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VCAM1 vascular cell adhesion molecule 1 [ Homo sapiens (human) ]

Gene ID: 7412, updated on 11-Apr-2024

Summary

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Official Symbol
VCAM1provided by HGNC
Official Full Name
vascular cell adhesion molecule 1provided by HGNC
Primary source
HGNC:HGNC:12663
See related
Ensembl:ENSG00000162692 MIM:192225; AllianceGenome:HGNC:12663
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
CD106; INCAM-100
Summary
This gene is a member of the Ig superfamily and encodes a cell surface sialoglycoprotein expressed by cytokine-activated endothelium. This type I membrane protein mediates leukocyte-endothelial cell adhesion and signal transduction, and may play a role in the development of artherosclerosis and rheumatoid arthritis. Three alternatively spliced transcripts encoding different isoforms have been described for this gene. [provided by RefSeq, Dec 2010]
Expression
Biased expression in spleen (RPKM 208.8), lymph node (RPKM 52.3) and 7 other tissues See more
Orthologs
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Genomic context

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Location:
1p21.2
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (100719742..100739045)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (100568139..100587438)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (101185298..101204601)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr1:101121642-101121817 Neighboring gene uncharacterized LOC124904231 Neighboring gene ribosomal protein L36a pseudogene 12 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:101177825-101179024 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1385 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1386 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:101301135-101302334 Neighboring gene Sharpr-MPRA regulatory region 5467 Neighboring gene MPRA-validated peak338 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:101359730-101360453 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:101360454-101361176 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1389 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1388 Neighboring gene exostosin like glycosyltransferase 2 Neighboring gene solute carrier family 30 member 7 Neighboring gene heterogeneous nuclear ribonucleoprotein A1 pseudogene 68

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. The role of VCAM-1 in diabetic retinopathy: A systematic review and meta-analysis. Xu Y, et al. J Diabetes Complications, 2023 Jan. PMID 36525905
  2. Ectopic Tumor VCAM-1 Expression in Cancer Metastasis and Therapy Resistance. VanHeyst KA, et al. Cells, 2022 Dec 4. PMID 36497180, Free PMC Article
  3. The Mechanism of Inflammatory Factors and Soluble Vascular Cell Adhesion Molecule-1 Regulated by Nuclear Transcription Factor NF-κB in Unstable Angina Pectoris. Su Q, et al. J Immunol Res, 2022. PMID 35942210, Free PMC Article
  4. Systematic Evaluation of Urinary VCAM1 as Novel Biomarker for Prognosis of Lupus Nephritis. Khamchun S, et al. Clin Lab, 2021 Oct 1. PMID 34655203
  5. VCAM1 expression in the myocardium is associated with the risk of heart failure and immune cell infiltration in myocardium. Wang T, et al. Sci Rep, 2021 Sep 30. PMID 34593936, Free PMC Article

See all (611) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Endothelial cell-derived extracellular vesicles expressing surface VCAM1 promote sepsis-related acute lung injury by targeting and reprogramming monocytes.
    Title: Endothelial cell-derived extracellular vesicles expressing surface VCAM1 promote sepsis-related acute lung injury by targeting and reprogramming monocytes.
  2. Associations of Circulating Vascular Cell Adhesion Molecule-1 and Intercellular Adhesion Molecule-1 With Long-Term Cardiac Function.
    Title: Associations of Circulating Vascular Cell Adhesion Molecule-1 and Intercellular Adhesion Molecule-1 With Long-Term Cardiac Function.
  3. Elevated VCAM-1 levels in peripheral blood are associated with brain structural and functional alterations in major depressive disorder.
    Title: Elevated VCAM-1 levels in peripheral blood are associated with brain structural and functional alterations in major depressive disorder.
  4. Human IL-32theta;A94V mutant attenuates monocyte-endothelial adhesion by suppressing the expression of ICAM-1 and VCAM-1 via binding to cell surface receptor integrin alphaVbeta3 and alphaVbeta6 in TNF-alpha-stimulated HUVECs.
    Title: Human IL-32θA94V mutant attenuates monocyte-endothelial adhesion by suppressing the expression of ICAM-1 and VCAM-1 via binding to cell surface receptor integrin αVβ3 and αVβ6 in TNF-α-stimulated HUVECs.
  5. EPSTI1 promotes monocyte adhesion to endothelial cells in vitro via upregulating VCAM-1 and ICAM-1 expression.
    Title: EPSTI1 promotes monocyte adhesion to endothelial cells in vitro via upregulating VCAM-1 and ICAM-1 expression.
  6. Increase of ALCAM and VCAM-1 in the plasma predicts the Alzheimer's disease.
    Title: Increase of ALCAM and VCAM-1 in the plasma predicts the Alzheimer's disease.
  7. The role of VCAM-1 in diabetic retinopathy: A systematic review and meta-analysis.
    Title: The role of VCAM-1 in diabetic retinopathy: A systematic review and meta-analysis.
  8. Ectopic Tumor VCAM-1 Expression in Cancer Metastasis and Therapy Resistance.
    Title: Ectopic Tumor VCAM-1 Expression in Cancer Metastasis and Therapy Resistance.
  9. The role of CCL2, CCL7, ICAM-1, and VCAM-1 in interaction of endothelial cells and natural killer cells.
    Title: The role of CCL2, CCL7, ICAM-1, and VCAM-1 in interaction of endothelial cells and natural killer cells.
  10. VCAM-1 and GFPT-2: Predictive markers of osteoblast differentiation in human dental pulp stem cells.
    Title: VCAM-1 and GFPT-2: Predictive markers of osteoblast differentiation in human dental pulp stem cells.
Submit: New GeneRIF Correction See all GeneRIFs (483)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
HIV-1/HCV co-infection correlates with elevated ICAM1 and VCAM1 serum levels, which relates to disease progression PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 activates human brain micro vascular endothelial cells (HBMEC) via CD4 in upregulating ICAM-1 and VCAM-1 expression, IL-6 secretion and increased monocyte transmigration across monolayers PubMed
Tat tat HIV-1 Tat upregulates VCAM1 protein expression in hCMEC/D3 cells PubMed
tat HIV-1 Tat upregulates VCAM1 mRNA and protein expression in CRT-MG human astroglioma cells PubMed
tat HIV-1 Tat upregulates the expression of VCAM-1 in endothelial cells and astrocytes, an effect that is in part regulated by NF-kappa B and may be associated with AIDS-related Kaposi's sarcoma PubMed
tat Cell-permeable SOD inhibits the activation of MAP kinases including ERK, JNK and p38 and the upregulation of ICAM-1 and VCAM-1 by HIV-1 Tat PubMed
tat HIV-1 Tat-induced upregulation of VCAM-1/ICAM-1 is blocked by NADPH oxidase inhibitor PubMed
Vpu vpu HIV-1 Vpu upregulates CD40 expression, which enhances efficient expression of VCAM-1 in endothelial cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC99561, DKFZp779G2333

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables cell adhesion mediator activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables cell adhesion molecule binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables cell adhesion molecule binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables integrin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables integrin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables integrin binding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables primary amine oxidase activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in B cell differentiation IC
Inferred by Curator
more info
 PubMed 
involved_in amine metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in calcium-mediated signaling using intracellular calcium source IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in cardiac neuron differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell adhesion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in cell chemotaxis IEA
Inferred from Electronic Annotation
more info
  
involved_in cell-cell adhesion in response to extracellular stimulus IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in cell-matrix adhesion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in cellular response to amyloid-beta IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in cellular response to tumor necrosis factor IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to vascular endothelial growth factor stimulus IEA
Inferred from Electronic Annotation
more info
  
involved_in chronic inflammatory response IEA
Inferred from Electronic Annotation
more info
  
involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in heterotypic cell-cell adhesion IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in inflammatory response IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in innervation IEA
Inferred from Electronic Annotation
more info
  
involved_in leukocyte cell-cell adhesion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in leukocyte tethering or rolling IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in leukocyte tethering or rolling IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in membrane to membrane docking IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in positive regulation of T cell proliferation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in response to ethanol IEA
Inferred from Electronic Annotation
more info
  
involved_in response to hypoxia IEA
Inferred from Electronic Annotation
more info
  
involved_in response to ionizing radiation IEA
Inferred from Electronic Annotation
more info
  
involved_in response to lipopolysaccharide IEA
Inferred from Electronic Annotation
more info
  
involved_in response to nicotine IEA
Inferred from Electronic Annotation
more info
  
involved_in response to nutrient IEA
Inferred from Electronic Annotation
more info
  
involved_in response to zinc ion IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
 PubMed 
part_of alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in apical part of cell IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
located_in early endosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 PubMed 
located_in external side of plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in extracellular exosome HDA PubMed 
located_in extracellular space IDA
Inferred from Direct Assay
more info
 PubMed 
located_in filopodium IDA
Inferred from Direct Assay
more info
 PubMed 
located_in microvillus IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in plasma membrane IC
Inferred by Curator
more info
 PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
  
located_in podosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in sarcolemma IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
vascular cell adhesion protein 1
Names
CD106 antigen

NCBI Reference Sequences (RefSeq)

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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.

Genomic

  1. NG_023034.2 RefSeqGene

    Range
    5002..24305
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001078.4 → NP_001069.1  vascular cell adhesion protein 1 isoform a precursor

    See identical proteins and their annotated locations for NP_001069.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the predominant, full-length isoform (a).
    Source sequence(s)
    BC017276, BF791565, DB096825
    Consensus CDS
    CCDS773.1
    UniProtKB/Swiss-Prot
    A8K6R7, B4DKS4, E9PDD1, P19320, Q6NUP8
    UniProtKB/TrEMBL
    Q53FL7
    Related
    ENSP00000294728.2, ENST00000294728.7
    Conserved Domains (5) summary
    cd07689
    Location:116 → 214
    Ig_VCAM-1; Immunoglobulin (Ig)-like domain of vascular endothelial cell adhesion molecule-1 (VCAM-1, CD106) and intercellular cell adhesion molecule-1 (ICAM-1, CD54) and similar domains
    smart00408
    Location:238 → 298
    IGc2; Immunoglobulin C-2 Type
    smart00409
    Location:33 → 112
    IG; Immunoglobulin
    smart00410
    Location:519 → 596
    IG_like; Immunoglobulin like
    cl28434
    Location:313 → 399
    I-set; Immunoglobulin I-set domain

  2. NM_001199834.2 → NP_001186763.1  vascular cell adhesion protein 1 isoform c precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an in-frame segment in the CDS compared to transcript variant 1. The resulting isoform (c) lacks an internal segment compared to isoform a.
    Source sequence(s)
    AK296692, BC017276, BF968655
    Consensus CDS
    CCDS55617.1
    UniProtKB/TrEMBL
    Q53FL7
    Related
    ENSP00000359137.3, ENST00000370119.8
    Conserved Domains (4) summary
    cd07689
    Location:54 → 152
    Ig2_VCAM-1; Second immunoglobulin (Ig)-like domain of vascular endothelial cell adhesion molecule-1 (VCAM-1, CD106) and intercellular cell adhesion molecule-1 (ICAM-1, CD54) and similar proteins
    smart00408
    Location:176 → 236
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:259 → 337
    IG_like; Immunoglobulin like
    pfam13927
    Location:546 → 610
    Ig_3; Immunoglobulin domain

  3. NM_080682.3 → NP_542413.1  vascular cell adhesion protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_542413.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the CDS compared to transcript variant 1. The resulting isoform (b) lacks an internal segment compared to isoform a.
    Source sequence(s)
    BC017276, BF791565, DB096825, M30257
    Consensus CDS
    CCDS774.1
    UniProtKB/TrEMBL
    Q53FL7
    Related
    ENSP00000304611.2, ENST00000347652.6
    Conserved Domains (5) summary
    cd07689
    Location:116 → 214
    Ig2_VCAM-1; Second immunoglobulin (Ig)-like domain of vascular endothelial cell adhesion molecule-1 (VCAM-1, CD106) and intercellular cell adhesion molecule-1 (ICAM-1, CD54) and similar proteins
    smart00408
    Location:238 → 298
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:33 → 112
    IG_like; Immunoglobulin like
    pfam00047
    Location:35 → 97
    ig; Immunoglobulin domain
    pfam13927
    Location:516 → 580
    Ig_3; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    100719742..100739045
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    100568139..100587438
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P19320.1 GenPept UniProtKB/Swiss-Prot:P19320

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
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