LOCUS       NM_018925               4755 bp    mRNA    linear   PRI 07-APR-2024
DEFINITION  Homo sapiens protocadherin gamma subfamily B, 5 (PCDHGB5),
            transcript variant 1, mRNA.
ACCESSION   NM_018925
VERSION     NM_018925.3
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 4755)
  AUTHORS   Gonzalez-Begne,M., Lu,B., Han,X., Hagen,F.K., Hand,A.R.,
            Melvin,J.E. and Yates,J.R.
  TITLE     Proteomic analysis of human parotid gland exosomes by
            multidimensional protein identification technology (MudPIT)
  JOURNAL   J Proteome Res 8 (3), 1304-1314 (2009)
   PUBMED   19199708
REFERENCE   2  (bases 1 to 4755)
  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 4755)
  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 4755)
  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 4755)
  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 4755)
  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 AC008781.7.
            
            On Sep 17, 2020 this sequence version replaced NM_018925.2.
            
            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).
            
            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 :: AF152334.1, SRR14038191.3986273.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968189, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000617380.2/ ENSP00000478258.1
            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
            1-2578              AC005618.1         109459-112036
            2579-2637           AC008781.7         156232-156290       c
            2638-2726           AC008781.7         145616-145704       c
            2727-4755           AC008781.7         138122-140150       c
FEATURES             Location/Qualifiers
     source          1..4755
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..4755
                     /gene="PCDHGB5"
                     /gene_synonym="PCDH-GAMMA-B5"
                     /note="protocadherin gamma subfamily B, 5"
                     /db_xref="GeneID:56101"
                     /db_xref="HGNC:HGNC:8712"
                     /db_xref="MIM:606302"
     exon            1..2578
                     /gene="PCDHGB5"
                     /gene_synonym="PCDH-GAMMA-B5"
                     /inference="alignment:Splign:2.1.0"
     CDS             182..2953
                     /gene="PCDHGB5"
                     /gene_synonym="PCDH-GAMMA-B5"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; protocadherin gamma-B5"
                     /codon_start=1
                     /product="protocadherin gamma-B5 isoform 1 precursor"
                     /protein_id="NP_061748.1"
                     /db_xref="CCDS:CCDS75339.1"
                     /db_xref="GeneID:56101"
                     /db_xref="HGNC:HGNC:8712"
                     /db_xref="MIM:606302"
                     /translation="MGSGAGELGRAERLPVLFLFLLSLFCPALCEQIRYRIPEEMPKG
                     SVVGNLATDLGFSVQELPTRKLRVSSEKPYFTVSAESGELLVSSRLDREEICGKKPAC
                     ALEFEAVAENPLNFYHVNVEIEDINDHTPKFTQNSFELQISESAQPGTRFILEVAEDA
                     DIGLNSLQKYKLSLNPSFSLIIKEKQDGSKYPELALEKTLDREQQSYHRLVLTALDGG
                     HPPLSGTTELRIQVTDANDNPPVFNRDVYRVSLRENVPPGTTVLQVSATDQDEGINSE
                     ITYSFYRTGQIFSLNSKSGEITTQKKLDFEETKEYSMVVEGRDGGGLVAQCTVEINIQ
                     DENDNSPEVTFHSLLEMILENAVPGTLIALIKIHDQDSGENGEVNCQLQGEVPFKIIS
                     SSKNSYKLVTDGTLDREQTPEYNVTITATDRGKPPLSSSISVILHIRDVNDNAPVFHQ
                     ASYLVSVPENNPPGASIAQVCASDLDLGLNGQVSYSIMASDLEPLALASYVSMSAQSG
                     VVFAQRAFDYEQLRTFELTLQARDQGSPALSANVSLRVLVGDRNDNAPRVLYPALGPD
                     GSALFDMVPRAAEPGYLVTKVVAVDADSGHNAWLSYHVLQASEPGLFSLGLRTGEVRT
                     ARALGDRDAARQRLLVAVRDGGQPPLSATATLHLVFADSLQEVLPDITDRPVPSDPQA
                     ELQFYLVVALALISVLFLLAVILAVALRLRRSSSPAAWSCFQPGLCVKSGPVVPPNYS
                     QGTLPYSYNLCVAHTGKTEFNFLKCSEQLSSGQDILCGDSSGALFPLCNSSESTSHPE
                     LQAPPNTDWRFSQAQRPGTSGSQNGDDTGTWPNNQFDTEMLQAMILASASEAADGSST
                     LGGGAGTMGLSARYGPQFTLQHVPDYRQNVYIPGSNATLTNAAGKRDGKAPAGGNGNK
                     KKSGKKEKK"
     exon            2579..2637
                     /gene="PCDHGB5"
                     /gene_synonym="PCDH-GAMMA-B5"
                     /inference="alignment:Splign:2.1.0"
     exon            2638..2726
                     /gene="PCDHGB5"
                     /gene_synonym="PCDH-GAMMA-B5"
                     /inference="alignment:Splign:2.1.0"
     exon            2727..4755
                     /gene="PCDHGB5"
                     /gene_synonym="PCDH-GAMMA-B5"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4734..4739
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHGB5"
                     /gene_synonym="PCDH-GAMMA-B5"
                     /note="hexamer: AATAAA"
     polyA_site      4755
                     /gene="PCDHGB5"
                     /gene_synonym="PCDH-GAMMA-B5"
                     /note="major polyA site"
ORIGIN      
        1 gcagccccag ctcagactcc ccagcgccgg cctttacacc gcttcctcct cggaaaaaga
       61 atcgtttcct aaactggaac tggaactaaa gcccgttcgg agatccaaaa atctacaata
      121 cagaggttat ttgtaacctg gcgtctccag gctggtgagc aagctgagga gagcaagagg
      181 gatggggagc ggcgccgggg agctgggccg ggctgagagg ctgccagtgc tctttctctt
      241 cctgctgtct ttgttctgcc cggcgctctg tgagcagatc cgctacagga ttcccgagga
      301 aatgcccaag ggctccgtag tggggaacct cgccacggac ctggggttca gcgtccagga
      361 gttaccgact cgaaaactgc gcgtcagttc ggagaagcct tacttcaccg tgagcgcaga
      421 gagcggggag ttgcttgtga gcagcaggct agacagggag gagatatgcg ggaagaagcc
      481 agcttgtgct ctggaatttg aggctgttgc tgaaaatcca ctgaactttt atcacgtgaa
      541 tgtggagatc gaggacatta atgaccacac gccaaaattc acgcaaaatt cctttgagct
      601 gcaaataagt gagtctgcac agcctggcac aagatttata ctagaagtag cagaagatgc
      661 agatattggc ttaaactctc tgcagaagta taaactctct cttaacccaa gtttctcatt
      721 aataattaag gagaaacagg atggtagtaa atacccggaa ctggcactgg agaaaacctt
      781 agaccgggaa caacagagtt accatcgttt agtcctgact gccttggacg gtggacatcc
      841 acccctaagc ggcaccactg agctccggat ccaggtaacc gacgccaatg ataatccccc
      901 ggtattcaac cgagacgtgt acagagtcag ccttcgggaa aacgtgccac caggcaccac
      961 tgtgttgcaa gtgtcagcca ctgaccaaga cgagggcatc aactcagaaa ttacttattc
     1021 cttctacaga accgggcaaa tctttagtct gaattcaaag agcggagaaa ttaccactca
     1081 aaagaaactg gattttgaag agaccaagga atattcaatg gttgtagaag ggagggatgg
     1141 tggtggactg gttgcacaat gtacagttga aattaatatt caagatgaaa atgacaatag
     1201 cccagaagtt acattccatt ctctacttga aatgattctg gaaaacgcgg tgcctggaac
     1261 actaattgct ttgatcaaaa tacatgacca agattctggg gaaaatgggg aggttaattg
     1321 tcaattacaa ggcgaagtcc cttttaagat tatctcttca tccaaaaatt cgtataagtt
     1381 ggtaacagat ggaaccctag accgagagca aaccccggag tacaatgtca ccatcacagc
     1441 cacagacagg ggcaagccgc ccctctcctc cagcataagc gtcatcctac atatcagaga
     1501 cgtcaacgat aacgctccgg ttttccacca ggcgtcctac ttagtcagtg tacccgaaaa
     1561 caaccctcct ggggcctcca tcgcgcaagt ctgcgcctcg gacctggact tggggttgaa
     1621 cggccaagtc tcctactcta tcatggccag cgacctagag cctctggcac tggcctctta
     1681 cgtgtccatg agcgcgcaaa gtggggtggt gttcgcgcag cgcgcctttg actacgagca
     1741 gctgcgcacc ttcgaactca cactacaggc ccgcgaccag ggctcgcctg cgctcagcgc
     1801 aaacgtgagc ctgcgcgtgt tggtgggcga ccgaaacgac aacgcaccgc gggtgctgta
     1861 ccccgcgctg ggtcccgacg gctctgcgct cttcgatatg gtgccgcgcg ctgcagagcc
     1921 cggctacctg gtgaccaagg tagtggccgt ggacgcagac tcaggacaca acgcctggct
     1981 gtcctaccac gtgctgcagg ctagcgagcc cgggctcttc agcctggggc tgcgcacagg
     2041 agaggtgcgc acagcgcgtg ccttgggcga cagggacgcg gcccgccagc gcctgctggt
     2101 tgctgtgcgt gatggtggac agccgccact ctccgccacc gccacgctgc acttggtctt
     2161 tgctgacagc ttgcaggagg tgctgccgga tatcactgac cgccctgtac cctctgaccc
     2221 ccaggctgag ctgcagtttt acctagtggt ggccttggcc ttgatctcag tgctcttcct
     2281 cctggccgtg attctggccg ttgccttgcg cctgcgacgc tcctccagcc ctgccgcctg
     2341 gagctgcttc caacctggtc tctgtgtcaa gtctggacct gtggttcccc ccaactacag
     2401 tcaggggact ttgccttatt cctacaacct atgtgttgca catacaggaa agacggagtt
     2461 taatttccta aaatgtagtg agcaattgag ttcaggacaa gacatacttt gtggtgattc
     2521 atctggggcc ttatttccac tttgtaattc cagcgagtcg acttcccatc ctgagttgca
     2581 agccccgccc aacacggact ggcgtttctc tcaggcccag agacccggca ccagcggctc
     2641 ccaaaatggc gatgacaccg gcacctggcc caacaaccag tttgacacag agatgctgca
     2701 agccatgatc ttggcgtccg ccagtgaagc tgctgatggg agctccaccc tgggaggggg
     2761 tgccggcacc atgggattga gcgcccgcta cggaccccag ttcaccctgc agcacgtgcc
     2821 cgactaccgc cagaatgtct acatcccagg cagcaatgcc acactgacca acgcagctgg
     2881 caagcgggat ggcaaggccc cagcaggtgg caatggcaac aagaagaagt cgggcaagaa
     2941 ggagaagaag taacatggag gccaggccaa gagccacagg gcggcctctc cccaaccagc
     3001 ccagcttctc cttacctgca cccaggcctc agagtttcag ggctaacccc cagaatactg
     3061 gtaggggcca aggccatgct ccccttggga aacagaaaca agtgcccagt cagcacctac
     3121 cccttccccc ccagggggtt gaatatgcaa aagcagttcc gctgggaacc cccatccaat
     3181 caactgctgt acccatgggg gtagtggggt tactgtagac accaagaacc atttgccaca
     3241 ccccgtttag ttacagctga actcctccat cttccaaatc aatcaggccc atccatccca
     3301 tgcctccctc ctccccaccc cactccaaca gttcctcttt cccgagtaag gtggttgggg
     3361 tgttgaagta ccaagtaacc tacaagcctc ctagttctga aaagttggaa gggcatcatg
     3421 acctcttggc ctctcctttg attctcaatc ttcccccaaa gcatggtttg gtgccagccc
     3481 cttcacctcc ttccagagcc caagatcaat gctcaagttt tggaggacat gatcaccatc
     3541 cccatggtac tgatgcttgc tggatttagg gagggcattt tgctaccaag cctcttccca
     3601 acgccctggg gaccagtctt ctgttttgtt tttcattgtt tgacgtttcc actgcatgcc
     3661 ttgacttccc ccacctcctc ctcaaacaag agactccact gcatgttcca agacagtatg
     3721 gggtggtaag ataaggaagg gaagtgtgtg gatgtggatg gtgggggcat ggacaaagct
     3781 tgacacatca agttatcaag gccttggagg aggctctgta tgtcctcagg ggactgacaa
     3841 catcctccag attccagcca taaaccaata actaggctgg acccttccca ctacataata
     3901 gggctcagcc caggcagcca gctttgggct gagctaacag gaccaatgga ttaaactggc
     3961 atttcagtcc aaggaagctc gaagcaggtt taggaccagg tccccttgag aggtcagagg
     4021 ggcctctgtg ggtgctgggt actccagagg tgccactggt ggaagggtca gcggagcccc
     4081 agcaggaagg gtgggccagc caggccattc ttagtccctg ggttggggag gcagggagct
     4141 agggcaggga ccaaatgaac agaaagtctc agcccaggat ggggcttctt caacagggcc
     4201 cctgccctcc tgaagcctca gtccttcacc ttgccaggtg ccgtttctct tccgtgaagg
     4261 ccactgccca ggtccccagt gcgcccccta gtggccatag cctggttaaa gttccccagt
     4321 gcctccttgt gcatagacct tcttctccca cccccttctg cccctgggtc cccggccatc
     4381 cagcggggct gccagagaac cccagacctg cccttacagt agtgtagcgc cccctccctc
     4441 tttcggctgg tgtagaatag ccagtagtgt agtgcggtgt gcttttacgt gatggcgggt
     4501 gggcagcggg cggcgggctc cgcgcagccg tctgtccttg atctgcccgc ggcggcccgt
     4561 gttgtgtttt gtgctgtgtc cacgcgctaa ggcgaccccc tcccccgtac tgacttctcc
     4621 tataagcgct tctcttcgca tagtcacgta gctcccaccc caccctcttc ctgtgtctca
     4681 cgcaagtttt atactctaat atttatatgg ctttttttct tcgacaaaaa aataataaaa
     4741 cgtttcttct gaaaa
//
