LOCUS       NM_018919               4794 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens protocadherin gamma subfamily A, 6 (PCDHGA6),
            transcript variant 1, mRNA.
ACCESSION   NM_018919
VERSION     NM_018919.3
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 4794)
  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 4794)
  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 4794)
  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 4794)
  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 4794)
  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 AC005618.1 and AF152326.1.
            
            On Jun 2, 2019 this sequence version replaced NM_018919.2.
            
            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 :: BC146651.1, AB209178.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968189, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000517434.3/ ENSP00000429601.2
            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
            1-193               AC005618.1         85403-85595
            194-4794            AF152326.1         1-4601
FEATURES             Location/Qualifiers
     source          1..4794
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..4794
                     /gene="PCDHGA6"
                     /gene_synonym="PCDH-GAMMA-A6"
                     /note="protocadherin gamma subfamily A, 6"
                     /db_xref="GeneID:56109"
                     /db_xref="HGNC:HGNC:8704"
                     /db_xref="MIM:606293"
     exon            1..2617
                     /gene="PCDHGA6"
                     /gene_synonym="PCDH-GAMMA-A6"
                     /inference="alignment:Splign:2.1.0"
     CDS             194..2992
                     /gene="PCDHGA6"
                     /gene_synonym="PCDH-GAMMA-A6"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; protocadherin gamma-A6"
                     /codon_start=1
                     /product="protocadherin gamma-A6 isoform 1 precursor"
                     /protein_id="NP_061742.1"
                     /db_xref="CCDS:CCDS54926.1"
                     /db_xref="GeneID:56109"
                     /db_xref="HGNC:HGNC:8704"
                     /db_xref="MIM:606293"
                     /translation="MAPPQRHPQRSEQVLLLTLLGTLWGAAAAQIRYSIPEELEKGSF
                     VGNIVKDLGLEPQELAEHGVRIVSRGRMQLFSLNPRNGSLVTAGRIDREELCAQSPRC
                     LVSFNILVEDKLNLYPVEVEIVDINDNTPRFLKEELEVKILENAAPSSRFPLMEVYDP
                     DVGMNSLQGFKLSGNSHFSVDVQSEAHGPKYPELVLEGTLDREGEAVYRLVLTAMDGG
                     DPVRSSVAQILVTVLDVNDNTPMFTQPVYRVSVPENLPVGTPVLAVTATDQDEGVHGE
                     VTYSFVKITEKISQIFCLNVLTGEISTSANLDYEDSSFYELGVEARDGPGLRDRAKVL
                     ITILDVNDNVPEVVVTSGSRTIAESAPPGTVIALFQVFDRDSGLNGLVTCSIPRSLPF
                     ELEKSVGNYYRLVTNAALDREEVFLYNITVTATDKGTPPLSTETIISLNVADTNDNPP
                     TFPHSSYSVYVLENNPRGASIFSVNALDPDVDQNAQVSYSLAEDTLQGAPLSSYVSIN
                     SDTGILYALRSFDYEQLRDLQLWVTASDSGDPPLSSNVSLSLFVLDQNDNAPEILYPA
                     LPTDGSTGVELAPRSAEPGYLVTKVVAVDRDSGQNAWLSYRLLKASEPGLFSVGLHTG
                     EVRTARALLDRDALKQSLVVAVQDHGQPPLSATVTLTVAVADRIPDILADLGSLEPSA
                     KPNDSDLTLYLVVAVAAVSCVFLAFVIVLLALRLQRWHKSRLLQASGGGLASMPGSHF
                     VGVEGVRAFLQTYSHEVSLTADSRKSHLIFPQPNYADTLINQESYEKSEPLLITQDLL
                     ETKGEPRQLQQAPPNTDWRFSQAQRPGTSGSQNGDDTGTWPNNQFDTEMLQAMILASA
                     SEAADGSSTLGGGAGTMGLSARYGPQFTLQHVPDYRQNVYIPGSNATLTNAAGKRDGK
                     APAGGNGNKKKSGKKEKK"
     exon            2618..2676
                     /gene="PCDHGA6"
                     /gene_synonym="PCDH-GAMMA-A6"
                     /inference="alignment:Splign:2.1.0"
     exon            2677..2765
                     /gene="PCDHGA6"
                     /gene_synonym="PCDH-GAMMA-A6"
                     /inference="alignment:Splign:2.1.0"
     exon            2766..4794
                     /gene="PCDHGA6"
                     /gene_synonym="PCDH-GAMMA-A6"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4773..4778
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHGA6"
                     /gene_synonym="PCDH-GAMMA-A6"
                     /note="hexamer: AATAAA"
     polyA_site      4794
                     /gene="PCDHGA6"
                     /gene_synonym="PCDH-GAMMA-A6"
                     /note="major polyA site"
ORIGIN      
        1 aagttacatc ctccaacaac aaagcaaatt agacgggaaa gcaggaaagc tgtgcagaaa
       61 ttctgacctg aaacgcttcg catccggtct ctgcttgttg aaggaccttc accgctattt
      121 ctgagaagag caaaagtgat gcagatctgt tcttcctctt cttaatccca gagaagttcc
      181 taataagcca gtaatggcgc ctccgcagag gcatccgcag cgcagcgagc aggtcctgct
      241 cctcacgctc ctggggacgc tgtggggggc cgcggcagcg cagatccgct actctattcc
      301 cgaggagctg gagaaaggct ccttcgtagg caacatcgtc aaggatctgg gactggagcc
      361 ccaggagttg gcggagcacg gagtccgcat cgtctccaga ggtaggatgc agcttttctc
      421 tctgaatccg cgaaacggca gcttggtcac cgcgggtagg atagaccgcg aggagctctg
      481 tgctcagagc ccgcggtgtc tggtgagttt taacatcctt gtcgaggata aactgaatct
      541 ttatcccgtg gaagtggaaa tagtggacat taatgacaat acaccccgat tcttaaagga
      601 agaattggaa gtgaaaattc tcgaaaacgc agctccatcc tctcgttttc cactaatgga
      661 ggtctatgac cctgatgtgg gaatgaactc ccttcaggga tttaagctca gtggtaatag
      721 tcacttctca gtggacgtgc aaagcgaagc ccatgggccc aagtacccgg agctggtgct
      781 ggagggcaca ctggaccggg aaggagaagc cgtttaccgc ctggtcctta ctgccatgga
      841 tggcggcgac cctgtccgct caagcgtcgc ccaaattctg gtaacagttc tagatgtgaa
      901 tgacaacact ccaatgttta ctcagcctgt ctaccgtgta agtgttcctg aaaacctgcc
      961 agtaggcaca ccagtgttgg cagtgactgc caccgaccag gatgaaggag tccacgggga
     1021 agtaacttat tcctttgtga agattacaga aaagatctca caaattttct gtttgaatgt
     1081 tttgactgga gaaatttcaa cttctgcaaa tctagactat gaggactcga gtttttatga
     1141 gctgggtgtt gaagcccggg atgggccagg tcttcgagac agagcgaaag tcttaataac
     1201 tatcttggat gtcaatgata atgtaccaga agtggttgtt acatctggaa gcagaacaat
     1261 tgctgaaagt gcacctccag gaacagtaat cgcccttttt caagtgttcg atcgagactc
     1321 tggcctgaat ggcctggtaa cctgttccat cccgagaagt ctcccatttg aattggaaaa
     1381 atcagttggc aattattatc gattagtgac aaatgcagct ctagaccggg aagaggtatt
     1441 cttgtacaac atcactgtga cagccacgga caaaggaaca ccacctctgt ctacagaaac
     1501 aatcatctct ctaaatgtgg cagacaccaa cgacaacccg cccaccttcc cccattcatc
     1561 ctactcagtc tatgtccttg aaaacaaccc caggggtgcc tccatcttct ctgtgaatgc
     1621 actggaccct gacgtggacc agaacgccca agtctcctac tcactggcag aagacaccct
     1681 ccagggggcg cccctgtcct cctacgtgtc catcaactcc gacactggga ttctgtacgc
     1741 cctgcgctcc ttcgactatg agcagttgag agacctacag ctgtgggtga cagccagcga
     1801 cagcggggac ccgcctctta gcagcaacgt gtcactgagc ctgtttgtgc tggaccagaa
     1861 tgacaatgcg cccgagatcc tgtaccccgc cctccccaca gacggttcca ctggcgtgga
     1921 gctggcgccc cgctccgcag agcccggcta cctggtgacc aaggtggtgg cggtggacag
     1981 agactcgggc cagaacgcct ggctgtccta ccgcctgctc aaggccagcg agccaggact
     2041 tttctcagtg ggcctgcaca cgggcgaggt gcgcacggcg cgcgccctgc tggacagaga
     2101 cgcgctcaag cagagcctag tggtggccgt ccaggaccac ggccagcccc ctctctccgc
     2161 cactgtcacg ctcaccgtgg ccgtggccga caggatcccc gacatcctgg ccgacctggg
     2221 cagcctcgag ccctccgcca aacccaacga ttcggacctc actctgtacc tggtggtggc
     2281 ggtggccgcg gtctcctgcg tcttcctggc cttcgtcatc gtgctgctgg cgctcagact
     2341 gcagcgctgg cacaagtcac gcctgctgca ggcttcggga ggtggcttag cgagcatgcc
     2401 cggctcgcac tttgtgggcg tggaaggggt tcgggctttc ctgcagacct attcccacga
     2461 ggtctcactc actgcagact cgcgtaagag tcatctgatt ttcccccagc ccaactatgc
     2521 cgacacgctt atcaaccagg agagctatga gaaaagcgag cctcttctga taactcagga
     2581 tttacttgaa acgaaaggag aacccaggca acttcagcaa gccccgccca acacggactg
     2641 gcgtttctct caggcccaga gacccggcac cagcggctcc caaaatggcg atgacaccgg
     2701 cacctggccc aacaaccagt ttgacacaga gatgctgcaa gccatgatct tggcgtccgc
     2761 cagtgaagct gctgatggga gctccaccct gggagggggt gccggcacca tgggattgag
     2821 cgcccgctac ggaccccagt tcaccctgca gcacgtgccc gactaccgcc agaatgtcta
     2881 catcccaggc agcaatgcca cactgaccaa cgcagctggc aagcgggatg gcaaggcccc
     2941 agcaggtggc aatggcaaca agaagaagtc gggcaagaag gagaagaagt aacatggagg
     3001 ccaggccaag agccacaggg cggcctctcc ccaaccagcc cagcttctcc ttacctgcac
     3061 ccaggcctca gagtttcagg gctaaccccc agaatactgg taggggccaa ggccatgctc
     3121 cccttgggaa acagaaacaa gtgcccagtc agcacctacc ccttcccccc cagggggttg
     3181 aatatgcaaa agcagttccg ctgggaaccc ccatccaatc aactgctgta cccatggggg
     3241 tagtggggtt actgtagaca ccaagaacca tttgccacac cccgtttagt tacagctgaa
     3301 ctcctccatc ttccaaatca atcaggccca tccatcccat gcctccctcc tccccacccc
     3361 actccaacag ttcctctttc ccgagtaagg tggttggggt gttgaagtac caagtaacct
     3421 acaagcctcc tagttctgaa aagttggaag ggcatcatga cctcttggcc tctcctttga
     3481 ttctcaatct tcccccaaag catggtttgg tgccagcccc ttcacctcct tccagagccc
     3541 aagatcaatg ctcaagtttt ggaggacatg atcaccatcc ccatggtact gatgcttgct
     3601 ggatttaggg agggcatttt gctaccaagc ctcttcccaa cgccctgggg accagtcttc
     3661 tgttttgttt ttcattgttt gacgtttcca ctgcatgcct tgacttcccc cacctcctcc
     3721 tcaaacaaga gactccactg catgttccaa gacagtatgg ggtggtaaga taaggaaggg
     3781 aagtgtgtgg atgtggatgg tgggggcatg gacaaagctt gacacatcaa gttatcaagg
     3841 ccttggagga ggctctgtat gtcctcaggg gactgacaac atcctccaga ttccagccat
     3901 aaaccaataa ctaggctgga cccttcccac tacataatag ggctcagccc aggcagccag
     3961 ctttgggctg agctaacagg accaatggat taaactggca tttcagtcca aggaagctcg
     4021 aagcaggttt aggaccaggt ccccttgaga ggtcagaggg gcctctgtgg gtgctgggta
     4081 ctccagaggt gccactggtg gaagggtcag cggagcccca gcaggaaggg tgggccagcc
     4141 aggccattct tagtccctgg gttggggagg cagggagcta gggcagggac caaatgaaca
     4201 gaaagtctca gcccaggatg gggcttcttc aacagggccc ctgccctcct gaagcctcag
     4261 tccttcacct tgccaggtgc cgtttctctt ccgtgaaggc cactgcccag gtccccagtg
     4321 cgccccctag tggccatagc ctggttaaag ttccccagtg cctccttgtg catagacctt
     4381 cttctcccac ccccttctgc ccctgggtcc ccggccatcc agcggggctg ccagagaacc
     4441 ccagacctgc ccttacagta gtgtagcgcc ccctccctct ttcggctggt gtagaatagc
     4501 cagtagtgta gtgcggtgtg cttttacgtg atggcgggtg ggcagcgggc ggcgggctcc
     4561 gcgcagccgt ctgtccttga tctgcccgcg gcggcccgtg ttgtgttttg tgctgtgtcc
     4621 acgcgctaag gcgaccccct cccccgtact gacttctcct ataagcgctt ctcttcgcat
     4681 agtcacgtag ctcccacccc accctcttcc tgtgtctcac gcaagtttta tactctaata
     4741 tttatatggc tttttttctt cgacaaaaaa ataataaaac gtttcttctg aaaa
//
