaggtctg ctcccggacc
      301 ctcgccacca tgtacgtgag ctacctcctg gacaaggacg tgagcatgta ccctagctcc
      361 gtgcgccact ctggcggcct caacctggcg ccgcagaact tcgtcagccc cccgcagtac
      421 ccggactacg gcggttacca cgtggcggcc gcagctgcag cggcagcgaa cttggacagc
      481 gcgcagtccc cggggccatc ctggccggca gcgtatggcg ccccactccg ggaggactgg
      541 aatggctacg cgcccggagg cgccgcggcc gccgccaacg ccgtggctca cggcctcaac
      601 ggtggctccc cggccgcagc catgggctac agcagccccg cagactacca tccgcaccac
      661 cacccgcatc accacccgca ccacccggcc gccgcgcctt cctgcgcttc tgggctgctg
      721 caaacgctca accccggccc tcctgggccc gccgccaccg ctgccgccga gcagctgtct
      781 cccggcggcc agcggcggaa cctgtgcgag tggatgcgga agccggcgca gcagtccctc
      841 ggcagccaag tgaaaaccag gacgaaagac aaatatcgag tggtgtacac ggaccaccag
      901 cggctggagc tggagaagga gtttcactac agtcgctaca tcaccatccg gaggaaagcc
      961 gagctagccg ccacgctggg gctctctgag aggcaggtta aaatctggtt tcagaaccgc
     1021 agagcaaagg agaggaaaat caacaagaag aagttgcagc agcaacagca gcagcagcca
     1081 ccacagccgc ctccgccgcc accacagcct ccccagcctc agccaggtcc tctgagaagt
     1141 gtcccagagc ccttgagtcc ggtgtcttcc ctgcaagcct cagtgcctgg ctctgtccct
     1201 ggggttctgg ggccaactgg gggggtgcta aaccccaccg tcacccagtg acccaccggg
     1261 ttctgcagcg gcagagcaat tccaggctga gccatgagga gcgtggactc tgctagactc
     1321 ctcaggagag acccctcccc tcccacccac agccatagac ctacagacct ggctctcaga
     1381 ggaaaaatgg gagccaggag taagacaagt gggatttggg gcctcaagaa atatactctc
     1441 ccagattttt actttttccc atctggcttt ttctgccact gaggagacag aaagcctccg
     1501 ctgggcttca ttccggactg gcagaagcat tgcctggact gaccacacca accaggcctt
     1561 catcctcctc cccagctctt ctcttcctag atctgcaggc tgcacctctg gctagagccg
     1621 aggggagaga gggactcaag ggaaaggcaa gcttgaggcc aagatggctg ctgcctgctc
     1681 atggccctcg gaggtccagc tgggcctcct gcctccgggc aggcaaggtt tacactgcgg
     1741 aagccaaagg cagctaagat agaaagctgg actgaccaaa gactgcagaa cccccaggtg
     1801 gcctgcgtct tttttctctt cccttcccag accaggaaag gcttggctgg tgtatgcaca
     1861 gggtgtggta tgagggggtg gttattggac tccaggcctg accagggggc ccgaacaggg
     1921 acttgtttag agagcctgtc accagagctt ctctgggctg aatgtatgtc agtgctataa
     1981 atgccagagc caacctggac ttcctgtcat tttcacaatc ttggggctga tgaagaaggg
     2041 ggtgggggga gtttgtgttg ttgttgctgc tgtttgggtt gttggtctgt gtaacatcca
     2101 agccagagtt tttaaagcct tctggatcca tggggggaga agtgatatgg tgaagggaag
     2161 tggggagtat ttgaacacag ttgaattttt tctaaaaaga aaaagagata aatgagcttt
     2221 ccagatttca gattctgtat ttatcttcag attttgtctg caactatttt ttatttttta
     2281 aagaaatgaa atatcttctc tgcttgcaag ctgatttgga aaattcagag agggagtgga
     2341 gattatctgg acagcctcat tttaccccag agcatcagaa gcctgaaaga gcaggttctg
     2401 agaccttccc tgcccccaag cctgagccca gccttggaat gcgtggctct cctgggggtg
     2461 cctttgggca aaatgcacat ctgaatggcc aggtgcttcc cagcagtcag aaattatggg
     2521 gggtgggggt gagagggccc cctcatagca tctcaccaaa tccacatgga ggctttttgc
     2581 aaacagcagg cagttccctt ctgcagtgac tccctcctaa ggacgcccca caacccagct
     2641 agttaaacgt gagcattaaa ttttttttaa aaaaaatccc cctagtttcc caagacagca
     2701 tttccatgaa tttagtcttc tgtaaatcac tgggcatttc cgtgagccct ttctgcctcc
     2761 actctcttct ctgtctttgc agtttcctta tccccgaccg cgccccccct tccaacccaa
     2821 tcaccccaca aacaagattt ctagacccag tataaaatga tccttttagt gacagtttct
     2881 tgttatctgg ccgatccact ggggaccggg ctgcagcctt taaaattttt gatcctggag
     2941 gccgccgagc tgaactttcc ggcaggaccc gggcgagggg ggcttagccc ttcgtttcga
     3001 tcttcccacc aacatccgag agcctaatca gcgcgcccac ggaggcgcct taagggcagt
     3061 tggggaagat gagcagagcc gggaaacagc aagaggtata gaccctctgc agcacctctc
     3121 caattccgcg gcccttccgg gtggcgtata cagctccagg attgggaaag gggctccggt
     3181 ggcccggccc gcgggcgcct ggcctcgaag ccagagggag gagtgcgggg cgtggggtcg
     3241 gggggtgccg ggcagaggag gaagccgtgt ccgggtccgc tgggcgaggg gtcctgggtc
     3301 aggggtcctg ggtcagggcc ggtctgagcc ccggtgcccc gcaggtctcc ccgcgccccg
     3361 gccgcgccca caggcccgcc ccctagccgc cggggttgct atgcgttgcc gtgaaacgcc
     3421 tgtcaataaa ccctgtttgg acagtgga
//
