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

Gene ID: 16420, updated on 5-Jan-2023

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 with a negative effect on gene expression. Acts upstream of or within several processes, including animal organ development; hard palate development; and transmembrane receptor protein serine/threonine kinase signaling pathway. Located in external side of plasma membrane. Part of integrin alphav-beta6 complex. Is expressed in several structures, including diaphragm; gut; 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, Apr 2022]
Expression
Biased expression in kidney adult (RPKM 7.7), lung adult (RPKM 3.6) and 7 other tissues See more
Orthologs
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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
109 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 predicted gene, 33436 Neighboring gene VISTA enhancer mm1564 Neighboring gene RNA binding motif, single stranded interacting protein 1 Neighboring gene predicted gene, 50617

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

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
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 signaling receptor 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 SMAD protein signal transduction IDA
Inferred from Direct Assay
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 
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 
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 migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within cell morphogenesis IMP
Inferred from Mutant Phenotype
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 
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
PubMed 
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 
involved_in regulation of transforming growth factor beta activation ISO
Inferred from Sequence Orthology
more info
 
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
PubMed 
located_in cell surface IDA
Inferred from Direct Assay
more info
PubMed 
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
PubMed 
located_in focal adhesion ISO
Inferred from Sequence Orthology
more info
 
part_of integrin alphav-beta6 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
 
part_of integrin complex IEA
Inferred from Electronic Annotation
more info
 
located_in membrane 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)

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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_001159564.1NP_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)
    AK036439, AL928546
    Consensus CDS
    CCDS16060.1
    UniProtKB/Swiss-Prot
    Q544J9, Q9Z0T9
    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_021359.3NP_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)
    AK008867, AK036439, AL928546
    Consensus CDS
    CCDS16060.1
    UniProtKB/Swiss-Prot
    Q544J9, Q9Z0T9
    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: 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
    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
    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
    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
    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
    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