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ITGA9 integrin subunit alpha 9 [ Homo sapiens (human) ]

Gene ID: 3680, updated on 24-Dec-2019

Summary

Official Symbol
ITGA9provided by HGNC
Official Full Name
integrin subunit alpha 9provided by HGNC
Primary source
HGNC:HGNC:6145
See related
Ensembl:ENSG00000144668 MIM:603963
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RLC; ITGA4L; ALPHA-RLC
Summary
This gene encodes an alpha integrin. Integrins are heterodimeric integral membrane glycoproteins composed of an alpha chain and a beta chain that mediate cell-cell and cell-matrix adhesion. The protein encoded by this gene, when bound to the beta 1 chain, forms an integrin that is a receptor for VCAM1, cytotactin and osteopontin. Expression of this gene has been found to be upregulated in small cell lung cancers. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in thyroid (RPKM 11.9), spleen (RPKM 11.4) and 24 other tissues See more
Orthologs

Genomic context

See ITGA9 in Genome Data Viewer
Location:
3p22.2
Exon count:
28
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (37452141..37823507)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (37493813..37861281)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene golgin A4 Neighboring gene RNA, 5S ribosomal pseudogene 129 Neighboring gene chromosome 3 open reading frame 35 Neighboring gene RNA, U7 small nuclear 73 pseudogene Neighboring gene VISTA enhancer hs1961 Neighboring gene ribosomal protein L21 pseudogene 135 Neighboring gene ITGA9 antisense RNA 1 Neighboring gene NADH:ubiquinone oxidoreductase complex assembly factor 4 pseudogene 3 Neighboring gene CTD small phosphatase like Neighboring gene HNF1 motif-containing MPRA enhancer 248 Neighboring gene microRNA 26a-1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A genome-wide association study identifies ITGA9 conferring risk of nasopharyngeal carcinoma.
NHGRI GWA Catalog
A genome-wide association study of behavioral disinhibition.
NHGRI GWA Catalog
Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations.
NHGRI GWA Catalog
Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations.
NHGRI GWA Catalog
Novel loci associated with PR interval in a genome-wide association study of 10 African American cohorts.
NHGRI GWA Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
collagen binding IEA
Inferred from Electronic Annotation
more info
 
laminin binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
cell adhesion IGI
Inferred from Genetic Interaction
more info
PubMed 
extracellular matrix organization TAS
Traceable Author Statement
more info
 
integrin-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
neutrophil chemotaxis IEA
Inferred from Electronic Annotation
more info
 
wound healing IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
basal plasma membrane IEA
Inferred from Electronic Annotation
more info
 
integrin alpha9-beta1 complex IEA
Inferred from Electronic Annotation
more info
 
integrin complex TAS
Traceable Author Statement
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
integrin alpha-9
Names
integrin alpha-RLC

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_016166.1 RefSeqGene

    Range
    5001..372469
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_002207.3NP_002198.2  integrin alpha-9 precursor

    See identical proteins and their annotated locations for NP_002198.2

    Status: REVIEWED

    Source sequence(s)
    AC092055, AC093415, BC030198, BX647350, D25303, L24158
    Consensus CDS
    CCDS2669.1
    UniProtKB/Swiss-Prot
    Q13797
    UniProtKB/TrEMBL
    Q8N6H6
    Related
    ENSP00000264741.5, ENST00000264741.10
    Conserved Domains (2) summary
    smart00191
    Location:361414
    Int_alpha; Integrin alpha (beta-propellor repeats)
    pfam08441
    Location:459903
    Integrin_alpha2; Integrin alpha

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    37452141..37823507
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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