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

Gene ID: 57863, updated on 21-Dec-2019

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
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
109.20191205 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (159171592..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 tRNA-Arg (anticodon 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 Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What'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 PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

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
    5052..36750
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001127173.3NP_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, ENST00000368125.9
    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_001346510.2NP_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_021189.5NP_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, HY346099
    Consensus CDS
    CCDS1182.1
    UniProtKB/Swiss-Prot
    Q8N126
    Related
    ENSP00000357106.4, ENST00000368124.8
    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 Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    159171592..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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