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Aliases for ITGA9 Gene

Aliases for ITGA9 Gene

  • Integrin Subunit Alpha 9 2 3 5
  • Integrin Alpha-RLC 3 4
  • Integrin, Alpha 4-Like 2
  • Integrin, Alpha 9 2
  • Integrin Alpha-9 3
  • ALPHA-RLC 3
  • ITGA4L 3
  • RLC 3

External Ids for ITGA9 Gene

Previous GeneCards Identifiers for ITGA9 Gene

  • GC03P036794
  • GC03P037306
  • GC03P037454

Summaries for ITGA9 Gene

Entrez Gene Summary for ITGA9 Gene

  • 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]

GeneCards Summary for ITGA9 Gene

ITGA9 (Integrin Subunit Alpha 9) is a Protein Coding gene. Diseases associated with ITGA9 include Chylothorax, Congenital and Muir-Torre Syndrome. Among its related pathways are GPCR Pathway and MAPK-Erk Pathway. GO annotations related to this gene include collagen binding and laminin binding. An important paralog of this gene is ITGA4.

UniProtKB/Swiss-Prot for ITGA9 Gene

  • Integrin alpha-9/beta-1 (ITGA9:ITGB1) is a receptor for VCAM1, cytotactin and osteopontin. It recognizes the sequence A-E-I-D-G-I-E-L in cytotactin.

Gene Wiki entry for ITGA9 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ITGA9 Gene

Genomics for ITGA9 Gene

Regulatory Elements for ITGA9 Gene

Enhancers for ITGA9 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH03G037764 2.1 VISTA FANTOM5 Ensembl ENCODE 13.8 +314.7 314667 4.6 HDGF PKNOX1 FOXA2 CREB3L1 ARNT FEZF1 ZNF766 REST MEF2D SMARCA4 ITGA9 OXSR1 GC03P037748 NDUFAF4P3
GH03G037476 1.1 FANTOM5 ENCODE dbSUPER 22.7 +25.9 25864 3.6 ZNF146 NRF1 MAFG HNF4A NR2F2 ITGA9 RNU7-73P LRRFIP2 GC03M037573
GH03G037452 1.6 FANTOM5 Ensembl ENCODE dbSUPER 15.6 +3.9 3944 7.5 BCOR CTCF RNF2 SUZ12 TAF1 NR2F1 ZMYM3 MAX REST RAD21 ITGA9 LRRFIP2 GOLGA4 GC03M037573
GH03G037491 1.1 Ensembl ENCODE dbSUPER 19.9 +41.0 40997 3.4 CTCF CEBPB ZMYM3 FEZF1 MNT EBF1 RAD21 EP300 NR2F2 SMARCA4 ITGA9 RNU7-73P GC03M037573
GH03G036911 1.9 FANTOM5 Ensembl ENCODE dbSUPER 10.2 -539.7 -539676 2.6 PKNOX1 ATF1 FOXA2 CREB3L1 ARNT YBX1 TCF12 GATA2 CBX5 FOS LRRFIP2 ITGA9 EPM2AIP1 TRANK1 GOLGA4 MLH1 GC03M036882 GC03P036930
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ITGA9 on UCSC Golden Path with GeneCards custom track

Promoters for ITGA9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000150880 385 1001 BCOR CTCF RB1 SUZ12 ZMYM3 ZIC2 ZNF2 RAD21 CCNT2 FOXM1

Genomic Location for ITGA9 Gene

Chromosome:
3
Start:
37,452,115 bp from pter
End:
37,823,514 bp from pter
Size:
371,400 bases
Orientation:
Plus strand

Genomic View for ITGA9 Gene

Genes around ITGA9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ITGA9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ITGA9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ITGA9 Gene

Proteins for ITGA9 Gene

  • Protein details for ITGA9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13797-ITA9_HUMAN
    Recommended name:
    Integrin alpha-9
    Protein Accession:
    Q13797
    Secondary Accessions:
    • Q14638

    Protein attributes for ITGA9 Gene

    Size:
    1035 amino acids
    Molecular mass:
    114489 Da
    Quaternary structure:
    • Heterodimer of an alpha and a beta subunit. Alpha-9 (ITGA9) associates with beta-1 (ITGB1). Integrin ITGA9:ITGB1 interacts with FBLN5 (via N-terminus).

neXtProt entry for ITGA9 Gene

Post-translational modifications for ITGA9 Gene

  • Glycosylation at isoforms=225, posLast=476476, posLast=493493, isoforms=612, isoforms=654, isoforms=658, posLast=672672, posLast=676676, isoforms=807, posLast=854854, and posLast=904904
  • Modification sites at PhosphoSitePlus

Other Protein References for ITGA9 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • R&D Systems Antibodies for ITGA9 (Integrin alpha 9)

No data available for DME Specific Peptides for ITGA9 Gene

Domains & Families for ITGA9 Gene

Gene Families for ITGA9 Gene

Suggested Antigen Peptide Sequences for ITGA9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q13797

UniProtKB/Swiss-Prot:

ITA9_HUMAN :
  • Belongs to the integrin alpha chain family.
Family:
  • Belongs to the integrin alpha chain family.
genes like me logo Genes that share domains with ITGA9: view

Function for ITGA9 Gene

Molecular function for ITGA9 Gene

GENATLAS Biochemistry:
integrin,alpha 9,cell surface adhesion receptor mediating cell-adhesion to extra cellular matrix or to other cells,through hetero dimerization and connecting to the cytoskeleton and various signaling molecules within cells,expressed in lung,small intestine and other cell lines,protein complexing with ITGB1
UniProtKB/Swiss-Prot Function:
Integrin alpha-9/beta-1 (ITGA9:ITGB1) is a receptor for VCAM1, cytotactin and osteopontin. It recognizes the sequence A-E-I-D-G-I-E-L in cytotactin.
UniProtKB/Swiss-Prot Induction:
Up-regulated in small cell lung cancers (SCLC).

Gene Ontology (GO) - Molecular Function for ITGA9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005518 collagen binding IEA --
GO:0043236 laminin binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ITGA9: view
genes like me logo Genes that share phenotypes with ITGA9: view

Animal Models for ITGA9 Gene

MGI Knock Outs for ITGA9:

Animal Model Products

  • Taconic Biosciences Mouse Models for ITGA9

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for ITGA9

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ITGA9 Gene

Localization for ITGA9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ITGA9 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ITGA9 gene
Compartment Confidence
plasma membrane 5
extracellular 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for ITGA9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0008305 integrin complex TAS 8245132
GO:0009925 basal plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with ITGA9: view

Pathways & Interactions for ITGA9 Gene

genes like me logo Genes that share pathways with ITGA9: view

Gene Ontology (GO) - Biological Process for ITGA9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion IGI,TAS 21060781
GO:0007229 integrin-mediated signaling pathway IEA --
GO:0030198 extracellular matrix organization TAS --
GO:0030593 neutrophil chemotaxis IEA --
GO:0042060 wound healing IEA --
genes like me logo Genes that share ontologies with ITGA9: view

No data available for SIGNOR curated interactions for ITGA9 Gene

Drugs & Compounds for ITGA9 Gene

(1) Drugs for ITGA9 Gene - From: ApexBio

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
RGD (Arg-Gly-Asp) Peptides Pharma Inhibits integrin binding to RGD motifs 0

(1) ApexBio Compounds for ITGA9 Gene

Compound Action Cas Number
RGD (Arg-Gly-Asp) Peptides Inhibits integrin binding to RGD motifs 99896-85-2
genes like me logo Genes that share compounds with ITGA9: view

Drug Products

Transcripts for ITGA9 Gene

Unigene Clusters for ITGA9 Gene

Integrin, alpha 9:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for ITGA9

Alternative Splicing Database (ASD) splice patterns (SP) for ITGA9 Gene

No ASD Table

Relevant External Links for ITGA9 Gene

GeneLoc Exon Structure for
ITGA9
ECgene alternative splicing isoforms for
ITGA9

Expression for ITGA9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ITGA9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ITGA9 Gene

This gene is overexpressed in Artery - Aorta (x4.1).

Protein differential expression in normal tissues from HIPED for ITGA9 Gene

This gene is overexpressed in Stomach (9.3), Heart (8.8), and Fetal gut (8.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for ITGA9 Gene



Protein tissue co-expression partners for ITGA9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ITGA9 Gene:

ITGA9

SOURCE GeneReport for Unigene cluster for ITGA9 Gene:

Hs.113157

mRNA Expression by UniProt/SwissProt for ITGA9 Gene:

Q13797-ITA9_HUMAN
Tissue specificity: In airway epithelium, in the basal layer of squamous epithelium, and in smooth muscle, skeletal muscle, and hepatocytes. Abundantly expressed in fetal lung and lung cancers.

Evidence on tissue expression from TISSUES for ITGA9 Gene

  • Lung(4.4)
  • Intestine(4.3)
  • Liver(4.2)
  • Nervous system(2.2)
genes like me logo Genes that share expression patterns with ITGA9: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for ITGA9 Gene

Orthologs for ITGA9 Gene

This gene was present in the common ancestor of animals.

Orthologs for ITGA9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ITGA9 34 35
  • 99.48 (n)
dog
(Canis familiaris)
Mammalia ITGA9 34 35
  • 91.01 (n)
cow
(Bos Taurus)
Mammalia ITGA9 34 35
  • 90.18 (n)
mouse
(Mus musculus)
Mammalia Itga9 34 16 35
  • 85.76 (n)
rat
(Rattus norvegicus)
Mammalia Itga9 34
  • 85.32 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia ITGA9 35
  • 84 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ITGA9 35
  • 82 (a)
OneToOne
chicken
(Gallus gallus)
Aves ITGA9 34 35
  • 77.27 (n)
lizard
(Anolis carolinensis)
Reptilia ITGA9 35
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia itga9 34
  • 71.3 (n)
zebrafish
(Danio rerio)
Actinopterygii itga9 34 35
  • 63.12 (n)
zgc63474 34
fruit fly
(Drosophila melanogaster)
Insecta alphaPS5 36 35
  • 25 (a)
scb 36 35
  • 25 (a)
alphaPS4 36 35
  • 23 (a)
worm
(Caenorhabditis elegans)
Secernentea ina-1 36
  • 25 (a)
Species where no ortholog for ITGA9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for ITGA9 Gene

ENSEMBL:
Gene Tree for ITGA9 (if available)
TreeFam:
Gene Tree for ITGA9 (if available)

Paralogs for ITGA9 Gene

(6) SIMAP similar genes for ITGA9 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with ITGA9: view

Variants for ITGA9 Gene

Sequence variations from dbSNP and Humsavar for ITGA9 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs781472543 A breast cancer sample 37,741,743(+) CGGAG(C/T)GCTCT reference, missense
rs76424398 Benign 37,777,549(+) AACAC(A/G)GGTGG intron-variant
rs1000011496 -- 37,522,620(+) TGGGA(A/G)GCTAA intron-variant
rs1000021975 -- 37,612,956(+) GTGCT(A/G)TTCTT intron-variant
rs1000028414 -- 37,563,882(+) TGGGA(C/T)AGTCC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ITGA9 Gene

Variant ID Type Subtype PubMed ID
esv1009667 CNV insertion 20482838
esv1011375 CNV insertion 20482838
esv1186705 CNV insertion 17803354
esv1688032 CNV deletion 17803354
esv1931472 CNV deletion 18987734
esv23441 CNV loss 19812545
esv24143 CNV gain 19812545
esv2673591 CNV deletion 23128226
esv2725157 CNV deletion 23290073
esv2759140 CNV loss 17122850
esv28634 CNV gain 19812545
esv3307689 CNV mobile element insertion 20981092
esv3309034 CNV mobile element insertion 20981092
esv3336257 CNV insertion 20981092
esv3341274 CNV duplication 20981092
esv3357437 CNV insertion 20981092
esv3374754 CNV insertion 20981092
esv3568691 CNV loss 25503493
esv3595885 CNV gain 21293372
esv3595886 CNV gain 21293372
esv3595887 CNV gain 21293372
esv3595895 CNV gain 21293372
esv3595897 CNV loss 21293372
nsv1112822 CNV deletion 24896259
nsv1115639 CNV duplication 24896259
nsv1136716 CNV deletion 24896259
nsv1150057 CNV insertion 26484159
nsv1160928 CNV duplication 26073780
nsv3763 CNV insertion 18451855
nsv3764 CNV insertion 18451855
nsv3765 CNV deletion 18451855
nsv474798 CNV novel sequence insertion 20440878
nsv476421 CNV novel sequence insertion 20440878
nsv479701 CNV novel sequence insertion 20440878
nsv508910 CNV insertion 20534489
nsv518574 CNV gain 19592680
nsv522176 CNV loss 19592680
nsv527466 CNV loss 19592680
nsv834666 CNV gain+loss 17160897
nsv965158 CNV duplication 23825009
nsv979820 CNV duplication 23825009

Variation tolerance for ITGA9 Gene

Residual Variation Intolerance Score: 24.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.68; 57.10% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ITGA9 Gene

Human Gene Mutation Database (HGMD)
ITGA9
SNPedia medical, phenotypic, and genealogical associations of SNPs for
ITGA9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ITGA9 Gene

Disorders for ITGA9 Gene

MalaCards: The human disease database

(3) MalaCards diseases for ITGA9 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
chylothorax, congenital
  • congenital chylothorax
muir-torre syndrome
  • keratoacanthoma
lynch syndrome
  • coca 1
- elite association - COSMIC cancer census association via MalaCards
Search ITGA9 in MalaCards View complete list of genes associated with diseases

Relevant External Links for ITGA9

Genetic Association Database (GAD)
ITGA9
Human Genome Epidemiology (HuGE) Navigator
ITGA9
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ITGA9
genes like me logo Genes that share disorders with ITGA9: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ITGA9 Gene

Publications for ITGA9 Gene

  1. Sequence and tissue distribution of the integrin alpha 9 subunit, a novel partner of beta 1 that is widely distributed in epithelia and muscle. (PMID: 8245132) Palmer E.L. … Sheppard D. (J. Cell Biol. 1993) 2 3 4 22 64
  2. Aberrant upregulation of a novel integrin alpha subunit gene at 3p21.3 in small cell lung cancer. (PMID: 8290272) Hibi K. … Takahashi T. (Oncogene 1994) 2 3 4 64
  3. Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations. (PMID: 22359512) Demirkan A. … Schmitz G. (PLoS Genet. 2012) 3 46 64
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  5. Blood pressure and hypertension are associated with 7 loci in the Japanese population. (PMID: 20479155) Takeuchi F. … Kato N. (Circulation 2010) 3 46 64

Products for ITGA9 Gene

  • Addgene plasmids for ITGA9

Sources for ITGA9 Gene

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