Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SNX4 Gene

Aliases for SNX4 Gene

  • Sorting Nexin 4 2 3 5
  • Sorting Nexin-4 3
  • ATG24B 3

External Ids for SNX4 Gene

Previous GeneCards Identifiers for SNX4 Gene

  • GC03M121915
  • GC03M125196
  • GC03M126447
  • GC03M126486
  • GC03M126648
  • GC03M122541

Summaries for SNX4 Gene

Entrez Gene Summary for SNX4 Gene

  • This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. This protein associated with the long isoform of the leptin receptor and with receptor tyrosine kinases for platelet-derived growth factor, insulin, and epidermal growth factor in cell cultures, but its function is unknown. This protein may form oligomeric complexes with family members. Two transcript variants, one protein coding and the other non-protein coding, have been found for this gene. [provided by RefSeq, Nov 2012]

GeneCards Summary for SNX4 Gene

SNX4 (Sorting Nexin 4) is a Protein Coding gene. Among its related pathways are Endocytosis. Gene Ontology (GO) annotations related to this gene include phosphatidylinositol binding and epidermal growth factor receptor binding. An important paralog of this gene is SNX30.

UniProtKB/Swiss-Prot for SNX4 Gene

  • May be involved in several stages of intracellular trafficking. Plays a role in recycling endocytosed transferrin receptor and prevent its degradation.

Gene Wiki entry for SNX4 Gene

Additional gene information for SNX4 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNX4 Gene

Genomics for SNX4 Gene

GeneHancer (GH) Regulatory Elements for SNX4 Gene

Promoters and enhancers for SNX4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03J125519 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 650.7 +0.1 58 2.3 HDGF SMAD1 MLX ARNT ARID4B SIN3A ZBTB7B ZNF48 YY1 POLR2B SNX4 OR7E29P SLC12A8 OR7E53P ENSG00000242001 OSBPL11 ENSG00000201800
GH03J125490 Enhancer 0.6 ENCODE 12.9 +28.0 28015 2.5 RFX1 SOX6 JUNB CBFA2T3 ZEB2 MYNN HMBOX1 CBFA2T2 ZBTB33 RUNX3 ENSG00000201800 SNX4 ZNF148 ENSG00000241288 GC03P125517 GC03P125445
GH03J125539 Enhancer 0.6 Ensembl ENCODE 12.3 -20.2 -20218 1.3 MAX NR2F2 SNX4 ENSG00000201800 OR7E29P OR7E53P ENSG00000252965 OSBPL11
GH03J125516 Enhancer 0.6 ENCODE 0.7 +3.4 3359 1.1 NR2F1 TRIM22 JUNB MEF2B DPF2 BATF TARDBP IKZF1 EED NBN ENSG00000201800 GC03P125517 SNX4 GC03P125445
GH03J125512 Enhancer 0.8 ENCODE 0.4 +7.9 7932 0.3 PKNOX1 SMAD1 NFIB FEZF1 BATF ZNF2 ZNF366 RCOR1 RUNX3 CREM ZXDC ENSG00000241288 ZNF148 UMPS ENSG00000248787 GC03P125517 SNX4 GC03P125445
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SNX4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SNX4 gene promoter:
  • Evi-1
  • NRSF form 2
  • NRSF form 1
  • Elk-1
  • TBP
  • RSRFC4
  • AREB6
  • Brachyury
  • Pax-3

Genomic Locations for SNX4 Gene

Genomic Locations for SNX4 Gene
chr3:125,446,644-125,520,214
(GRCh38/hg38)
Size:
73,571 bases
Orientation:
Minus strand
chr3:125,165,494-125,239,058
(GRCh37/hg19)
Size:
73,565 bases
Orientation:
Minus strand

Genomic View for SNX4 Gene

Genes around SNX4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNX4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNX4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNX4 Gene

Proteins for SNX4 Gene

  • Protein details for SNX4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95219-SNX4_HUMAN
    Recommended name:
    Sorting nexin-4
    Protein Accession:
    O95219
    Secondary Accessions:
    • B3KMH0
    • B4DQV4
    • D3DNA3

    Protein attributes for SNX4 Gene

    Size:
    450 amino acids
    Molecular mass:
    51909 Da
    Quaternary structure:
    • Interacts with WWC1/KIBRA. Identified in a complex with WWC1/KIBRA and dynein components DYNLL1 and DYNC1I2.

    Alternative splice isoforms for SNX4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SNX4 Gene

Post-translational modifications for SNX4 Gene

  • Ubiquitination at posLast=376376, posLast=361361, isoforms=2339, isoforms=2253, isoforms=2224, isoforms=2205, and posLast=140140
  • Modification sites at PhosphoSitePlus

Other Protein References for SNX4 Gene

No data available for DME Specific Peptides for SNX4 Gene

Domains & Families for SNX4 Gene

Gene Families for SNX4 Gene

Protein Domains for SNX4 Gene

Suggested Antigen Peptide Sequences for SNX4 Gene

Graphical View of Domain Structure for InterPro Entry

O95219

UniProtKB/Swiss-Prot:

SNX4_HUMAN :
  • The PX domain binds phosphatidylinositol 3-phosphate which is necessary for peripheral membrane localization.
  • Belongs to the sorting nexin family.
Domain:
  • The PX domain binds phosphatidylinositol 3-phosphate which is necessary for peripheral membrane localization.
Family:
  • Belongs to the sorting nexin family.
genes like me logo Genes that share domains with SNX4: view

Function for SNX4 Gene

Molecular function for SNX4 Gene

UniProtKB/Swiss-Prot Function:
May be involved in several stages of intracellular trafficking. Plays a role in recycling endocytosed transferrin receptor and prevent its degradation.

Gene Ontology (GO) - Molecular Function for SNX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005154 epidermal growth factor receptor binding IDA 9819414
GO:0005158 insulin receptor binding IDA 9819414
GO:0005515 protein binding IPI 11278302
GO:0008289 lipid binding IEA --
GO:0035091 phosphatidylinositol binding IEA,IMP 17994011
genes like me logo Genes that share ontologies with SNX4: view
genes like me logo Genes that share phenotypes with SNX4: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SNX4

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNX4 Gene

Localization for SNX4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNX4 Gene

Early endosome membrane; Peripheral membrane protein; Cytoplasmic side. Note=Also detected on a juxtanuclear endocytic recycling compartment (ERC).

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 SNX4 gene
Compartment Confidence
plasma membrane 5
cytoskeleton 5
endosome 5
nucleus 2
cytosol 2
golgi apparatus 2
peroxisome 1
lysosome 1

Gene Ontology (GO) - Cellular Components for SNX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA 11279102
GO:0005768 endosome IBA,IEA --
GO:0005868 cytoplasmic dynein complex IDA 17994011
GO:0005886 plasma membrane IDA 18253931
GO:0016020 membrane IEA,IDA 9819414
genes like me logo Genes that share ontologies with SNX4: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SNX4 Gene

Pathways & Interactions for SNX4 Gene

SuperPathway Contained pathways
1 Endocytosis
genes like me logo Genes that share pathways with SNX4: view

Pathways by source for SNX4 Gene

1 KEGG pathway for SNX4 Gene

Gene Ontology (GO) - Biological Process for SNX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006897 endocytosis IBA --
GO:0015031 protein transport IMP,IEA 17994011
GO:0016050 vesicle organization IBA --
GO:0032456 endocytic recycling IMP 17994011
GO:1903595 positive regulation of histamine secretion by mast cell IMP 18253931
genes like me logo Genes that share ontologies with SNX4: view

No data available for SIGNOR curated interactions for SNX4 Gene

Drugs & Compounds for SNX4 Gene

No Compound Related Data Available

Transcripts for SNX4 Gene

mRNA/cDNA for SNX4 Gene

Unigene Clusters for SNX4 Gene

Sorting nexin 4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SNX4

Alternative Splicing Database (ASD) splice patterns (SP) for SNX4 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15a · 15b
SP1: -
SP2:

Relevant External Links for SNX4 Gene

GeneLoc Exon Structure for
SNX4
ECgene alternative splicing isoforms for
SNX4

Expression for SNX4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNX4 Gene

Protein differential expression in normal tissues from HIPED for SNX4 Gene

This gene is overexpressed in Heart (11.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SNX4 Gene



Protein tissue co-expression partners for SNX4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SNX4 Gene:

SNX4

SOURCE GeneReport for Unigene cluster for SNX4 Gene:

Hs.507243

Evidence on tissue expression from TISSUES for SNX4 Gene

  • Skin(4.2)
  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with SNX4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNX4 Gene

Orthologs for SNX4 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SNX4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNX4 34 33
  • 100 (n)
OneToOne
dog
(Canis familiaris)
Mammalia SNX4 34 33
  • 94.71 (n)
OneToOne
cow
(Bos Taurus)
Mammalia SNX4 34 33
  • 93.11 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Snx4 16 34 33
  • 89.04 (n)
rat
(Rattus norvegicus)
Mammalia Snx4 33
  • 88.15 (n)
oppossum
(Monodelphis domestica)
Mammalia SNX4 34
  • 88 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 9 (a)
ManyToMany
chicken
(Gallus gallus)
Aves SNX4 34 33
  • 81.18 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SNX4 34
  • 75 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.10742 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.7062 33
zebrafish
(Danio rerio)
Actinopterygii snx4 34 33
  • 73.82 (n)
OneToOne
wufb92d09 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5915 33
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SNX4 34
  • 20 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 43 (a)
OneToOne
Species where no ortholog for SNX4 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)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for SNX4 Gene

ENSEMBL:
Gene Tree for SNX4 (if available)
TreeFam:
Gene Tree for SNX4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SNX4: view image

Paralogs for SNX4 Gene

Paralogs for SNX4 Gene

genes like me logo Genes that share paralogs with SNX4: view

Variants for SNX4 Gene

Sequence variations from dbSNP and Humsavar for SNX4 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000007594 -- 125,470,307(-) G/C intron_variant
rs1000016362 -- 125,513,332(-) T/C intron_variant
rs1000140477 -- 125,475,767(-) AGGAGG/AGG intron_variant
rs1000189888 -- 125,495,746(-) G/A intron_variant
rs1000190564 -- 125,500,034(-) T/A/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SNX4 Gene

Variant ID Type Subtype PubMed ID
esv3306447 CNV mobile element insertion 20981092
esv3388997 CNV insertion 20981092
esv3597657 CNV loss 21293372
nsv1011457 CNV gain 25217958
nsv10311 CNV gain 18304495
nsv591465 CNV gain 21841781
nsv829713 CNV gain 17160897
nsv829714 CNV gain 17160897

Variation tolerance for SNX4 Gene

Residual Variation Intolerance Score: 12.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.86; 17.92% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SNX4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNX4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNX4 Gene

Disorders for SNX4 Gene

Additional Disease Information for SNX4

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SNX4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNX4 Gene

Publications for SNX4 Gene

  1. Identification of a family of sorting nexin molecules and characterization of their association with receptors. (PMID: 9819414) Haft CR … Taylor SI (Molecular and cellular biology 1998) 2 3 4 22 58
  2. SNX4 coordinates endosomal sorting of TfnR with dynein-mediated transport into the endocytic recycling compartment. (PMID: 17994011) Traer CJ … Cullen PJ (Nature cell biology 2007) 3 4 22 58
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for SNX4 Gene

Sources for SNX4 Gene

Content
Loading form....