LOCUS       NM_003736               4761 bp    mRNA    linear   PRI 09-JUN-2024
DEFINITION  Homo sapiens protocadherin gamma subfamily B, 4 (PCDHGB4),
            transcript variant 1, mRNA.
ACCESSION   NM_003736
VERSION     NM_003736.4
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 4761)
  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 4761)
  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 4761)
  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 4761)
  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 4761)
  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 4761)
  AUTHORS   Matsuyoshi,N. and Imamura,S.
  TITLE     Multiple cadherins are expressed in human fibroblasts
  JOURNAL   Biochem Biophys Res Commun 235 (2), 355-358 (1997)
   PUBMED   9199196
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC005618.1 and AC008781.7.
            
            On Feb 27, 2020 this sequence version replaced NM_003736.3.
            
            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. This particular family member
            is expressed in fibroblasts and is thought to play a role in wound
            healing in response to injury. 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).
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AF152333.1, SRR14038195.289112.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968968, SAMEA1970526
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000519479.2/ ENSP00000428288.1
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2584              AC005618.1         99210-101793
            2585-2643           AC008781.7         156232-156290       c
            2644-2732           AC008781.7         145616-145704       c
            2733-4761           AC008781.7         138122-140150       c
FEATURES             Location/Qualifiers
     source          1..4761
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..4761
                     /gene="PCDHGB4"
                     /gene_synonym="CDH20; FIB2; PCDH-GAMMA-B4"
                     /note="protocadherin gamma subfamily B, 4"
                     /db_xref="GeneID:8641"
                     /db_xref="HGNC:HGNC:8711"
                     /db_xref="MIM:603058"
     exon            1..2584
                     /gene="PCDHGB4"
                     /gene_synonym="CDH20; FIB2; PCDH-GAMMA-B4"
                     /inference="alignment:Splign:2.1.0"
     CDS             188..2959
                     /gene="PCDHGB4"
                     /gene_synonym="CDH20; FIB2; PCDH-GAMMA-B4"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; fibroblast cadherin FIB2; cadherin 20;
                     protocadherin gamma-B4; fibroblast cadherin-2"
                     /codon_start=1
                     /product="protocadherin gamma-B4 isoform 1 precursor"
                     /protein_id="NP_003727.1"
                     /db_xref="CCDS:CCDS54928.1"
                     /db_xref="GeneID:8641"
                     /db_xref="HGNC:HGNC:8711"
                     /db_xref="MIM:603058"
                     /translation="MGSGAGELGRAERLPVLFLFLLSLFCPALCEQIRYRIPEEMPKG
                     SVVGNLATDLGFSVQELPTRKLRVSSEKPYFTVSAESGELLVSSRLDREEICGKKPAC
                     ALEFEAVAENPLNFYHVNVEIEDINDHTPKFTQNSFELQISESAQPGTRFILGSAHDA
                     DIGSNTLQNYQLSPSDHFSLINKEKSDGSKYPEMVLKTPLDREKQKSYHLTLTALDFG
                     APPLSSTAQIHVLVTDANDNAPVFSQDVYRVSLSENVYPGTTVLQVTATDQDEGVNAE
                     ITFSFSEASQITQFDLNSNTGEITVLNTLDFEEVKEYSIVLEARDGGGMIAQCTVEVE
                     VIDENDNAPEVIFQSLPNLIMEDAELGTHIALLKVRDKDSRHNGEVTCKLEGDVPFKI
                     LTSSRNTYKLVTDAVLDREQNPEYNITVTATDRGKPPLSSSSSITLHIGDVNDNAPVF
                     SQSSYIVHVAENNPPGASISQVRASDPDLGPNGQVSYCIMASDLEQRELSSYVSISAE
                     SGVVFAQRAFDHEQLRAFELTLQARDQGSPALSANVSLRVLVDDRNDNAPRVLYPALG
                     PDGSALFDMVPHAAEPGYLVTKVVAVDADSGHNAWLSYHVLQASEPGLFSLGLRTGEV
                     RTARALGDRDAVRQRLLVAVRDGGQPPLSATATLHLVFADSLQEVLPDITDRPDPSDL
                     QAELQFYLVVALALISVLFLVAMILAIALRLRRSSSPASWSCFQPGLCVKSESVVPPN
                     YSEGTLPYSYNLCVAHTGKTEFNFLKCSEQLSSGQDILCGDSSGALFPLCNSSELTSH
                     QQAPPNTDWRFSQAQRPGTSGSQNGDDTGTWPNNQFDTEMLQAMILASASEAADGSST
                     LGGGAGTMGLSARYGPQFTLQHVPDYRQNVYIPGSNATLTNAAGKRDGKAPAGGNGNK
                     KKSGKKEKK"
     exon            2585..2643
                     /gene="PCDHGB4"
                     /gene_synonym="CDH20; FIB2; PCDH-GAMMA-B4"
                     /inference="alignment:Splign:2.1.0"
     exon            2644..2732
                     /gene="PCDHGB4"
                     /gene_synonym="CDH20; FIB2; PCDH-GAMMA-B4"
                     /inference="alignment:Splign:2.1.0"
     exon            2733..4761
                     /gene="PCDHGB4"
                     /gene_synonym="CDH20; FIB2; PCDH-GAMMA-B4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4740..4745
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHGB4"
                     /gene_synonym="CDH20; FIB2; PCDH-GAMMA-B4"
                     /note="hexamer: AATAAA"
     polyA_site      4761
                     /gene="PCDHGB4"
                     /gene_synonym="CDH20; FIB2; PCDH-GAMMA-B4"
                     /note="major polyA site"
ORIGIN      
        1 agggcagccc cagctcagac tccccagcgc cagcctttac accgcttcct cctcggaaaa
       61 agaagaattt tttcttgaac tggaactgca actaaagtcc gttcggagat ccaaaaatct
      121 gcaatacaga ggttatttgt aacccggcgt ctccaggctg gtgagcaagc tgaggagagc
      181 aagagggatg gggagcggcg ccggggagct gggccgggct gagaggctgc cagtgctctt
      241 tctcttcctg ctgtctttgt tctgcccggc gctctgtgag cagatccgct acaggattcc
      301 cgaggaaatg cccaagggct ccgtagtggg gaacctcgcc acggacctgg ggttcagcgt
      361 ccaggagtta ccgactcgaa aactgcgcgt cagttcggag aagccttact tcaccgtgag
      421 cgcagagagc ggggagttgc ttgtgagcag caggctagac agggaggaga tatgcgggaa
      481 gaagccagct tgtgctctgg aatttgaggc tgttgctgaa aatccactga acttttatca
      541 cgtgaatgtg gagatcgagg acattaatga ccacacgcca aaattcacgc aaaattcctt
      601 tgagctgcaa ataagtgagt ctgcacagcc tggcacacga tttatattag gatctgccca
      661 tgatgcggat attggtagca acacactgca gaattaccaa ctcagtccca gtgatcattt
      721 ctcactgata aataaagaga aatcagatgg cagtaaatac cctgagatgg tattgaagac
      781 acctttggac agagaaaagc agaaatccta ccacttgact ttgactgcct tggactttgg
      841 agctccaccc ctaagcagca ctgcacagat acacgttcta gtgactgatg ccaatgataa
      901 tgctccagtg ttcagtcaag acgtatacag ggtgagcctt tcagaaaacg tgtacccggg
      961 gaccacggtg ctacaggtga ctgccacgga ccaggatgag ggtgtcaatg ccgagattac
     1021 tttctctttc agtgaagcta gccagatcac ccaatttgac ctgaactcta acaccgggga
     1081 aattactgtt ttaaatacat tagattttga agaagtcaaa gaatattcca tagttttgga
     1141 agcaagggac ggtggaggaa tgattgcgca atgcacagtg gaggtagaag tcatagatga
     1201 aaatgacaac gccccagaag tgatattcca gtctctaccc aacctaatta tggaggacgc
     1261 cgagctggga acacatattg ctttgctcaa agtccgtgac aaggattcca gacacaatgg
     1321 agaagtgact tgtaaattgg aaggtgatgt tccatttaaa atattaactt cttcaagaaa
     1381 cacgtataaa ttagtgacag atgctgttct agaccgcgag cagaatccag agtacaatat
     1441 aaccgttacg gcaacagatc ggggcaagcc tcccctctcc tccagttcca gcatcaccct
     1501 gcacattggt gatgtaaatg acaacgctcc ggttttctca cagtcttcct atatagtcca
     1561 cgtggccgag aacaacccgc ctggagcctc tatttcacaa gtcagggctt ctgatccgga
     1621 cttggggccc aacggccaag tctcttactg catcatggcc agtgacctgg agcagcggga
     1681 gctgtcatcc tacgtgtcca taagcgcgga gagcggggtg gtgttcgcgc agcgcgcctt
     1741 cgaccacgag cagctgcgcg ccttcgaact cacactgcag gcccgcgacc agggctcgcc
     1801 agcgctcagc gcgaacgtga gcctgcgcgt gttagtggac gaccgcaacg acaatgcgcc
     1861 acgggtgctg taccccgcgc tgggtcccga cggctctgcg ctcttcgata tggtgccgca
     1921 cgctgcagag cctggctact tggtgaccaa ggtagtggcg gtggacgcag actcaggaca
     1981 caacgcctgg ctgtcctacc acgtgctgca ggctagcgag cccgggctct tcagcctggg
     2041 gctgcgcacg ggcgaagtgc gcacagcgcg tgccttaggc gacagggacg ccgtccgcca
     2101 gcgccttctg gtcgccgtgc gtgacggtgg acagccacca ctctcggcca ctgccacgtt
     2161 gcacctggtc ttcgccgaca gcttgcagga ggtgctgccg gatatcactg accgccccga
     2221 cccctctgac ctccaggctg agctgcagtt ttacctagtg gtggccttgg ccttgatctc
     2281 agtgctcttc ctcgtggcca tgattctggc cattgccttg cgcctgcgac gctcctccag
     2341 ccccgcctcc tggagctgct tccagcctgg tctctgtgtt aaatccgaat ccgtggttcc
     2401 ccccaactac agcgagggga ctttgcctta ttcctacaat ctatgtgttg cacatacagg
     2461 aaagacggag tttaatttcc taaaatgtag tgagcagttg agttcaggac aagacatact
     2521 ttgcggtgat tcatctgggg ccttatttcc actttgtaat tccagtgaat tgacttccca
     2581 tcagcaagcc ccgcccaaca cggactggcg tttctctcag gcccagagac ccggcaccag
     2641 cggctcccaa aatggcgatg acaccggcac ctggcccaac aaccagtttg acacagagat
     2701 gctgcaagcc atgatcttgg cgtccgccag tgaagctgct gatgggagct ccaccctggg
     2761 agggggtgcc ggcaccatgg gattgagcgc ccgctacgga ccccagttca ccctgcagca
     2821 cgtgcccgac taccgccaga atgtctacat cccaggcagc aatgccacac tgaccaacgc
     2881 agctggcaag cgggatggca aggccccagc aggtggcaat ggcaacaaga agaagtcggg
     2941 caagaaggag aagaagtaac atggaggcca ggccaagagc cacagggcgg cctctcccca
     3001 accagcccag cttctcctta cctgcaccca ggcctcagag tttcagggct aacccccaga
     3061 atactggtag gggccaaggc catgctcccc ttgggaaaca gaaacaagtg cccagtcagc
     3121 acctacccct tcccccccag ggggttgaat atgcaaaagc agttccgctg ggaaccccca
     3181 tccaatcaac tgctgtaccc atgggggtag tggggttact gtagacacca agaaccattt
     3241 gccacacccc gtttagttac agctgaactc ctccatcttc caaatcaatc aggcccatcc
     3301 atcccatgcc tccctcctcc ccaccccact ccaacagttc ctctttcccg agtaaggtgg
     3361 ttggggtgtt gaagtaccaa gtaacctaca agcctcctag ttctgaaaag ttggaagggc
     3421 atcatgacct cttggcctct cctttgattc tcaatcttcc cccaaagcat ggtttggtgc
     3481 cagccccttc acctccttcc agagcccaag atcaatgctc aagttttgga ggacatgatc
     3541 accatcccca tggtactgat gcttgctgga tttagggagg gcattttgct accaagcctc
     3601 ttcccaacgc cctggggacc agtcttctgt tttgtttttc attgtttgac gtttccactg
     3661 catgccttga cttcccccac ctcctcctca aacaagagac tccactgcat gttccaagac
     3721 agtatggggt ggtaagataa ggaagggaag tgtgtggatg tggatggtgg gggcatggac
     3781 aaagcttgac acatcaagtt atcaaggcct tggaggaggc tctgtatgtc ctcaggggac
     3841 tgacaacatc ctccagattc cagccataaa ccaataacta ggctggaccc ttcccactac
     3901 ataatagggc tcagcccagg cagccagctt tgggctgagc taacaggacc aatggattaa
     3961 actggcattt cagtccaagg aagctcgaag caggtttagg accaggtccc cttgagaggt
     4021 cagaggggcc tctgtgggtg ctgggtactc cagaggtgcc actggtggaa gggtcagcgg
     4081 agccccagca ggaagggtgg gccagccagg ccattcttag tccctgggtt ggggaggcag
     4141 ggagctaggg cagggaccaa atgaacagaa agtctcagcc caggatgggg cttcttcaac
     4201 agggcccctg ccctcctgaa gcctcagtcc ttcaccttgc caggtgccgt ttctcttccg
     4261 tgaaggccac tgcccaggtc cccagtgcgc cccctagtgg ccatagcctg gttaaagttc
     4321 cccagtgcct ccttgtgcat agaccttctt ctcccacccc cttctgcccc tgggtccccg
     4381 gccatccagc ggggctgcca gagaacccca gacctgccct tacagtagtg tagcgccccc
     4441 tccctctttc ggctggtgta gaatagccag tagtgtagtg cggtgtgctt ttacgtgatg
     4501 gcgggtgggc agcgggcggc gggctccgcg cagccgtctg tccttgatct gcccgcggcg
     4561 gcccgtgttg tgttttgtgc tgtgtccacg cgctaaggcg accccctccc ccgtactgac
     4621 ttctcctata agcgcttctc ttcgcatagt cacgtagctc ccaccccacc ctcttcctgt
     4681 gtctcacgca agttttatac tctaatattt atatggcttt ttttcttcga caaaaaaata
     4741 ataaaacgtt tcttctgaaa a
//
