Human Gene ITGB5 (ENST00000296181.9_7) from GENCODE V47lift37

JavaScript is disabled in your web browser

You must have JavaScript enabled in your web browser to use the Genome Browser

Description: integrin subunit beta 5, transcript variant 1 (from RefSeq NM_002213.5)
Gencode Transcript: ENST00000296181.9_7
Gencode Gene: ENSG00000082781.12_13
Transcript (Including UTRs)
Position: hg19 chr3:124,480,795-124,606,212 Size: 125,418 Total Exon Count: 15 Strand: -
Coding Region
Position: hg19 chr3:124,482,470-124,605,847 Size: 123,378 Coding Exon Count: 15

Page Index	Sequence and Links	UniProtKB Comments	Primers	MalaCards	CTD
Gene Alleles	RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species
GO Annotations	mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr3:124,480,795-124,606,212)			mRNA (may differ from genome)		Protein (799 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	MGI	OMIM	PubMed	Reactome
UniProtKB	Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: ITB5_HUMAN DESCRIPTION: RecName: Full=Integrin beta-5; Flags: Precursor; FUNCTION: Integrin alpha-V/beta-5 is a receptor for fibronectin. It recognizes the sequence R-G-D in its ligand. SUBUNIT: Heterodimer of an alpha and a beta subunit. Beta-5 associates with alpha-V. Interacts with MYO10. Interacts with DAB2. INTERACTION: Q9BY76:ANGPTL4; NbExp=3; IntAct=EBI-1223434, EBI-2968146; P06756:ITGAV; NbExp=2; IntAct=EBI-1223434, EBI-298282; SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein. SIMILARITY: Belongs to the integrin beta chain family. SIMILARITY: Contains 1 PSI domain. SIMILARITY: Contains 1 VWFA domain.

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: ITGB5 Diseases sorted by gene-association score: villous adenocarcinoma (17), arrhythmogenic right ventricular cardiomyopathy (3)

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D013749 Tetrachlorodibenzodioxin C006780 bisphenol A C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide C547126 AZM551248 D000082 Acetaminophen D001554 Benzene D001564 Benzo(a)pyrene D002251 Carbon Tetrachloride C422910 Cilengitide more ... click here to view the complete list

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: 137.83 RPKM in Artery - Aorta Total median expression: 1360.44 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

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-226.10	365	-0.619	Picture	PostScript	Text
3' UTR	-527.40	1675	-0.315	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
IPR000742 - EG-like_dom
IPR015812 - Integrin_bsu
IPR014836 - Integrin_bsu_cyt
IPR002369 - Integrin_bsu_N
IPR012896 - Integrin_bsu_tail
IPR003659 - Plexin-like
IPR016201 - Plexin-like_fold
IPR002035 - VWF_A

Pfam Domains:
PF00362 - Integrin beta chain VWA domain
PF07965 - Integrin beta tail domain
PF08725 - Integrin beta cytoplasmic domain
PF17205 - Integrin plexin domain
PF18372 - Integrin beta epidermal growth factor like domain 1

SCOP Domains:
69179 - Integrin domains
53300 - vWA-like
69687 - Integrin beta tail domain
103575 - Plexin repeat
57196 - EGF/Laminin

ModBase Predicted Comparative 3D Structure on P18084


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details
Gene Sorter
		Ensembl

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0001618 virus receptor activity GO:0005515 protein binding GO:0038023 signaling receptor activity Biological Process: GO:0002479 antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent GO:0006936 muscle contraction GO:0007155 cell adhesion GO:0007160 cell-matrix adhesion GO:0007179 transforming growth factor beta receptor signaling pathway GO:0007229 integrin-mediated signaling pathway GO:0016032 viral process GO:0030198 extracellular matrix organization GO:0035987 endodermal cell differentiation GO:0043149 stress fiber assembly GO:0046718 viral entry into host cell GO:0090136 epithelial cell-cell adhesion Cellular Component: GO:0005886 plasma membrane GO:0005925 focal adhesion GO:0008305 integrin complex GO:0009986 cell surface GO:0016020 membrane GO:0016021 integral component of membrane GO:0034684 integrin alphav-beta5 complex GO:0043235 receptor complex GO:0045335 phagocytic vesicle GO:0070062 extracellular exosome

Descriptions from all associated GenBank mRNAs


	LP896293 - Sequence 1157 from Patent EP3253886. M35011 - Human integrin beta-5 subunit mRNA, complete cds. BC006541 - Homo sapiens integrin, beta 5, mRNA (cDNA clone MGC:2338 IMAGE:2958666), complete cds. HM005630 - Homo sapiens clone HTL-S-217p testis secretory sperm-binding protein Li 217p mRNA, complete cds. X53002 - Human mRNA for integrin beta-5 subunit. J05633 - Human integrin beta-5 subunit mRNA, complete cds. AK130168 - Homo sapiens cDNA FLJ26658 fis, clone MPE08339. AK315429 - Homo sapiens cDNA, FLJ96485, highly similar to Homo sapiens integrin, beta 5 (ITGB5), mRNA. DQ892778 - Synthetic construct clone IMAGE:100005408; FLH189642.01X; RZPDo839H0574D integrin, beta 5 (ITGB5) gene, encodes complete protein. DQ896025 - Synthetic construct Homo sapiens clone IMAGE:100010485; FLH189638.01L; RZPDo839H0564D integrin, beta 5 (ITGB5) gene, encodes complete protein. AB587397 - Synthetic construct DNA, clone: pF1KB5741, Homo sapiens ITGB5 gene for integrin, beta 5, without stop codon, in Flexi system. AK309551 - Homo sapiens cDNA, FLJ99592. AK054968 - Homo sapiens cDNA FLJ30406 fis, clone BRACE2008495, highly similar to INTEGRIN BETA-5. JD356161 - Sequence 337185 from Patent EP1572962. JD450793 - Sequence 431817 from Patent EP1572962. JD278054 - Sequence 259078 from Patent EP1572962. JD469574 - Sequence 450598 from Patent EP1572962. JD295903 - Sequence 276927 from Patent EP1572962. JD073955 - Sequence 54979 from Patent EP1572962. JD443782 - Sequence 424806 from Patent EP1572962. JD440425 - Sequence 421449 from Patent EP1572962. JD174374 - Sequence 155398 from Patent EP1572962. JD218384 - Sequence 199408 from Patent EP1572962. AK091595 - Homo sapiens cDNA FLJ34276 fis, clone FEBRA2003520. AX747081 - Sequence 606 from Patent EP1308459. JD140749 - Sequence 121773 from Patent EP1572962.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein P18084 (Reactome details) participates in the following event(s): R-HSA-2731081 Syndecan-1 binds Integrin alphaVBeta5 R-HSA-445705 Release Of ADP From Myosin R-HSA-445699 ATP Hydrolysis By Myosin R-HSA-445700 Myosin Binds ATP R-HSA-445704 Calcium Binds Caldesmon R-HSA-1236958 Interaction of particulate antigens with dendritic cell receptors R-HSA-2395320 Latent TGF-beta-1 binds integrins R-HSA-2396029 Latent TGF-beta-3 binds integrins R-HSA-2426471 VTN binds integrins alphaVbeta1, alphaVbeta3, alpha3beta5, alphaIIBbeta3 R-HSA-2731074 Syndecan-1 binds Integrins alpha2beta1, (alpha6beta4) R-HSA-2752125 SPP1 (osteopontin) binds integrins alphaVbeta1, alphaVbeta3, alphaVbeta5 R-HSA-4085087 Canstatin binds integrins alphaVbeta3, alphaVbeta5 R-HSA-4088264 Endostatin binds integrin alphaVbeta3, alphaVbeta5, alpha3beta1, alpha5beta1 R-HSA-216076 VTN (vitronectin) binds Integrin alphaVbeta3, alphaVbeta5, alphaVbeta8 R-HSA-1236956 Engulfment of particulate antigen into phagocytic vesicle R-HSA-3000170 Syndecan interactions R-HSA-445355 Smooth Muscle Contraction R-HSA-1236973 Cross-presentation of particulate exogenous antigens (phagosomes) R-HSA-2129379 Molecules associated with elastic fibres R-HSA-3000178 ECM proteoglycans R-HSA-216083 Integrin cell surface interactions R-HSA-3000171 Non-integrin membrane-ECM interactions R-HSA-397014 Muscle contraction R-HSA-1236975 Antigen processing-Cross presentation R-HSA-1566948 Elastic fibre formation R-HSA-1474244 Extracellular matrix organization R-HSA-983169 Class I MHC mediated antigen processing & presentation R-HSA-1280218 Adaptive Immune System R-HSA-168256 Immune System

Other Names for This Gene


	Alternate Gene Symbols: B0LPF8, B2RD70, ENST00000296181.1, ENST00000296181.2, ENST00000296181.3, ENST00000296181.4, ENST00000296181.5, ENST00000296181.6, ENST00000296181.7, ENST00000296181.8, ITB5_HUMAN, NM_002213, P18084, uc317lrt.1, uc317lrt.2 UCSC ID: ENST00000296181.9_7 RefSeq Accession: NM_002213.5 Protein: P18084 (aka ITB5_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.