LOCUS       NM_001040181            2010 bp    mRNA    linear   PRI 08-OCT-2024
DEFINITION  Homo sapiens claudin domain containing 1 (CLDND1), transcript
            variant 1, mRNA.
ACCESSION   NM_001040181
VERSION     NM_001040181.2
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 2010)
  AUTHORS   Shima,A., Matsuoka,H., Yamaoka,A. and Michihara,A.
  TITLE     Transcription of CLDND1 in human brain endothelial cells is
            regulated by the myeloid zinc finger 1
  JOURNAL   Clin Exp Pharmacol Physiol 48 (2), 260-269 (2021)
   PUBMED   33037622
  REMARK    GeneRIF: Transcription of CLDND1 in human brain endothelial cells
            is regulated by the myeloid zinc finger 1.
REFERENCE   2  (bases 1 to 2010)
  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   3  (bases 1 to 2010)
  AUTHORS   Nie,Z.L., Wang,Y.S., Mei,Y.P., Lin,X., Zhang,G.X., Sun,H.L.,
            Wang,Y.L., Xia,Y.X. and Wang,S.K.
  TITLE     Prognostic significance of long noncoding RNA Z38 as a candidate
            biomarker in breast cancer
  JOURNAL   J Clin Lab Anal 32 (1) (2018)
   PUBMED   28247935
REFERENCE   4  (bases 1 to 2010)
  AUTHORS   He,X., Liu,H., Guo,F., Feng,Y., Gao,Y., Sun,F., Song,B., Lu,H. and
            Li,Y.
  TITLE     Long non-coding RNA Z38 promotes cell proliferation and metastasis
            in human renal cell carcinoma
  JOURNAL   Mol Med Rep 16 (4), 5489-5494 (2017)
   PUBMED   28849012
  REMARK    GeneRIF: Z38 was overexpressed in clinical patients with RCC and
            was associated with RCC stage. Knockdown of Z38 in A498 and ACHIN
            cells inhibited cell proliferation and metastasis
REFERENCE   5  (bases 1 to 2010)
  AUTHORS   Ohnishi,M., Ochiai,H., Matsuoka,K., Akagi,M., Nakayama,Y.,
            Shima,A., Uda,A., Matsuoka,H., Kamishikiryo,J., Michihara,A. and
            Inoue,A.
  TITLE     Claudin domain containing 1 contributing to endothelial cell
            adhesion decreases in presence of cerebellar hemorrhage
  JOURNAL   J Neurosci Res 95 (10), 2051-2058 (2017)
   PUBMED   28244141
  REMARK    GeneRIF: suggest that the transient decrease of CLDND1 after
            cerebellar hemorrhage is responsible for low-molecular-weight
            selective vascular hyperpermeability
REFERENCE   6  (bases 1 to 2010)
  AUTHORS   Matsuoka,H., Shima,A., Uda,A., Ezaki,H. and Michihara,A.
  TITLE     The retinoic acid receptor-related orphan receptor alpha positively
            regulates tight junction protein claudin domain-containing 1 mRNA
            expression in human brain endothelial cells
  JOURNAL   J Biochem 161 (5), 441-450 (2017)
   PUBMED   28130419
  REMARK    GeneRIF: findings strongly suggest that CLDND1 is a direct RORalpha
            target
REFERENCE   7  (bases 1 to 2010)
  AUTHORS   Achari,C., Winslow,S. and Larsson,C.
  TITLE     Down Regulation of CLDND1 Induces Apoptosis in Breast Cancer Cells
  JOURNAL   PLoS One 10 (6), e0130300 (2015)
   PUBMED   26083392
  REMARK    GeneRIF: CLDND1 as a novel survival factor in basal-like breast
            cancer cell lines
            Publication Status: Online-Only
REFERENCE   8  (bases 1 to 2010)
  AUTHORS   Teckchandani,A., Toida,N., Goodchild,J., Henderson,C., Watts,J.,
            Wollscheid,B. and Cooper,J.A.
  TITLE     Quantitative proteomics identifies a Dab2/integrin module
            regulating cell migration
  JOURNAL   J Cell Biol 186 (1), 99-111 (2009)
   PUBMED   19581412
REFERENCE   9  (bases 1 to 2010)
  AUTHORS   Liu,Y., Sun,W., Zhang,K., Zheng,H., Ma,Y., Lin,D., Zhang,X.,
            Feng,L., Lei,W., Zhang,Z., Guo,S., Han,N., Tong,W., Feng,X., Gao,Y.
            and Cheng,S.
  TITLE     Identification of genes differentially expressed in human primary
            lung squamous cell carcinoma
  JOURNAL   Lung Cancer 56 (3), 307-317 (2007)
   PUBMED   17316888
  REMARK    GeneRIF: A cDNA library consisting of 220 upregulated genes in
            tumour tissue was established and named as LSCC. Differential
            expression was confirmed in five of these genes, including IGFBP5,
            SQLE, RAP2B, CLDN1, and TBL1XR1.
REFERENCE   10 (bases 1 to 2010)
  AUTHORS   Fayein,N.A., Stankoff,B., Auffray,C. and Devignes,M.D.
  TITLE     Characterization of tissue expression and full-length coding
            sequence of a novel human gene mapping at 3q12.1 and transcribed in
            oligodendrocytes
  JOURNAL   Gene 289 (1-2), 119-129 (2002)
   PUBMED   12036590
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC013610.1, EB386420.1 and AA811441.1.
            
            On Nov 22, 2018 this sequence version replaced NM_001040181.1.
            
            Transcript Variant: This variant (1) represents the predominant
            transcript and encodes isoform a. Variants 1, 2, 3, and 6 all
            encode the same isoform.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR3476690.640862.1,
                                           SRR1660805.132475.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2148874, SAMEA2467146
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000341181.11/ ENSP00000340247.6
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1425              BC013610.1         10-1434
            1426-1874           EB386420.1         279-727
            1875-2010           AA811441.1         20-155              c
FEATURES             Location/Qualifiers
     source          1..2010
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3q11.2"
     gene            1..2010
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /note="claudin domain containing 1"
                     /db_xref="GeneID:56650"
                     /db_xref="HGNC:HGNC:1322"
                     /db_xref="MIM:619677"
     exon            1..54
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /inference="alignment:Splign:2.1.0"
     exon            55..364
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /inference="alignment:Splign:2.1.0"
     CDS             73..834
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /note="isoform a is encoded by transcript variant 1;
                     claudin domain containing 1 protein; claudin
                     domain-containing protein 1; membrane protein GENX-3745"
                     /codon_start=1
                     /product="claudin domain-containing protein 1 isoform a"
                     /protein_id="NP_001035271.1"
                     /db_xref="CCDS:CCDS2930.1"
                     /db_xref="GeneID:56650"
                     /db_xref="HGNC:HGNC:1322"
                     /db_xref="MIM:619677"
                     /translation="MDNRFATAFVIACVLSLISTIYMAASIGTDFWYEYRSPVQENSS
                     DLNKSIWDEFISDEADEKTYNDALFRYNGTVGLWRRCITIPKNMHWYSPPERTESFDV
                     VTKCVSFTLTEQFMEKFVDPGNHNSGIDLLRTYLWRCQFLLPFVSLGLMCFGALIGLC
                     ACICRSLYPTIATGILHLLAGLCTLGSVSCYVAGIELLHQKLELPDNVSGEFGWSFCL
                     ACVSAPLQFMASALFIWAAHTNRKEYTLMKAYRVA"
     exon            365..475
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /inference="alignment:Splign:2.1.0"
     exon            476..613
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /inference="alignment:Splign:2.1.0"
     exon            614..2010
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1987..1992
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /note="hexamer: AATAAA"
     polyA_site      2010
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; CLDN-25; GENX-3745; Z38"
                     /note="major polyA site"
ORIGIN      
        1 agggtgctgt ggtctgagct agagggtgaa gctggcggag caggaggatg ggcgagcagt
       61 ctgaatgcca gaatggataa ccgttttgct acagcatttg taattgcttg tgtgcttagc
      121 ctcatttcca ccatctacat ggcagcctcc attggcacag acttctggta tgaatatcga
      181 agtccagttc aagaaaattc cagtgatttg aataaaagca tctgggatga attcattagt
      241 gatgaggcag atgaaaagac ttataatgat gcactttttc gatacaatgg cacagtggga
      301 ttgtggagac ggtgtatcac catacccaaa aacatgcatt ggtatagccc accagaaagg
      361 acagagtcat ttgatgtggt cacaaaatgt gtgagtttca cactaactga gcagttcatg
      421 gagaaatttg ttgatcccgg aaaccacaat agcgggattg atctccttag gacctatctt
      481 tggcgttgcc agttcctttt accttttgtg agtttaggtt tgatgtgctt tggggctttg
      541 atcggacttt gtgcttgcat ttgccgaagc ttatatccca ccattgccac gggcattctc
      601 catctccttg caggtctgtg tacactgggc tcagtaagtt gttatgttgc tggaattgaa
      661 ctactccacc agaaactaga gctccctgac aatgtatccg gtgaatttgg atggtccttc
      721 tgcctggctt gtgtctctgc tcccttacag ttcatggctt ctgctctctt catctgggct
      781 gctcacacca accggaaaga gtacacctta atgaaggcat atcgtgtggc atgagcaaga
      841 aactgcctgc tttacaattg ccatttttat ttttttaaaa taatactgat attttcccca
      901 cctctcaatt gtttttaatt tttatttgtg gatataccat tttattatga aaatctattt
      961 tatttataca cattcaccac taaatacaca cttaatacca ctaaaattta tgtggtttac
     1021 tttaagcgat gccatctttc aaataaacta atctaggtct agacagaaag aaatggatag
     1081 agacttgaca caaatttatg aaagaaaatt gggagtagga atgtgaccga aaacaagttg
     1141 tgctaatgtc tgttagactt ttcagtaaaa ctaaagtaac tgtatctgtt caactaaaaa
     1201 ctctatatta gtttctttgg gaaacctctc atcgtcaaaa ctttatgttc actttgctgt
     1261 tgtagatagc cagtcaacca gcagtattag tgctgttttc aaagatttaa gctctataaa
     1321 attgggaaat tatctaagat cattttccct aagcattgac acatagcttc atctgaggtg
     1381 agatatggca gctgtttgta tctgcactgt gtctgtctac aaaaagtgaa aaatacagtg
     1441 tttacttgaa attttaactt tgtaactgca agaattccag ttcagccggg cgaggattag
     1501 tattattttt aactctccgt aagattttca gtaccaccaa attgttttgg attttttttc
     1561 tttcctcttc acataccagg gttattaaaa gtgtgctttc tttttacatt atattacagt
     1621 tacaaggtaa aattcctcaa ctgctattta tttattccag cccagtacta taaagaacgt
     1681 ttcaccataa tgaccctcca gagctgggaa acctaccaca agatctaaag ttctggctgt
     1741 ccattaacct ccaactatgg tctttatttc ttgtggtaat atgatgtgcc tttccttgcc
     1801 taaatccctt cctggtgtgt atcaacatta tttaatgtct tctaattcag tcattttttt
     1861 ataagtatgt ctataaacat tgaactttaa aaaacttatt tatttattcc actactgtag
     1921 caattgacag attaaaaaaa tgtaacttca taatttctta ccataacctc aatgtctttt
     1981 ttaaaaaata aaattaaaaa tgaaaagaga
//
