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Vcam1 vascular cell adhesion molecule 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 25361, updated on 30-Sep-2018

Summary

Official Symbol
Vcam1provided by RGD
Official Full Name
vascular cell adhesion molecule 1provided by RGD
Primary source
RGD:3952
See related
Ensembl:ENSRNOG00000014333
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
VCAM1B
Summary
binds integrin very late antigen (VLA4); plays a role in cell adhesion [RGD, Feb 2006]
Expression
Biased expression in Spleen (RPKM 1735.8), Thymus (RPKM 230.5) and 4 other tissues See more
Orthologs

Genomic context

See Vcam1 in Genome Data Viewer
Location:
2q41
Exon count:
9
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (219071193..219090931, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 2 NC_005101.3 (237158192..237177779, complement)

Chromosome 2 - NC_005101.4Genomic Context describing neighboring genes Neighboring gene similar to 60S ribosomal protein L13 Neighboring gene ribosomal protein S27a, pseudogene 24 Neighboring gene vascular cell adhesion protein 1-like Neighboring gene G-protein coupled receptor 88

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • AGE-RAGE signaling pathway in diabetic complications, organism-specific biosystem (from KEGG)
    AGE-RAGE signaling pathway in diabetic complications, organism-specific biosystemAdvanced glycation end products (AGEs) are a complex group of compounds produced through the non-enzymatic glycation and oxidation of proteins, lipids and nucleic acids, primarily due to aging and un...
  • AGE-RAGE signaling pathway in diabetic complications, conserved biosystem (from KEGG)
    AGE-RAGE signaling pathway in diabetic complications, conserved biosystemAdvanced glycation end products (AGEs) are a complex group of compounds produced through the non-enzymatic glycation and oxidation of proteins, lipids and nucleic acids, primarily due to aging and un...
  • Adaptive Immune System, organism-specific biosystem (from REACTOME)
    Adaptive Immune System, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • African trypanosomiasis, organism-specific biosystem (from KEGG)
    African trypanosomiasis, organism-specific biosystemTrypanosoma brucei, the parasite responsible for African trypanosomiasis (sleeping sickness), are spread by the tsetse fly in sub-Saharan Africa. The parasites are able to pass through the blood-brai...
  • African trypanosomiasis, conserved biosystem (from KEGG)
    African trypanosomiasis, conserved biosystemTrypanosoma brucei, the parasite responsible for African trypanosomiasis (sleeping sickness), are spread by the tsetse fly in sub-Saharan Africa. The parasites are able to pass through the blood-brai...
  • 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...
  • Extracellular matrix organization, organism-specific biosystem (from REACTOME)
    Extracellular matrix organization, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Fluid shear stress and atherosclerosis, organism-specific biosystem (from KEGG)
    Fluid shear stress and atherosclerosis, organism-specific biosystemShear stress represents the frictional force that the flow of blood exerts at the endothelial surface of the vessel wall and plays a central role in vascular biology and contributes to the progress o...
  • Fluid shear stress and atherosclerosis, conserved biosystem (from KEGG)
    Fluid shear stress and atherosclerosis, conserved biosystemShear stress represents the frictional force that the flow of blood exerts at the endothelial surface of the vessel wall and plays a central role in vascular biology and contributes to the progress o...
  • HTLV-I infection, organism-specific biosystem (from KEGG)
    HTLV-I infection, organism-specific biosystemHuman T-lymphotropic virus type 1 (HTLV-1) is a pathogenic retrovirus that is associated with adult T-cell leukemia/lymphoma (ATL). It is also strongly implicated in non-neoplastic chronic inflammato...
  • HTLV-I infection, conserved biosystem (from KEGG)
    HTLV-I infection, conserved biosystemHuman T-lymphotropic virus type 1 (HTLV-1) is a pathogenic retrovirus that is associated with adult T-cell leukemia/lymphoma (ATL). It is also strongly implicated in non-neoplastic chronic inflammato...
  • Immune System, organism-specific biosystem (from REACTOME)
    Immune System, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell, organism-specific biosystem (from REACTOME)
    Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Integrin cell surface interactions, organism-specific biosystem (from REACTOME)
    Integrin cell surface interactions, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Leukocyte transendothelial migration, organism-specific biosystem (from KEGG)
    Leukocyte transendothelial migration, organism-specific biosystemLeukocyte migaration from the blood into tissues is vital for immune surveillance and inflammation. During this diapedesis of leukocytes, the leukocytes bind to endothelial cell adhesion molecules (C...
  • Leukocyte transendothelial migration, conserved biosystem (from KEGG)
    Leukocyte transendothelial migration, conserved biosystemLeukocyte migaration from the blood into tissues is vital for immune surveillance and inflammation. During this diapedesis of leukocytes, the leukocytes bind to endothelial cell adhesion molecules (C...
  • Malaria, organism-specific biosystem (from KEGG)
    Malaria, organism-specific biosystemPlasmodium protozoa are parasites that account for malaria infection. Sporozoite forms of the parasite are injected by mosquito bites under the skin and are carried to the liver where they develop in...
  • Malaria, conserved biosystem (from KEGG)
    Malaria, conserved biosystemPlasmodium protozoa are parasites that account for malaria infection. Sporozoite forms of the parasite are injected by mosquito bites under the skin and are carried to the liver where they develop in...
  • NF-kappa B signaling pathway, organism-specific biosystem (from KEGG)
    NF-kappa B signaling pathway, organism-specific biosystemNuclear factor-kappa B (NF-kappa B) is the generic name of a family of transcription factors that function as dimers and regulate genes involved in immunity, inflammation and cell survival. There are...
  • NF-kappa B signaling pathway, conserved biosystem (from KEGG)
    NF-kappa B signaling pathway, conserved biosystemNuclear factor-kappa B (NF-kappa B) is the generic name of a family of transcription factors that function as dimers and regulate genes involved in immunity, inflammation and cell survival. There are...
  • TNF signaling pathway, organism-specific biosystem (from KEGG)
    TNF signaling pathway, organism-specific biosystemTumor necrosis factor (TNF), as a critical cytokine, can induce a wide range of intracellular signal pathways including apoptosis and cell survival as well as inflammation and immunity. Activated TNF...
  • TNF signaling pathway, conserved biosystem (from KEGG)
    TNF signaling pathway, conserved biosystemTumor necrosis factor (TNF), as a critical cytokine, can induce a wide range of intracellular signal pathways including apoptosis and cell survival as well as inflammation and immunity. Activated TNF...

General gene information

Markers

Homology

Clone Names

  • MGC108734

Gene Ontology Provided by RGD

Function Evidence Code Pubs
cell adhesion molecule binding ISO
Inferred from Sequence Orthology
more info
 
integrin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integrin binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
integrin binding ISO
Inferred from Sequence Orthology
more info
 
primary amine oxidase activity IEA
Inferred from Electronic Annotation
more info
 
primary amine oxidase activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acute inflammatory response IEP
Inferred from Expression Pattern
more info
PubMed 
aging IEP
Inferred from Expression Pattern
more info
PubMed 
amine metabolic process IEA
Inferred from Electronic Annotation
more info
 
amine metabolic process ISO
Inferred from Sequence Orthology
more info
 
calcium-mediated signaling using intracellular calcium source IEA
Inferred from Electronic Annotation
more info
 
calcium-mediated signaling using intracellular calcium source ISO
Inferred from Sequence Orthology
more info
 
cardiac neuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell adhesion ISO
Inferred from Sequence Orthology
more info
 
cell chemotaxis IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell-cell adhesion IEA
Inferred from Electronic Annotation
more info
 
cell-matrix adhesion IEA
Inferred from Electronic Annotation
more info
 
cell-matrix adhesion ISO
Inferred from Sequence Orthology
more info
 
cellular response to glucose stimulus ISO
Inferred from Sequence Orthology
more info
 
cellular response to tumor necrosis factor IEP
Inferred from Expression Pattern
more info
PubMed 
cellular response to vascular endothelial growth factor stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
chorio-allantoic fusion ISO
Inferred from Sequence Orthology
more info
 
chronic inflammatory response IEP
Inferred from Expression Pattern
more info
PubMed 
embryonic placenta morphogenesis ISO
Inferred from Sequence Orthology
more info
 
heart development ISO
Inferred from Sequence Orthology
more info
 
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules IEA
Inferred from Electronic Annotation
more info
 
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules ISO
Inferred from Sequence Orthology
more info
 
innervation IMP
Inferred from Mutant Phenotype
more info
PubMed 
leukocyte cell-cell adhesion ISO
Inferred from Sequence Orthology
more info
 
leukocyte tethering or rolling IEA
Inferred from Electronic Annotation
more info
 
leukocyte tethering or rolling ISO
Inferred from Sequence Orthology
more info
 
membrane to membrane docking IEA
Inferred from Electronic Annotation
more info
 
membrane to membrane docking ISO
Inferred from Sequence Orthology
more info
 
oxidation-reduction process IEA
Inferred from Electronic Annotation
more info
 
positive regulation of T cell proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of T cell proliferation ISO
Inferred from Sequence Orthology
more info
 
response to ethanol IEP
Inferred from Expression Pattern
more info
PubMed 
response to hypoxia IEP
Inferred from Expression Pattern
more info
PubMed 
response to ionizing radiation IEP
Inferred from Expression Pattern
more info
PubMed 
response to lipopolysaccharide IEP
Inferred from Expression Pattern
more info
PubMed 
response to nicotine IEP
Inferred from Expression Pattern
more info
PubMed 
response to nutrient IEP
Inferred from Expression Pattern
more info
PubMed 
response to zinc ion IEP
Inferred from Expression Pattern
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex IEA
Inferred from Electronic Annotation
more info
 
alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex ISO
Inferred from Sequence Orthology
more info
 
apical part of cell IEA
Inferred from Electronic Annotation
more info
 
apical part of cell ISO
Inferred from Sequence Orthology
more info
 
cell periphery ISO
Inferred from Sequence Orthology
more info
 
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
cell surface ISO
Inferred from Sequence Orthology
more info
 
early endosome IEA
Inferred from Electronic Annotation
more info
 
early endosome ISO
Inferred from Sequence Orthology
more info
 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 
external side of plasma membrane IEA
Inferred from Electronic Annotation
more info
 
external side of plasma membrane ISO
Inferred from Sequence Orthology
more info
 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
extracellular space ISO
Inferred from Sequence Orthology
more info
 
filopodium IEA
Inferred from Electronic Annotation
more info
 
filopodium ISO
Inferred from Sequence Orthology
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
microvillus IEA
Inferred from Electronic Annotation
more info
 
microvillus ISO
Inferred from Sequence Orthology
more info
 
podosome IEA
Inferred from Electronic Annotation
more info
 
podosome ISO
Inferred from Sequence Orthology
more info
 
sarcolemma IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
vascular cell adhesion protein 1
Names
V-CAM 1
VCAM-1

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.

mRNA and Protein(s)

  1. NM_012889.1NP_037021.1  vascular cell adhesion protein 1 precursor

    See identical proteins and their annotated locations for NP_037021.1

    Status: PROVISIONAL

    Source sequence(s)
    M84488
    UniProtKB/Swiss-Prot
    P29534
    Related
    ENSRNOP00000019377.3, ENSRNOT00000019377.5
    Conserved Domains (6) summary
    cd07689
    Location:404502
    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:238298
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:321400
    IG_like; Immunoglobulin like
    pfam13895
    Location:514596
    Ig_2; Immunoglobulin domain
    pfam13927
    Location:604672
    Ig_3; Immunoglobulin domain
    cl11960
    Location:3298
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005101.4 Reference Rnor_6.0 Primary Assembly

    Range
    219071193..219090931 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000070.1 Alternate Rn_Celera

    Range
    196537457..196557044 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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