LOCUS       NM_004062               2855 bp    mRNA    linear   PRI 05-APR-2024
DEFINITION  Homo sapiens cadherin 16 (CDH16), transcript variant 1, mRNA.
ACCESSION   NM_004062
VERSION     NM_004062.4
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 2855)
  AUTHORS   Siraj,A.K., Parvathareddy,S.K., Al-Rasheed,M., Annaiyappanaidu,P.,
            Siraj,N., Lennartz,M., Al-Sobhi,S.S., Al-Dayel,F., Sauter,G. and
            Al-Kuraya,K.S.
  TITLE     Loss of CDH16 expression is a strong independent predictor for
            lymph node metastasis in Middle Eastern papillary thyroid cancer
  JOURNAL   Sci Rep 13 (1), 18559 (2023)
   PUBMED   37899424
  REMARK    GeneRIF: Loss of CDH16 expression is a strong independent predictor
            for lymph node metastasis in Middle Eastern papillary thyroid
            cancer.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2855)
  AUTHORS   Lennartz,M., Csomos,H., Bernreuther,C., Buscheck,F., Fraune,C.,
            Simon,R., Sauter,G., Steurer,S., Eichenauer,T., Dahlem,R.,
            Fisch,M., Riechardt,S., Rink,M., Minner,S. and Hoflmayer,D.
  TITLE     Reduced CDH16 expression is linked to poor prognosis in clear cell
            renal cell carcinoma 16
  JOURNAL   Urol Oncol 40 (7), 348 (2022)
   PUBMED   35606285
  REMARK    GeneRIF: Reduced CDH16 expression is linked to poor prognosis in
            clear cell renal cell carcinoma 16.
REFERENCE   3  (bases 1 to 2855)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   4  (bases 1 to 2855)
  AUTHORS   Patel,N., Aldahmesh,M.A., Alkuraya,H., Anazi,S., Alsharif,H.,
            Khan,A.O., Sunker,A., Al-Mohsen,S., Abboud,E.B., Nowilaty,S.R.,
            Alowain,M., Al-Zaidan,H., Al-Saud,B., Alasmari,A.,
            Abdel-Salam,G.M., Abouelhoda,M., Abdulwahab,F.M., Ibrahim,N.,
            Naim,E., Al-Younes,B., E AlMostafa,A., AlIssa,A., Hashem,M.,
            Buzovetsky,O., Xiong,Y., Monies,D., Altassan,N., Shaheen,R.,
            Al-Hazzaa,S.A. and Alkuraya,F.S.
  TITLE     Expanding the clinical, allelic, and locus heterogeneity of retinal
            dystrophies
  JOURNAL   Genet Med 18 (6), 554-562 (2016)
   PUBMED   26355662
  REMARK    GeneRIF: Our study expands the clinical and allelic spectrum of
            known Retinal dystrophies genes, and reveals AGBL5, CDH16, and
            DNAJC17 as novel disease candidates.
REFERENCE   5  (bases 1 to 2855)
  AUTHORS   Cali,G., Gentile,F., Mogavero,S., Pallante,P., Nitsch,R.,
            Ciancia,G., Ferraro,A., Fusco,A. and Nitsch,L.
  TITLE     CDH16/Ksp-cadherin is expressed in the developing thyroid gland and
            is strongly down-regulated in thyroid carcinomas
  JOURNAL   Endocrinology 153 (1), 522-534 (2012)
   PUBMED   22028439
  REMARK    GeneRIF: In thyroid carcinomas, as determined by quantitative
            RT-PCR, CDH16 expression decreases in papillary, follicular, and
            anaplastic thyroid carcinomas, and the decrease is more pronounced
            than that of CDH1.
REFERENCE   6  (bases 1 to 2855)
  AUTHORS   Thomson,R.B., Mentone,S., Kim,R., Earle,K., Delpire,E., Somlo,S.
            and Aronson,P.S.
  TITLE     Histopathological analysis of renal cystic epithelia in the
            Pkd2WS25/- mouse model of ADPKD
  JOURNAL   Am J Physiol Renal Physiol 285 (5), F870-F880 (2003)
   PUBMED   12851251
REFERENCE   7  (bases 1 to 2855)
  AUTHORS   Baudry,D. and Jeanpierre,C.
  TITLE     Assignment of E-cadherin (CDH1) and KSP-cadherin (CDH16) to
            chromosome 16q22.1 by radiation hybrid mapping
  JOURNAL   Cytogenet Cell Genet 88 (3-4), 253-254 (2000)
   PUBMED   10828602
REFERENCE   8  (bases 1 to 2855)
  AUTHORS   Thomson,R.B. and Aronson,P.S.
  TITLE     Immunolocalization of Ksp-cadherin in the adult and developing
            rabbit kidney
  JOURNAL   Am J Physiol 277 (1), F146-F156 (1999)
   PUBMED   10409308
REFERENCE   9  (bases 1 to 2855)
  AUTHORS   Thomson,R.B., Ward,D.C., Quaggin,S.E., Igarashi,P., Muckler,Z.E.
            and Aronson,P.S.
  TITLE     cDNA cloning and chromosomal localization of the human and mouse
            isoforms of Ksp-cadherin
  JOURNAL   Genomics 51 (3), 445-451 (1998)
   PUBMED   9721215
REFERENCE   10 (bases 1 to 2855)
  AUTHORS   Thomson,R.B., Igarashi,P., Biemesderfer,D., Kim,R., Abu-Alfa,A.,
            Soleimani,M. and Aronson,P.S.
  TITLE     Isolation and cDNA cloning of Ksp-cadherin, a novel kidney-specific
            member of the cadherin multigene family
  JOURNAL   J Biol Chem 270 (29), 17594-17601 (1995)
   PUBMED   7615566
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DC361453.1, AF016272.1 and
            BC027912.2.
            
            On Nov 23, 2018 this sequence version replaced NM_004062.3.
            
            Summary: This gene is a member of the cadherin superfamily, genes
            encoding calcium-dependent, membrane-associated glycoproteins.
            Mapped to a previously identified cluster of cadherin genes on
            chromosome 16q22.1, the gene localizes with superfamily members
            CDH1, CDH3, CDH5, CDH8 and CDH11. The protein consists of an
            extracellular domain containing 6 cadherin domains, a transmembrane
            region and a truncated cytoplasmic domain but lacks the prosequence
            and tripeptide HAV adhesion recognition sequence typical of most
            classical cadherins. Expression is exclusively in kidney, where the
            protein functions as the principal mediator of homotypic cellular
            recognition, playing a role in the morphogenic direction of tissue
            development. Alternatively spliced transcript variants encoding
            distinct isoforms have been identified. [provided by RefSeq, Mar
            2011].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1).
            
            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 :: AF016272.1, AK313101.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1968189,
                                           SAMEA1968540 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000299752.9/ ENSP00000299752.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-58                DC361453.1         100-157
            59-2821             AF016272.1         1-2763
            2822-2855           BC027912.2         2740-2773
FEATURES             Location/Qualifiers
     source          1..2855
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16q22.1"
     gene            1..2855
                     /gene="CDH16"
                     /note="cadherin 16"
                     /db_xref="GeneID:1014"
                     /db_xref="HGNC:HGNC:1755"
                     /db_xref="MIM:603118"
     exon            1..82
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            83..140
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     CDS             96..2585
                     /gene="CDH16"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; kidney-specific cadherin; KSP-cadherin;
                     cadherin 16, KSP-cadherin"
                     /codon_start=1
                     /product="cadherin-16 isoform 1 precursor"
                     /protein_id="NP_004053.1"
                     /db_xref="CCDS:CCDS10823.1"
                     /db_xref="GeneID:1014"
                     /db_xref="HGNC:HGNC:1755"
                     /db_xref="MIM:603118"
                     /translation="MVPAWLWLLCVSVPQALPKAQPAELSVEVPENYGGNFPLYLTKL
                     PLPREGAEGQIVLSGDSGKATEGPFAMDPDSGFLLVTRALDREEQAEYQLQVTLEMQD
                     GHVLWGPQPVLVHVKDENDQVPHFSQAIYRARLSRGTRPGIPFLFLEASDRDEPGTAN
                     SDLRFHILSQAPAQPSPDMFQLEPRLGALALSPKGSTSLDHALERTYQLLVQVKDMGD
                     QASGHQATATVEVSIIESTWVSLEPIHLAENLKVLYPHHMAQVHWSGGDVHYHLESHP
                     PGPFEVNAEGNLYVTRELDREAQAEYLLQVRAQNSHGEDYAAPLELHVLVMDENDNVP
                     ICPPRDPTVSIPELSPPGTEVTRLSAEDADAPGSPNSHVVYQLLSPEPEDGVEGRAFQ
                     VDPTSGSVTLGVLPLRAGQNILLLVLAMDLAGAEGGFSSTCEVEVAVTDINDHAPEFI
                     TSQIGPISLPEDVEPGTLVAMLTAIDADLEPAFRLMDFAIERGDTEGTFGLDWEPDSG
                     HVRLRLCKNLSYEAAPSHEVVVVVQSVAKLVGPGPGPGATATVTVLVERVMPPPKLDQ
                     ESYEASVPISAPAGSFLLTIQPSDPISRTLRFSLVNDSEGWLCIEKFSGEVHTAQSLQ
                     GAQPGDTYTVLVEAQDTDEPRLSASAPLVIHFLKAPPAPALTLAPVPSQYLCTPRQDH
                     GLIVSGPSKDPDLASGHGPYSFTLGPNPTVQRDWRLQTLNGSHAYLTLALHWVEPREH
                     IIPVVVSHNAQMWQLLVRVIVCRCNVEGQCMRKVGRMKGMPTKLSAVGILVGTLVAIG
                     IFLILIFTHWTMSRKKDPDQPADSVPLKATV"
     exon            141..224
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            225..380
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            381..519
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            520..678
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            679..875
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            876..998
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            999..1149
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            1150..1377
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            1378..1454
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            1455..1643
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            1644..1885
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            1886..2019
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            2020..2262
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            2263..2370
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            2371..2487
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     exon            2488..2855
                     /gene="CDH16"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2813..2818
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDH16"
                     /note="hexamer: AATAAA"
     polyA_site      2855
                     /gene="CDH16"
                     /note="major polyA site"
ORIGIN      
        1 agcctggcca gagccccctg gagaaggagc tctcttcttg cttggcagct ggaccaaggg
       61 agccagtctt gggcgctgga gggcctgtcc tgaccatggt ccctgcctgg ctgtggctgc
      121 tttgtgtctc cgtcccccag gctctcccca aggcccagcc tgcagagctg tctgtggaag
      181 ttccagaaaa ctatggtgga aatttccctt tatacctgac caagttgccg ctgccccgtg
      241 agggggctga aggccagatc gtgctgtcag gggactcagg caaggcaact gagggcccat
      301 ttgctatgga tccagattct ggcttcctgc tggtgaccag ggccctggac cgagaggagc
      361 aggcagagta ccagctacag gtcaccctgg agatgcagga tggacatgtc ttgtggggtc
      421 cacagcctgt gcttgtgcac gtgaaggatg agaatgacca ggtgccccat ttctctcaag
      481 ccatctacag agctcggctg agccggggta ccaggcctgg catccccttc ctcttccttg
      541 aggcttcaga ccgggatgag ccaggcacag ccaactcgga tcttcgattc cacatcctga
      601 gccaggctcc agcccagcct tccccagaca tgttccagct ggagcctcgg ctgggggctc
      661 tggccctcag ccccaagggg agcaccagcc ttgaccacgc cctggagagg acctaccagc
      721 tgttggtaca ggtcaaggac atgggtgacc aggcctcagg ccaccaggcc actgccaccg
      781 tggaagtctc catcatagag agcacctggg tgtccctaga gcctatccac ctggcagaga
      841 atctcaaagt cctatacccg caccacatgg cccaggtaca ctggagtggg ggtgatgtgc
      901 actatcacct ggagagccat cccccgggac cctttgaagt gaatgcagag ggaaacctct
      961 acgtgaccag agagctggac agagaagccc aggctgagta cctgctccag gtgcgggctc
     1021 agaattccca tggcgaggac tatgcggccc ctctggagct gcacgtgctg gtgatggatg
     1081 agaatgacaa cgtgcctatc tgccctcccc gtgaccccac agtcagcatc cctgagctca
     1141 gtccaccagg tactgaagtg actagactgt cagcagagga tgcagatgcc cccggctccc
     1201 ccaattccca cgttgtgtat cagctcctga gccctgagcc tgaggatggg gtagagggga
     1261 gagccttcca ggtggacccc acttcaggca gtgtgacgct gggggtgctc ccactccgag
     1321 caggccagaa catcctgctt ctggtgctgg ccatggacct ggcaggcgca gagggtggct
     1381 tcagcagcac gtgtgaagtc gaagtcgcag tcacagatat caatgatcac gcccctgagt
     1441 tcatcacttc ccagattggg cctataagcc tccctgagga tgtggagccc gggactctgg
     1501 tggccatgct aacagccatt gatgctgacc tcgagcccgc cttccgcctc atggattttg
     1561 ccattgagag gggagacaca gaagggactt ttggcctgga ttgggagcca gactctgggc
     1621 atgttagact cagactctgc aagaacctca gttatgaggc agctccaagt catgaggtgg
     1681 tggtggtggt gcagagtgtg gcgaagctgg tggggccagg cccaggccct ggagccaccg
     1741 ccacggtgac tgtgctagtg gagagagtga tgccaccccc caagttggac caggagagct
     1801 acgaggccag tgtccccatc agtgccccag ccggctcttt cctgctgacc atccagccct
     1861 ccgaccccat cagccgaacc ctcaggttct ccctagtcaa tgactcagag ggctggctct
     1921 gcattgagaa attctccggg gaggtgcaca ccgcccagtc cctgcagggc gcccagcctg
     1981 gggacaccta cacggtgctt gtggaggccc aggatacaga tgagccgaga ctgagcgctt
     2041 ctgcacccct ggtgatccac ttcctaaagg cccctcctgc cccagccctg actcttgccc
     2101 ctgtgccctc ccaatacctc tgcacacccc gccaagacca tggcttgatc gtgagtggac
     2161 ccagcaagga ccccgatctg gccagtgggc acggtcccta cagcttcacc cttggtccca
     2221 accccacggt gcaacgggat tggcgcctcc agactctcaa tggttcccat gcctacctca
     2281 ccttggccct gcattgggtg gagccacgtg aacacataat ccccgtggtg gtcagccaca
     2341 atgcccagat gtggcagctc ctggttcgag tgatcgtgtg tcgctgcaac gtggaggggc
     2401 agtgcatgcg caaggtgggc cgcatgaagg gcatgcccac gaagctgtcg gcagtgggca
     2461 tccttgtagg caccctggta gcaataggaa tcttcctcat cctcattttc acccactgga
     2521 ccatgtcaag gaagaaggac ccggatcaac cagcagacag cgtgcccctg aaggcgactg
     2581 tctgaatggc ccaggcagct ctagctggga gcttggcctc tggctccatc tgagtcccct
     2641 gggagagagc ccagcaccca agatccagca ggggacagga cagagtagaa gcccctccat
     2701 ctgccctggg gtggaggcac catcaccatc accaggcatg tctgcagagc ctggacacca
     2761 actttatgga ctgcccatgg gagtgctcca aatgtcaggg tgtttgccca ataataaagc
     2821 cccagagaac tgggctgggc cctatgggat tggta
//
