LOCUS       NM_016279               3082 bp    mRNA    linear   PRI 06-JUN-2024
DEFINITION  Homo sapiens cadherin 9 (CDH9), mRNA.
ACCESSION   NM_016279
VERSION     NM_016279.4
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 3082)
  AUTHORS   Song,D., Zhang,Q., Zhang,H., Zhan,L. and Sun,X.
  TITLE     MiR-130b-3p promotes colorectal cancer progression by targeting
            CHD9
  JOURNAL   Cell Cycle 21 (6), 585-601 (2022)
   PUBMED   35100082
  REMARK    GeneRIF: MiR-130b-3p promotes colorectal cancer progression by
            targeting CHD9.
REFERENCE   2  (bases 1 to 3082)
  AUTHORS   Wojczynski,M.K., Li,M., Bielak,L.F., Kerr,K.F., Reiner,A.P.,
            Wong,N.D., Yanek,L.R., Qu,L., White,C.C., Lange,L.A.,
            Ferguson,J.F., He,J., Young,T., Mosley,T.H., Smith,J.A., Kral,B.G.,
            Guo,X., Wong,Q., Ganesh,S.K., Heckbert,S.R., Griswold,M.E.,
            O'Leary,D.H., Budoff,M., Carr,J.J., Taylor,H.A. Jr., Bluemke,D.A.,
            Demissie,S., Hwang,S.J., Paltoo,D.N., Polak,J.F., Psaty,B.M.,
            Becker,D.M., Province,M.A., Post,W.S., O'Donnell,C.J., Wilson,J.G.,
            Harris,T.B., Kavousi,M., Cupples,L.A., Rotter,J.I., Fornage,M.,
            Becker,L.C., Peyser,P.A., Borecki,I.B. and Reilly,M.P.
  TITLE     Genetics of coronary artery calcification among African Americans,
            a meta-analysis
  JOURNAL   BMC Med Genet 14, 75 (2013)
   PUBMED   23870195
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3082)
  AUTHORS   Athanasiadis,G., Sabater-Lleal,M., Buil,A., Souto,J.C., Borrell,M.,
            Lathrop,M., Watkins,H., Almasy,L., Hamsten,A. and Soria,J.M.
  TITLE     Genetic determinants of plasma beta-glycoprotein I levels: a
            genome-wide association study in extended pedigrees from Spain
  JOURNAL   J Thromb Haemost 11 (3), 521-528 (2013)
   PUBMED   23279374
REFERENCE   4  (bases 1 to 3082)
  AUTHORS   Hu,L., Wu,C., Zhao,X., Heist,R., Su,L., Zhao,Y., Han,B., Cao,S.,
            Chu,M., Dai,J., Dong,J., Shu,Y., Xu,L., Chen,Y., Wang,Y., Lu,F.,
            Jiang,Y., Yu,D., Chen,H., Tan,W., Ma,H., Chen,J., Jin,G., Wu,T.,
            Lu,D., Christiani,D.C., Lin,D., Hu,Z. and Shen,H.
  TITLE     Genome-wide association study of prognosis in advanced non-small
            cell lung cancer patients receiving platinum-based chemotherapy
  JOURNAL   Clin Cancer Res 18 (19), 5507-5514 (2012)
   PUBMED   22872573
REFERENCE   5  (bases 1 to 3082)
  AUTHORS   Chojnicka,I., Strawa,K., Fudalej,S., Fudalej,M., Pawlak,A.,
            Kostrzewa,G., Wojnar,M., Krajewski,P. and Ploski,R.
  TITLE     Analysis of four genes involved in the neurodevelopment shows
            association of rs4307059 polymorphism in the cadherin 9/10 region
            with completed suicide
  JOURNAL   Neuropsychobiology 66 (2), 134-140 (2012)
   PUBMED   22846907
  REMARK    GeneRIF: The CC genotype of rs4307059 located in the region between
            CDH9 and CDH10 is associated with completed suicide in a Polish
            cohort
REFERENCE   6  (bases 1 to 3082)
  AUTHORS   Thedieck,C., Kalbacher,H., Kuczyk,M., Muller,G.A., Muller,C.A. and
            Klein,G.
  TITLE     Cadherin-9 is a novel cell surface marker for the heterogeneous
            pool of renal fibroblasts
  JOURNAL   PLoS One 2 (7), e657 (2007)
   PUBMED   17668045
  REMARK    GeneRIF: Cadherin-9 is a reliable cell surface marker for
            fibroblasts in healthy and diseased kidneys.
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 3082)
  AUTHORS   Shimoyama,Y., Tsujimoto,G., Kitajima,M. and Natori,M.
  TITLE     Identification of three human type-II classic cadherins and
            frequent heterophilic interactions between different subclasses of
            type-II classic cadherins
  JOURNAL   Biochem J 349 (Pt 1), 159-167 (2000)
   PUBMED   10861224
REFERENCE   8  (bases 1 to 3082)
  AUTHORS   Nollet,F., Kools,P. and van Roy,F.
  TITLE     Phylogenetic analysis of the cadherin superfamily allows
            identification of six major subfamilies besides several solitary
            members
  JOURNAL   J Mol Biol 299 (3), 551-572 (2000)
   PUBMED   10835267
  REMARK    Review article
REFERENCE   9  (bases 1 to 3082)
  AUTHORS   Hulsken,J., Birchmeier,W. and Behrens,J.
  TITLE     E-cadherin and APC compete for the interaction with beta-catenin
            and the cytoskeleton
  JOURNAL   J Cell Biol 127 (6 Pt 2), 2061-2069 (1994)
   PUBMED   7806582
REFERENCE   10 (bases 1 to 3082)
  AUTHORS   Suzuki,S., Sano,K. and Tanihara,H.
  TITLE     Diversity of the cadherin family: evidence for eight new cadherins
            in nervous tissue
  JOURNAL   Cell Regul 2 (4), 261-270 (1991)
   PUBMED   2059658
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC010470.7, DA165253.1,
            AB035302.1, BC107594.1 and AC022450.5.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_016279.3.
            
            Summary: This gene encodes a type II classical cadherin from the
            cadherin superfamily, integral membrane proteins that mediate
            calcium-dependent cell-cell adhesion. Mature cadherin proteins are
            composed of a large N-terminal extracellular domain, a single
            membrane-spanning domain, and a small, highly conserved C-terminal
            cytoplasmic domain. The extracellular domain consists of 5
            subdomains, each containing a cadherin motif, and appears to
            determine the specificity of the protein's homophilic cell adhesion
            activity. Type II (atypical) cadherins are defined based on their
            lack of a HAV cell adhesion recognition sequence specific to type I
            cadherins. [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 :: AB035302.1, SRR1660809.172028.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1968540,
                                           SAMEA1968968 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000231021.9/ ENSP00000231021.4
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-4                 AC010470.7         69739-69742
            5-19                DA165253.1         1-15
            20-225              AB035302.1         1-206
            226-285             BC107594.1         184-243
            286-3079            AB035302.1         267-3060
            3080-3082           AC022450.5         63014-63016         c
FEATURES             Location/Qualifiers
     source          1..3082
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5p14.1"
     gene            1..3082
                     /gene="CDH9"
                     /note="cadherin 9"
                     /db_xref="GeneID:1007"
                     /db_xref="HGNC:HGNC:1768"
                     /db_xref="MIM:609974"
     exon            1..124
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            125..401
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     CDS             174..2543
                     /gene="CDH9"
                     /note="T1-cadherin"
                     /codon_start=1
                     /product="cadherin-9 preproprotein"
                     /protein_id="NP_057363.3"
                     /db_xref="CCDS:CCDS3893.1"
                     /db_xref="GeneID:1007"
                     /db_xref="HGNC:HGNC:1768"
                     /db_xref="MIM:609974"
                     /translation="MRTYHYIPLFIWTYMFHTVDTILLQEKPNSYLSSKKIAGLTKDD
                     GKMLRRTKRGWMWNQFFLLEEYTGTDTQYVGKLHTDQDKGDGNLKYILTGDGAGSLFV
                     IDENTGDIHAAKKLDREEKSLYILRAKAIDRKTGRQVEPESEFIIKIHDINDNEPKFT
                     KDLYTASVPEMSGVGTSVIQVTATDADDANYGNSAKVVYSILQGQPYFSVDPESGIIK
                     TALPDMSRENREQYQVVIQAKDMGGQMGGLSGTTTVNITLTDVNNNPPRFPQSTYQFN
                     SPESVPLGTHLGRIKANDPDVGENAEMEYSIAEGDGADMFDVITDKDTQEGIITVKQN
                     LDFENQMLYTLRVDASNTHPDPRFLHLGPFKDTAVVKISVEDIDEPPVFTKVSYLIEV
                     DEDVKEGSIIGQVTAYDPDARNNLIKYSVDRHTDMDRIFGIHSENGSIFTLKALDRES
                     SPWHNITVTATEINNPKQSSHIPVFIRILDINDHAPEFAMYYETFVCENAKPGQLIQT
                     VSVMDKDDPPRGHKFFFEPVPEFTLNPNFTIVDNKDNTAGIMTRKDGYSRNKMSTYLL
                     PILIFDNDYPIQSSTGTLTIRVCACDNQGNMQSCTAEALILSAGLSTGALVAILLCVL
                     ILLILVVLFAALKRQRKKEPLIISKDDVRDNIVTYNDEGGGEEDTQAFDIGTLRNPEA
                     REDSKLRRDVMPETIFQIRRTVPLWENIDVQDFIHRRLKENDADPSAPPYDSLATYAY
                     EGNDSIADSLSSLESLTADCNQDYDYLSDWGPRFKKLADMYGGDDSDRD"
     exon            402..696
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            697..816
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            817..984
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            985..1172
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            1173..1426
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            1427..1563
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            1564..1685
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            1686..1803
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            1804..2055
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     exon            2056..3082
                     /gene="CDH9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3058..3063
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDH9"
                     /note="hexamer: AATAAA"
     polyA_site      3082
                     /gene="CDH9"
                     /note="major polyA site"
ORIGIN      
        1 actgagatgc atgaagattc agctgtgaag atactataaa aagggaagag aaggaccgag
       61 acagaagcaa caacggaact gtcagtgcgg agtagggcta aactcagttc cattgttaag
      121 caaggaaaaa caaacaatac attgaatttg acaacccact gaagttgcag ataatgagga
      181 cttaccatta tataccatta ttcatctgga cctatatgtt ccatacagtt gacaccatcc
      241 tattacaaga aaaacctaac agttatttat caagcaaaaa gatagcgggt ctgacaaaag
      301 atgacggtaa aatgctacgt cgcaccaagc gtggctggat gtggaatcag ttcttcttat
      361 tggaagagta cacaggtact gacacacaat atgtaggcaa gcttcacact gaccaagata
      421 aaggagatgg aaatttaaaa tacatactaa caggagatgg ggctggcagt ctatttgtta
      481 tagatgaaaa tacaggagac attcatgctg caaagaaact agacagagaa gaaaaatctc
      541 tgtacattct tcgtgccaag gctatagaca gaaaaactgg gcggcaggtg gaaccggaat
      601 cggaatttat cattaaaata catgatatca atgacaatga gccaaaattt acaaaagact
      661 tatacactgc cagtgttcct gaaatgtctg gagtcggtac atctgttata caagtaactg
      721 caacagatgc agatgacgcc aactatggaa atagtgccaa agtggtctat agcatattgc
      781 aaggacagcc atatttttca gtggacccag aatcaggcat aataaaaact gcattaccag
      841 acatgagcag agaaaataga gagcagtacc aggttgttat acaggccaaa gacatgggtg
      901 gccagatggg aggcctttct ggaaccacca cagtgaacat cacgctgaca gatgtcaaca
      961 acaaccctcc tcgatttccc cagagtacgt atcaatttaa ttctcctgag tctgtacctc
     1021 ttggaactca tcttggaagg ataaaagcca atgaccctga cgtgggggaa aatgcagaaa
     1081 tggagtatag cattgctgaa ggagatggtg cagacatgtt cgatgtcatc actgacaagg
     1141 atacacagga agggattata actgtcaaac agaatttaga ttttgaaaat caaatgctct
     1201 atactttaag agtggatgca agtaacactc accctgatcc acgattctta cacctgggac
     1261 ctttcaaaga tacagctgtg gtcaaaatat ctgtggaaga tatagatgag cctcctgtgt
     1321 tcactaaagt ctcttacttg atagaagtag atgaagatgt aaaggagggc agtatcattg
     1381 gacaggttac agcatacgat ccagatgcca ggaacaattt aataaagtac tctgttgatc
     1441 ggcatactga tatggaccgt atttttggta ttcactcaga aaatggttct attttcactt
     1501 tgaaagccct tgaccgggaa tcatctcctt ggcataacat cactgttaca gccacagaaa
     1561 taaataaccc aaaacaaagt agccacatcc ctgtcttcat cagaattcta gatataaatg
     1621 accatgctcc ggaatttgcc atgtattatg aaacatttgt ttgtgaaaat gcaaaacctg
     1681 ggcagttgat tcagactgtc agtgtcatgg ataaggatga ccctccccga ggtcacaaat
     1741 tcttttttga accagtgcca gaatttactc tcaatccgaa tttcaccatt gtagataata
     1801 aagataatac agcaggaatc atgactcgga aagatggcta cagtcgcaac aaaatgagca
     1861 cctacttatt gccgatttta atctttgaca acgattatcc aattcaaagc agcactggta
     1921 cactcactat ccgtgtgtgt gcctgcgata atcaaggaaa catgcaatcc tgcaccgcag
     1981 aagccctgat cctttcagcc ggcctgagca cgggagctct cgttgcgatt ctactctgtg
     2041 tcctcatact gcttatttta gtcgtgttgt ttgctgcatt gaagaggcaa agaaaaaagg
     2101 aacctctgat aatttcaaaa gacgatgtcc gggacaacat tgtgacctac aacgatgaag
     2161 gcggcgggga agaagatacc caagcttttg acattggcac attaaggaat ccagaggcaa
     2221 gagaagacag taaacttaga cgggatgtaa tgcctgaaac tatttttcag ataaggagga
     2281 ctgtgcctct gtgggaaaat attgatgtac aagattttat ccatcgaaga ttaaaagaaa
     2341 acgacgcaga cccaagtgca cctccatatg attcgctggc aacgtatgcc tatgaaggga
     2401 atgattccat agcagattcg ctcagttctt tggaatctct cacagctgat tgtaaccaag
     2461 attatgatta cctcagtgac tgggggcctc gtttcaaaaa acttgccgat atgtatgggg
     2521 gtgatgatag tgaccgagac taagaggatt gtttgactta atcaatatta gtggaagtac
     2581 tgtctatgtt attagattga gtggcctgca ttctcttcct gggaggaaat ctttcaaaaa
     2641 ttgaagttac aaacaatacg tagatgttgt caagtaggga tttgcttaat cagtaagtct
     2701 ttgtgaatga atacgaatga tacagatttt taaaaaagta ataaccagtt caccctcttt
     2761 gcctaacaat ctcggaagga aaatatatca catcaataat caataaaaat aagtaaaagg
     2821 ctttttgtgc cttttcttag gtataataat ttataaatgt tttcttaact gactttcagt
     2881 cacctttaca attaaactaa atattgtgca accgctttgt aaattaatat gaagaagata
     2941 tatccctaat gaaataggaa tgactattac tgccatattt atttagttga agaatgtctt
     3001 tgtgttaatt cattcatatt tttataaatg tatatttata tttttgtatt tttatgaaat
     3061 aaactagtat ttataaaaca ca
//
