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Gene name

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In atlas

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Reliability

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Method

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Method

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Method

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Searches

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Specificity

Cell line

Specificity

Cancer

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Detectable

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Detectable

Cancer

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VCAM1
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    TISSUE

  • CELL

  • PATHOLOGY

TISSUE ATLAS PRIMARY DATA

GENE/PROTEIN

Antibody validation


Dictionary


Tissue proteome

GENERAL INFORMATION

Gene name

VCAM1

Gene description

Vascular cell adhesion molecule 1

Protein class

Cancer-related genes
CD markers
Plasma proteins
Predicted membrane proteins

Predicted localization

Membrane

Number of transcripts

4
SHOW MORE

HUMAN PROTEIN ATLAS INFORMATION

RNA tissue category

HPA:Tissue enriched (spleen)
GTEx:Tissue enhanced (spleen)
FANTOM5:Expressed in all

Protein evidence

Evidence at protein level

Protein expression

Cytoplasmic expression in subsets of immune cells and vascular endothelium.

DATA RELIABILITY

Data reliability
description

Antibody staining consistent with RNA expression data.

Reliability score

Supported based on 2 antibodies.
HPA034796 , CAB000154
SHOW MORE

RNA AND PROTEIN EXPRESSION SUMMARY

RNA expression (TPM) Protein expression (score)
Brain
Cerebral cortex
Hippocampus
N/A
Caudate
N/A
Cerebellum
N/A
Endocrine tissues
Thyroid gland
Parathyroid gland
Adrenal gland
Bone marrow & immune system
Appendix
Bone marrow
Lymph node
Tonsil
Spleen
Muscle tissues
Heart muscle
Skeletal muscle
Smooth muscle
Lung
Nasopharynx
N/A
Bronchus
N/A
Lung
Liver & gallbladder
Liver
Gallbladder
Pancreas
Pancreas
Gastrointestinal tract
Oral mucosa
N/A
Salivary gland
Esophagus
Stomach
Duodenum
Small intestine
Colon
Rectum
Kidney & urinary bladder
Kidney
Urinary bladder
Male tissues
Testis
Epididymis
Prostate
Seminal vesicle
Female tissues
Breast
Vagina
N/A
Cervix, uterine
Endometrium
Fallopian tube
Ovary
Placenta
Adipose & soft tissue
Adipose tissue
Soft tissue
N/A
Skin
Skin
Cerebral cortex

Lymph node

Spleen

Liver

Colon

Kidney

Testis

PROTEIN EXPRESSION OVERVIEW

Organ
Expression
Alphabetical
Cerebral cortexHippocampusCaudateCerebellumThyroid glandParathyroid glandAdrenal glandAppendixBone marrowLymph nodeTonsilSpleenHeart muscleSkeletal muscleSmooth muscleNasopharynxBronchusLungLiverGallbladderPancreasOral mucosaSalivary glandEsophagusStomachDuodenumSmall intestineColonRectumKidneyUrinary bladderTestisEpididymisProstateSeminal vesicleBreastVaginaCervix, uterineEndometriumFallopian tubeOvaryPlacentaAdipose tissueSoft tissueSkinNotdetectedLowMediumHighSCORE

RNA EXPRESSION OVERVIEW

HPA dataset
Organ
Expression
Alphabetical
RNA tissue category: Tissue enriched (spleen)
Cerebral cortexThyroid glandParathyroid glandAdrenal glandAppendixBone marrowLymph nodeTonsilSpleenHeart muscleSkeletal muscleSmooth muscleLungLiverGallbladderPancreasSalivary glandEsophagusStomachDuodenumSmall intestineColonRectumKidneyUrinary bladderTestisEpididymisProstateSeminal vesicleBreastCervix, uterineEndometriumFallopian tubeOvaryPlacentaAdipose tissueSkin0100200300400500600TPM
GTEx dataset
Organ
Expression
Alphabetical
RNA tissue category: Tissue enhanced (spleen)
HypothalamusPituitary glandCerebral cortexHippocampusCaudateCerebellumThyroid glandAdrenal glandSpleenHeart muscleSkeletal muscleLungLiverPancreasSalivary glandEsophagusStomachSmall intestineColonKidneyUrinary bladderTestisProstateBreastVaginaCervix, uterineEndometriumFallopian tubeOvaryAdipose tissueSkin020406080100120140RPKM
FANTOM5 dataset
Organ
Expression
Alphabetical
RNA tissue category: Expressed in all
Pituitary glandBrainHippocampusCaudateCerebellumThyroid glandAppendixLymph nodeTonsilSpleenHeart muscleSkeletal muscleSmooth muscleLungLiverGallbladderPancreasSalivary glandEsophagusSmall intestineColonKidneyUrinary bladderTestisEpididymisProstateSeminal vesicleBreastVaginaCervix, uterineEndometriumOvaryPlacentaAdipose tissueRetina0100200300400500600Tags Per Million

GENE INFORMATION

Gene name

VCAM1 (HGNC Symbol)

Synonyms

CD106

Description

Vascular cell adhesion molecule 1 (HGNC Symbol)

Entrez gene 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]

Chromosome

1

Cytoband

p21.2

Chromosome location (bp)

100719742 - 100739045

Protein evidence

Evidence at protein level (all genes)

Ensembl

ENSG00000162692 (version 83.38)

Entrez gene

7412

UniProt

P19320 (UniProt - Evidence at protein level)

neXtProt

NX_P19320

Antibodypedia

VCAM1 antibodies

PROTEIN BROWSER

VCAM1-001
VCAM1-002
VCAM1-003
VCAM1-004

PROTEIN INFORMATION

Splice variant

UniProt

Protein class

Gene ontology

Length & mass

Signal peptide
(predicted)

Transmembrane regions
(predicted)

VCAM1-001
ENSP00000294728
ENST00000294728
P19320 [Direct mapping]
Vascular cell adhesion protein 1
Show all
CD markers
Predicted membrane proteins
   Prediction method-based
   Membrane proteins predicted by MDM
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
   # TM segments-based
   1TM proteins predicted by MDM
Plasma proteins
Cancer-related genes
   Candidate cancer biomarkers
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0001666 [response to hypoxia]
GO:0002102 [podosome]
GO:0002526 [acute inflammatory response]
GO:0002544 [chronic inflammatory response]
GO:0005178 [integrin binding]
GO:0005515 [protein binding]
GO:0005615 [extracellular space]
GO:0005769 [early endosome]
GO:0005783 [endoplasmic reticulum]
GO:0005794 [Golgi apparatus]
GO:0005886 [plasma membrane]
GO:0005902 [microvillus]
GO:0007155 [cell adhesion]
GO:0007157 [heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules]
GO:0007159 [leukocyte cell-cell adhesion]
GO:0007160 [cell-matrix adhesion]
GO:0007507 [heart development]
GO:0007568 [aging]
GO:0007584 [response to nutrient]
GO:0008131 [primary amine oxidase activity]
GO:0009308 [amine metabolic process]
GO:0009897 [external side of plasma membrane]
GO:0009986 [cell surface]
GO:0010043 [response to zinc ion]
GO:0010212 [response to ionizing radiation]
GO:0016021 [integral component of membrane]
GO:0016032 [viral process]
GO:0019221 [cytokine-mediated signaling pathway]
GO:0022614 [membrane to membrane docking]
GO:0030175 [filopodium]
GO:0030183 [B cell differentiation]
GO:0030198 [extracellular matrix organization]
GO:0032496 [response to lipopolysaccharide]
GO:0035094 [response to nicotine]
GO:0035584 [calcium-mediated signaling using intracellular calcium source]
GO:0035924 [cellular response to vascular endothelial growth factor stimulus]
GO:0042102 [positive regulation of T cell proliferation]
GO:0042383 [sarcolemma]
GO:0045177 [apical part of cell]
GO:0045471 [response to ethanol]
GO:0050776 [regulation of immune response]
GO:0050839 [cell adhesion molecule binding]
GO:0050901 [leukocyte tethering or rolling]
GO:0055114 [oxidation-reduction process]
GO:0060326 [cell chemotaxis]
GO:0060333 [interferon-gamma-mediated signaling pathway]
GO:0060669 [embryonic placenta morphogenesis]
GO:0060710 [chorio-allantoic fusion]
GO:0070062 [extracellular exosome]
GO:0071065 [alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex]
GO:0071333 [cellular response to glucose stimulus]
GO:0071356 [cellular response to tumor necrosis factor]
GO:0071944 [cell periphery]
Show all
739 aa
81.3 kDa
Yes 1
VCAM1-002
ENSP00000304611
ENST00000347652
P19320 [Direct mapping]
Vascular cell adhesion protein 1
Show all
CD markers
Predicted membrane proteins
   Prediction method-based
   Membrane proteins predicted by MDM
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
   # TM segments-based
   1TM proteins predicted by MDM
Plasma proteins
Cancer-related genes
   Candidate cancer biomarkers
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0002102 [podosome]
GO:0005178 [integrin binding]
GO:0005515 [protein binding]
GO:0005615 [extracellular space]
GO:0005769 [early endosome]
GO:0005783 [endoplasmic reticulum]
GO:0005794 [Golgi apparatus]
GO:0005886 [plasma membrane]
GO:0005902 [microvillus]
GO:0007155 [cell adhesion]
GO:0007157 [heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules]
GO:0007159 [leukocyte cell-cell adhesion]
GO:0007160 [cell-matrix adhesion]
GO:0008131 [primary amine oxidase activity]
GO:0009308 [amine metabolic process]
GO:0009897 [external side of plasma membrane]
GO:0009986 [cell surface]
GO:0016021 [integral component of membrane]
GO:0016032 [viral process]
GO:0019221 [cytokine-mediated signaling pathway]
GO:0022614 [membrane to membrane docking]
GO:0030175 [filopodium]
GO:0030183 [B cell differentiation]
GO:0030198 [extracellular matrix organization]
GO:0035584 [calcium-mediated signaling using intracellular calcium source]
GO:0042102 [positive regulation of T cell proliferation]
GO:0045177 [apical part of cell]
GO:0050776 [regulation of immune response]
GO:0050839 [cell adhesion molecule binding]
GO:0050901 [leukocyte tethering or rolling]
GO:0055114 [oxidation-reduction process]
GO:0060333 [interferon-gamma-mediated signaling pathway]
GO:0070062 [extracellular exosome]
GO:0071065 [alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex]
Show all
647 aa
71.3 kDa
Yes 1
VCAM1-003
ENSP00000359133
ENST00000370115
E9PDD2 [Direct mapping]
Vascular cell adhesion protein 1
Show all
Predicted membrane proteins
   Prediction method-based
   Membrane proteins predicted by MDM
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
   # TM segments-based
   1TM proteins predicted by MDM
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005515 [protein binding]
GO:0007155 [cell adhesion]
GO:0016021 [integral component of membrane]
GO:0016337 [single organismal cell-cell adhesion]
Show all
540 aa
59.2 kDa
Yes 1
VCAM1-004
ENSP00000359137
ENST00000370119
P19320 [Direct mapping]
Vascular cell adhesion protein 1
Show all
CD markers
Predicted membrane proteins
   Prediction method-based
   Membrane proteins predicted by MDM
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
   # TM segments-based
   1TM proteins predicted by MDM
Plasma proteins
Cancer-related genes
   Candidate cancer biomarkers
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0002102 [podosome]
GO:0005178 [integrin binding]
GO:0005515 [protein binding]
GO:0005615 [extracellular space]
GO:0005769 [early endosome]
GO:0005783 [endoplasmic reticulum]
GO:0005794 [Golgi apparatus]
GO:0005886 [plasma membrane]
GO:0005902 [microvillus]
GO:0007155 [cell adhesion]
GO:0007157 [heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules]
GO:0007159 [leukocyte cell-cell adhesion]
GO:0007160 [cell-matrix adhesion]
GO:0008131 [primary amine oxidase activity]
GO:0009308 [amine metabolic process]
GO:0009897 [external side of plasma membrane]
GO:0009986 [cell surface]
GO:0016021 [integral component of membrane]
GO:0016032 [viral process]
GO:0019221 [cytokine-mediated signaling pathway]
GO:0022614 [membrane to membrane docking]
GO:0030175 [filopodium]
GO:0030183 [B cell differentiation]
GO:0030198 [extracellular matrix organization]
GO:0035584 [calcium-mediated signaling using intracellular calcium source]
GO:0042102 [positive regulation of T cell proliferation]
GO:0045177 [apical part of cell]
GO:0050776 [regulation of immune response]
GO:0050839 [cell adhesion molecule binding]
GO:0050901 [leukocyte tethering or rolling]
GO:0055114 [oxidation-reduction process]
GO:0060333 [interferon-gamma-mediated signaling pathway]
GO:0070062 [extracellular exosome]
GO:0071065 [alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex]
Show all
677 aa
74.3 kDa
Yes 1

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