Format

Send to:

Choose Destination

Itga6 integrin alpha 6 [ Mus musculus (house mouse) ]

Gene ID: 16403, updated on 5-Jan-2022

Summary

Official Symbol
Itga6provided by MGI
Official Full Name
integrin alpha 6provided by MGI
Primary source
MGI:MGI:96605
See related
Ensembl:ENSMUSG00000027111
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Cd49f; VLA-6; AI115430; 5033401O05Rik
Summary
This gene encodes a protein that is a member of the integrin superfamily. Integrins are transmembrane receptors involved cell adhesion and signaling, and they are subdivided based on the heterodimer formation of alpha and beta chains. This protein has been shown to heterodimerize with beta 4 to bind laminin and to form the main component of hemidesmosomes, which mediate attachment of epithelia to basement membranes. In mouse, deficiency of this gene is associated with absence of hemidesmosomes, severe skin blistering, and early post-natal death. In humans mutations of this gene are associated with epidermolysis bullosa. Alternative splicing results in multiple transcript variants that encode different protein isoforms. [provided by RefSeq, May 2013]
Expression
Ubiquitous expression in subcutaneous fat pad adult (RPKM 14.9), large intestine adult (RPKM 14.4) and 27 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Itga6 in Genome Data Viewer
Location:
2 C2- C3; 2 42.79 cM
Exon count:
26
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (71617236..71688771)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (71786886..71858427)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (71625140..71694815)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 17250 Neighboring gene ribosomal protein S7 pseudogene Neighboring gene pyruvate dehydrogenase kinase, isoenzyme 1 Neighboring gene predicted gene, 46785

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)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables insulin-like growth factor I binding ISO
Inferred from Sequence Orthology
more info
 
enables integrin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables integrin binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables neuregulin binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within brown fat cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in 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
PubMed 
acts_upstream_of_or_within cell adhesion mediated by integrin IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cell-cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell-matrix adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within cell-matrix adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cell-substrate adhesion ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to extracellular stimulus IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within filopodium assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in integrin-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in leukocyte migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within leukocyte migration IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within leukocyte migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in nail development ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of extrinsic apoptotic signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within odontogenesis of dentin-containing tooth IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of GTPase activity ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of cell-cell adhesion IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of neuron projection development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in skin morphogenesis ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in basal part of cell IDA
Inferred from Direct Assay
more info
PubMed 
located_in basal plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in basement membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in basolateral plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell surface IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in external side of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in hemidesmosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
part_of integrin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of integrin complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
colocalizes_with plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
integrin alpha-6
Names
CD49 antigen-like family member F

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001277970.1NP_001264899.1  integrin alpha-6 isoform 2 precursor

    See identical proteins and their annotated locations for NP_001264899.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate penultimate exon, compared to variant 1, resulting in a novel 3' coding region and shorter 3' UTR. It encodes isoform 2 which has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AL928963, BC058095, CO430533
    Consensus CDS
    CCDS71074.1
    UniProtKB/Swiss-Prot
    Q61739
    UniProtKB/TrEMBL
    Q6PEE8
    Related
    ENSMUSP00000158895.2, ENSMUST00000238991.2
    Conserved Domains (2) summary
    smart00191
    Location:374425
    Int_alpha; Integrin alpha (beta-propellor repeats)
    pfam08441
    Location:464939
    Integrin_alpha2; Integrin alpha
  2. NM_008397.4NP_032423.2  integrin alpha-6 isoform 1 precursor

    See identical proteins and their annotated locations for NP_032423.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the shorter isoform (1).
    Source sequence(s)
    AK034186, AL928963
    Consensus CDS
    CCDS16118.1
    UniProtKB/TrEMBL
    Q8CC06
    Related
    ENSMUSP00000028522.4, ENSMUST00000028522.10
    Conserved Domains (3) summary
    smart00191
    Location:374425
    Int_alpha; Integrin alpha (beta-propellor repeats)
    pfam00357
    Location:10381052
    Integrin_alpha; Integrin alpha cytoplasmic region
    pfam08441
    Location:464939
    Integrin_alpha2; Integrin alpha

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    71617236..71688771
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011239308.2XP_011237610.1  integrin alpha-6 isoform X1

    See identical proteins and their annotated locations for XP_011237610.1

    UniProtKB/Swiss-Prot
    Q61739
    Related
    ENSMUSP00000107729.2, ENSMUST00000112101.8
    Conserved Domains (2) summary
    smart00191
    Location:374425
    Int_alpha; Integrin alpha (beta-propellor repeats)
    pfam08441
    Location:464939
    Integrin_alpha2; Integrin alpha
Support Center