LOCUS       NM_001804               1775 bp    mRNA    linear   PRI 12-NOV-2024
DEFINITION  Homo sapiens caudal type homeobox 1 (CDX1), mRNA.
ACCESSION   NM_001804
VERSION     NM_001804.3
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 1775)
  AUTHORS   Gharakhyli,E.A., Tabar Molla Hassan,A., Alipour,M., Vahidi,S. and
            Samadani,A.A.
  TITLE     The effect of miR-372-5p regulation on CDX1 and CDX2 in the gastric
            cancer cell line
  JOURNAL   Horm Mol Biol Clin Investig 44 (3), 271-276 (2023)
   PUBMED   36848481
  REMARK    GeneRIF: The effect of miR-372-5p regulation on CDX1 and CDX2 in
            the gastric cancer cell line.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1775)
  AUTHORS   Chen,D.Z., Wang,T.F., Dai,W.C., Xu,X. and Chen,P.F.
  TITLE     LncRNA FOXD2-AS1 accelerates the progression of cervical cancer via
            downregulating CDX1
  JOURNAL   Eur Rev Med Pharmacol Sci 23 (23), 10234-10240 (2019)
   PUBMED   31841177
  REMARK    GeneRIF: LncRNA FOXD2-AS1 accelerates the progression of cervical
            cancer via downregulating CDX1.
REFERENCE   3  (bases 1 to 1775)
  AUTHORS   Samadani,A.A., Nikbakhsh,N., Taheri,H., Shafaee,S., Fattahi,S.,
            Pilehchian Langroudi,M., Hajian,K. and Akhavan-Niaki,H.
  TITLE     CDX1/2 and KLF5 Expression and Epigenetic Modulation of Sonic
            Hedgehog Signaling in Gastric Adenocarcinoma
  JOURNAL   Pathol Oncol Res 25 (3), 1215-1222 (2019)
   PUBMED   30685841
  REMARK    GeneRIF: Low CDX1 expression is correlated with Gastric
            Adenocarcinoma.
REFERENCE   4  (bases 1 to 1775)
  AUTHORS   Holst,S., Wilding,J.L., Koprowska,K., Rombouts,Y. and Wuhrer,M.
  TITLE     N-Glycomic and Transcriptomic Changes Associated with CDX1 mRNA
            Expression in Colorectal Cancer Cell Lines
  JOURNAL   Cells 8 (3), 273 (2019)
   PUBMED   30909444
  REMARK    GeneRIF: These data highlight a possible role of CDX1 in altering
            the N-glycosylation of colorectal cancer cells, which is a hallmark
            of tumor development.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1775)
  AUTHORS   Mozaffari Namin,B. and Soltan Dallal,M.M.
  TITLE     Campylobacter Concisus and Its Effect on the Expression of CDX1 and
            COX2
  JOURNAL   Asian Pac J Cancer Prev 19 (11), 3211-3216 (2018)
   PUBMED   30486614
  REMARK    GeneRIF: High CDX1 expression is associated with esophageal
            adenocarcinoma.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1775)
  AUTHORS   Domon-Dell,C., Schneider,A., Moucadel,V., Guerin,E., Guenot,D.,
            Aguillon,S., Duluc,I., Martin,E., Iovanna,J., Launay,J.F.,
            Duclos,B., Chenard,M.P., Meyer,C., Oudet,P., Kedinger,M., Gaub,M.P.
            and Freund,J.N.
  TITLE     Cdx1 homeobox gene during human colon cancer progression
  JOURNAL   Oncogene 22 (39), 7913-7921 (2003)
   PUBMED   12970739
  REMARK    GeneRIF: these data show that Cdx1 exhibits a complex pattern
            during colorectal cancer progression, a high level of expression in
            polyps, and in one-third of the specimens, suggest that this gene
            may be a factor in the process toward malignant transformation
REFERENCE   7  (bases 1 to 1775)
  AUTHORS   Suh,E.R., Ha,C.S., Rankin,E.B., Toyota,M. and Traber,P.G.
  TITLE     DNA methylation down-regulates CDX1 gene expression in colorectal
            cancer cell lines
  JOURNAL   J Biol Chem 277 (39), 35795-35800 (2002)
   PUBMED   12124393
  REMARK    GeneRIF: CDX1 is downregulated after promoter methylation in
            colorectal tumor cell lines
REFERENCE   8  (bases 1 to 1775)
  AUTHORS   Mizoshita,T., Inada,K., Tsukamoto,T., Kodera,Y., Yamamura,Y.,
            Hirai,T., Kato,T., Joh,T., Itoh,M. and Tatematsu,M.
  TITLE     Expression of Cdx1 and Cdx2 mRNAs and relevance of this expression
            to differentiation in human gastrointestinal mucosa--with special
            emphasis on participation in intestinal metaplasia of the human
            stomach
  JOURNAL   Gastric Cancer 4 (4), 185-191 (2001)
   PUBMED   11846061
  REMARK    GeneRIF: Increased CDX1 mRNA expression is associated with chronic
            atrophic gastritis
REFERENCE   9  (bases 1 to 1775)
  AUTHORS   Mallo,G.V., Rechreche,H., Frigerio,J.M., Rocha,D., Zweibaum,A.,
            Lacasa,M., Jordan,B.R., Dusetti,N.J., Dagorn,J.C. and Iovanna,J.L.
  TITLE     Molecular cloning, sequencing and expression of the mRNA encoding
            human Cdx1 and Cdx2 homeobox. Down-regulation of Cdx1 and Cdx2 mRNA
            expression during colorectal carcinogenesis
  JOURNAL   Int J Cancer 74 (1), 35-44 (1997)
   PUBMED   9036867
REFERENCE   10 (bases 1 to 1775)
  AUTHORS   Bonner,C.A., Loftus,S.K. and Wasmuth,J.J.
  TITLE     Isolation, characterization, and precise physical localization of
            human CDX1, a caudal-type homeobox gene
  JOURNAL   Genomics 28 (2), 206-211 (1995)
   PUBMED   8530027
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC005895.1 and AF239666.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On May 17, 2019 this sequence version replaced NM_001804.2.
            
            Summary: This gene is a member of the caudal-related homeobox
            transcription factor gene family. The encoded DNA-binding protein
            regulates intestine-specific gene expression and enterocyte
            differentiation. It has been shown to induce expression of the
            intestinal alkaline phosphatase gene, and inhibit
            beta-catenin/T-cell factor transcriptional activity. [provided by
            RefSeq, Jul 2008].
            
            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 :: U51095.1, U15212.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1966682, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000231656.13/ ENSP00000231656.7
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3                 AC005895.1         35178-35180
            4-18                AC005895.1         35181-35195
            19-960              AF239666.1         1-942
            961-1775            AC005895.1         52144-52958
FEATURES             Location/Qualifiers
     source          1..1775
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q32"
     gene            1..1775
                     /gene="CDX1"
                     /note="caudal type homeobox 1"
                     /db_xref="GeneID:1044"
                     /db_xref="HGNC:HGNC:1805"
                     /db_xref="MIM:600746"
     exon            1..544
                     /gene="CDX1"
                     /inference="alignment:Splign:2.1.0"
     CDS             100..897
                     /gene="CDX1"
                     /note="caudal type homeobox transcription factor 1; caudal
                     type homeo box transcription factor 1; caudal-type
                     homeobox protein CDX1; caudal-type homeobox protein 1"
                     /codon_start=1
                     /product="homeobox protein CDX-1"
                     /protein_id="NP_001795.2"
                     /db_xref="CCDS:CCDS4304.1"
                     /db_xref="GeneID:1044"
                     /db_xref="HGNC:HGNC:1805"
                     /db_xref="MIM:600746"
                     /translation="MYVGYVLDKDSPVYPGPARPASLGLGPQAYGPPAPPPAPPQYPD
                     FSSYSHVEPAPAPPTAWGAPFPAPKDDWAAAYGPGPAAPAASPASLAFGPPPDFSPVP
                     APPGPGPGLLAQPLGGPGTPSSPGAQRPTPYEWMRRSVAAGGGGGSGKTRTKDKYRVV
                     YTDHQRLELEKEFHYSRYITIRRKSELAANLGLTERQVKIWFQNRRAKERKVNKKKQQ
                     QQQPPQPPMAHDITATPAGPSLGGLCPSNTSLLATSSPMPVKEEFLP"
     exon            545..690
                     /gene="CDX1"
                     /inference="alignment:Splign:2.1.0"
     exon            691..1775
                     /gene="CDX1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1693..1698
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDX1"
                     /note="hexamer: AATAAA"
     polyA_site      1719
                     /gene="CDX1"
                     /note="major polyA site"
     regulatory      1748..1753
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDX1"
                     /note="hexamer: AAGAAA"
     polyA_site      1775
                     /gene="CDX1"
ORIGIN      
        1 ggcaggacag ccgagttcag gtgagcggtt gctcgtcgtc ggggcggccg gcagcggcgg
       61 ctccagggcc cagcatgcgc gggggacccc gcggccacca tgtatgtggg ctatgtgctg
      121 gacaaggatt cgcccgtgta ccccggccca gccaggccag ccagcctcgg cctgggcccg
      181 caagcctacg gccccccggc cccgcccccg gcgcccccgc agtaccccga cttctccagc
      241 tactctcacg tggagccggc ccccgcgccc ccgacggcct ggggggcgcc cttccctgcg
      301 cccaaggacg actgggccgc cgcctacggc ccgggccccg cggcccctgc cgccagccca
      361 gcttcgctgg cattcgggcc ccctccagac tttagcccgg tgccggcgcc ccctgggccc
      421 ggcccgggcc tcctggcgca gcccctcggg ggcccgggca caccgtcctc gcccggagcg
      481 cagaggccga cgccctacga gtggatgcgg cgcagcgtgg cggccggagg cggcggtggc
      541 agcggtaaga ctcggaccaa ggacaagtac cgcgtggtct acaccgacca ccaacgcctg
      601 gagctggaga aggagtttca ttacagccgt tacatcacaa tccggcggaa atcagagctg
      661 gctgccaatc tggggctcac tgaacggcag gtgaagatct ggttccaaaa ccggcgggca
      721 aaggagcgca aagtgaacaa gaagaaacag cagcagcaac agcccccaca gccgccgatg
      781 gcccacgaca tcacggccac cccagccggg ccatccctgg ggggcctgtg tcccagcaac
      841 accagcctcc tggccacctc ctctccaatg cctgtgaaag aggagtttct gccatagccc
      901 catgcccagc ctgtgcgccg ggggacctgg ggactcgggt gctgggagtg tggctcctgt
      961 gggcccagga ggtctggtcc gagtctcagc cctgaccttc tgggacatgg tggacagtca
     1021 cctatccacc ctctgcatcc ccttggccca tctgtgcagt aagcctgttg gataaagacc
     1081 ttccagctcc tgtgttctag acctctgggg gataagggag tccagggtgg atgatctcaa
     1141 tctcccgtgg gcatctcaag ccccaaatgg ttgggggagg ggcctagaca aggctccagg
     1201 ccccacctcc tcctccatac gttcagaggt gcagctggag gctgctgtgg ggaccacact
     1261 gatcctggag aaaagggatg gagctgaaaa agatggaatg cttgcagagc atgacctgag
     1321 gagggaggaa cgtggtcaac tcacacctgc ctcttcctgc agcctcactt ctacctgccc
     1381 ccatcataag ggcactgagc ccttcccagg ctggatacta agcacaaagc ccatagcact
     1441 gggctctgat ggctgctcca ctgggttaca gaatcacagc cctcatgatc attctcagtg
     1501 agggctctgg attgagaggg aggccctggg aggagagaag ggggcagagt cttccctacc
     1561 aggtttctac acccccgcca ggctgcccat cagggcccag ggagccccca gaggacttta
     1621 ttcggaccaa gcagagctca cagctggaca ggtgttgtat atagagtgga atctcttgga
     1681 tgcagcttca agaataaatt tttcttctct tttcaaaaat gtataaaaat cattatacat
     1741 agcattaaag aaacattttt gagaagtaca aatca
//
