Itga6 integrin subunit alpha 6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Itga6provided by RGD
Official Full Name: integrin subunit alpha 6provided by RGD
Primary source: RGD:621633
See related: Ensembl:ENSRNOG00000001518 AllianceGenome:RGD:621633
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables laminin binding activity. Involved in cell-cell adhesion; cellular response to organic cyclic compound; and positive regulation of cell-substrate adhesion. Located in adherens junction and filopodium. Part of integrin alpha6-beta4 complex. Human ortholog(s) of this gene implicated in junctional epidermolysis bullosa and junctional epidermolysis bullosa with pyloric atresia. Orthologous to human ITGA6 (integrin subunit alpha 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 465.0), Thymus (RPKM 310.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q23

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (77012168..77097076)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (56604512..56689428)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (58442904..58515124)

Chromosome 3 - NC_086021.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Dahuang Zhechong pill attenuates hepatic sinusoidal capillarization in liver cirrhosis and hepatocellular carcinoma rat model via the MK/integrin signaling pathway.
Title: Dahuang Zhechong pill attenuates hepatic sinusoidal capillarization in liver cirrhosis and hepatocellular carcinoma rat model via the MK/integrin signaling pathway.
Increased Expression of Integrin Alpha 6 in Nucleus Pulposus Cells in Response to High Oxygen Tension Protects against Intervertebral Disc Degeneration.
Title: Increased Expression of Integrin Alpha 6 in Nucleus Pulposus Cells in Response to High Oxygen Tension Protects against Intervertebral Disc Degeneration.
Regulation of integrin alpha6A by lactogenic hormones in rat pancreatic beta-cells: Implications for the physiological adaptation to pregnancy.
Title: Regulation of integrin α6A by lactogenic hormones in rat pancreatic β-cells: Implications for the physiological adaptation to pregnancy.
The Rab11 effector SH3TC2 associates with integrin-alpha 6, which is expressed in myelinating Schwann cells.
Title: Exclusive expression of the Rab11 effector SH3TC2 in Schwann cells links integrin-α6 and myelin maintenance to Charcot-Marie-Tooth disease type 4C.
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.
Decreased expression of Itga3, Itga6, and Itga8 in the pulmonary mesenchyme may lead to disruptions in airway branching morphogenesis, thus contributing to pulmonary hypoplasia in the nitrofen-induced congenital diaphragmatic hernia model.
Title: Decreased Expression of Integrin Subunits α3, α6, and α8 in the Branching Airway Mesenchyme of Nitrofen-Induced Hypoplastic Lungs.
The present results provide a new evidence on acupuncture-specific tissue response in terms of integrin induction, and further suggest that integrin activation may be involved in transmitting mechanosensory signals from the acupoint to afferent nerve fiber.
Title: Induction of α6 and β1 integrins by acupuncture stimulation in rats.
formation of CD151-integrin complex was likely to be a prerequisite for CD151-induced angiogenesis and signaling pathways
Title: Role of tetraspanin CD151-α3/α6 integrin complex: Implication in angiogenesis CD151-integrin complex in angiogenesis.
Results show that salivary glands integrin alpha(6)beta(1)-expressing (SGIE) cells could be isolated and cultivated from untreated animals.
Title: Isolation and cultivation of integrin alpha(6)beta(1)-expressing salivary gland graft cells: a model for use with an artificial salivary gland.
alpha4beta1- and alpha6beta1-integrins are functional receptors for midkine
Title: alpha4beta1- and alpha6beta1-integrins are functional receptors for midkine, a heparin-binding growth factor.

Submit: New GeneRIF Correction See all GeneRIFs (14)

General gene information

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Markers

RH138432 (e-PCR)
- UniSTS:220519

RH133150 (e-PCR)
- UniSTS:216433

X69902 (e-PCR)
- UniSTS:163286

Gene Ontology Provided by RGD

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
enables integrin binding	ISO Inferred from Sequence Orthology more info
enables laminin binding	IPI Inferred from Physical Interaction more info	PubMed
enables neuregulin binding	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within brown fat cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in cell adhesion mediated by integrin	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cell adhesion mediated by integrin	ISO Inferred from Sequence Orthology more info
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell-matrix adhesion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within 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 cellular response to extracellular stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in ectodermal cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within filopodium assembly	ISO Inferred from Sequence Orthology more info
involved_in integrin-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in leukocyte migration	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within leukocyte migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymphoid lineage cell migration	ISO Inferred from Sequence Orthology more info
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	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	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell-substrate adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
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	IDA Inferred from Direct Assay more info	PubMed
located_in basal part of cell	ISO Inferred from Sequence Orthology more info
located_in basal plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basement membrane	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
located_in filopodium	IDA Inferred from Direct Assay more info	PubMed
located_in hemidesmosome	ISO Inferred from Sequence Orthology more info
part_of integrin alpha6-beta4 complex	IDA Inferred from Direct Assay more info	PubMed
part_of integrin complex	IBA Inferred from Biological aspect of Ancestor more info
part_of integrin complex	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: integrin alpha-6

Names: integrin, alpha 6

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_053725.2 → NP_446177.2 integrin alpha-6 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6G9S4, A6HM56, G3V667

Related

ENSRNOP00000002075.3, ENSRNOT00000002075.5

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

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086021.1 Reference GRCr8

Range

77012168..77097076

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282995.1 → XP_063139065.1 integrin alpha-6 isoform X3

UniProtKB/TrEMBL

A0A8I6AJE9
XM_039104096.2 → XP_038960024.1 integrin alpha-6 isoform X1

UniProtKB/TrEMBL

A0A8I6G9S4, A6HM55

Conserved Domains (2) summary

smart00191
Location:374 → 425

Int_alpha; Integrin alpha (beta-propellor repeats)

pfam08441
Location:464 → 939

Integrin_alpha2; Integrin alpha
XM_039104095.2 → XP_038960023.1 integrin alpha-6 isoform X1

UniProtKB/TrEMBL

A0A8I6G9S4, A6HM55

Conserved Domains (2) summary

smart00191
Location:374 → 425

Int_alpha; Integrin alpha (beta-propellor repeats)

pfam08441
Location:464 → 939

Integrin_alpha2; Integrin alpha
XM_039104097.2 → XP_038960025.1 integrin alpha-6 isoform X2

UniProtKB/TrEMBL

A0A8I6G9S4, A6HM56, G3V667

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