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    CADM3 cell adhesion molecule 3 [ Homo sapiens (human) ]

    Gene ID: 57863, updated on 11-Nov-2018

    Summary

    Official Symbol
    CADM3provided by HGNC
    Official Full Name
    cell adhesion molecule 3provided by HGNC
    Primary source
    HGNC:HGNC:17601
    See related
    Ensembl:ENSG00000162706 MIM:609743; Vega:OTTHUMG00000037177
    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
    BIgR; NECL1; TSLL1; IGSF4B; Necl-1; synCAM3
    Summary
    The protein encoded by this gene is a calcium-independent cell-cell adhesion protein that can form homodimers or heterodimers with other nectin proteins. The encoded protein has both homophilic and heterophilic cell-cell adhesion activity. This gene is reported to be a tumor suppressor gene. [provided by RefSeq, Oct 2016]
    Expression
    Biased expression in brain (RPKM 106.6), placenta (RPKM 39.2) and 4 other tissues See more
    Orthologs

    Genomic context

    See CADM3 in Genome Data Viewer
    Location:
    1q23.2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (159171564..159203313)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (159141377..159172932)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene absent in melanoma 2 Neighboring gene RAD1 pseudogene 2 Neighboring gene transfer RNA-Arg (TCT) 4-1 Neighboring gene RNA, 5S ribosomal pseudogene 60 Neighboring gene CADM3 antisense RNA 1 Neighboring gene atypical chemokine receptor 1 (Duffy blood group) Neighboring gene mucosal pentraxin 1 (pseudogene)

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Jun 15 11:32:44 2016

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Phenotypes

    NHGRI GWAS Catalog

    Description
    A genome-wide association scan on the levels of markers of inflammation in Sardinians reveals associations that underpin its complex regulation.
    NHGRI GWA Catalog
    Genome-wide association with select biomarker traits in the Framingham Heart Study.
    NHGRI GWA Catalog

    Pathways from BioSystems

    • Adherens junctions interactions, organism-specific biosystem (from REACTOME)
      Adherens junctions interactions, organism-specific biosystemThe adherens junctions (AJ) are multiprotein complexes that promote homotypic cell adhesion in nearly all types of tissue by linking membrane and cytoskeletal components at discrete contact regions (...
    • Cell adhesion molecules (CAMs), organism-specific biosystem (from KEGG)
      Cell adhesion molecules (CAMs), organism-specific biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
    • Cell adhesion molecules (CAMs), conserved biosystem (from KEGG)
      Cell adhesion molecules (CAMs), conserved biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
    • Cell junction organization, organism-specific biosystem (from REACTOME)
      Cell junction organization, organism-specific biosystem
      Cell junction organization
    • Cell-Cell communication, organism-specific biosystem (from REACTOME)
      Cell-Cell communication, organism-specific biosystemCell-to-Cell communication is crucial for multicellular organisms because it allows organisms to coordinate the activity of their cells. Some cell-to-cell communication requires direct cell-cell cont...
    • Cell-cell junction organization, organism-specific biosystem (from REACTOME)
      Cell-cell junction organization, organism-specific biosystemEpithelial cell-cell contacts consist of three major adhesion systems: adherens junctions (AJs), tight junctions (TJs), and desmosomes. These adhesion systems differ in their function and compositio...
    • Nectin/Necl trans heterodimerization, organism-specific biosystem (from REACTOME)
      Nectin/Necl trans heterodimerization, organism-specific biosystemNectins and Nectin-like molecules (Necls) also undergo trans-heterophilic interactions to interact with other nectin or Necl family members. Besides these trans interactions among nectins and nectin-...

    General gene information

    Markers

    Homology

    Clone Names

    • FLJ10698

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    protein homodimerization activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    Process Evidence Code Pubs
    adherens junction organization TAS
    Traceable Author Statement
    more info
     
    heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    homophilic cell adhesion via plasma membrane adhesion molecules ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    protein localization IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    cell-cell junction ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    integral component of presynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
     
    parallel fiber to Purkinje cell synapse IEA
    Inferred from Electronic Annotation
    more info
     
    plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    cell adhesion molecule 3
    Names
    TSLC1-like 1
    brain immunoglobulin receptor
    dendritic cell nectin-like protein 1 short isoform
    immunoglobulin superfamily member 4B
    synaptic cell adhesion molecule 3

    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_051933.1 RefSeqGene

      Range
      5001..36750
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001127173.2NP_001120645.1  cell adhesion molecule 3 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001120645.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AF363367, DA221489, HY346099
      Consensus CDS
      CCDS44251.1
      UniProtKB/Swiss-Prot
      Q8N126
      Related
      ENSP00000357107.4, OTTHUMP00000035289, ENST00000368125.8, OTTHUMT00000090330
      Conserved Domains (5) summary
      smart00294
      Location:354369
      4.1m; putative band 4.1 homologues' binding motif
      cd05882
      Location:32126
      Ig1_Necl-1; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molcule-1 (Necl-1, also known as cell adhesion molecule3 (CADM3))
      cd07705
      Location:147229
      Ig2_Necl-1; Second immunoglobulin (Ig)-like domain of nectin-like molcule-1 (Necl-1, also known as cell adhesion molecule3 (CADM3))
      smart00410
      Location:245316
      IG_like; Immunoglobulin like
      pfam13895
      Location:237302
      Ig_2; Immunoglobulin domain
    2. NM_001346510.1NP_001333439.1  cell adhesion molecule 3 isoform 3 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon and uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AL035403
      UniProtKB/Swiss-Prot
      Q8N126
    3. NM_021189.4NP_067012.1  cell adhesion molecule 3 isoform 1 precursor

      See identical proteins and their annotated locations for NP_067012.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AF363367, AK289541, AL035403, DA221489, HY346099
      Consensus CDS
      CCDS1182.1
      UniProtKB/Swiss-Prot
      Q8N126
      Related
      ENSP00000357106.4, OTTHUMP00000035290, ENST00000368124.8, OTTHUMT00000090331
      Conserved Domains (4) summary
      cd05882
      Location:66160
      Ig1_Necl-1; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molcule-1 (Necl-1, also known as cell adhesion molecule3 (CADM3))
      cd07705
      Location:181263
      Ig2_Necl-1; Second immunoglobulin (Ig)-like domain of nectin-like molcule-1 (Necl-1, also known as cell adhesion molecule3 (CADM3))
      smart00410
      Location:279350
      IG_like; Immunoglobulin like
      pfam13895
      Location:271336
      Ig_2; Immunoglobulin domain

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

      Range
      159171564..159203313
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_024448760.1XP_024304528.1  cell adhesion molecule 3 isoform X1

      Conserved Domains (4) summary
      smart00294
      Location:437452
      4.1m; putative band 4.1 homologues' binding motif
      cd05882
      Location:115209
      Ig1_Necl-1; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molcule-1 (Necl-1, also known as cell adhesion molecule3 (CADM3))
      cd07705
      Location:230312
      Ig2_Necl-1; Second immunoglobulin (Ig)-like domain of nectin-like molcule-1 (Necl-1, also known as cell adhesion molecule3 (CADM3))
      smart00410
      Location:328399
      IG_like; Immunoglobulin like
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