Itgb4 integrin subunit beta 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Itgb4provided by RGD
Official Full Name: integrin subunit beta 4provided by RGD
Primary source: RGD:2928
See related: Ensembl:ENSRNOG00000005580 AllianceGenome:RGD:2928
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: Predicted to enable G protein-coupled receptor binding activity and integrin binding activity. Predicted to contribute to insulin-like growth factor I binding activity and neuregulin binding activity. Predicted to be involved in several processes, including hemidesmosome assembly; integrin-mediated signaling pathway; and skin morphogenesis. Predicted to act upstream of or within several processes, including filopodium assembly; peripheral nervous system myelin formation; and trophoblast cell migration. Located in cell cortex and membrane. Human ortholog(s) of this gene implicated in junctional epidermolysis bullosa non-Herlitz type and junctional epidermolysis bullosa with pyloric atresia. Orthologous to human ITGB4 (integrin subunit beta 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 62.0), Muscle (RPKM 43.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q32.1

Exon count:: 41

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (101705592..101741933)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (101206657..101243012)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (104524000..104560180)

Chromosome 10 - NC_086028.1 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?

Astrocytes increase exosomal secretion of oligodendrocyte precursor cells to promote their proliferation via integrin beta4-mediated cell adhesion.
Title: Astrocytes increase exosomal secretion of oligodendrocyte precursor cells to promote their proliferation via integrin β4-mediated cell adhesion.
this study suggests that downregulation of integrin beta4 is important for the development ozone stress-induced airway hyperresponsiveness, presumably because it causes increased oxidative damage and epithelial apoptosis.
Title: Involvement of integrin beta4 in ozone stress-induced airway hyperresponsiveness.
changes in transcription factor, c-Jun and krox-20, and integrin beta4 expression are temporally correlated with the process of demyelination, suggesting roles in regulating the myelin response to CNC injury
Title: c-Jun, krox-20, and integrin beta4 expression following chronic nerve compression injury.
the SDL segment of the beta4 integrin subunit is required for ligand binding and is involved in outside-in signaling
Title: Crucial role of the specificity-determining loop of the integrin beta4 subunit in the binding of cells to laminin-5 and outside-in signal transduction.
During early stages of myelination, PMP22 and beta4 integrin are coexpressed at the DRG cell surface and can be coimmunoprecipitated together with laminin and alpha6 integrin.
Title: Peripheral myelin protein 22 is in complex with alpha6beta4 integrin, and its absence alters the Schwann cell basal lamina.

Submit: New GeneRIF Correction

General gene information

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Markers

AU047884 (e-PCR)
- UniSTS:110082

RH94625 (e-PCR)
- UniSTS:119873

RH130868 (e-PCR)
- UniSTS:214152

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables G protein-coupled receptor binding	IEA Inferred from Electronic Annotation more info
enables G protein-coupled receptor binding	ISO Inferred from Sequence Orthology more info
enables cell adhesion molecule binding	TAS Traceable Author Statement more info	PubMed
enables insulin-like growth factor I binding	IEA Inferred from Electronic Annotation more info
contributes_to insulin-like growth factor I binding	ISO Inferred from Sequence Orthology more info
contributes_to 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 metal ion binding	IEA Inferred from Electronic Annotation more info
enables neuregulin binding	IEA Inferred from Electronic Annotation more info
contributes_to neuregulin binding	ISO Inferred from Sequence Orthology more info
contributes_to neuregulin binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in autophagy	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cell adhesion	TAS Traceable Author Statement more info	PubMed
involved_in cell adhesion mediated by integrin	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell motility	ISO Inferred from Sequence Orthology more info
involved_in cell motility	ISS Inferred from Sequence or Structural Similarity 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
involved_in cell-matrix adhesion	IEA Inferred from Electronic Annotation more info
involved_in cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in filopodium assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within filopodium assembly	ISO Inferred from Sequence Orthology more info
involved_in hemidesmosome assembly	IEA Inferred from Electronic Annotation more info
involved_in hemidesmosome 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 integrin-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in integrin-mediated signaling pathway	TAS Traceable Author Statement more info	PubMed
involved_in mesodermal cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in mesodermal cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within myelination in peripheral nervous system	ISO Inferred from Sequence Orthology more info
involved_in nail development	IEA Inferred from Electronic Annotation more info
involved_in nail development	ISO Inferred from Sequence Orthology more info
involved_in peripheral nervous system myelin formation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within peripheral nervous system myelin formation	ISO Inferred from Sequence Orthology more info
involved_in response to wounding	IEA Inferred from Electronic Annotation more info
involved_in response to wounding	ISO Inferred from Sequence Orthology more info
involved_in response to wounding	ISS Inferred from Sequence or Structural Similarity more info
involved_in skin morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in skin morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in trophoblast cell migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within trophoblast cell migration	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in basal plasma membrane	IEA Inferred from Electronic Annotation more info
located_in basal plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basement membrane	IEA Inferred from Electronic Annotation more info
located_in basement membrane	ISO Inferred from Sequence Orthology more info
located_in cell cortex	IDA Inferred from Direct Assay more info	PubMed
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in cell leading edge	IEA Inferred from Electronic Annotation more info
located_in cell leading edge	ISO Inferred from Sequence Orthology more info
located_in cell leading edge	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in extracellular space	TAS Traceable Author Statement more info	PubMed
is_active_in focal adhesion	IBA Inferred from Biological aspect of Ancestor more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in hemidesmosome	IEA Inferred from Electronic Annotation more info
located_in hemidesmosome	ISO Inferred from Sequence Orthology more info
part_of integrin complex	IBA Inferred from Biological aspect of Ancestor more info
part_of integrin complex	IEA Inferred from Electronic Annotation more info
part_of integrin complex	ISO Inferred from Sequence Orthology more info
part_of integrin complex	TAS Traceable Author Statement more info	PubMed
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear membrane	ISO Inferred from Sequence Orthology more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
part_of receptor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: integrin beta-4

Names: GP150

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_013180.2 → NP_037312.2 integrin beta-4 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/Swiss-Prot

Q64632

UniProtKB/TrEMBL

A6HKS7, F1LSD3

Related

ENSRNOP00000059783.2, ENSRNOT00000065339.3

Conserved Domains (6) summary

smart00237
Location:992 → 1086

Calx_beta; Domains in Na-Ca exchangers and integrin-beta4

cd00063
Location:1512 → 1593

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:1626 → 1711

fn3; Fibronectin type III domain

pfam07965
Location:628 → 711

Integrin_B_tail; Integrin beta tail domain

pfam18372
Location:458 → 486

I-EGF_1; Integrin beta epidermal growth factor like domain 1

cl00057
Location:37 → 454

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

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_086028.1 Reference GRCr8

Range

101705592..101741933

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039085295.2 → XP_038941223.1 integrin beta-4 isoform X1

UniProtKB/Swiss-Prot

Q64632

Conserved Domains (6) summary

smart00237
Location:992 → 1086

Calx_beta; Domains in Na-Ca exchangers and integrin-beta4

cd00063
Location:1577 → 1658

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:1691 → 1776

fn3; Fibronectin type III domain

pfam07965
Location:628 → 711

Integrin_B_tail; Integrin beta tail domain

pfam18372
Location:458 → 486

I-EGF_1; Integrin beta epidermal growth factor like domain 1

cl00057
Location:37 → 454

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
XM_039085296.2 → XP_038941224.1 integrin beta-4 isoform X2

UniProtKB/Swiss-Prot

Q64632

UniProtKB/TrEMBL

A0A0G2K4V5

Related

ENSRNOP00000073188.2

Conserved Domains (6) summary

smart00237
Location:992 → 1086

Calx_beta; Domains in Na-Ca exchangers and integrin-beta4

cd00063
Location:1524 → 1605

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:1638 → 1723

fn3; Fibronectin type III domain

pfam07965
Location:628 → 711

Integrin_B_tail; Integrin beta tail domain

pfam18372
Location:458 → 486

I-EGF_1; Integrin beta epidermal growth factor like domain 1

cl00057
Location:37 → 454

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
XM_039085297.2 → XP_038941225.1 integrin beta-4 isoform X3

UniProtKB/Swiss-Prot

Q64632

Conserved Domains (6) summary

smart00237
Location:992 → 1086

Calx_beta; Domains in Na-Ca exchangers and integrin-beta4

cd00063
Location:1459 → 1540

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:1573 → 1658

fn3; Fibronectin type III domain

pfam07965
Location:628 → 711

Integrin_B_tail; Integrin beta tail domain

pfam18372
Location:458 → 486

I-EGF_1; Integrin beta epidermal growth factor like domain 1

cl00057
Location:37 → 454

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...