Format

Send to:

Choose Destination
    • Showing Current items.

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

    Gene ID: 16403, updated on 1-Sep-2018

    Summary

    Official Symbol
    Itga6provided by MGI
    Official Full Name
    integrin alpha 6provided by MGI
    Primary source
    MGI:MGI:96605
    See related
    Ensembl:ENSMUSG00000027111 Vega:OTTMUSG00000013266
    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

    Genomic context

    See Itga6 in Genome Data Viewer
    Location:
    2 C2-C3; 2 42.79 cM
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 2 NC_000068.7 (71786886..71858427)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (71625140..71694815)

    Chromosome 2 - NC_000068.7Genomic 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 FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    insulin-like growth factor I binding ISO
    Inferred from Sequence Orthology
    more info
     
    integrin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    laminin binding ISO
    Inferred from Sequence Orthology
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    neuregulin binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    amelogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    brown fat cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    cell adhesion mediated by integrin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell-cell adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    cell-matrix adhesion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cell-substrate adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to extracellular stimulus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    digestive tract development ISO
    Inferred from Sequence Orthology
    more info
     
    filopodium assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    integrin-mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    leukocyte migration IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    leukocyte migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    nail development ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of extrinsic apoptotic signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    odontogenesis of dentin-containing tooth IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of GTPase activity ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell-cell adhesion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of cell-substrate adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    renal system development ISO
    Inferred from Sequence Orthology
    more info
     
    skin development ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    basal part of cell IDA
    Inferred from Direct Assay
    more info
    PubMed 
    basal plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    basement membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    basolateral plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    cell-cell adherens junction ISO
    Inferred from Sequence Orthology
    more info
     
    external side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    filopodium ISO
    Inferred from Sequence Orthology
    more info
     
    hemidesmosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    integrin alpha6-beta4 complex ISO
    Inferred from Sequence Orthology
    more info
     
    integrin complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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)

    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
      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
      ENSMUSP00000028522.3, OTTMUSP00000014263, ENSMUST00000028522.9, OTTMUST00000032063
      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 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000068.7 Reference GRCm38.p4 C57BL/6J

      Range
      71786886..71858427
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017315707.1XP_017171196.1  integrin alpha-6 isoform X3

    2. XM_011239309.2XP_011237611.1  integrin alpha-6 isoform X2

      Conserved Domains (2) summary
      smart00191
      Location:369420
      Int_alpha; Integrin alpha (beta-propellor repeats)
      pfam08441
      Location:459934
      Integrin_alpha2; Integrin alpha
    3. XM_011239308.1XP_011237610.1  integrin alpha-6 isoform X1

      See identical proteins and their annotated locations for XP_011237610.1

      UniProtKB/Swiss-Prot
      Q61739
      Related
      ENSMUSP00000107729.1, OTTMUSP00000014264, ENSMUST00000112101.7, OTTMUST00000032064
      Conserved Domains (2) summary
      smart00191
      Location:374425
      Int_alpha; Integrin alpha (beta-propellor repeats)
      pfam08441
      Location:464939
      Integrin_alpha2; Integrin alpha
    Support Center