LOCUS       NM_018924               4745 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens protocadherin gamma subfamily B, 3 (PCDHGB3),
            transcript variant 1, mRNA.
ACCESSION   NM_018924
VERSION     NM_018924.5
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 4745)
  AUTHORS   Nicoludis,J.M., Vogt,B.E., Green,A.G., Scharfe,C.P., Marks,D.S. and
            Gaudet,R.
  TITLE     Antiparallel protocadherin homodimers use distinct affinity- and
            specificity-mediating regions in cadherin repeats 1-4
  JOURNAL   Elife 5, e18449 (2016)
   PUBMED   27472898
  REMARK    GeneRIF: The extracellular EC1/EC4 interface comprises hydrophobic
            interactions that provide non-selective dimerization affinity.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4745)
  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   3  (bases 1 to 4745)
  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   4  (bases 1 to 4745)
  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   5  (bases 1 to 4745)
  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   6  (bases 1 to 4745)
  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 KC877131.1, BC150172.1 and
            AF152332.1.
            
            On Nov 23, 2018 this sequence version replaced NM_018924.4.
            
            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) represents the longer
            transcript, which includes the constant region exons, and encodes
            the longer isoform (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC150172.1, AF152332.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968189, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000576222.2/ ENSP00000461862.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-22                KC877131.1         490-511             c
            23-236              BC150172.1         1-214
            237-4745            AF152332.1         84-4592
FEATURES             Location/Qualifiers
     source          1..4745
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..4745
                     /gene="PCDHGB3"
                     /gene_synonym="PCDH-GAMMA-B3"
                     /note="protocadherin gamma subfamily B, 3"
                     /db_xref="GeneID:56102"
                     /db_xref="HGNC:HGNC:8710"
                     /db_xref="MIM:606301"
     exon            1..2568
                     /gene="PCDHGB3"
                     /gene_synonym="PCDH-GAMMA-B3"
                     /inference="alignment:Splign:2.1.0"
     CDS             154..2943
                     /gene="PCDHGB3"
                     /gene_synonym="PCDH-GAMMA-B3"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; protocadherin gamma-B3"
                     /codon_start=1
                     /product="protocadherin gamma-B3 isoform 1 precursor"
                     /protein_id="NP_061747.2"
                     /db_xref="CCDS:CCDS58980.1"
                     /db_xref="GeneID:56102"
                     /db_xref="HGNC:HGNC:8710"
                     /db_xref="MIM:606301"
                     /translation="MGNSSGWRGPAGQRRMLFLFLLSLLDQALSEPIRYAIPEELDRG
                     SLVGNLAKDLGFGVGDLPTRNLRVIAEKKFFTVSPENGNLLVSDRIDREEICGKKSTC
                     VLEFEMVAEKPLNFFHVTVLIQDINDNPPTFSQNITELEISELALTGATFALESAQDP
                     DVGVNSLQQYYLSPDPHFSLIQKENLDGSRYPELVLKAPLDREEQPHHHLVLTAVDGG
                     EPSRSCTTQIRVIVADANDNPPVFTQDMYRVNVAENLPAGSSVLKVMAIDMDEGINAE
                     IIYAFINIGKEVRQLFKLDSKTGELTTIGELDFEERDSYTIGVEAKDGGHHTAYCKVQ
                     IDISDENDNAPEITLASESQHIQEDAELGTAVALIKTHDLDSGFNGEILCQLKGNFPF
                     KIVQDTKNTYRLVTDGALDREQIPEYNVTITATDKGNPPLSSSKTITLHILDVNDNVP
                     VFHQASYTVHVAENNPPGASIAHVRASDPDLGPNGLVSYYIVASDLEPRELSSYVSVS
                     ARSGVVFAQRAFDHEQLRAFELTLQARDQGSPTLSANVSLRVLVDDRNDNAPLVLYPA
                     LGPEGSALFDMVPRSAEPGYLVTKVVAVDADSGYNAWLSYHIVQASEPGLFSLGLRTG
                     EVRTARTLGDREAARQRLLVTVRDGGQQPLSATVMLHLIFADSLQEIQPDLSDRPTPS
                     DPQAELQFHLVVALALISVLFLLAVILAISLRLRCSSRPATEGYFQPGVCFKTVPGVL
                     PTYSERTLPYSYNPCAASHSSNTEFKFLNIKAENAAPQDLLCDEASWFESNDNPEMPS
                     NSGNLQKQAPPNTDWRFSQAQRPGTSGSQNGDDTGTWPNNQFDTEMLQAMILASASEA
                     ADGSSTLGGGAGTMGLSARYGPQFTLQHVPDYRQNVYIPGSNATLTNAAGKRDGKAPA
                     GGNGNKKKSGKKEKK"
     exon            2569..2627
                     /gene="PCDHGB3"
                     /gene_synonym="PCDH-GAMMA-B3"
                     /inference="alignment:Splign:2.1.0"
     exon            2628..2716
                     /gene="PCDHGB3"
                     /gene_synonym="PCDH-GAMMA-B3"
                     /inference="alignment:Splign:2.1.0"
     exon            2717..4745
                     /gene="PCDHGB3"
                     /gene_synonym="PCDH-GAMMA-B3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4724..4729
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHGB3"
                     /gene_synonym="PCDH-GAMMA-B3"
                     /note="hexamer: AATAAA"
     polyA_site      4745
                     /gene="PCDHGB3"
                     /gene_synonym="PCDH-GAMMA-B3"
                     /note="major polyA site"
ORIGIN      
        1 gcactctcta tcaggcttcc tgcagcggag acacccatta gagaacccaa gcacaaagac
       61 aaagcaaata gttggtcctg ctcggagaac tcttgggatt atttaaagat ctcctctcct
      121 cggatttaga aaggcaaagg cgcagagagc gggatgggaa atagctccgg atggaggggc
      181 ccagcagggc agaggcgaat gctatttctc ttcctgctct ctttgttaga ccaggctctc
      241 tccgaaccga tccgctacgc tattcccgag gagctggaca ggggctcgct ggtagggaac
      301 ctcgccaagg acctggggtt tggcgtgggg gatttaccta ctaggaacct gcgggttatt
      361 gcagagaaga aattctttac cgtgagcccc gaaaatggga acttacttgt gagcgaccgt
      421 atagaccgag aggagatttg tggcaagaag tcgacgtgtg ttctggaatt tgaaatggtt
      481 gctgaaaagc ctttaaactt ttttcatgta actgtgctga tccaggatat taacgacaac
      541 ccaccgacct ttagccaaaa tatcactgag ctggaaatca gcgaactggc tctcactgga
      601 gccacatttg ccctggaatc tgcgcaagat cctgatgtag gtgtcaattc gctgcagcag
      661 tactacctca gccctgatcc gcacttctct ttgattcaga aggagaacct ggatggcagt
      721 aggtacccag agctagtact gaaagcaccc ctggacaggg aagagcagcc acatcaccac
      781 ctggtcctca cagctgtgga tgggggcgag ccctccagaa gctgtaccac ccagatcagg
      841 gtaattgtcg cagatgcaaa tgataacccc ccagtattta ctcaggacat gtacagggtc
      901 aatgttgcag agaacctgcc cgctggctcc tccgtattaa aagtgatggc cattgacatg
      961 gatgagggca tcaatgccga aatcatctat gccttcatca atattggcaa ggaagtgaga
     1021 caactgttca agctggacag taaaacgggg gaactcacca ctattggaga actggacttt
     1081 gaagagagag atagctacac aattggggtg gaagcaaagg atggtggaca tcacactgca
     1141 tattgtaaag tacagataga tatttcagat gaaaatgaca atgccccgga gataaccctg
     1201 gcttctgaat cccaacatat acaagaagat gctgagctgg ggactgccgt tgccctgatc
     1261 aaaacacatg atctagattc tggatttaat ggagaaatcc tatgccaact aaaaggaaac
     1321 ttccccttta aaatcgttca agataccaaa aacacataca ggttggtgac agatggagcc
     1381 ctggaccggg agcagatccc agaatacaat gtgacgatca cagctaccga caaaggcaat
     1441 ccaccgctct cctccagcaa gaccatcact ctgcacatcc ttgatgtcaa cgacaacgtt
     1501 cccgttttcc accaggcctc ctacaccgtg catgtagctg agaacaatcc gcctggagcc
     1561 tccattgcgc atgtcagagc ctcggatccc gacttgggac ctaatggcct tgtctcctac
     1621 tacatcgtgg ccagtgacct ggagccgcgg gagctgtcgt cctacgtgtc cgtgagcgcg
     1681 cggagcgggg tggtgttcgc gcagcgagcc ttcgaccacg agcagctgcg tgccttcgag
     1741 ctcactctgc aggcccgcga ccagggctcg cctacgctca gcgccaacgt gagcctgcgc
     1801 gtgttggtgg acgaccgcaa cgacaatgca ccgctggtgc tgtacccagc tctggggccc
     1861 gaaggctctg cgctcttcga tatggtgccg cgctctgcag agcctggcta cctggtgacc
     1921 aaggtggtgg cggtggacgc agactcggga tacaacgcct ggctgtccta ccacattgtg
     1981 caggccagcg agcccgggct gttcagcctg ggcctgcgca cgggtgaggt gcgcacggcg
     2041 cgtaccttgg gcgacaggga ggccgcccgc cagcgcctgc tggtcactgt gcgtgatgga
     2101 ggacagcagc ctctttcagc caccgtcatg ctgcacctaa tcttcgcaga tagcttgcaa
     2161 gagatacaac ctgaccttag cgaccgcccc actccctctg accctcaggc ggagctacag
     2221 tttcacctag tagtggcgtt ggccttgatc tcagtgctct tcctcctcgc ggtgattctg
     2281 gcaatctccc tgcgcctgcg atgctcctcc agacccgcca ctgagggcta ctttcagcct
     2341 ggtgtctgct tcaagactgt acctggagtt ctccccacct acagcgaaag gactttgcct
     2401 tattcctaca atccgtgtgc tgcctcacat tcctcaaaca ccgagtttaa atttctcaat
     2461 ataaaggctg aaaatgctgc accacaagat cttctatgtg atgaagcctc ttggtttgaa
     2521 agtaatgaca atccagaaat gccttctaat tcaggcaatt tgcaaaagca agccccgccc
     2581 aacacggact ggcgtttctc tcaggcccag agacccggca ccagcggctc ccaaaatggc
     2641 gatgacaccg gcacctggcc caacaaccag tttgacacag agatgctgca agccatgatc
     2701 ttggcgtccg ccagtgaagc tgctgatggg agctccaccc tgggaggggg tgccggcacc
     2761 atgggattga gcgcccgcta cggaccccag ttcaccctgc agcacgtgcc cgactaccgc
     2821 cagaatgtct acatcccagg cagcaatgcc acactgacca acgcagctgg caagcgggat
     2881 ggcaaggccc cagcaggtgg caatggcaac aagaagaagt cgggcaagaa ggagaagaag
     2941 taacatggag gccaggccaa gagccacagg gcggcctctc cccaaccagc ccagcttctc
     3001 cttacctgca cccaggcctc agagtttcag ggctaacccc cagaatactg gtaggggcca
     3061 aggccatgct ccccttggga aacagaaaca agtgcccagt cagcacctac cccttccccc
     3121 ccagggggtt gaatatgcaa aagcagttcc gctgggaacc cccatccaat caactgctgt
     3181 acccatgggg gtagtggggt tactgtagac accaagaacc atttgccaca ccccgtttag
     3241 ttacagctga actcctccat cttccaaatc aatcaggccc atccatccca tgcctccctc
     3301 ctccccaccc cactccaaca gttcctcttt cccgagtaag gtggttgggg tgttgaagta
     3361 ccaagtaacc tacaagcctc ctagttctga aaagttggaa gggcatcatg acctcttggc
     3421 ctctcctttg attctcaatc ttcccccaaa gcatggtttg gtgccagccc cttcacctcc
     3481 ttccagagcc caagatcaat gctcaagttt tggaggacat gatcaccatc cccatggtac
     3541 tgatgcttgc tggatttagg gagggcattt tgctaccaag cctcttccca acgccctggg
     3601 gaccagtctt ctgttttgtt tttcattgtt tgacgtttcc actgcatgcc ttgacttccc
     3661 ccacctcctc ctcaaacaag agactccact gcatgttcca agacagtatg gggtggtaag
     3721 ataaggaagg gaagtgtgtg gatgtggatg gtgggggcat ggacaaagct tgacacatca
     3781 agttatcaag gccttggagg aggctctgta tgtcctcagg ggactgacaa catcctccag
     3841 attccagcca taaaccaata actaggctgg acccttccca ctacataata gggctcagcc
     3901 caggcagcca gctttgggct gagctaacag gaccaatgga ttaaactggc atttcagtcc
     3961 aaggaagctc gaagcaggtt taggaccagg tccccttgag aggtcagagg ggcctctgtg
     4021 ggtgctgggt actccagagg tgccactggt ggaagggtca gcggagcccc agcaggaagg
     4081 gtgggccagc caggccattc ttagtccctg ggttggggag gcagggagct agggcaggga
     4141 ccaaatgaac agaaagtctc agcccaggat ggggcttctt caacagggcc cctgccctcc
     4201 tgaagcctca gtccttcacc ttgccaggtg ccgtttctct tccgtgaagg ccactgccca
     4261 ggtccccagt gcgcccccta gtggccatag cctggttaaa gttccccagt gcctccttgt
     4321 gcatagacct tcttctccca cccccttctg cccctgggtc cccggccatc cagcggggct
     4381 gccagagaac cccagacctg cccttacagt agtgtagcgc cccctccctc tttcggctgg
     4441 tgtagaatag ccagtagtgt agtgcggtgt gcttttacgt gatggcgggt gggcagcggg
     4501 cggcgggctc cgcgcagccg tctgtccttg atctgcccgc ggcggcccgt gttgtgtttt
     4561 gtgctgtgtc cacgcgctaa ggcgaccccc tcccccgtac tgacttctcc tataagcgct
     4621 tctcttcgca tagtcacgta gctcccaccc caccctcttc ctgtgtctca cgcaagtttt
     4681 atactctaat atttatatgg ctttttttct tcgacaaaaa aataataaaa cgtttcttct
     4741 gaaaa
//
