Human Gene ICAM1 (ENST00000264832.8_4) from GENCODE V47lift37
  Description: intercellular adhesion molecule 1 (from RefSeq NM_000201.3)
Gencode Transcript: ENST00000264832.8_4
Gencode Gene: ENSG00000090339.9_7
Transcript (Including UTRs)
   Position: hg19 chr19:10,381,796-10,397,291 Size: 15,496 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr19:10,381,836-10,395,963 Size: 14,128 Coding Exon Count: 7 

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Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:10,381,796-10,397,291)mRNA (may differ from genome)Protein (532 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ICAM1_HUMAN
DESCRIPTION: RecName: Full=Intercellular adhesion molecule 1; Short=ICAM-1; AltName: Full=Major group rhinovirus receptor; AltName: CD_antigen=CD54; Flags: Precursor;
FUNCTION: ICAM proteins are ligands for the leukocyte adhesion protein LFA-1 (integrin alpha-L/beta-2). During leukocyte trans- endothelial migration, ICAM1 engagement promotes the assembly of endothelial apical cups through ARHGEF26/SGEF and RHOG activation. In case of rhinovirus infection acts as a cellular receptor for the virus.
SUBUNIT: Homodimer (Probable). Interacts with human herpesvirus 8 MIR2 protein (Probable). Interacts with MUC1 and promotes cell aggregation in epithelial cells. Interacts with ARHGEF26/SGEF. Binds to coxsackievirus A21 capsid proteins and acts as a receptor for this virus.
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein.
PTM: Monoubiquitinated, which is promoted by MARCH9 and leads to endocytosis.
POLYMORPHISM: Homozygotes with ICAM1-Kalifi Met-56 seem to have an increased risk for cerebral malaria [MIM:611162].
SIMILARITY: Belongs to the immunoglobulin superfamily. ICAM family.
SIMILARITY: Contains 5 Ig-like C2-type (immunoglobulin-like) domains.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org//Genes/ICAM1ID40909ch19p13.html";
WEB RESOURCE: Name=Wikipedia; Note=Intercellular adhesion molecule entry; URL="http://en.wikipedia.org/wiki/Intercellular_adhesion_molecule";
WEB RESOURCE: Name=SeattleSNPs; URL="http://pga.gs.washington.edu/data/icam1/";
WEB RESOURCE: Name=Virus Particle ExploreR db; Note=Icosahedral capsid structure; URL="http://viperdb.scripps.edu/info_page.php?VDB=1z7z";
WEB RESOURCE: Name=Functional Glycomics Gateway - Glycan Binding; Note=ICAM-1; URL="http://www.functionalglycomics.org/glycomics/GBPServlet?&operationType=view&cbpId=cbp_hum_Itlect_261";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: ICAM1
Diseases sorted by gene-association score: malaria* (442), leukostasis (31), erythema multiforme (19), lethal midline granuloma (18), oral lichen planus (17), alopecia areata (17), arthus reaction (16), mooren's ulcer (16), myocarditis (15), arteriosclerosis (15), plasmodium falciparum malaria (15), lichen planus (15), arteriosclerosis obliterans (15), alcoholic hepatitis (13), crescentic glomerulonephritis (13), rheumatoid vasculitis (13), allergic contact dermatitis (13), anoxia (13), atherosclerosis (13), pulmonary sarcoidosis (11), venous insufficiency (11), common cold (11), plummer's disease (11), dengue disease (11), toxicodendron dermatitis (11), limbal stem cell deficiency (10), herpes simplex virus keratitis (10), amebiasis (10), pleurisy (10), lymphocytic vasculitis (10), chronic venous insufficiency (10), diabetic macular edema (10), heterophyiasis (10), alopecia universalis (10), allergic rhinitis (9), vasculitis (9), rapidly progressive glomerulonephritis (9), pollen allergy (9), relapsing-remitting multiple sclerosis (9), kaposi sarcoma (9), vernal keratoconjunctivitis (9), graves' disease (9), chronic eosinophilic pneumonia (8), henoch-schoenlein purpura (8), spastic paraplegia 41, autosomal dominant (8), dermatomyositis (8), contact dermatitis (8), allergic conjunctivitis (8), endophthalmitis (8), polymyositis (8), conjunctivitis (8), lepromatous leprosy (8), post-thrombotic syndrome (8), pulmonary edema (7), uveitis (7), keratoconjunctivitis (7), hashimoto thyroiditis (7), autoimmune enteropathy (7), microvascular complications of diabetes 5 (7), synovitis (7), plasmodium vivax malaria (7), cutaneous lupus erythematosus (7), rhinitis (7), lymphadenitis (7), cholesteatoma of middle ear (7), cytomegalovirus infection (7), actinic prurigo (7), immune-complex glomerulonephritis (7), primary progressive multiple sclerosis (7), membranoproliferative glomerulonephritis (6), lichen disease (6), obstructive sleep apnea (6), mastitis (6), coronary stenosis (6), sleep apnea (6), nodular goiter (6), diversion colitis (6), peritonitis (6), autoinflammation, lipodystrophy, and dermatosis syndrome (6), carotid stenosis (6), haemophilus influenzae (6), poliomyelitis (6), rheumatoid arthritis (5), microvascular complications of diabetes 1 (5), demyelinating disease (5), idiopathic interstitial pneumonia (5), cortical thymoma (5), phototoxic dermatitis (5), macular retinal edema (5), acute proliferative glomerulonephritis (5), hymenolepiasis (5), sarcoidosis 1 (5), hypersensitivity reaction type iii disease (5), retinal vascular disease (5), bardet-biedl syndrome 15 (4), subendocardial myocardial infarction (4), colon carcinoma in situ (4), shwartzman phenomenon (4), glomerulonephritis (4), inflammatory bowel disease 6 (4), vaccinia (4), critical illness polyneuropathy (4), vertebrobasilar insufficiency (3), systemic lupus erythematosus (3), ischemia (3), trypanosomiasis (3), artery disease (2), cerebrovascular disease (2), asthma (2), obesity (2), chronic kidney failure (2), multiple sclerosis, disease progression, modifier of (2), colorectal cancer (2), renal cell carcinoma (2), parasitic protozoa infectious disease (2), nasal cavity disease (1), nose disease (1), autoimmune disease of endocrine system (1), myocardial infarction (1), respiratory system disease (1), macular degeneration, age-related, 1 (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 105.10 RPKM in Lung
Total median expression: 580.06 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -8.1040-0.203 Picture PostScript Text
3' UTR -440.501328-0.332 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR003988 - ICAM
IPR013768 - ICAM_N
IPR003987 - ICAM_VCAM_N
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub

Pfam Domains:
PF03921 - Intercellular adhesion molecule (ICAM), N-terminal domain

SCOP Domains:
48726 - Immunoglobulin

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1D3E - EM 1D3I - EM 1D3L - X-ray 1IAM - X-ray MuPIT 1IC1 - X-ray MuPIT 1IJ4 - Model 1MQ8 - X-ray MuPIT 1P53 - X-ray MuPIT 1Z7Z - EM 2OZ4 - X-ray MuPIT 3TCX - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P05362
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001618 virus receptor activity
GO:0004888 transmembrane signaling receptor activity
GO:0005178 integrin binding
GO:0005515 protein binding
GO:0038023 signaling receptor activity
GO:0044877 macromolecular complex binding

Biological Process:
GO:0001541 ovarian follicle development
GO:0001666 response to hypoxia
GO:0001910 regulation of leukocyte mediated cytotoxicity
GO:0001975 response to amphetamine
GO:0002291 T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell
GO:0002438 acute inflammatory response to antigenic stimulus
GO:0002457 T cell antigen processing and presentation
GO:0002693 positive regulation of cellular extravasation
GO:0007155 cell adhesion
GO:0007157 heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules
GO:0007159 leukocyte cell-cell adhesion
GO:0007569 cell aging
GO:0007605 sensory perception of sound
GO:0008360 regulation of cell shape
GO:0010212 response to ionizing radiation
GO:0010477 response to sulfur dioxide
GO:0014070 response to organic cyclic compound
GO:0016032 viral process
GO:0019221 cytokine-mediated signaling pathway
GO:0022614 membrane to membrane docking
GO:0030155 regulation of cell adhesion
GO:0030198 extracellular matrix organization
GO:0030838 positive regulation of actin filament polymerization
GO:0031669 cellular response to nutrient levels
GO:0032496 response to lipopolysaccharide
GO:0032868 response to insulin
GO:0033627 cell adhesion mediated by integrin
GO:0034698 response to gonadotropin
GO:0042493 response to drug
GO:0043200 response to amino acid
GO:0043547 positive regulation of GTPase activity
GO:0044406 adhesion of symbiont to host
GO:0045429 positive regulation of nitric oxide biosynthetic process
GO:0045471 response to ethanol
GO:0045907 positive regulation of vasoconstriction
GO:0046688 response to copper ion
GO:0046718 viral entry into host cell
GO:0046813 receptor-mediated virion attachment to host cell
GO:0050731 positive regulation of peptidyl-tyrosine phosphorylation
GO:0050776 regulation of immune response
GO:0050900 leukocyte migration
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0051926 negative regulation of calcium ion transport
GO:0060333 interferon-gamma-mediated signaling pathway
GO:0061028 establishment of endothelial barrier
GO:0070374 positive regulation of ERK1 and ERK2 cascade
GO:0071222 cellular response to lipopolysaccharide
GO:0071310 cellular response to organic substance
GO:0071312 cellular response to alkaloid
GO:0071333 cellular response to glucose stimulus
GO:0071346 cellular response to interferon-gamma
GO:0071347 cellular response to interleukin-1
GO:0071354 cellular response to interleukin-6
GO:0071356 cellular response to tumor necrosis factor
GO:0071456 cellular response to hypoxia
GO:0071549 cellular response to dexamethasone stimulus
GO:0072683 T cell extravasation
GO:0090557 establishment of endothelial intestinal barrier
GO:0097368 establishment of Sertoli cell barrier
GO:0098609 cell-cell adhesion
GO:1900027 regulation of ruffle assembly
GO:1902042 negative regulation of extrinsic apoptotic signaling pathway via death domain receptors
GO:1904996 positive regulation of leukocyte adhesion to vascular endothelial cell
GO:1990830 cellular response to leukemia inhibitory factor
GO:2000352 negative regulation of endothelial cell apoptotic process

Cellular Component:
GO:0001772 immunological synapse
GO:0005615 extracellular space
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0005925 focal adhesion
GO:0009897 external side of plasma membrane
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031012 extracellular matrix
GO:0045121 membrane raft
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  DQ890615 - Synthetic construct clone IMAGE:100003245; FLH164370.01X; RZPDo839F07162D intercellular adhesion molecule 1 (CD54), human rhinovirus receptor (ICAM1) gene, encodes complete protein.
DQ893785 - Synthetic construct Homo sapiens clone IMAGE:100008245; FLH164366.01L; RZPDo839F07161D intercellular adhesion molecule 1 (CD54), human rhinovirus receptor (ICAM1) gene, encodes complete protein.
HH934323 - Sequence 151 from Patent WO2010111497.
HV969296 - JP 2012521765-A/151: RNA Interference Mediated Inhibition of the Intercellular Adhesion Molecule 1 (ICAM-1) Gene Expression Using Short Interfering Nucleic Acid (siNA).
LF384519 - JP 2014500723-A/192022: Polycomb-Associated Non-Coding RNAs.
M24283 - Human major group rhinovirus receptor (HRV) mRNA, complete cds.
BC015969 - Homo sapiens intercellular adhesion molecule 1, mRNA (cDNA clone MGC:2296 IMAGE:3506766), complete cds.
GQ901042 - Homo sapiens clone HEL-T-154 epididymis secretory sperm binding protein mRNA, complete cds.
AK301412 - Homo sapiens cDNA FLJ53671 complete cds, highly similar to Intercellular adhesion molecule 1 precursor.
J03132 - Human intercellular adhesion molecule-1 (ICAM-1) mRNA, complete cds.
AK312636 - Homo sapiens cDNA, FLJ93020, highly similar to Homo sapiens intercellular adhesion molecule 1 (CD54), human rhinovirus receptor (ICAM1), mRNA.
AK130659 - Homo sapiens cDNA FLJ27149 fis, clone SYN00449, highly similar to Intercellular adhesion molecule-1 precursor (ICAM-1).
AK298054 - Homo sapiens cDNA FLJ53631 complete cds, highly similar to Intercellular adhesion molecule 1 precursor.
JD197066 - Sequence 178090 from Patent EP1572962.
JD248372 - Sequence 229396 from Patent EP1572962.
AK298983 - Homo sapiens cDNA FLJ53641 complete cds, highly similar to Intercellular adhesion molecule 1 precursor.
X06990 - Human mRNA for intercellular adhesion molecule-1 ICAM-1.
AB590404 - Synthetic construct DNA, clone: pFN21AB5918, Homo sapiens ICAM1 gene for intercellular adhesion molecule 1, without stop codon, in Flexi system.
KJ891417 - Synthetic construct Homo sapiens clone ccsbBroadEn_00811 ICAM1 gene, encodes complete protein.
KR710255 - Synthetic construct Homo sapiens clone CCSBHm_00010876 ICAM1 (ICAM1) mRNA, encodes complete protein.
KR710256 - Synthetic construct Homo sapiens clone CCSBHm_00010877 ICAM1 (ICAM1) mRNA, encodes complete protein.
BT006854 - Homo sapiens intercellular adhesion molecule 1 (CD54), human rhinovirus receptor mRNA, complete cds.
AF340038 - Homo sapiens isolate H#4 intercellular adhesion molecule 1 (ICAM1) mRNA, complete cds.
AF340039 - Homo sapiens isolate H#7 intercellular adhesion molecule 1 (ICAM1) mRNA, partial cds.
LF375758 - JP 2014500723-A/183261: Polycomb-Associated Non-Coding RNAs.
AH002984 - Homo sapiens cell surface glycoprotein (P3.58) mRNA, complete cds.
JD021356 - Sequence 2380 from Patent EP1572962.
JD032003 - Sequence 13027 from Patent EP1572962.
JD021602 - Sequence 2626 from Patent EP1572962.
JD019329 - Sequence 353 from Patent EP1572962.
LF375761 - JP 2014500723-A/183264: Polycomb-Associated Non-Coding RNAs.
LF375762 - JP 2014500723-A/183265: Polycomb-Associated Non-Coding RNAs.
S82847 - sICAM-1=ICAM-1 soluble variant {alternatively spliced, exon 6 to exon 7} [human, placenta, mRNA Partial, 135 nt].
LF375763 - JP 2014500723-A/183266: Polycomb-Associated Non-Coding RNAs.
LF208382 - JP 2014500723-A/15885: Polycomb-Associated Non-Coding RNAs.
LF375764 - JP 2014500723-A/183267: Polycomb-Associated Non-Coding RNAs.
LF375765 - JP 2014500723-A/183268: Polycomb-Associated Non-Coding RNAs.
LF375766 - JP 2014500723-A/183269: Polycomb-Associated Non-Coding RNAs.
JD088128 - Sequence 69152 from Patent EP1572962.
JD544757 - Sequence 525781 from Patent EP1572962.
JD438683 - Sequence 419707 from Patent EP1572962.
JD201774 - Sequence 182798 from Patent EP1572962.
LF375767 - JP 2014500723-A/183270: Polycomb-Associated Non-Coding RNAs.
JD491883 - Sequence 472907 from Patent EP1572962.
JD287014 - Sequence 268038 from Patent EP1572962.
JD094437 - Sequence 75461 from Patent EP1572962.
JD356157 - Sequence 337181 from Patent EP1572962.
JD275769 - Sequence 256793 from Patent EP1572962.
LF375768 - JP 2014500723-A/183271: Polycomb-Associated Non-Coding RNAs.
JD216082 - Sequence 197106 from Patent EP1572962.
JD452513 - Sequence 433537 from Patent EP1572962.
JD515446 - Sequence 496470 from Patent EP1572962.
JD090615 - Sequence 71639 from Patent EP1572962.
JD085237 - Sequence 66261 from Patent EP1572962.
JD250194 - Sequence 231218 from Patent EP1572962.
JD112544 - Sequence 93568 from Patent EP1572962.
JD080578 - Sequence 61602 from Patent EP1572962.
JD398659 - Sequence 379683 from Patent EP1572962.
JD331005 - Sequence 312029 from Patent EP1572962.
JD441726 - Sequence 422750 from Patent EP1572962.
JD386967 - Sequence 367991 from Patent EP1572962.
MA620096 - JP 2018138019-A/192022: Polycomb-Associated Non-Coding RNAs.
MA611335 - JP 2018138019-A/183261: Polycomb-Associated Non-Coding RNAs.
MA611338 - JP 2018138019-A/183264: Polycomb-Associated Non-Coding RNAs.
MA611339 - JP 2018138019-A/183265: Polycomb-Associated Non-Coding RNAs.
MA611340 - JP 2018138019-A/183266: Polycomb-Associated Non-Coding RNAs.
MA443959 - JP 2018138019-A/15885: Polycomb-Associated Non-Coding RNAs.
MA611341 - JP 2018138019-A/183267: Polycomb-Associated Non-Coding RNAs.
MA611342 - JP 2018138019-A/183268: Polycomb-Associated Non-Coding RNAs.
MA611343 - JP 2018138019-A/183269: Polycomb-Associated Non-Coding RNAs.
MA611344 - JP 2018138019-A/183270: Polycomb-Associated Non-Coding RNAs.
MA611345 - JP 2018138019-A/183271: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_blymphocytePathway - B Lymphocyte Cell Surface Molecules
h_lympathway - Adhesion and Diapedesis of Lymphocytes
h_ctlPathway - CTL mediated immune response against target cells
h_monocytePathway - Monocyte and its Surface Molecules
h_thelperPathway - T Helper Cell Surface Molecules
h_granulocytesPathway - Adhesion and Diapedesis of Granulocytes
h_lymphocytePathway - Adhesion Molecules on Lymphocyte
h_neutrophilPathway - Neutrophil and Its Surface Molecules
h_tcytotoxicPathway - T Cytotoxic Cell Surface Molecules
h_LairPathway - Cells and Molecules involved in local acute inflammatory response

Reactome (by CSHL, EBI, and GO)

Protein P05362 (Reactome details) participates in the following event(s):

R-HSA-199050 ICAM1-5 bind Integrin alphaLbeta2 (LFA-1)
R-HSA-198933 Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
R-HSA-216083 Integrin cell surface interactions
R-HSA-877300 Interferon gamma signaling
R-HSA-6785807 Interleukin-4 and 13 signaling
R-HSA-6783783 Interleukin-10 signaling
R-HSA-1280218 Adaptive Immune System
R-HSA-1474244 Extracellular matrix organization
R-HSA-913531 Interferon Signaling
R-HSA-449147 Signaling by Interleukins
R-HSA-168256 Immune System
R-HSA-1280215 Cytokine Signaling in Immune system

-  Other Names for This Gene
  Alternate Gene Symbols: B2R6M3, ENST00000264832.1, ENST00000264832.2, ENST00000264832.3, ENST00000264832.4, ENST00000264832.5, ENST00000264832.6, ENST00000264832.7, ICAM1_HUMAN, NM_000201, P05362, Q5NKV7, Q96B50, uc317hvx.1, uc317hvx.2
UCSC ID: ENST00000264832.8_4
RefSeq Accession: NM_000201.3
Protein: P05362 (aka ICAM1_HUMAN or ICA1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.