Itga9 integrin subunit alpha 9 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Itga9provided by RGD
Official Full Name: integrin subunit alpha 9provided by RGD
Primary source: RGD:1311191
See related: EnsemblRapid:ENSRNOG00000043167 AllianceGenome:RGD:1311191
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
Also known as: Itga9l
Summary: Enables collagen binding activity and laminin binding activity. Predicted to be involved in several processes, including cell adhesion mediated by integrin; integrin-mediated signaling pathway; and negative regulation of vasoconstriction. Predicted to act upstream of or within cell adhesion and neutrophil chemotaxis. Part of integrin alpha9-beta1 complex. Human ortholog(s) of this gene implicated in cerebral infarction; hypertension; and pancreatic cancer. Orthologous to human ITGA9 (integrin subunit alpha 9). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Heart (RPKM 172.2), Adrenal (RPKM 119.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q32

Exon count:: 31

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (127185244..127493296)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (118307424..118615527)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (127271029..127576709)

Chromosome 8 - NC_086026.1 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?

In a liver fibrosis cellular model, tenascin-C promotes migration of hepatic stellate cells and production of type I collagen via TGF-beta1 and alpha9beta1 integrin pathway.
Title: Tenascin-C promotes migration of hepatic stellate cells and production of type I collagen.
these data suggest that SLAYGLR-mediated alpha(4)beta(1) and alpha(9)beta(1) integrin signaling may be responsible for higher hepatic neutrophil infiltration and higher liver injury in the rat alcoholic steatohepatitis (ASH)model
Title: Interaction of osteopontin with neutrophil alpha(4)beta(1) and alpha(9)beta(1) integrins in a rodent model of alcoholic liver disease.

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General gene information

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Markers

AU049476 (e-PCR)
- UniSTS:145923

BE102516 (e-PCR)
- UniSTS:244233

D8Got195 (e-PCR)
- UniSTS:114225

RH144307 (e-PCR)
- UniSTS:233552

D8Got193 (e-PCR)
- UniSTS:114823

AU048253 (e-PCR)
- UniSTS:109719

D9Ertd428e (e-PCR), detects polymorphism
- UniSTS:167621

RH132998 (e-PCR)
- UniSTS:216281

AU047111 (e-PCR)
- UniSTS:110830

D8Got167 (e-PCR)
- UniSTS:112880

D2Mgh4 (e-PCR), detects polymorphism
- UniSTS:227319

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables collagen binding	IDA Inferred from Direct Assay more info	PubMed
enables integrin binding	IBA Inferred from Biological aspect of Ancestor more info
enables integrin binding involved in cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
enables laminin binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell adhesion	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-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 integrin-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of vasoconstriction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neutrophil chemotaxis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in basal plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
part_of integrin alpha9-beta1 complex	IDA Inferred from Direct Assay more info	PubMed
part_of integrin alpha9-beta1 complex	ISO Inferred from Sequence Orthology more info
part_of integrin complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: integrin alpha-9

Names: integrin, alpha 9

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_001420002.2 → NP_001406931.1 integrin alpha-9 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

A6I3U4, D3ZN51

Related

ENSRNOP00000015113.9, ENSRNOT00000015113.9

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_086026.1 Reference GRCr8

Range

127185244..127493296

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063266145.1 → XP_063122215.1 integrin alpha-9 isoform X3
XM_039082700.2 → XP_038938628.1 integrin alpha-9 isoform X1

UniProtKB/TrEMBL

A0A8I6GL49, A6I3U4

Related

ENSRNOP00000094362.1, ENSRNOT00000095055.2

Conserved Domains (2) summary

smart00191
Location:309 → 362

Int_alpha; Integrin alpha (beta-propellor repeats)

pfam08441
Location:407 → 851

Integrin_alpha2; Integrin alpha
XM_039082701.2 → XP_038938629.1 integrin alpha-9 isoform X2

UniProtKB/TrEMBL

A6I3U4

Related

ENSRNOP00000103989.1, ENSRNOT00000139641.1

Conserved Domains (2) summary

smart00191
Location:260 → 313

Int_alpha; Integrin alpha (beta-propellor repeats)

pfam08441
Location:358 → 802

Integrin_alpha2; Integrin alpha
XM_039082703.2 → XP_038938631.1 integrin alpha-9 isoform X4

Conserved Domains (1) summary

pfam08441
Location:1 → 353

Integrin_alpha2; Integrin alpha