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Aliases for SNX9 Gene

Aliases for SNX9 Gene

  • Sorting Nexin 9 2 3 5
  • SH3 And PX Domain-Containing Protein 3A 3 4
  • SH3 And PX Domain-Containing Protein 1 3 4
  • SH3PXD3A 3 4
  • SH3PX1 3 4
  • Wiskott-Aldrich Syndrome Protein (WASP) Interactor Protein 3
  • Sorting Nexin-9 3
  • Protein SDP1 4
  • SDP1 3
  • WISP 3

External Ids for SNX9 Gene

Previous GeneCards Identifiers for SNX9 Gene

  • GC06P158117
  • GC06P158153
  • GC06P158110
  • GC06P155760

Summaries for SNX9 Gene

Entrez Gene Summary for SNX9 Gene

  • This gene encodes a member of the sorting nexin family. Members of this family contain a phosphoinositide binding domain, and are involved in intracellular trafficking. The encoded protein does not contain a coiled coil region, like some family members, but does contain a SRC homology domain near its N-terminus. The encoded protein is reported to have a variety of interaction partners, including of adaptor protein 2 , dynamin, tyrosine kinase non-receptor 2, Wiskott-Aldrich syndrome-like, and ARP3 actin-related protein 3. The encoded protein is implicated in several stages of intracellular trafficking, including endocytosis, macropinocytosis, and F-actin nucleation. [provided by RefSeq, Jul 2013]

GeneCards Summary for SNX9 Gene

SNX9 (Sorting Nexin 9) is a Protein Coding gene. Diseases associated with SNX9 include Wiskott-Aldrich Syndrome. Among its related pathways are Clathrin derived vesicle budding and Vesicle-mediated transport. GO annotations related to this gene include protein homodimerization activity and phosphatidylinositol binding. An important paralog of this gene is SNX33.

UniProtKB/Swiss-Prot for SNX9 Gene

  • Involved in endocytosis and intracellular vesicle trafficking, both during interphase and at the end of mitosis. Required for efficient progress through mitosis and cytokinesis. Required for normal formation of the cleavage furrow at the end of mitosis. Plays a role in endocytosis via clathrin-coated pits, but also clathrin-independent, actin-dependent fluid-phase endocytosis. Plays a role in macropinocytosis. Promotes internalization of TNFR. Promotes degradation of EGFR after EGF signaling. Stimulates the GTPase activity of DNM1. Promotes DNM1 oligomerization. Promotes activation of the Arp2/3 complex by WASL, and thereby plays a role in the reorganization of the F-actin cytoskeleton. Binds to membranes enriched in phosphatidylinositol 4,5-bisphosphate and promotes membrane tubulation. Has lower affinity for membranes enriched in phosphatidylinositol 3-phosphate.

Gene Wiki entry for SNX9 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNX9 Gene

Genomics for SNX9 Gene

Regulatory Elements for SNX9 Gene

Enhancers for SNX9 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
GH06G157754 2 FANTOM5 Ensembl ENCODE dbSUPER 23.2 +56.6 56587 4.9 HDGF PKNOX1 MLX ARNT ARID4B YBX1 ZNF2 SLC30A9 ZNF766 ZNF143 SNX9 ENSG00000234361 LOC105378078 RNU6-786P ENSG00000229502 SYNJ2
GH06G157759 2.1 FANTOM5 Ensembl ENCODE dbSUPER 20.7 +62.7 62738 6.5 FOXA2 PKNOX1 CREB3L1 MLX WRNIP1 ZFP64 SIN3A ARID4B DMAP1 YY1 SNX9 ENSG00000234361 LOC105378078 LOC100420839 ENSG00000229502 SYNJ2 RNU6-786P
GH06G157767 1.8 FANTOM5 Ensembl ENCODE dbSUPER 10.8 +69.0 68989 4.7 TBP FOS IKZF2 ZNF202 ZNF654 ZNF680 ZNF426 REST ZNF623 ZNF518A ENSG00000271551 ENSG00000271265 SNX9 HSPE1P26 ENSG00000234361
GH06G157867 1 ENCODE dbSUPER 17.9 +168.5 168490 1.9 PKNOX1 ZSCAN4 BMI1 CEBPG ZBTB40 FOSL1 ZNF121 ZNF766 ARID3A ZNF316 SNX9 LOC105378078 RNU6-786P SYNJ2 ENSG00000229502 ENSG00000234361
GH06G157892 1.3 FANTOM5 ENCODE 12.2 +192.5 192538 2.2 HDAC1 HDGF PKNOX1 ATF1 TBL1XR1 NFXL1 ZBTB40 TCF12 ZNF766 GATA2 SNX9 RNU6-786P SYNJ2 LOC105378078 ENSG00000229502
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SNX9 on UCSC Golden Path with GeneCards custom track

Genomic Location for SNX9 Gene

Chromosome:
6
Start:
157,700,387 bp from pter
End:
157,945,077 bp from pter
Size:
244,691 bases
Orientation:
Plus strand

Genomic View for SNX9 Gene

Genes around SNX9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNX9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNX9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNX9 Gene

Proteins for SNX9 Gene

  • Protein details for SNX9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5X1-SNX9_HUMAN
    Recommended name:
    Sorting nexin-9
    Protein Accession:
    Q9Y5X1
    Secondary Accessions:
    • Q9BSI7
    • Q9BVM1
    • Q9UJH6
    • Q9UP20

    Protein attributes for SNX9 Gene

    Size:
    595 amino acids
    Molecular mass:
    66592 Da
    Quaternary structure:
    • Homodimer, and homooligomer. Heterodimer with SNX18. Interacts with ITCH. Interacts (via SH3 domain) with TNK2, WASL and ARP3. Identified in a complex with TNK2 and clathrin heavy chains. Identified in a complex with the AP-2 complex, clathrin and DNM2. Interacts (via SH3 domain) with DNM1 and DNM2. Identified in an oligomeric complex containing DNM1 and SNX9. Interacts with ADAM9 and ADAM15 cytoplasmic tails.

    Three dimensional structures from OCA and Proteopedia for SNX9 Gene

neXtProt entry for SNX9 Gene

Post-translational modifications for SNX9 Gene

  • Phosphorylated on tyrosine residues by TNK2. Phosphorylation promotes its activity in the degradation of EGFR.
  • Ubiquitinated by ITCH.
  • Ubiquitination at isoforms=223
  • Modification sites at PhosphoSitePlus

Other Protein References for SNX9 Gene

No data available for DME Specific Peptides for SNX9 Gene

Domains & Families for SNX9 Gene

Gene Families for SNX9 Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y5X1

UniProtKB/Swiss-Prot:

SNX9_HUMAN :
  • The PX domain mediates interaction with membranes enriched in phosphatidylinositol phosphate. Has high affinity for phosphatidylinositol 4,5-bisphosphate, but can also bind to membranes enriched in other phosphatidylinositol phosphates.
  • Belongs to the sorting nexin family.
Domain:
  • The PX domain mediates interaction with membranes enriched in phosphatidylinositol phosphate. Has high affinity for phosphatidylinositol 4,5-bisphosphate, but can also bind to membranes enriched in other phosphatidylinositol phosphates.
Family:
  • Belongs to the sorting nexin family.
genes like me logo Genes that share domains with SNX9: view

Function for SNX9 Gene

Molecular function for SNX9 Gene

UniProtKB/Swiss-Prot Function:
Involved in endocytosis and intracellular vesicle trafficking, both during interphase and at the end of mitosis. Required for efficient progress through mitosis and cytokinesis. Required for normal formation of the cleavage furrow at the end of mitosis. Plays a role in endocytosis via clathrin-coated pits, but also clathrin-independent, actin-dependent fluid-phase endocytosis. Plays a role in macropinocytosis. Promotes internalization of TNFR. Promotes degradation of EGFR after EGF signaling. Stimulates the GTPase activity of DNM1. Promotes DNM1 oligomerization. Promotes activation of the Arp2/3 complex by WASL, and thereby plays a role in the reorganization of the F-actin cytoskeleton. Binds to membranes enriched in phosphatidylinositol 4,5-bisphosphate and promotes membrane tubulation. Has lower affinity for membranes enriched in phosphatidylinositol 3-phosphate.

Gene Ontology (GO) - Molecular Function for SNX9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 10531379
GO:0005545 1-phosphatidylinositol binding IDA 17948057
GO:0008289 lipid binding IEA --
GO:0031625 ubiquitin protein ligase binding IPI 20491914
GO:0035091 phosphatidylinositol binding IDA 18388313
genes like me logo Genes that share ontologies with SNX9: view
genes like me logo Genes that share phenotypes with SNX9: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNX9 Gene

Localization for SNX9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNX9 Gene

Cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Cell membrane; Peripheral membrane protein; Cytoplasmic side. Cytoplasmic vesicle, clathrin-coated vesicle. Golgi apparatus, trans-Golgi network. Cell projection, ruffle. Cytoplasm. Note=Localized at sites of endocytosis at the cell membrane. Detected on newly formed macropinosomes. Transiently recruited to clathrin-coated pits at a late stage of clathrin-coated vesicle formation. Colocalizes with the actin cytoskeleton at the cell membrane.

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 SNX9 gene
Compartment Confidence
plasma membrane 5
extracellular 5
cytosol 5
golgi apparatus 5
nucleus 2
endosome 2
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for SNX9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001726 ruffle IEA --
GO:0005737 cytoplasm IDA,IEA 18388313
GO:0005794 Golgi apparatus IEA --
GO:0005802 trans-Golgi network IDA 15703209
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with SNX9: view

Pathways & Interactions for SNX9 Gene

genes like me logo Genes that share pathways with SNX9: view

SIGNOR curated interactions for SNX9 Gene

Activates:
Inactivates:
Is activated by:

Gene Ontology (GO) - Biological Process for SNX9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000281 mitotic cytokinesis IMP 22718350
GO:0006810 transport IEA --
GO:0006886 intracellular protein transport IMP 15703209
GO:0006897 endocytosis IMP 22718350
GO:0006898 receptor-mediated endocytosis IMP 15703209
genes like me logo Genes that share ontologies with SNX9: view

Drugs & Compounds for SNX9 Gene

(1) Drugs for SNX9 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with SNX9: view

Transcripts for SNX9 Gene

Unigene Clusters for SNX9 Gene

Sorting nexin 9:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNX9 Gene

No ASD Table

Relevant External Links for SNX9 Gene

GeneLoc Exon Structure for
SNX9
ECgene alternative splicing isoforms for
SNX9

Expression for SNX9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNX9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SNX9 Gene

This gene is overexpressed in Cervix (9.8), Lymph node (8.4), and Islet of Langerhans (7.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SNX9 Gene



Protein tissue co-expression partners for SNX9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SNX9 Gene:

SNX9

SOURCE GeneReport for Unigene cluster for SNX9 Gene:

Hs.191213

mRNA Expression by UniProt/SwissProt for SNX9 Gene:

Q9Y5X1-SNX9_HUMAN
Tissue specificity: Widely expressed, with highest levels in heart and placenta, and lowest levels in thymus and peripheral blood leukocytes.

Evidence on tissue expression from TISSUES for SNX9 Gene

  • Skin(4.4)
  • Kidney(4.3)
  • Liver(4.2)
  • Nervous system(3.3)
genes like me logo Genes that share expression patterns with SNX9: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNX9 Gene

Orthologs for SNX9 Gene

This gene was present in the common ancestor of animals.

Orthologs for SNX9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNX9 34 35
  • 99.66 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SNX9 35
  • 90 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SNX9 34 35
  • 89.6 (n)
cow
(Bos Taurus)
Mammalia SNX9 35 34
  • 89.49 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SNX9 35
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Snx9 35 16 34
  • 87.37 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Snx9 34
  • 87.15 (n)
chicken
(Gallus gallus)
Aves SNX9 35 34
  • 80.32 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SNX9 35
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia snx9 34
  • 72.78 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.18702 34
zebrafish
(Danio rerio)
Actinopterygii snx9b 34 35
  • 67.76 (n)
snx9a 35
  • 59 (a)
OneToMany
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1038 34
fruit fly
(Drosophila melanogaster)
Insecta SH3PX1 36 35
  • 32 (a)
worm
(Caenorhabditis elegans)
Secernentea lst-4 35
  • 26 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 30 (a)
OneToOne
Species where no ortholog for SNX9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 SNX9 Gene

ENSEMBL:
Gene Tree for SNX9 (if available)
TreeFam:
Gene Tree for SNX9 (if available)

Paralogs for SNX9 Gene

Paralogs for SNX9 Gene

(4) SIMAP similar genes for SNX9 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with SNX9: view

Variants for SNX9 Gene

Sequence variations from dbSNP and Humsavar for SNX9 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000025358 -- 157,897,408(+) GCCCC(C/G)CTGCC intron-variant
rs1000031442 -- 157,883,614(+) ATCAC(C/T)TTATC intron-variant
rs1000057150 -- 157,840,011(+) CAAGA(A/G)AGCCT intron-variant
rs1000075149 -- 157,868,027(+) TGTAT(C/T)TCTAG intron-variant
rs1000082613 -- 157,770,633(+) AAAAA(A/T)AATAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SNX9 Gene

Variant ID Type Subtype PubMed ID
esv2661273 CNV deletion 23128226
esv2732986 CNV deletion 23290073
esv2732987 CNV deletion 23290073
esv2732988 CNV deletion 23290073
esv2732989 CNV deletion 23290073
esv2732990 CNV deletion 23290073
esv2762623 CNV gain 21179565
esv3335316 CNV duplication 20981092
esv3347821 CNV insertion 20981092
esv3394625 CNV duplication 20981092
esv3611386 CNV loss 21293372
nsv1073601 CNV deletion 25765185
nsv1074971 CNV deletion 25765185
nsv1122141 CNV deletion 24896259
nsv1152696 CNV duplication 26484159
nsv518831 CNV loss 19592680
nsv5558 CNV deletion 18451855
nsv823888 CNV gain 20364138
nsv949874 CNV duplication 24416366

Variation tolerance for SNX9 Gene

Residual Variation Intolerance Score: 49.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.29; 41.01% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SNX9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNX9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNX9 Gene

Disorders for SNX9 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SNX9 Gene - From: Novoseek and GeneCards

Disorder Aliases PubMed IDs
wiskott-aldrich syndrome
  • wiskott syndrome
- elite association - COSMIC cancer census association via MalaCards
Search SNX9 in MalaCards View complete list of genes associated with diseases

Relevant External Links for SNX9

Genetic Association Database (GAD)
SNX9
Human Genome Epidemiology (HuGE) Navigator
SNX9
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNX9
genes like me logo Genes that share disorders with SNX9: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNX9 Gene

Publications for SNX9 Gene

  1. SNX9 couples actin assembly to phosphoinositide signals and is required for membrane remodeling during endocytosis. (PMID: 17609109) Yarar D. … Schmid S.L. (Dev. Cell 2007) 2 3 4 22 64
  2. Mechanism of aldolase control of sorting nexin 9 function in endocytosis. (PMID: 20129922) Rangarajan E.S. … Izard T. (J. Biol. Chem. 2010) 3 4 22 64
  3. SNX18 shares a redundant role with SNX9 and modulates endocytic trafficking at the plasma membrane. (PMID: 20427313) Park J. … Chang S. (J. Cell Sci. 2010) 3 4 22 64
  4. SNX9 regulates tubular invagination of the plasma membrane through interaction with actin cytoskeleton and dynamin 2. (PMID: 18388313) Shin N. … Chang S. (J. Cell Sci. 2008) 3 4 22 64
  5. Structure and plasticity of Endophilin and Sorting Nexin 9. (PMID: 18940612) Wang Q. … Sondermann H. (Structure 2008) 3 4 22 64

Products for SNX9 Gene

Sources for SNX9 Gene

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