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    PCDHB9 protocadherin beta 9 [ Homo sapiens (human) ]

    Gene ID: 56127, updated on 17-Jun-2019

    Summary

    Official Symbol
    PCDHB9provided by HGNC
    Official Full Name
    protocadherin beta 9provided by HGNC
    Primary source
    HGNC:HGNC:8694
    See related
    Ensembl:ENSG00000177839 MIM:606335
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    PCDH3H; PCDH-BETA9
    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]
    Orthologs

    Genomic context

    See PCDHB9 in Genome Data Viewer
    Location:
    5q31.3
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    109.20190607 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (141187161..141191541)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (140566893..140571111)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene protocadherin beta cluster Neighboring gene protocadherin beta 8 Neighboring gene protocadherin beta 16 Neighboring gene protocadherin beta 10 Neighboring gene protocadherin beta 11

    Genomic regions, transcripts, and products

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    General gene information

    Markers

    Homology

    Clone Names

    • MGC119555, MGC119556

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules NAS
    Non-traceable Author Statement
    more info
    PubMed 
    cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    chemical synaptic transmission TAS
    Traceable Author Statement
    more info
    PubMed 
    homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
     
    synapse assembly TAS
    Traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    integral component of membrane NAS
    Non-traceable Author Statement
    more info
    PubMed 
    integral component of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 

    General protein information

    Preferred Names
    protocadherin beta-9
    Names
    PCDH-beta-9
    protocadherin-3h

    NCBI Reference Sequences (RefSeq)

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_000017.2 

      Range
      155253..159664
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_019119.5NP_061992.3  protocadherin beta-9 precursor

      See identical proteins and their annotated locations for NP_061992.3

      Status: REVIEWED

      Source sequence(s)
      AB208959, AC244517, AF217749, BC100672, DA726654
      Consensus CDS
      CCDS75328.1
      UniProtKB/Swiss-Prot
      Q9Y5E1
      UniProtKB/TrEMBL
      Q59H00
      Related
      ENSP00000478606.1, ENST00000316105.6
      Conserved Domains (4) summary
      cd11304
      Location:247343
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:372449
      CA; Cadherin repeats
      pfam08266
      Location:32112
      Cadherin_2; Cadherin-like
      pfam16492
      Location:686768
      Cadherin_C_2; Cadherin cytoplasmic C-terminal

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

      Range
      141187161..141191541
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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