LOCUS       NM_018918               4767 bp    mRNA    linear   PRI 10-JUN-2024
DEFINITION  Homo sapiens protocadherin gamma subfamily A, 5 (PCDHGA5),
            transcript variant 1, mRNA.
ACCESSION   NM_018918
VERSION     NM_018918.3
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 4767)
  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   2  (bases 1 to 4767)
  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   3  (bases 1 to 4767)
  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   4  (bases 1 to 4767)
  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   5  (bases 1 to 4767)
  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
REFERENCE   6  (bases 1 to 4767)
  AUTHORS   Matsuyoshi,N., Tanaka,T., Toda,K. and Imamura,S.
  TITLE     Identification of novel cadherins expressed in human melanoma cells
  JOURNAL   J Invest Dermatol 108 (6), 908-913 (1997)
   PUBMED   9182820
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC005618.1 and AF152325.1.
            
            On Sep 16, 2020 this sequence version replaced NM_018918.2.
            
            Summary: This gene is a member of the protocadherin gamma gene
            cluster, one of three related clusters tandemly linked on
            chromosome five. These gene clusters have an immunoglobulin-like
            organization, suggesting that a novel mechanism may be involved in
            their regulation and expression. The gamma gene cluster includes 22
            genes divided into 3 subfamilies. Subfamily A contains 12 genes,
            subfamily B contains 7 genes and 2 pseudogenes, and the more
            distantly related subfamily C contains 3 genes. The tandem array of
            22 large, variable region exons are followed by a constant region,
            containing 3 exons shared by all genes in the cluster. Each
            variable region exon encodes the extracellular region, which
            includes 6 cadherin ectodomains and a transmembrane region. The
            constant region exons encode the common cytoplasmic region. These
            neural cadherin-like cell adhesion proteins most likely play a
            critical role in the establishment and function of specific
            cell-cell connections in the brain. Alternative splicing has been
            described for the gamma cluster genes. [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 :: SRR14038194.3008484.1, AF152325.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540, SAMEA2142586
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000518069.2/ ENSP00000429834.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-169               AC005618.1         75674-75842
            170-4767            AF152325.1         1-4598
FEATURES             Location/Qualifiers
     source          1..4767
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..4767
                     /gene="PCDHGA5"
                     /gene_synonym="CDH-GAMMA-A5; ME3; PCDH-GAMMA-A5"
                     /note="protocadherin gamma subfamily A, 5"
                     /db_xref="GeneID:56110"
                     /db_xref="HGNC:HGNC:8703"
                     /db_xref="MIM:606292"
     exon            1..2590
                     /gene="PCDHGA5"
                     /gene_synonym="CDH-GAMMA-A5; ME3; PCDH-GAMMA-A5"
                     /inference="alignment:Splign:2.1.0"
     CDS             170..2965
                     /gene="PCDHGA5"
                     /gene_synonym="CDH-GAMMA-A5; ME3; PCDH-GAMMA-A5"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; cadherin ME3; protocadherin gamma-A5"
                     /codon_start=1
                     /product="protocadherin gamma-A5 isoform 1 precursor"
                     /protein_id="NP_061741.1"
                     /db_xref="CCDS:CCDS54925.1"
                     /db_xref="GeneID:56110"
                     /db_xref="HGNC:HGNC:8703"
                     /db_xref="MIM:606292"
                     /translation="MASPPRGWGCGELLLPFMLLGTLCEPGSGQIRYSMPEELDKGSF
                     VGNIAKDLGLEPQELAERGVRIVSRGRTQLFALNPRSGSLVTAGRIDREELCAQSPLC
                     VVNFNILVENKMKIYGVEVEIIDINDNFPRFRDEELKVKVNENAAAGTRLVLPFARDA
                     DVGVNSLRSYQLSSNLHFSLDVVSGTDGQKYPELVLEQPLDREKETVHDLLLTALDGG
                     DPVLSGTTHIRVTVLDANDNAPLFTPSEYSVSVPENIPVGTRLLMLTATDPDEGINGK
                     LTYSFRNEEEKISETFQLDSNLGEISTLQSLDYEESRFYLMEVVAQDGGALVASAKVV
                     VTVQDVNDNAPEVILTSLTSSISEDCLPGTVIALFSVHDGDSGENGEIACSIPRNLPF
                     KLEKSVDNYYHLLTTRDLDREETSDYNITLTVMDHGTPPLSTESHIPLKVADVNDNPP
                     NFPQASYSTSVTENNPRGVSIFSVTAHDPDSGDNARVTYSLAEDTFQGAPLSSYVSIN
                     SDTGVLYALRSFDYEQLRDLQLWVTASDSGNPPLSSNVSLSLFVLDQNDNTPEILYPA
                     LPTDGSTGVELAPRSAEPGYLVTKVVAVDKDSGQNAWLSYRLLKASEPGLFAVGLHTG
                     EVRTARALLDRDALKQSLVVAVEDHGQPPLSATFTVTVAVADRIPDILADLGSIKTPI
                     DPEDLDLTLYLVVAVAAVSCVFLAFVIVLLVLRLRRWHKSRLLQAEGSRLAGVPASHF
                     VGVDGVRAFLQTYSHEVSLTADSRKSHLIFPQPNYADTLLSEESCEKSEPLLMSDKVD
                     ANKEERRVQQAPPNTDWRFSQAQRPGTSGSQNGDDTGTWPNNQFDTEMLQAMILASAS
                     EAADGSSTLGGGAGTMGLSARYGPQFTLQHVPDYRQNVYIPGSNATLTNAAGKRDGKA
                     PAGGNGNKKKSGKKEKK"
     exon            2591..2649
                     /gene="PCDHGA5"
                     /gene_synonym="CDH-GAMMA-A5; ME3; PCDH-GAMMA-A5"
                     /inference="alignment:Splign:2.1.0"
     exon            2650..2738
                     /gene="PCDHGA5"
                     /gene_synonym="CDH-GAMMA-A5; ME3; PCDH-GAMMA-A5"
                     /inference="alignment:Splign:2.1.0"
     exon            2739..4767
                     /gene="PCDHGA5"
                     /gene_synonym="CDH-GAMMA-A5; ME3; PCDH-GAMMA-A5"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4746..4751
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHGA5"
                     /gene_synonym="CDH-GAMMA-A5; ME3; PCDH-GAMMA-A5"
                     /note="hexamer: AATAAA"
     polyA_site      4767
                     /gene="PCDHGA5"
                     /gene_synonym="CDH-GAMMA-A5; ME3; PCDH-GAMMA-A5"
                     /note="major polyA site"
ORIGIN      
        1 gacccgactc tgctccctcc atactaaaca cacagaccag acaagctcct acgaaaagcc
       61 aacgctccac gcccattttc gtcagggaat atgtacccat cggctttaga taaataagga
      121 aacagcaggc tgaaccagaa ctaagagaaa attgggcaga gagaaggcaa tggcgagtcc
      181 acctaggggc tggggctgcg gagagctgct gctgcccttc atgctcctgg ggacgctgtg
      241 cgagccagga tccgggcaga tccgctactc gatgccggag gagctggaca aaggctcctt
      301 cgtcggcaac atagccaagg accttgggct ggagccccag gagctggcgg agcgcggagt
      361 ccgcatcgtc tccagaggta ggacgcagct ttttgccctg aacccgcgaa gcggcagctt
      421 ggtcaccgcg ggcaggatag accgggagga gctctgcgct cagagcccac tgtgtgtggt
      481 gaactttaac atcttggttg agaacaaaat gaaaatttat ggagtagaag tagaaataat
      541 cgatattaat gataacttcc cgcgtttccg ggatgaagag ttaaaagtaa aagttaatga
      601 aaatgcggct gcagggacac ggttagtgct tcccttcgcg cgggatgcgg atgtgggtgt
      661 gaactctctc cggagttacc agctcagctc caatctgcac ttctctctgg atgtggtaag
      721 cggaactgat ggacaaaagt atccggagct ggtgttggaa cagcccctag accgcgagaa
      781 agagactgtt cacgacctcc tcctcacagc tttagatggc ggagacccgg tactctccgg
      841 caccacgcac atccgtgtta cggtcctcga cgcaaacgac aatgcgcccc tgttcacccc
      901 atccgagtac agcgtgagtg ttccagagaa catacctgtg ggcactcggc tgctcatgct
      961 aaccgccacg gatccagatg agggaataaa cgggaaattg acctactctt ttcgcaatga
     1021 agaagaaaaa atttcggaga ctttccaact tgattccaac ctgggggaaa tctcaactct
     1081 acaatcactg gactatgaag aatccagatt ctacctcatg gaagtggtag ctcaggatgg
     1141 aggcgctctt gttgccagcg ctaaggtggt ggtcacagta caggacgtga atgacaatgc
     1201 ccccgaagtg atcctcacct ctctgaccag ttcgatctct gaagactgtc ttcccggaac
     1261 tgtaatcgcg ctgtttagcg tacatgatgg tgattctgga gaaaatggtg agattgcatg
     1321 ctctattcct aggaatttgc cttttaaatt ggagaagtca gttgataatt actatcacct
     1381 attaacaact agggacctgg acagagaaga gacttcagat tataatatca ctttaaccgt
     1441 catggaccat ggaaccccgc ccctctctac agaaagccac atccccttga aagtagcaga
     1501 cgttaatgac aacccaccca atttccctca agcctcctac tccacctctg tcacagaaaa
     1561 caatcccaga ggtgtctcta tcttctctgt gacagcccat gaccccgaca gcggcgacaa
     1621 cgctcgagtc acctactccc tggctgaaga cacatttcag ggggcgccct tgtcctccta
     1681 tgtatccatt aactctgaca ccggtgtcct gtatgctctg agatccttcg actatgagca
     1741 gttgagagac ctacagttgt gggtgacagc cagcgacagt gggaaccctc cacttagcag
     1801 caacgtgtcg ctgagcctgt ttgtgctgga ccagaacgac aatacgcctg agatcctgta
     1861 ccccgccctc cccacagacg gttccacggg cgtggagctg gcgcctcgct ccgcagaacc
     1921 tggctacctg gtgaccaagg tggtagcggt ggacaaagat tcaggccaga acgcctggct
     1981 gtcctaccgc ctgcttaagg ccagcgagcc aggactcttt gcggttgggc tgcacacggg
     2041 cgaggtgcgc acagcgcgag ccctgctgga cagagacgcg ctcaagcaga gcctcgtggt
     2101 ggccgtcgaa gaccatggcc agccccctct gtcagccacc ttcacggtca ccgttgccgt
     2161 ggccgacagg atccctgaca tcctggctga cctaggcagt atcaagaccc ccattgaccc
     2221 tgaggatctg gacctcacac tctatcttgt ggtggcagtg gctgcagtct cctgcgtctt
     2281 cctggccttc gtcatcgtgc tgctggtgct cagactgagg cgctggcaca agtcacgcct
     2341 gcttcaggct gaaggcagca ggttggcggg tgtgcccgcc tcgcactttg tgggcgtgga
     2401 tggggttcgg gctttcctgc agacctattc ccacgaggtc tccctcaccg cggactcgag
     2461 gaagagtcac ctgatctttc cccagcccaa ctacgcagac acgctcctta gtgaagagag
     2521 ctgtgagaaa agcgagcctc ttctgatgtc tgataaggta gatgcaaaca aagaagaacg
     2581 gcgagttcag caagccccgc ccaacacgga ctggcgtttc tctcaggccc agagacccgg
     2641 caccagcggc tcccaaaatg gcgatgacac cggcacctgg cccaacaacc agtttgacac
     2701 agagatgctg caagccatga tcttggcgtc cgccagtgaa gctgctgatg ggagctccac
     2761 cctgggaggg ggtgccggca ccatgggatt gagcgcccgc tacggacccc agttcaccct
     2821 gcagcacgtg cccgactacc gccagaatgt ctacatccca ggcagcaatg ccacactgac
     2881 caacgcagct ggcaagcggg atggcaaggc cccagcaggt ggcaatggca acaagaagaa
     2941 gtcgggcaag aaggagaaga agtaacatgg aggccaggcc aagagccaca gggcggcctc
     3001 tccccaacca gcccagcttc tccttacctg cacccaggcc tcagagtttc agggctaacc
     3061 cccagaatac tggtaggggc caaggccatg ctccccttgg gaaacagaaa caagtgccca
     3121 gtcagcacct accccttccc ccccaggggg ttgaatatgc aaaagcagtt ccgctgggaa
     3181 cccccatcca atcaactgct gtacccatgg gggtagtggg gttactgtag acaccaagaa
     3241 ccatttgcca caccccgttt agttacagct gaactcctcc atcttccaaa tcaatcaggc
     3301 ccatccatcc catgcctccc tcctccccac cccactccaa cagttcctct ttcccgagta
     3361 aggtggttgg ggtgttgaag taccaagtaa cctacaagcc tcctagttct gaaaagttgg
     3421 aagggcatca tgacctcttg gcctctcctt tgattctcaa tcttccccca aagcatggtt
     3481 tggtgccagc cccttcacct ccttccagag cccaagatca atgctcaagt tttggaggac
     3541 atgatcacca tccccatggt actgatgctt gctggattta gggagggcat tttgctacca
     3601 agcctcttcc caacgccctg gggaccagtc ttctgttttg tttttcattg tttgacgttt
     3661 ccactgcatg ccttgacttc ccccacctcc tcctcaaaca agagactcca ctgcatgttc
     3721 caagacagta tggggtggta agataaggaa gggaagtgtg tggatgtgga tggtgggggc
     3781 atggacaaag cttgacacat caagttatca aggccttgga ggaggctctg tatgtcctca
     3841 ggggactgac aacatcctcc agattccagc cataaaccaa taactaggct ggacccttcc
     3901 cactacataa tagggctcag cccaggcagc cagctttggg ctgagctaac aggaccaatg
     3961 gattaaactg gcatttcagt ccaaggaagc tcgaagcagg tttaggacca ggtccccttg
     4021 agaggtcaga ggggcctctg tgggtgctgg gtactccaga ggtgccactg gtggaagggt
     4081 cagcggagcc ccagcaggaa gggtgggcca gccaggccat tcttagtccc tgggttgggg
     4141 aggcagggag ctagggcagg gaccaaatga acagaaagtc tcagcccagg atggggcttc
     4201 ttcaacaggg cccctgccct cctgaagcct cagtccttca ccttgccagg tgccgtttct
     4261 cttccgtgaa ggccactgcc caggtcccca gtgcgccccc tagtggccat agcctggtta
     4321 aagttcccca gtgcctcctt gtgcatagac cttcttctcc cacccccttc tgcccctggg
     4381 tccccggcca tccagcgggg ctgccagaga accccagacc tgcccttaca gtagtgtagc
     4441 gccccctccc tctttcggct ggtgtagaat agccagtagt gtagtgcggt gtgcttttac
     4501 gtgatggcgg gtgggcagcg ggcggcgggc tccgcgcagc cgtctgtcct tgatctgccc
     4561 gcggcggccc gtgttgtgtt ttgtgctgtg tccacgcgct aaggcgaccc cctcccccgt
     4621 actgacttct cctataagcg cttctcttcg catagtcacg tagctcccac cccaccctct
     4681 tcctgtgtct cacgcaagtt ttatactcta atatttatat ggcttttttt cttcgacaaa
     4741 aaaataataa aacgtttctt ctgaaaa
//
