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    Itgb6 integrin beta 6 [ Mus musculus (house mouse) ]

    Gene ID: 16420, updated on 9-Dec-2024

    Summary

    Official Symbol
    Itgb6provided by MGI
    Official Full Name
    integrin beta 6provided by MGI
    Primary source
    MGI:MGI:96615
    See related
    Ensembl:ENSMUSG00000026971 AllianceGenome:MGI:96615
    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
    2210409C20Rik; 4831415H04Rik
    Summary
    Enables integrin binding activity. Involved in cell adhesion mediated by integrin and transforming growth factor beta production. Acts upstream of or within several processes, including Langerhans cell differentiation; enamel mineralization; and lung development. Located in external side of plasma membrane. Part of integrin alphav-beta6 complex. Is expressed in several structures, including alimentary system; diaphragm; limb; metanephros; and vertebral axis musculature. Used to study asthma and pulmonary emphysema. Human ortholog(s) of this gene implicated in amelogenesis imperfecta type 1H. Orthologous to human ITGB6 (integrin subunit beta 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in kidney adult (RPKM 7.7), lung adult (RPKM 3.6) and 7 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Itgb6 in Genome Data Viewer
    Location:
    2 C1.1- C1.2; 2 34.81 cM
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (60428636..60553005, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (60598292..60722603, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene TBC1 domain family, member 15 pseudogene Neighboring gene 40S ribosomal protein S21 pseudogene Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:60555461-60555644 Neighboring gene predicted gene, 33436 Neighboring gene STARR-seq mESC enhancer starr_04618 Neighboring gene VISTA enhancer mm1564 Neighboring gene RNA binding motif, single stranded interacting protein 1 Neighboring gene STARR-seq mESC enhancer starr_04621 Neighboring gene STARR-seq mESC enhancer starr_04622 Neighboring gene STARR-positive B cell enhancer ABC_E9002 Neighboring gene STARR-positive B cell enhancer ABC_E5923 Neighboring gene predicted gene, 50617 Neighboring gene predicted gene 13582 Neighboring gene predicted gene, 33647

    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

    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 molecular function activator activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within Langerhans cell differentiation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within bone development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within bronchiole development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within bronchiole development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cell adhesion mediated by integrin IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell adhesion mediated by integrin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell adhesion mediated by integrin ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cell adhesion mediated by integrin ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within cell morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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
     
    acts_upstream_of_or_within cell-matrix adhesion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within cellular response to ionizing radiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within cytokine production involved in inflammatory response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within enamel mineralization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within_negative_effect gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within hard palate development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within immune response IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within inflammatory response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in integrin-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in integrin-mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within lung alveolus development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within lung alveolus development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within phospholipid homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within response to virus IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within response to wounding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within skin development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within surfactant homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in transforming growth factor beta production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within transforming growth factor beta receptor signaling pathway IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within transforming growth factor beta receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within wound healing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cell junction ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in external side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in focal adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in focal adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    located_in focal adhesion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of integrin alphav-beta6 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of integrin alphav-beta6 complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of integrin alphav-beta6 complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    part_of receptor complex ISO
    Inferred from Sequence Orthology
    more info
    PubMed 

    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_001159564.2NP_001153036.1  integrin beta-6 precursor

      See identical proteins and their annotated locations for NP_001153036.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Both variants encode the same protein.
      Source sequence(s)
      AL928546, AL928833, AL929012
      Consensus CDS
      CCDS16060.1
      UniProtKB/Swiss-Prot
      Q544J9, Q9Z0T9
      UniProtKB/TrEMBL
      B1AYG7
      Related
      ENSMUSP00000028348.3, ENSMUST00000028348.9
      Conserved Domains (5) summary
      smart00187
      Location:30454
      INB; Integrin beta subunits (N-terminal portion of extracellular region)
      pfam07965
      Location:624705
      Integrin_B_tail; Integrin beta tail domain
      pfam08725
      Location:730773
      Integrin_b_cyt; Integrin beta cytoplasmic domain
      pfam18372
      Location:456485
      I-EGF_1; Integrin beta epidermal growth factor like domain 1
      NF033759
      Location:467646
      exchanger_TraA; outer membrane exchange protein TraA
    2. NM_021359.4NP_067334.1  integrin beta-6 precursor

      See identical proteins and their annotated locations for NP_067334.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants encode the same protein.
      Source sequence(s)
      AL928546, AL928833
      Consensus CDS
      CCDS16060.1
      UniProtKB/Swiss-Prot
      Q544J9, Q9Z0T9
      UniProtKB/TrEMBL
      B1AYG7
      Related
      ENSMUSP00000054944.9, ENSMUST00000059888.15
      Conserved Domains (5) summary
      smart00187
      Location:30454
      INB; Integrin beta subunits (N-terminal portion of extracellular region)
      pfam07965
      Location:624705
      Integrin_B_tail; Integrin beta tail domain
      pfam08725
      Location:730773
      Integrin_b_cyt; Integrin beta cytoplasmic domain
      pfam18372
      Location:456485
      I-EGF_1; Integrin beta epidermal growth factor like domain 1
      NF033759
      Location:467646
      exchanger_TraA; outer membrane exchange protein TraA

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      60428636..60553005 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036158669.1XP_036014562.1  integrin beta-6 isoform X1

      UniProtKB/Swiss-Prot
      Q544J9, Q9Z0T9
      UniProtKB/TrEMBL
      B1AYG7
      Conserved Domains (5) summary
      smart00187
      Location:30454
      INB; Integrin beta subunits (N-terminal portion of extracellular region)
      pfam07965
      Location:624705
      Integrin_B_tail; Integrin beta tail domain
      pfam08725
      Location:730773
      Integrin_b_cyt; Integrin beta cytoplasmic domain
      pfam18372
      Location:456485
      I-EGF_1; Integrin beta epidermal growth factor like domain 1
      NF033759
      Location:467646
      exchanger_TraA; outer membrane exchange protein TraA
    2. XM_006498808.5XP_006498871.1  integrin beta-6 isoform X1

      See identical proteins and their annotated locations for XP_006498871.1

      UniProtKB/Swiss-Prot
      Q544J9, Q9Z0T9
      UniProtKB/TrEMBL
      B1AYG7
      Conserved Domains (5) summary
      smart00187
      Location:30454
      INB; Integrin beta subunits (N-terminal portion of extracellular region)
      pfam07965
      Location:624705
      Integrin_B_tail; Integrin beta tail domain
      pfam08725
      Location:730773
      Integrin_b_cyt; Integrin beta cytoplasmic domain
      pfam18372
      Location:456485
      I-EGF_1; Integrin beta epidermal growth factor like domain 1
      NF033759
      Location:467646
      exchanger_TraA; outer membrane exchange protein TraA
    3. XM_006498811.2XP_006498874.1  integrin beta-6 isoform X1

      See identical proteins and their annotated locations for XP_006498874.1

      UniProtKB/Swiss-Prot
      Q544J9, Q9Z0T9
      UniProtKB/TrEMBL
      B1AYG7
      Conserved Domains (5) summary
      smart00187
      Location:30454
      INB; Integrin beta subunits (N-terminal portion of extracellular region)
      pfam07965
      Location:624705
      Integrin_B_tail; Integrin beta tail domain
      pfam08725
      Location:730773
      Integrin_b_cyt; Integrin beta cytoplasmic domain
      pfam18372
      Location:456485
      I-EGF_1; Integrin beta epidermal growth factor like domain 1
      NF033759
      Location:467646
      exchanger_TraA; outer membrane exchange protein TraA
    4. XM_006498810.3XP_006498873.1  integrin beta-6 isoform X1

      See identical proteins and their annotated locations for XP_006498873.1

      UniProtKB/Swiss-Prot
      Q544J9, Q9Z0T9
      UniProtKB/TrEMBL
      B1AYG7
      Related
      ENSMUSP00000117815.2, ENSMUST00000154764.2
      Conserved Domains (5) summary
      smart00187
      Location:30454
      INB; Integrin beta subunits (N-terminal portion of extracellular region)
      pfam07965
      Location:624705
      Integrin_B_tail; Integrin beta tail domain
      pfam08725
      Location:730773
      Integrin_b_cyt; Integrin beta cytoplasmic domain
      pfam18372
      Location:456485
      I-EGF_1; Integrin beta epidermal growth factor like domain 1
      NF033759
      Location:467646
      exchanger_TraA; outer membrane exchange protein TraA