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Itgb5 integrin beta 5 [ Mus musculus (house mouse) ]

Gene ID: 16419, updated on 18-Apr-2024

Summary

Official Symbol
Itgb5provided by MGI
Official Full Name
integrin beta 5provided by MGI
Primary source
MGI:MGI:96614
See related
Ensembl:ENSMUSG00000022817 AllianceGenome:MGI:96614
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
[b]5; [b]-5; [b]5A; [b]5B; beta5; ESTM23; beta-5
Summary
Enables integrin binding activity. Involved in integrin-mediated signaling pathway; stress fiber assembly; and transforming growth factor beta receptor signaling pathway. Located in cell leading edge; focal adhesion; and glutamatergic synapse. Is integral component of synaptic membrane. Part of integrin alphav-beta5 complex. Is expressed in several structures, including alimentary system; cardiovascular system; central nervous system; embryo mesenchyme; and genitourinary system. Orthologous to human ITGB5 (integrin subunit beta 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in adrenal adult (RPKM 97.5), ovary adult (RPKM 81.3) and 28 other tissues See more
Orthologs
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Genomic context

Location:
16 B3; 16 24.22 cM
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (33650021..33769708)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (33829665..33949338)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_40710 Neighboring gene STARR-positive B cell enhancer ABC_E5538 Neighboring gene predicted gene 15658 Neighboring gene STARR-seq mESC enhancer starr_40715 Neighboring gene STARR-seq mESC enhancer starr_40716 Neighboring gene mucin 13, epithelial transmembrane Neighboring gene predicted gene, 34967 Neighboring gene STARR-seq mESC enhancer starr_40719 Neighboring gene STARR-positive B cell enhancer ABC_E8630 Neighboring gene STARR-seq mESC enhancer starr_40721 Neighboring gene uridine monophosphate synthetase Neighboring gene kalirin, RhoGEF kinase Neighboring gene VISTA enhancer mm268 Neighboring gene predicted gene, 41448

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 
  • Targeted (3)  1 citation

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables integrin binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables integrin binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in cell adhesion mediated by integrin IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell migration ISO
Inferred from Sequence Orthology
more info
 
involved_in cell-cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell-matrix adhesion IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell-matrix adhesion ISO
Inferred from Sequence Orthology
more info
 
involved_in epithelial cell-cell adhesion ISO
Inferred from Sequence Orthology
more info
 
involved_in integrin-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in integrin-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in integrin-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in stress fiber assembly IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in stress fiber assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in stress fiber assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in transforming growth factor beta receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in transforming growth factor beta receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in transforming growth factor beta receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cell leading edge IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in cell surface IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
is_active_in focal adhesion IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in focal adhesion IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IEP
Inferred from Expression Pattern
more info
PubMed 
part_of integrin alphav-beta5 complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of integrin alphav-beta5 complex ISO
Inferred from Sequence Orthology
more info
 
part_of integrin complex IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
part_of receptor complex ISO
Inferred from Sequence Orthology
more info
PubMed 
is_active_in synaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in synaptic membrane IEP
Inferred from Expression Pattern
more info
PubMed 

NCBI Reference Sequences (RefSeq)

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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_001145884.2NP_001139356.1  integrin beta-5 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001139356.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the predominant transcript, and encodes isoform 1.
    Source sequence(s)
    AC155268, AC165079
    Consensus CDS
    CCDS49835.1
    UniProtKB/Swiss-Prot
    O70308, O70309, O88347
    UniProtKB/TrEMBL
    Q6PE70
    Related
    ENSMUSP00000110680.4, ENSMUST00000115028.11
    Conserved Domains (3) summary
    pfam00362
    Location:35463
    Integrin_beta; Integrin, beta chain
    pfam07965
    Location:635718
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:745788
    Integrin_b_cyt; Integrin beta cytoplasmic domain
  2. NM_001405063.1NP_001391992.1  integrin beta-5 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC155268, AC165079
    UniProtKB/TrEMBL
    A0A338P795
    Related
    ENSMUSP00000156332.2, ENSMUST00000232262.2
  3. NM_010580.3NP_034710.2  integrin beta-5 isoform 2 precursor

    See identical proteins and their annotated locations for NP_034710.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate donor splice site at the penultimate coding exon compared to transcript variant 1. This results in a frame-shift, translation termination at a downstream stop codon, and a longer isoform (2) with a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC155268, AC165079
    Consensus CDS
    CCDS28135.1
    UniProtKB/Swiss-Prot
    O70308, O70309, O88347
    UniProtKB/TrEMBL
    G5E8F8
    Related
    ENSMUSP00000069416.6, ENSMUST00000069345.6
    Conserved Domains (3) summary
    pfam00362
    Location:35463
    Integrin_beta; Integrin, beta chain
    pfam07965
    Location:635718
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:745759
    Integrin_b_cyt; Integrin beta cytoplasmic domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000082.7 Reference GRCm39 C57BL/6J

    Range
    33650021..33769708
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)