LOCUS       NM_018901               5409 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens protocadherin alpha 10 (PCDHA10), transcript variant
            1, mRNA.
ACCESSION   NM_018901
VERSION     NM_018901.4
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 5409)
  AUTHORS   Fox,C.S., Liu,Y., White,C.C., Feitosa,M., Smith,A.V.,
            Heard-Costa,N., Lohman,K., Johnson,A.D., Foster,M.C.,
            Greenawalt,D.M., Griffin,P., Ding,J., Newman,A.B., Tylavsky,F.,
            Miljkovic,I., Kritchevsky,S.B., Launer,L., Garcia,M.,
            Eiriksdottir,G., Carr,J.J., Gudnason,V., Harris,T.B., Cupples,L.A.
            and Borecki,I.B.
  CONSRTM   GIANT Consortium; MAGIC Consortium; GLGC Consortium
  TITLE     Genome-wide association for abdominal subcutaneous and visceral
            adipose reveals a novel locus for visceral fat in women
  JOURNAL   PLoS Genet 8 (5), e1002695 (2012)
   PUBMED   22589738
REFERENCE   2  (bases 1 to 5409)
  AUTHORS   Wu,C., Ma,M.H., Brown,K.R., Geisler,M., Li,L., Tzeng,E., Jia,C.Y.,
            Jurisica,I. and Li,S.S.
  TITLE     Systematic identification of SH3 domain-mediated human
            protein-protein interactions by peptide array target screening
  JOURNAL   Proteomics 7 (11), 1775-1785 (2007)
   PUBMED   17474147
REFERENCE   3  (bases 1 to 5409)
  AUTHORS   Schmutz,J., Martin,J., Terry,A., Couronne,O., Grimwood,J.,
            Lowry,S., Gordon,L.A., Scott,D., Xie,G., Huang,W., Hellsten,U.,
            Tran-Gyamfi,M., She,X., Prabhakar,S., Aerts,A., Altherr,M.,
            Bajorek,E., Black,S., Branscomb,E., Caoile,C., Challacombe,J.F.,
            Chan,Y.M., Denys,M., Detter,J.C., Escobar,J., Flowers,D.,
            Fotopulos,D., Glavina,T., Gomez,M., Gonzales,E., Goodstein,D.,
            Grigoriev,I., Groza,M., Hammon,N., Hawkins,T., Haydu,L., Israni,S.,
            Jett,J., Kadner,K., Kimball,H., Kobayashi,A., Lopez,F., Lou,Y.,
            Martinez,D., Medina,C., Morgan,J., Nandkeshwar,R., Noonan,J.P.,
            Pitluck,S., Pollard,M., Predki,P., Priest,J., Ramirez,L.,
            Retterer,J., Rodriguez,A., Rogers,S., Salamov,A., Salazar,A.,
            Thayer,N., Tice,H., Tsai,M., Ustaszewska,A., Vo,N., Wheeler,J.,
            Wu,K., Yang,J., Dickson,M., Cheng,J.F., Eichler,E.E., Olsen,A.,
            Pennacchio,L.A., Rokhsar,D.S., Richardson,P., Lucas,S.M.,
            Myers,R.M. and Rubin,E.M.
  TITLE     The DNA sequence and comparative analysis of human chromosome 5
  JOURNAL   Nature 431 (7006), 268-274 (2004)
   PUBMED   15372022
REFERENCE   4  (bases 1 to 5409)
  AUTHORS   Wu,Q., Zhang,T., Cheng,J.F., Kim,Y., Grimwood,J., Schmutz,J.,
            Dickson,M., Noonan,J.P., Zhang,M.Q., Myers,R.M. and Maniatis,T.
  TITLE     Comparative DNA sequence analysis of mouse and human protocadherin
            gene clusters
  JOURNAL   Genome Res 11 (3), 389-404 (2001)
   PUBMED   11230163
REFERENCE   5  (bases 1 to 5409)
  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   6  (bases 1 to 5409)
  AUTHORS   Yagi,T. and Takeichi,M.
  TITLE     Cadherin superfamily genes: functions, genomic organization, and
            neurologic diversity
  JOURNAL   Genes Dev 14 (10), 1169-1180 (2000)
   PUBMED   10817752
  REMARK    Review article
REFERENCE   7  (bases 1 to 5409)
  AUTHORS   Wu,Q. and Maniatis,T.
  TITLE     Large exons encoding multiple ectodomains are a characteristic
            feature of protocadherin genes
  JOURNAL   Proc Natl Acad Sci U S A 97 (7), 3124-3129 (2000)
   PUBMED   10716726
REFERENCE   8  (bases 1 to 5409)
  AUTHORS   Sugino,H., Hamada,S., Yasuda,R., Tuji,A., Matsuda,Y., Fujita,M. and
            Yagi,T.
  TITLE     Genomic organization of the family of CNR cadherin genes in mice
            and humans
  JOURNAL   Genomics 63 (1), 75-87 (2000)
   PUBMED   10662547
REFERENCE   9  (bases 1 to 5409)
  AUTHORS   Wu,Q. and Maniatis,T.
  TITLE     A striking organization of a large family of human neural
            cadherin-like cell adhesion genes
  JOURNAL   Cell 97 (6), 779-790 (1999)
   PUBMED   10380929
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA503193.1, AF152306.1 and
            AC010223.6.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_018901.3.
            
            Summary: This gene is a member of the protocadherin alpha gene
            cluster, one of three related gene clusters tandemly linked on
            chromosome five that demonstrate an unusual genomic organization
            similar to that of B-cell and T-cell receptor gene clusters. The
            alpha gene cluster is composed of 15 cadherin superfamily genes
            related to the mouse CNR genes and consists of 13 highly similar
            and 2 more distantly related coding sequences. The tandem array of
            15 N-terminal exons, or variable exons, are followed by downstream
            C-terminal exons, or constant exons, which are shared by all genes
            in the cluster. The large, uninterrupted N-terminal exons each
            encode six cadherin ectodomains while the C-terminal exons encode
            the cytoplasmic domain. These neural cadherin-like cell adhesion
            proteins are integral plasma membrane proteins that most likely
            play a critical role in the establishment and function of specific
            cell-cell connections in the brain. Alternative splicing has been
            observed and additional variants have been suggested but their
            full-length nature has yet to be determined. [provided by RefSeq,
            Jul 2008].
            
            Transcript Variant: This variant (1) includes the constant region
            exons and encodes the longest isoform (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1803614.53881.1, AF152306.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1966682, SAMEA1968189
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000307360.6/ ENSP00000304234.5
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-152               DA503193.1         15-166
            153-5406            AF152306.1         1-5254
            5407-5409           AC010223.6         50266-50268         c
FEATURES             Location/Qualifiers
     source          1..5409
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..5409
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /note="protocadherin alpha 10"
                     /db_xref="GeneID:56139"
                     /db_xref="HGNC:HGNC:8664"
                     /db_xref="MIM:606316"
     exon            1..2540
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /inference="alignment:Splign:2.1.0"
     CDS             153..2999
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; KIAA0345-like 4; ortholog to mouse CNR8;
                     PCDH-alpha-10"
                     /codon_start=1
                     /product="protocadherin alpha-10 isoform 1 precursor"
                     /protein_id="NP_061724.1"
                     /db_xref="CCDS:CCDS54921.1"
                     /db_xref="GeneID:56139"
                     /db_xref="HGNC:HGNC:8664"
                     /db_xref="MIM:606316"
                     /translation="MVSRCSCLGVQCLLLSLLLLAAWEVGSGQLHYSVYEEARHGTFV
                     GRIAQDLGLELAELVQRLFRVASKRHGDLLEVNLQNGILFVNSRIDREELCGRSVECS
                     IHLEVIVDRPLQVFHVDVEVKDINDNPPRFSVTEQKLSIPESRLLDSRFPLEGASDAD
                     VGENALLTYKLSPNEYFVLDIINKKDKDKFPVLVLRKLLDREENPQLKLLLTATDGGK
                     PEFTGSVSLLILVLDANDNAPIFDRPVYEVKMYENQVNQTLVIRLNASDSDEGINKEM
                     MYSFSSLVPPTIRRKFWINERTGEIKVNDAIDFEDSNTYEIHVDVTDKGNPPMVGHCT
                     VLVELLDENDNSPEVIVTSLSLPVKEDAQVGTVIALISVSDHDSGANGQVTCSLTPHV
                     PFKLVSTYKNYYSLVLDSALDRERVSAYELVVTARDGGSPPLWATASVSVEVADVNDN
                     APAFAQSEYTVFVKENNPPGCHIFTVSAWDADAQENALVSYSLVERRLGERSLSSYVS
                     VHAESGKVYALQPLDHEELELLQFQVSARDGGVPPLGSNLTLQVFVLDENDNAPALLA
                     SPAGSAGGAVSELVLRSVVAGHVVAKVRAVDADSGYNAWLSYELQSAAVGARIPFRVG
                     LYTGEISTTRALDETDSPRQRLLVLVKDHGEPSLTATATVLVSLVEGSQAPKASSRAS
                     VGVAPEVALVDVNVYLIIAICAVSSLLVLTLLLYTALRCSAAPTEGACGPVKPTLVCS
                     SAVGSWSYSQQRRQRVCSGEGLPKADLMAFSPSLPPCPMVDVDGEDQSIGGDHSRKPR
                     QPNPDWRYSASLRAGMHSSVHLEEAGILRAGPGGPDQQWPTVSSATPEPEAGEVSPPV
                     GAGVNSNSWTFKYGPGNPKQSGPGELPDKFIIPGSPAIISIRQEPTNSQIDKSDFITF
                     GKKEETKKKKKKKKGNKTQEKKEKGNSTTDNSDQ"
     exon            2541..2599
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /inference="alignment:Splign:2.1.0"
     exon            2600..2688
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /inference="alignment:Splign:2.1.0"
     exon            2689..5409
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4620..4625
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /note="hexamer: AGTAAA"
     polyA_site      4643
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
     regulatory      5389..5394
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /note="hexamer: AATGAA"
     polyA_site      5409
                     /gene="PCDHA10"
                     /gene_synonym="CNR8; CNRN8; CNRS8; CRNR8; PCDH-ALPHA10"
                     /note="major polyA site"
ORIGIN      
        1 agccagtttc tcaaggacta ggaagtagcg tcattctgag atctcagcca tttcgataaa
       61 aaatagatat aagaaatagg acagaaaatg tcagatcgta tgtgcgttct agaccgctga
      121 ttcgtcgatt tgtaaaacaa gagaaggata agatggtttc cagatgtagc tgcctggggg
      181 tccagtgtct gctgctctcg cttcttctcc tcgcagcctg ggaggtgggg agcggccagc
      241 tccactactc agtctacgag gaggccagac acggcacctt cgtgggccgc atcgcgcagg
      301 acctggggct ggagctggcg gagctggtgc agcgcctgtt ccgggtggcg tccaaaagac
      361 acggggacct tctggaggta aatctgcaga atggcatttt gtttgtgaat tctcggattg
      421 accgcgagga gctgtgcggg cggagcgtgg agtgcagcat ccacctggag gtgatcgtgg
      481 acaggccgct gcaggttttc catgtggacg tggaagtgaa ggacattaac gacaacccgc
      541 ccaggttctc cgtaacagaa caaaagctct caatacctga atccagactg cttgactctc
      601 gatttccact agaaggcgca tctgatgcgg atgttggaga gaacgcattg cttacttaca
      661 aactcagtcc aaatgagtat tttgttcttg atattataaa caaaaaagac aaagacaaat
      721 tcccagtgct tgttctgcgg aagctgctgg atcgtgaaga aaatcctcag ctaaagttgt
      781 tgttgacagc aactgatgga ggcaaacctg aatttaccgg atctgtttct ctgctgatcc
      841 tggtgttaga tgccaatgat aacgccccta tctttgacag accggtttat gaagttaaga
      901 tgtatgaaaa tcaagtgaac caaacattag taatacggct caacgcttct gattcggatg
      961 aaggaataaa caaggaaatg atgtattcat ttagctcttt ggtcccaccc acgataagaa
     1021 ggaaattttg gataaacgaa aggacgggag aaataaaagt aaatgatgct attgactttg
     1081 aggacagtaa cacttatgaa attcatgtag atgttacaga taagggaaac ccacctatgg
     1141 ttggtcactg cacggtccta gtggaactac tggatgaaaa tgataattca cctgaggtga
     1201 ttgtcacttc tctgtctctc ccagtgaaag aagatgctca agtgggcacc gtcattgccc
     1261 taatcagcgt ttctgaccat gattcaggag ccaacggaca ggtcacctgc tctctgacgc
     1321 ctcacgttcc gttcaagctg gtgtccacct acaagaatta ctactcattg gtgctggaca
     1381 gcgctctgga ccgcgagagg gtgtcggcct atgagctggt ggtgaccgcg cgggacgggg
     1441 gctcgcctcc gctgtgggcc acggccagcg tgtctgtgga ggtggccgac gtgaacgaca
     1501 acgcgcctgc gttcgcgcag tccgagtaca cggtgttcgt gaaggagaac aacccgccag
     1561 gctgccacat cttcacggtg tctgcgtggg acgcggacgc gcaggagaac gccctggtgt
     1621 cctactctct ggtggagcgg cggttgggcg agcgctcgct gtcgagctac gtgtcggtgc
     1681 acgcggagag cggcaaggtg tacgcgctgc agccgctgga ccacgaggag ctggagctgc
     1741 tacagttcca ggtgagcgcg cgcgatgggg gcgtgccgcc tctgggcagc aacttgacgc
     1801 tgcaggtgtt cgtgctggac gagaacgaca acgctcccgc gctgctggcg tctcccgctg
     1861 gcagcgcggg cggtgcagtc agtgagctgg tgctgcggtc ggtggttgcg ggtcacgtgg
     1921 tggctaaggt gcgcgcagtg gacgctgact ctggatacaa cgcgtggctg tcgtatgaat
     1981 tgcagtcggc ggcggttggt gcacgcatcc cgtttcgcgt ggggctgtac acgggcgaga
     2041 tcagtacgac gcgcgctctg gatgagactg actcgccacg ccagcgccta ctggtgctgg
     2101 tgaaggacca tggcgagccg tcgctgacgg ccacggccac tgtgcttgtg tcgcttgtgg
     2161 agggcagcca ggcacccaag gcctcgtcgc gggcttcagt gggcgtggcg cccgaggtgg
     2221 ccctggtgga tgtcaacgtg tacctgatca tcgccatctg cgcggtgtcc agcttgctgg
     2281 tgctcacgct gctgctgtac actgcactga ggtgctcggc ggcgcccacc gagggcgcat
     2341 gtgggccggt gaagcccacg ctggtgtgct ctagcgcggt ggggagctgg tcttactcgc
     2401 agcagaggcg gcagagggtg tgttctgggg agggcctgcc caaggcggac ctcatggcct
     2461 tcagccccag ccttccacca tgcccaatgg tagatgtgga cggggaagat cagtctattg
     2521 gaggggacca ctctaggaag ccacgacagc ccaaccctga ctggcgttac tctgcctccc
     2581 tgagagcagg catgcacagc tctgtgcacc tagaggaggc tggcattcta cgggctggtc
     2641 caggagggcc tgatcagcag tggccaacag tatccagtgc aacaccagaa ccagaggcag
     2701 gagaagtgtc ccctccagtc ggtgcgggtg tcaacagcaa cagctggacc tttaaatacg
     2761 gaccaggcaa ccccaaacaa tccggtcccg gtgagttgcc cgacaaattc attatcccag
     2821 gatctcctgc aatcatctcc atccggcagg agcctactaa cagccaaatt gacaaaagtg
     2881 acttcataac cttcggcaaa aaggaggaga ccaagaaaaa gaagaaaaag aagaagggta
     2941 acaagaccca ggagaaaaaa gagaaaggga acagcacgac tgacaacagt gaccagtgag
     3001 gtcctcaaat ggaaacaagc cacttagcca gtttttgtaa taatggcaaa tctctcccat
     3061 gtagcaattc cctgctcctt tttcctatct acatgagccc tcttagagac ctcagaaatc
     3121 tgcagaaagt tccctgtgtc tgtctagaac gcatttaaca ggttttgtcg taaaagcttt
     3181 actaagtctg gtgttaactc tttctctcca ctctggcttg ttttcagaac ctaaaaagca
     3241 gacccaagtt tcctttctcc tccgccgcaa aggagaggct tcccagcccc gccagtgaga
     3301 ggttggactc tctgccctgt gctccgggga tcctgtcttg atgacacttg cagggcaggc
     3361 tgaaaagttt tgagattgag cagcttggga gtttgtggcc actgggtatg tgtggctacc
     3421 gcgggtatgc gagtgccaga tattggctga gacgagccag cttagactaa ttggtacaag
     3481 gaaggcaaga aaacaaagac aaataaacag cggaagttat cagtatggag gggaagtgta
     3541 aacttaaagg gaccagactt tctaaatctt acaactcaag aggtggcagc caccctctag
     3601 gagacaaaac tacccccact gacaaggctt taggagaccc taaagtctgt tggctgtgac
     3661 gtcattatac ctaaaatctg catcatacct gcaagccaac agttcagtgt tttaacagag
     3721 aaccaccctg ggaaacagaa gcagatctga tgtgtttcct atacatgtcc tgtgctcact
     3781 ttattaaaaa ttcttttgca cacaatgttt atgaaaaggc cagatccttt tccaatactt
     3841 atgcaaaagc aaaagaaaac cccgacacct cacctttcgc tgtttgttgt ttcatagatt
     3901 tatttaaaaa aagagaaagt ctatagctat aaatctttaa agagaaatat gaatacaatt
     3961 cccctaaact ctcctcaaaa gagaattcag tctacagcca tttaaatgat cattgctgct
     4021 acagaagtgc tttaagagaa ttgcctgaaa catctgtatt atatcggcca cctgccaatc
     4081 acagctttac tctttcaggt cactctgggg ctgcctcttg catgtattac taaataaaat
     4141 gatctctctt tctctctctc tctctctttt ctaagaaaca attatgtgca ctttgataca
     4201 caaccttctc taaccaacta tatatcaaga cccaaaaatt gaagaaaaat attgttttct
     4261 catacagtga gcagattttt caatctacta attctgtgac ttgtcttggt gtgctagcct
     4321 acaccttctc tttggtttag ttttcctttt ctataacact ctgaattgct aatcttacta
     4381 acacctatga tgttacctga aatcaatctc ccatatgtat gctgtatgct atgctaagac
     4441 tcctgaaata tacttactct gtgcttgtgt atgtgaatgt taatgcaact attacctaga
     4501 gtgaacttta agctttattg ttgaatgtaa ttccattata tttccttttg tacacctgtg
     4561 aaaaagtgga gtagtgtttt tttaaccatt gttaatcagc ttttgtgtat gaaagacaca
     4621 gtaaaatttc tttcttaaat caagatactg gtgattcaag gaattttatt tatggtccag
     4681 ccaagagcca tctcgtgcca agacttctgc tggcaaggga atggataaag ctgttttgtt
     4741 ctagtaacaa ttttggaatg aatactgaca atattccatg agggtgtgca agcacaaatt
     4801 ttaccaatct gacctctttg aagttgcaga atgctttgaa attctaatgg tatctgaaat
     4861 atcagctcat agaaagtaac aaaatttgct gtcaccttaa ataagacatt ttaattttgt
     4921 tataatgtac aatttagaag tttgattaat tatattatct atttaggcat taatataaaa
     4981 gaggtaggag tctgttattt aaaaaaagca ttaaatttaa aaaaaaactg tcttgtctac
     5041 ttttagcttc attctcccat attttgaagg gtgtgtaact tcagctctgc aggattgcat
     5101 ggggtaaaac ttgttaccaa cacatgtgaa ccattgctac attgtaggtt gtgatcattt
     5161 tgccccactg aagcccatgt atctgacctt acgtgccttt tgaactagga gaatcgggct
     5221 aatttattaa tgatgataat tataatgtat ctgtacagca ctttttacat ttgcgaagtg
     5281 ctttccaatc catgttagtt actagttatt acagctgtaa ggataaaaca cgtcatgtgg
     5341 attcattttg aattggtgct attggtattt cctctgttat tgctaataaa tgaaaatggt
     5401 ggtatgaaa
//
