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

Summary

Official Symbol: Itga6provided by MGI
Official Full Name: integrin alpha 6provided by MGI
Primary source: MGI:MGI:96605
See related: Ensembl:ENSMUSG00000027111 AllianceGenome:MGI:96605
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: Cd49f; VLA-6; 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: human all
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Genomic context

Location:: 2 C2- C3; 2 42.79 cM

Exon count:: 26

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (71617236..71688761)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (71786886..71858427)

Chromosome 2 - NC_000068.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Alpha-6 integrin deletion delays the formation of Brca1/p53-deficient basal-like breast tumors by restricting luminal progenitor cell expansion.
Title: Alpha-6 integrin deletion delays the formation of Brca1/p53-deficient basal-like breast tumors by restricting luminal progenitor cell expansion.
Targeted m[6]A demethylation of ITGA6 mRNA by a multisite dCasRx-m[6]A editor inhibits bladder cancer development.
Title: Targeted m(6)A demethylation of ITGA6 mRNA by a multisite dCasRx-m(6)A editor inhibits bladder cancer development.
miR-30a-5p targets ITGA6 to inhibit oral squamous cell carcinoma progression.
Title: miR-30a-5p targets ITGA6 to inhibit oral squamous cell carcinoma progression.
Evaluation of CD49f as a novel surface marker to identify functional adipose-derived mesenchymal stem cell subset.
Title: Evaluation of CD49f as a novel surface marker to identify functional adipose-derived mesenchymal stem cell subset.
Integrin alpha6 mediates the drug resistance of acute lymphoblastic B-cell leukemia.
Title: Integrin α6 mediates the drug resistance of acute lymphoblastic B-cell leukemia.
During wound healing (WH), alpha6 integrin significantly increased in migratory cells and migration was coupled with differentiation
Title: Dynamic expression of α6 integrin indicates epidermal cell behaviors.
The study shows that ITGA3 and ITGA6 promote distinct functions and signaling by collecting duct cells on laminin substrata.
Title: The laminin binding α3 and α6 integrins cooperate to promote epithelial cell adhesion and growth.
These data indicate that integrin alpha6beta4 and PMP22 cooperate to organize the internode and to allow proper propagation of the axonal signal along the axons.
Title: A dual role for Integrin α6β4 in modulating hereditary neuropathy with liability to pressure palsies.
miR-542-5p attenuates fibroblast activation by targeting ITGA6 in silica-induced pulmonary fibrosis.
Title: miR-542-5p Attenuates Fibroblast Activation by Targeting Integrin α6 in Silica-Induced Pulmonary Fibrosis.
alpha6 and beta1 integrins are induced in Schwann cells in the sciatic nerve after a crush injury, and the blocking of integrin activity by siRNA expression and by treatment with anti-integrin antibodies attenuates Schwann cell contact with cultured neurons and decreases neurite outgrowth. After nerve transection, the levels of alpha6 and beta1 integrins in the distal nerve stump are lower than corresponding nerve area...
Title: α6 and β1 Integrin Heterodimer Mediates Schwann Cell Interactions with Axons and Facilitates Axonal Regeneration after Peripheral Nerve Injury.

Submit: New GeneRIF Correction See all GeneRIFs (62)

Variation

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Alleles

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

Endonuclease-mediated (4)
Gene trapped (1) 1 citation
Targeted (5) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Itga6 (e-PCR), detects polymorphism
- UniSTS:143620

Itga6 (e-PCR), detects polymorphism
- UniSTS:143621

Itga6 (e-PCR), detects polymorphism
- UniSTS:143622

RH138432 (e-PCR)
- UniSTS:220519

Itga6 (e-PCR), detects polymorphism
- UniSTS:547958

RH135860 (e-PCR)
- UniSTS:209858

X69902 (e-PCR)
- UniSTS:163286

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables insulin-like growth factor I binding	ISO Inferred from Sequence Orthology more info
enables insulin-like growth factor I binding	ISS Inferred from Sequence or Structural Similarity more info
enables integrin binding	IBA Inferred from Biological aspect of Ancestor more info
enables laminin binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables neuregulin binding	ISO Inferred from Sequence Orthology more info
enables neuregulin binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within brown fat cell differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in cell adhesion mediated by integrin	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell adhesion	ISO Inferred from Sequence Orthology 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
involved_in cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in cell-substrate adhesion	ISO Inferred from Sequence Orthology more info
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
involved_in integrin-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in leukocyte migration	IBA Inferred from Biological aspect of Ancestor more info
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
acts_upstream_of_or_within lymphoid lineage cell 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 cell-substrate adhesion	ISO Inferred from Sequence Orthology more info
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 adherens junction	ISO Inferred from Sequence Orthology more info
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
located_in external side of plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in filopodium	ISO Inferred from Sequence Orthology more info
located_in hemidesmosome	IDA Inferred from Direct Assay more info	PubMed
part_of integrin alpha6-beta1 complex	ISO Inferred from Sequence Orthology more info
part_of integrin alpha6-beta4 complex	ISO Inferred from Sequence Orthology more info
part_of integrin complex	IBA Inferred from Biological aspect of Ancestor more info
part_of integrin complex	IDA Inferred from Direct Assay more info	PubMed
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

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Preferred Names: integrin alpha-6

Names: CD49 antigen-like family member F

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)

NM_001277970.2 → NP_001264899.1 integrin alpha-6 isoform 2 precursor

See identical proteins and their annotated locations for NP_001264899.1

Status: VALIDATED

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

Consensus CDS

CCDS71074.1

UniProtKB/Swiss-Prot

A2AU04, Q61739

UniProtKB/TrEMBL

Q6PEE8

Related

ENSMUSP00000158895.2, ENSMUST00000238991.2

Conserved Domains (2) summary

smart00191
Location:374 → 425

Int_alpha; Integrin alpha (beta-propellor repeats)

pfam08441
Location:464 → 939

Integrin_alpha2; Integrin alpha
NM_001406258.1 → NP_001393187.1 integrin alpha-6 isoform 1 precursor

Status: VALIDATED

Source sequence(s)

AL928963

UniProtKB/TrEMBL

Q8CC06
NM_008397.5 → NP_032423.2 integrin alpha-6 isoform 1 precursor

See identical proteins and their annotated locations for NP_032423.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the shorter isoform (1).

Source sequence(s)

AL928963

Consensus CDS

CCDS16118.1

UniProtKB/TrEMBL

Q6PEE8, Q8CC06

Related

ENSMUSP00000028522.4, ENSMUST00000028522.10

Conserved Domains (3) summary

smart00191
Location:374 → 425

Int_alpha; Integrin alpha (beta-propellor repeats)

pfam00357
Location:1038 → 1052

Integrin_alpha; Integrin alpha cytoplasmic region

pfam08441
Location:464 → 939

Integrin_alpha2; Integrin alpha