Itgb6 integrin subunit beta 6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Itgb6provided by RGD
Official Full Name: integrin subunit beta 6provided by RGD
Primary source: RGD:1303119
See related: Ensembl:ENSRNOG00000008346 AllianceGenome:RGD:1303119
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable integrin binding activity. Predicted to be involved in several processes, including cell adhesion mediated by integrin; integrin-mediated signaling pathway; and transforming growth factor beta production. Predicted to act upstream of or within several processes, including animal organ development; hard palate development; and transmembrane receptor protein serine/threonine kinase signaling pathway. Predicted to be located in several cellular components, including centrosome; external side of plasma membrane; and nucleoplasm. Predicted to be part of integrin alphav-beta6 complex. Predicted to be active in cell surface and focal adhesion. 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 (RPKM 229.4), Muscle (RPKM 155.1) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 3q21

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (65454964..65579179, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (45046295..45170532, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (46652624..46775362, complement)

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?

Expression levels of NPPB, ITGB6, CPNE4, EML5, and ITSN1 in fresh exudates swabbed from critically colonised and infected full-thickness wounds in rats.
Title: Expression levels of NPPB, ITGB6, CPNE4, EML5, and ITSN1 in fresh exudates swabbed from critically colonised and infected full-thickness wounds in rats.
These data support the hypothesis that IL-1beta was initially induced by hyperoxia; alphavbeta6 subsequently interacted with and activated TGF-beta1.
Title: Interleukin-1β Promotes Epithelial-Derived Alveolar Elastogenesis via αvβ6 Integrin-Dependent TGF-β Activation.
Integrin alphavbeta6 is strongly induced de novo in newly formed bile ducts because of cholangiocyte proliferation during ischemia-related biliary fibrogenesis after liver transplantation.
Title: Role of integrin αvβ6 in the pathogenesis of ischemia-related biliary fibrosis after liver transplantation.
Lysophosphatidic acid signals through LPA2 receptors and Galphaq proteins of cultured proximal tubule cells to transactivate latent TGF-beta in a Rho/Rho-kinase and alphavbeta6 integrin-dependent manner.
Title: Lysophosphatidic acid increases proximal tubule cell secretion of profibrotic cytokines PDGF-B and CTGF through LPA2- and Gαq-mediated Rho and αvβ6 integrin-dependent activation of TGF-β.
Integrin alphavbeta6 is induced de novo in rodent and human liver fibrosis, where it is expressed on activated bile duct epithelia and (transitional) hepatocytes during fibrosis progression.
Title: Integrin alphavbeta6 is a marker of the progression of biliary and portal liver fibrosis and a novel target for antifibrotic therapies.
Integrin alphavbeta6 is strongly up-regulated in proliferating bile duct epithelia and drives fibrogenesis via adhesion to fibronectin and auto/paracrine TGF-beta1 activation.
Title: Inhibition of integrin alphavbeta6 on cholangiocytes blocks transforming growth factor-beta activation and retards biliary fibrosis progression.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables integrin binding	IBA Inferred from Biological aspect of Ancestor more info
enables integrin binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables molecular function activator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within Langerhans cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within bone development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bronchiole development	ISO Inferred from Sequence Orthology more info
involved_in cell adhesion mediated by integrin	IBA Inferred from Biological aspect of Ancestor more info
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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to ionizing radiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within enamel mineralization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within_negative_effect gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hard palate development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in integrin-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within lung alveolus development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within phospholipid homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to virus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to wounding	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skin development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within surfactant homeostasis	ISO Inferred from Sequence Orthology more info
involved_in transforming growth factor beta production	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within wound healing	ISO Inferred from Sequence Orthology more info

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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
part_of integrin alphav-beta6 complex	ISS Inferred from Sequence or Structural Similarity 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

General protein information

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Preferred Names: integrin beta-6

Names: integrin beta 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_001004263.1 → NP_001004263.1 integrin beta-6 precursor

See identical proteins and their annotated locations for NP_001004263.1

Status: PROVISIONAL

Source sequence(s)

BC079069

UniProtKB/Swiss-Prot

Q6AYF4

UniProtKB/TrEMBL

A6HLT3

Related

ENSRNOP00000011030.4, ENSRNOT00000011030.5

Conserved Domains (3) summary

pfam00362
Location:30 → 454

Integrin_beta; Integrin, beta chain

pfam07965
Location:624 → 705

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:732 → 774

Integrin_b_cyt; Integrin beta cytoplasmic domain

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

65454964..65579179 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006234232.3 → XP_006234294.1 integrin beta-6 isoform X1

See identical proteins and their annotated locations for XP_006234294.1

UniProtKB/Swiss-Prot

Q6AYF4

UniProtKB/TrEMBL

A6HLT3

Conserved Domains (3) summary

pfam00362
Location:30 → 454

Integrin_beta; Integrin, beta chain

pfam07965
Location:624 → 705

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:732 → 774

Integrin_b_cyt; Integrin beta cytoplasmic domain
XM_006234233.5 → XP_006234295.1 integrin beta-6 isoform X1

See identical proteins and their annotated locations for XP_006234295.1

UniProtKB/Swiss-Prot

Q6AYF4

UniProtKB/TrEMBL

A6HLT3

Conserved Domains (3) summary

pfam00362
Location:30 → 454

Integrin_beta; Integrin, beta chain

pfam07965
Location:624 → 705

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:732 → 774

Integrin_b_cyt; Integrin beta cytoplasmic domain