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    ICAM3 intercellular adhesion molecule 3 [ Homo sapiens (human) ]

    Gene ID: 3385, updated on 2-Nov-2024

    Summary

    Official Symbol
    ICAM3provided by HGNC
    Official Full Name
    intercellular adhesion molecule 3provided by HGNC
    Primary source
    HGNC:HGNC:5346
    See related
    Ensembl:ENSG00000076662 MIM:146631; AllianceGenome:HGNC:5346
    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
    CD50; CDW50; ICAM-R
    Summary
    The protein encoded by this gene is a member of the intercellular adhesion molecule (ICAM) family. All ICAM proteins are type I transmembrane glycoproteins, contain 2-9 immunoglobulin-like C2-type domains, and bind to the leukocyte adhesion LFA-1 protein. This protein is constitutively and abundantly expressed by all leucocytes and may be the most important ligand for LFA-1 in the initiation of the immune response. It functions not only as an adhesion molecule, but also as a potent signalling molecule. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Feb 2016]
    Expression
    Biased expression in bone marrow (RPKM 55.9), spleen (RPKM 28.5) and 12 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See ICAM3 in Genome Data Viewer
    Location:
    19p13.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (10333776..10339624, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (10459888..10465751, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (10444452..10450300, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene FDX2-ZGLP1 readthrough Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10064 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:10427579-10427770 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:10430834-10431047 Neighboring gene ferredoxin 2 Neighboring gene ribonucleoprotein, PTB binding 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10442682-10443598 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10443599-10444515 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:10445230-10445848 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:10448906-10449654 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13959 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13960 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10450403-10451150 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10451151-10451898 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10463923-10464686 Neighboring gene tyrosine kinase 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:10474734-10475234 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:10491214-10491877 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13962 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13963 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:10499431-10499931 Neighboring gene cell division cycle 37, HSP90 cochaperone Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10066 Neighboring gene microRNA 1181

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues 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

    EBI GWAS Catalog

    Description
    Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env AM3 inhibits the interaction of DC-SIGN with ICAM3 and HIV-1 gp120 protein and blocks the DC-SIGN-dependent capture of HIV virions and the HIV trans-infection capability of DC-SIGN transfectants PubMed
    Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with ICAM3; predicted interaction to be relevant to viral egress at plasma membrane/extracellular matrix PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables integrin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables integrin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables signaling receptor binding TAS
    Traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell-cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in phagocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in extracellular exosome HDA PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    intercellular adhesion molecule 3
    Names
    ICAM-3

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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.

    mRNA and Protein(s)

    1. NM_001320605.2NP_001307534.1  intercellular adhesion molecule 3 isoform 2 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate internal exon, compared to variant 1. It encodes isoform 2 which is shorter than isoform 1.
      Source sequence(s)
      AC114271, AK226023, BC040123, CR982084
      UniProtKB/TrEMBL
      B2R736
      Conserved Domains (3) summary
      pfam03921
      Location:32114
      ICAM_N; Intercellular adhesion molecule (ICAM), N-terminal domain
      pfam13895
      Location:221300
      Ig_2; Immunoglobulin domain
      cl11960
      Location:117211
      Ig; Immunoglobulin domain
    2. NM_001320606.2NP_001307535.1  intercellular adhesion molecule 3 isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. It encodes isoform 3 which is shorter than isoform 1.
      Source sequence(s)
      AK309643, BC040123, CR982084
      Consensus CDS
      CCDS82290.1
      UniProtKB/TrEMBL
      Q5NKU1
      Related
      ENST00000589261.5
      Conserved Domains (4) summary
      smart00410
      Location:343399
      IG_like; Immunoglobulin like
      pfam03921
      Location:137
      ICAM_N; Intercellular adhesion molecule (ICAM), N-terminal domain
      pfam13895
      Location:240319
      Ig_2; Immunoglobulin domain
      cl11960
      Location:40134
      Ig; Immunoglobulin domain
    3. NM_001320608.2NP_001307537.1  intercellular adhesion molecule 3 isoform 4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) retains an intron and initiates translation at a downstream start site, compared to variant 1. It encodes isoform 4 which is shorter than isoform 1.
      Source sequence(s)
      AC114271, BC034409, BC046121, CR982084
      Related
      ENST00000589900.5
      Conserved Domains (3) summary
      smart00410
      Location:159215
      IG_like; Immunoglobulin like
      pfam13895
      Location:56135
      Ig_2; Immunoglobulin domain
      cl11960
      Location:160208
      Ig; Immunoglobulin domain
    4. NM_001395374.1NP_001382303.1  intercellular adhesion molecule 3 isoform 5

      Status: REVIEWED

      Source sequence(s)
      AC114271
      Conserved Domains (1) summary
      cl11960
      Location:225274
      Ig; Immunoglobulin domain
    5. NM_001395375.1NP_001382304.1  intercellular adhesion molecule 3 isoform 6

      Status: REVIEWED

      Source sequence(s)
      AC114271
      Related
      ENST00000706692.1
      Conserved Domains (1) summary
      cl11960
      Location:129178
      Ig; Immunoglobulin domain
    6. NM_001395376.1NP_001382305.1  intercellular adhesion molecule 3 isoform 7

      Status: REVIEWED

      Source sequence(s)
      AC114271
      UniProtKB/TrEMBL
      A0A9L9PXS1
      Related
      ENSP00000516505.1, ENST00000706691.1
      Conserved Domains (1) summary
      cl11960
      Location:84133
      Ig; Immunoglobulin domain
    7. NM_002162.5NP_002153.2  intercellular adhesion molecule 3 isoform 1 precursor

      See identical proteins and their annotated locations for NP_002153.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC114271, AK226023, BC040123, CR982084
      Consensus CDS
      CCDS12235.1
      UniProtKB/Swiss-Prot
      P32942, Q6PD68
      UniProtKB/TrEMBL
      B2R736
      Related
      ENSP00000160262.3, ENST00000160262.10
      Conserved Domains (4) summary
      pfam03921
      Location:32114
      ICAM_N; Intercellular adhesion molecule (ICAM), N-terminal domain
      pfam13895
      Location:317396
      Ig_2; Immunoglobulin domain
      cd00096
      Location:420476
      Ig; Immunoglobulin domain
      cl11960
      Location:117211
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      10333776..10339624 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      10459888..10465751 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)