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ITGB7 integrin subunit beta 7 [ Homo sapiens (human) ]

Gene ID: 3695, updated on 7-Dec-2018

Summary

Official Symbol
ITGB7provided by HGNC
Official Full Name
integrin subunit beta 7provided by HGNC
Primary source
HGNC:HGNC:6162
See related
Ensembl:ENSG00000139626 MIM:147559
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
Summary
This gene encodes a protein that is a member of the integrin superfamily. Members of this family are adhesion receptors that function in signaling from the extracellular matrix to the cell. Integrins are heterodimeric integral membrane proteins composed of an alpha chain and a beta chain. The encoded protein forms dimers with an alpha4 chain or an alphaE chain and plays a role in leukocyte adhesion. Dimerization with alpha4 forms a homing receptor for migration of lymphocytes to the intestinal mucosa and Peyer's patches. Dimerization with alphaE permits binding to the ligand epithelial cadherin, a calcium-dependent adhesion molecule. Alternate splicing results in multiple transcript variants. Additional alternatively spliced transcript variants of this gene have been described, but their full-length nature is not known. [provided by RefSeq, Sep 2013]
Expression
Broad expression in spleen (RPKM 15.4), lymph node (RPKM 15.4) and 19 other tissues See more
Orthologs

Genomic context

See ITGB7 in Genome Data Viewer
Location:
12q13.13
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 12 NC_000012.12 (53191318..53207375, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (53585102..53601065, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene eukaryotic translation initiation factor 4A1 pseudogene 4 Neighboring gene cysteine sulfinic acid decarboxylase Neighboring gene zinc finger protein 740 Neighboring gene retinoic acid receptor gamma Neighboring gene major facilitator superfamily domain containing 5

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 infected patients exhibit an upregulation of ITGA4/ITGB7 positive lymphocytes in peripheral blood of immunological nonresponder clinical samples PubMed
Knockdown of integrin, beta 7 (ITGB7) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Env (gp120) V2/V3 loops bind to ITGA4 and ITGB7 (a4b7), which can be inhibited by anti-V2 peptide or integrin or anti-V3 antibodies PubMed
env HIV-1 Env gp120 amino acids from position 158 to 192 bind alpha-4/beta-7 integrin (ITGA4/ITGB7) PubMed
env HIV-1 Env gp120 with P/SDI/V-ITGA4/ITGB7 binding motifs interact more with ITGA4/ITGB7 PubMed
env HIV-1 Env gp120/41 (JRFL Env in the contaxt of HIV-Gag-GFP VLP) binds to ITGB7 on the surface of basophils PubMed
env Increased integrin alpha4beta7 affinity is mediated by sequences encoded in gp120 V1/V2 and also influenced by N-linked glycosylation sites located in gp120 C3/V4 PubMed
env Little or no integrin alpha4beta7 binding is detected with multiple HIV-1 gp120s and gp140s, including gp120s from transmitted/founder strains, or when gp120 is produced in CHO, 293T, and 293S/GnT1(-/-) cells PubMed
env The peptide segment at positions 166-178 of the V2 loop of HIV-1 gp120 appears to harbor a cryptic determinant of integrin alpha4beta7 binding on primary human T cells PubMed
env Integrin alpha4beta 7 mediates HIV-1 gp120 binding to natural killer cells. The residues 182-184 in the V2 loop of gp120 is required for the binding between gp120 and integrin alpha4beta7 PubMed
env Treatment of B cells with HIV-1 gp120 upregulates the expression of FCRL4 and limits the proliferative expansion of B cells in an integrin alpha 4/beta 7-dependent manner PubMed
env HIV-1 gp120 binds to human B cells through integrin alpha 4/beta 7 PubMed
env HIV-1 gp120/41 Envelope proteins form a complex with integrin alpha4beta7 and chemokine receptor CCR5 on the CD4-negative gamma-delta T cell membrane, which leads to activation of the p38-caspase pathway and induces the death of gamma-delta cells PubMed
env The gp120-integrin alpha4beta7 complex mediates LFA-1 activation on T cells and increases the efficiency of infection by promoting synapse formation PubMed
Envelope surface glycoprotein gp160, precursor env Little or no integrin alpha4beta7 binding is detected with multiple HIV-1140s in human cells PubMed
Envelope transmembrane glycoprotein gp41 env HIV-1 gp120/41 Envelope proteins form a complex with integrin alpha4beta7 and chemokine receptor CCR5 on the CD4-negative gamma-delta T cell membrane, which leads to activation of the p38-caspase pathway and induces the death of gamma-delta cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cell adhesion molecule binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
integrin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 
virus receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
T cell migration IEA
Inferred from Electronic Annotation
more info
 
cell adhesion TAS
Traceable Author Statement
more info
PubMed 
cell adhesion mediated by integrin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell-matrix adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell-matrix adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell-matrix adhesion involved in ameboidal cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
extracellular matrix organization TAS
Traceable Author Statement
more info
 
heterotypic cell-cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
integrin-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integrin-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
leukocyte tethering or rolling IMP
Inferred from Mutant Phenotype
more info
PubMed 
receptor clustering IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of immune response TAS
Traceable Author Statement
more info
 
substrate adhesion-dependent cell spreading IMP
Inferred from Mutant Phenotype
more info
PubMed 
viral entry into host cell IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell surface IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
extracellular exosome HDA PubMed 
focal adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integrin alpha4-beta7 complex IDA
Inferred from Direct Assay
more info
PubMed 
integrin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
membrane HDA PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
receptor complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
integrin beta-7
Names
gut homing receptor beta subunit
integrin beta 7 subunit

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_000889.3NP_000880.1  integrin beta-7 precursor

    See identical proteins and their annotated locations for NP_000880.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    DC296007, S80335
    Consensus CDS
    CCDS8849.1
    UniProtKB/Swiss-Prot
    P26010
    Related
    ENSP00000267082.4, ENST00000267082.9
    Conserved Domains (5) summary
    smart00187
    Location:50476
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:645717
    Integrin_B_tail; Integrin beta tail domain
    pfam07974
    Location:607635
    EGF_2; EGF-like domain
    pfam08725
    Location:750791
    Integrin_b_cyt; Integrin beta cytoplasmic domain
    pfam12785
    Location:537645
    VESA1_N; Variant erythrocyte surface antigen-1

RNA

  1. NR_104181.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks one alternate 5' exon and three alternate 3' exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC073573, AI804573, AK300960, DC296007
    Related
    ENST00000542497.5

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p12 Primary Assembly

    Range
    53191318..53207375 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006719376.4XP_006719439.1  integrin beta-7 isoform X2

    Conserved Domains (5) summary
    smart00187
    Location:50476
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:645717
    Integrin_B_tail; Integrin beta tail domain
    pfam07974
    Location:607635
    EGF_2; EGF-like domain
    pfam08725
    Location:750772
    Integrin_b_cyt; Integrin beta cytoplasmic domain
    pfam12785
    Location:537645
    VESA1_N; Variant erythrocyte surface antigen-1
  2. XM_005268852.5XP_005268909.1  integrin beta-7 isoform X1

    See identical proteins and their annotated locations for XP_005268909.1

    UniProtKB/Swiss-Prot
    P26010
    Related
    ENSP00000455374.2, ENST00000550743.6
    Conserved Domains (5) summary
    smart00187
    Location:50476
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:645717
    Integrin_B_tail; Integrin beta tail domain
    pfam07974
    Location:607635
    EGF_2; EGF-like domain
    pfam08725
    Location:750791
    Integrin_b_cyt; Integrin beta cytoplasmic domain
    pfam12785
    Location:537645
    VESA1_N; Variant erythrocyte surface antigen-1
  3. XM_005268851.4XP_005268908.1  integrin beta-7 isoform X1

    See identical proteins and their annotated locations for XP_005268908.1

    UniProtKB/Swiss-Prot
    P26010
    Related
    ENSP00000408741.3, ENST00000422257.7
    Conserved Domains (5) summary
    smart00187
    Location:50476
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:645717
    Integrin_B_tail; Integrin beta tail domain
    pfam07974
    Location:607635
    EGF_2; EGF-like domain
    pfam08725
    Location:750791
    Integrin_b_cyt; Integrin beta cytoplasmic domain
    pfam12785
    Location:537645
    VESA1_N; Variant erythrocyte surface antigen-1

RNA

  1. XR_001748685.2 RNA Sequence

  2. XR_429099.4 RNA Sequence

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