LOCUS       NM_015669               3410 bp    mRNA    linear   PRI 03-MAY-2024
DEFINITION  Homo sapiens protocadherin beta 5 (PCDHB5), mRNA.
ACCESSION   NM_015669
VERSION     NM_015669.5
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 3410)
  AUTHORS   Hsu,Y.H., Pintacuda,G., Liu,R., Nacu,E., Kim,A., Tsafou,K.,
            Petrossian,N., Crotty,W., Suh,J.M., Riseman,J., Martin,J.M.,
            Biagini,J.C., Mena,D., Ching,J.K.T., Malolepsza,E., Li,T.,
            Singh,T., Ge,T., Egri,S.B., Tanenbaum,B., Stanclift,C.R.,
            Apffel,A.M., Carr,S.A., Schenone,M., Jaffe,J., Fornelos,N.,
            Huang,H., Eggan,K.C. and Lage,K.
  CONSRTM   Schizophrenia Working Group of the Psychiatric Genomics Consortium;
            Stanley Global Asia Initiatives
  TITLE     Using brain cell-type-specific protein interactomes to interpret
            neurodevelopmental genetic signals in schizophrenia
  JOURNAL   iScience 26 (5), 106701 (2023)
   PUBMED   37207277
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3410)
  AUTHORS   Zhou,W., Guan,W., Zhou,Y., Rao,Y., Ji,X. and Li,J.
  TITLE     Weighted genes associated with the progression of retinoblastoma:
            Evidence from bioinformatic analysis
  JOURNAL   Exp Eye Res 211, 108730 (2021)
   PUBMED   34419445
  REMARK    GeneRIF: Weighted genes associated with the progression of
            retinoblastoma: Evidence from bioinformatic analysis.
REFERENCE   3  (bases 1 to 3410)
  AUTHORS   Frank,M. and Kemler,R.
  TITLE     Protocadherins
  JOURNAL   Curr Opin Cell Biol 14 (5), 557-562 (2002)
   PUBMED   12231349
  REMARK    Review article
REFERENCE   4  (bases 1 to 3410)
  AUTHORS   Vanhalst,K., Kools,P., Vanden Eynde,E. and van Roy,F.
  TITLE     The human and murine protocadherin-beta one-exon gene families show
            high evolutionary conservation, despite the difference in gene
            number
  JOURNAL   FEBS Lett 495 (1-2), 120-125 (2001)
   PUBMED   11322959
REFERENCE   5  (bases 1 to 3410)
  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   6  (bases 1 to 3410)
  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   7  (bases 1 to 3410)
  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   8  (bases 1 to 3410)
  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   9  (bases 1 to 3410)
  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 BP310685.1, AB209393.1,
            AF217753.1, AA481828.1 and AC244517.2.
            
            On May 17, 2019 this sequence version replaced NM_015669.4.
            
            Summary: This gene is a member of the protocadherin beta gene
            cluster, one of three related gene clusters tandemly linked on
            chromosome five. The gene clusters demonstrate an unusual genomic
            organization similar to that of B-cell and T-cell receptor gene
            clusters. The beta cluster contains 16 genes and 3 pseudogenes,
            each encoding 6 extracellular cadherin domains and a cytoplasmic
            tail that deviates from others in the cadherin superfamily. The
            extracellular domains interact in a homophilic manner to specify
            differential cell-cell connections. Unlike the alpha and gamma
            clusters, the transcripts from these genes are made up of only one
            large exon, not sharing common 3' exons as expected. These neural
            cadherin-like cell adhesion proteins are integral plasma membrane
            proteins. Their specific functions are unknown but they most likely
            play a critical role in the establishment and function of specific
            cell-cell neural connections. [provided by RefSeq, Jul 2008].
            
            ##Evidence-Data-START##
            Transcript is intronless :: SRR1660807.168422.1,
                                        SRR1660803.263366.1 [ECO:0000345]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000231134.8/ ENSP00000231134.5
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-45                BP310685.1         1-45
            46-2718             AB209393.1         1-2673
            2719-2917           AF217753.1         2490-2688
            2918-2922           AA481828.1         402-406
            2923-3410           AC244517.2         63979-64466
FEATURES             Location/Qualifiers
     source          1..3410
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..3410
                     /gene="PCDHB5"
                     /gene_synonym="PCDH-BETA5"
                     /note="protocadherin beta 5"
                     /db_xref="GeneID:26167"
                     /db_xref="HGNC:HGNC:8690"
                     /db_xref="MIM:606331"
     exon            1..3410
                     /gene="PCDHB5"
                     /gene_synonym="PCDH-BETA5"
                     /inference="alignment:Splign:2.1.0"
     CDS             230..2617
                     /gene="PCDHB5"
                     /gene_synonym="PCDH-BETA5"
                     /note="PCDH-beta-5"
                     /codon_start=1
                     /product="protocadherin beta-5 precursor"
                     /protein_id="NP_056484.2"
                     /db_xref="CCDS:CCDS4247.1"
                     /db_xref="GeneID:26167"
                     /db_xref="HGNC:HGNC:8690"
                     /db_xref="MIM:606331"
                     /translation="METALAKTPQKRQVMFLAILLLLWEAGSEAVRYSIPEETESGYS
                     VANLAKDLGLGVGELATRGARMHYKGNKELLQLDIKTGNLLLYEKLDREVMCGATEPC
                     ILHFQLLLENPVQFFQTDLQLTDINDHAPEFPEKEMLLKIPESTQPGTVFPLKIAQDF
                     DIGSNTVQNYTISPNSHFHVATHNRGDGRKYPELVLDKALDREERPELSLTLTALDGG
                     APPRSGTTTIRIVVLDNNDNAPEFLQSFYEVQVPENSPLNSLVVVVSARDLDAGAYGS
                     VAYALFQGDEVTQPFVIDEKTAEIRLKRALDFEATPYYNVEIVATDGGGLSGKCTVAI
                     EVVDVNDNAPELTMSTLSSPTPENAPETVVAVFSVSDPDSGDNGRMICSIQNDLPFLL
                     KPTLKNFYTLVTQRTLDRESQAEYNITITVTDMGTPRLKTEHNITVLVSDVNDNAPAF
                     TQTSYTLFVRENNSPALHIGSVSATDRDSGTNAQVTYSLLPPQNPHLRLASLVSINAD
                     NGHLFALRSLDYEALQAFEFRVGATDRGSPALSSEALVRVLVLDANDNSPFVLYPLQN
                     GSAPCTELVPRAAEPGYLVTKVVAVDGDSGQNAWLSYQLLKATEPGLFSMWAHNGEVR
                     TARLLSERDAAKHRLVVLVKDNGEPPRSATATLHVLLVDGFSQPYLPLPEAAPAQAQA
                     DSLTVYLVVALASVSSLFLFSVLLFVAVRLCRRSRAAPVGRCSVPEGPFPGHLVDVSG
                     TGTLSQSYHYEVCLTGDSGAGEFKFLKPIIPNLLPQGAGEEIGKTAAFRNSFGLN"
     regulatory      2895..2900
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHB5"
                     /gene_synonym="PCDH-BETA5"
                     /note="hexamer: AATAAA"
     polyA_site      2917
                     /gene="PCDHB5"
                     /gene_synonym="PCDH-BETA5"
                     /note="major polyA site"
     regulatory      3393..3398
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHB5"
                     /gene_synonym="PCDH-BETA5"
                     /note="hexamer: AATAAA"
     polyA_site      3410
                     /gene="PCDHB5"
                     /gene_synonym="PCDH-BETA5"
ORIGIN      
        1 aagagtgtgg atagtgggct ctgcggataa ctcagacgcc attaagctgg ggaatccaaa
       61 ctctaaaaga aggacgcatt ttaggtaaga tctagtggct agatcttcag ggtgggcttc
      121 gttcttgtgg aaatcagtca agaaagatcg gattcgcggt tatttatgca aatcatctgg
      181 gtggattgtg tacggagtta aactgcgcct tctggaccgg gtctgaacaa tggagactgc
      241 gctagcaaaa acgccacaga aaaggcaagt tatgtttctt gctatattgt tgcttttgtg
      301 ggaggctggc tctgaggcag ttaggtattc cataccagaa gaaacagaaa gtggctattc
      361 tgtggccaac ctggcaaaag acctgggtct tggggtgggg gaactggcca ctcggggcgc
      421 gcgaatgcat tacaaaggaa acaaagagct cttgcagctt gatataaaga ccggcaattt
      481 gcttctatat gaaaaactag accgggaggt gatgtgcggg gcgacagaac cctgtatatt
      541 gcatttccag ctcttactag aaaatccagt gcagtttttt caaactgatc tgcagctcac
      601 agatataaat gaccatgccc cagagttccc agagaaggaa atgctcctaa aaatcccaga
      661 gagcacccag ccagggactg tgtttccctt aaaaatagcc caggactttg acataggtag
      721 caacactgtt cagaactaca caatcagccc aaattcacac tttcatgttg ctacgcataa
      781 tcgcggagat ggcagaaaat acccagagct ggtgctggac aaagcgctgg accgggagga
      841 gcggcctgag ctcagcttaa cactcactgc actggacggt ggggctccgc ccaggtccgg
      901 gaccaccaca attcgcattg tcgtcttgga taataatgac aacgcccccg aatttttaca
      961 atcattctat gaggtacagg tgcccgagaa cagccccctt aactccttag ttgtcgttgt
     1021 ctccgctcga gatttagatg caggagcata tgggagtgta gcctatgctc tattccaagg
     1081 cgatgaagtt actcaaccat ttgtaataga cgagaaaaca gcagaaattc gcctgaaaag
     1141 ggcattggat ttcgaggcaa ctccatatta taacgtggaa attgtagcca cagatggtgg
     1201 gggcctttca ggaaaatgca ctgtggctat agaagtggtg gatgtgaatg acaacgcccc
     1261 tgaactcacc atgtctacgc tctccagccc taccccagaa aatgccccgg aaactgtagt
     1321 tgccgttttc agtgtttctg atccagactc cggggacaac ggtaggatga tttgctccat
     1381 ccagaatgat ctcccctttc ttttgaagcc cacattaaaa aacttttaca ccctagtgac
     1441 acagagaaca ctggacagag agagccaagc cgagtacaac atcaccatca ctgtcaccga
     1501 catggggaca cccaggctga aaaccgagca caacataacg gtcctggtct ccgacgtcaa
     1561 tgacaacgcc cccgccttca cccaaacctc ctacaccctg ttcgtccgag agaacaacag
     1621 ccccgccctg cacatcggca gtgtcagcgc cacagacaga gactcaggca ccaacgccca
     1681 ggtcacctac tcgctgctgc cgccccagaa cccacacctg cgcctcgcct ccctggtctc
     1741 catcaacgcg gacaacggcc acctgtttgc cctcaggtcg ctggactacg aggccctgca
     1801 ggcgttcgag ttccgcgtgg gagccacaga ccgcggctcc ccggcgctga gcagcgaggc
     1861 gctggtgcgc gtgctggtgc tggacgccaa cgacaactcg cccttcgtgc tgtatccgct
     1921 gcagaacggc tcggcgcctt gcaccgagct ggtgccccgg gcggccgagc cgggctacct
     1981 ggtgaccaag gtggtggcgg tggacggtga ctcgggccag aacgcctggc tgtcgtacca
     2041 gctgctcaag gccacggagc ccgggctgtt cagcatgtgg gcgcacaatg gcgaggtgcg
     2101 caccgccagg ctgctgagcg agcgcgacgc ggccaagcac aggctggtgg tgctggtcaa
     2161 ggacaatggc gagcctccgc gctcggccac cgccacgctg cacgtgctcc tggtggacgg
     2221 cttctcccag ccctacctgc cgctgccgga ggcggccccg gcccaggccc aggccgactc
     2281 gctcactgtc tacctggtgg tggcattggc ctcggtgtcg tcgctcttcc tcttttcggt
     2341 gctcctgttc gtggcagtgc ggctgtgcag gaggagcagg gcggccccgg tcggtcgctg
     2401 ctcggtgccc gagggcccct ttccagggca tctggtggac gtgagcggca ccgggaccct
     2461 atcccagagc taccactacg aggtgtgttt gaccggagac tcaggggccg gcgagttcaa
     2521 gttcctgaag ccgattattc ctaacctttt gccccagggc gctggtgaag aaatagggaa
     2581 aactgctgcc ttccggaata gctttggatt aaattagaga tctcgtgatg acgcgttgtt
     2641 ttctgccatt tatcccaaac tttttcagat ctagaattcg agagtgtcat ggacaaaaat
     2701 ttcaccttga gattgagctt ttatttccct ttttaatgga tttgtctgtt gaacttcatg
     2761 ctgtccaagt gttgaaaagt caattttatt tcattgcatt tatttacata gtgtcattcc
     2821 aaatccatgc atgctgttga ttttcctgag atttttttct cttcttgttg gtatttgttg
     2881 tgataaacca ccttaataaa atcaagtatt aattttattt tctatatatt ctgcccattc
     2941 tatttcatca cactcttaag tattatatat ttgatgctaa aatgcaaaaa ttaaaaatgt
     3001 ttcacatcat catattttaa ttgtttaaaa caaagacaaa tacatacata tgctaacaaa
     3061 tgaaatatgt gaaaaaatat gtaaaaggaa acaatcttct atttactctt ttttgcagcc
     3121 ctgagtccta ttagcaaact ttttaaaaac agtttaattg aattattact tacatgaaga
     3181 aaaatgaaca aatcctttat gttcaactca atatatattc acaaagtaac atatttatta
     3241 ccagcagctt gaagagaaaa tgaaacatca ctggcacccc aggtgccaca caaattactc
     3301 cttacaatca ctactacccc aagtatagca aatatgctga cttccaatac catagtttaa
     3361 ttttgcctct tctgaattta tataaatgga gtaataaagt atgaactgct
//
