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

Aliases for SNX20 Gene

Aliases for SNX20 Gene

  • Sorting Nexin 20 2 3 5
  • Selectin Ligand-Interactor Cytoplasmic 1 3 4
  • SLIC1 3 4
  • Selectin Ligand Interactor Cytoplasmic 1 2
  • Sorting Nexin-20 3
  • SLIC-1 4

External Ids for SNX20 Gene

Previous GeneCards Identifiers for SNX20 Gene

  • GC16M049258
  • GC16M036588

Summaries for SNX20 Gene

Entrez Gene Summary for SNX20 Gene

  • SNX20 interacts with the cytoplasmic domain of PSGL1 (SELPLG; MIM 600738) and cycles PSGL1 into endosomes.[supplied by OMIM, Feb 2010]

GeneCards Summary for SNX20 Gene

SNX20 (Sorting Nexin 20) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include phosphatidylinositol binding. An important paralog of this gene is SNX21.

UniProtKB/Swiss-Prot for SNX20 Gene

  • May play a role in cellular vesicle trafficking. Has been proposed to function as a sorting protein that targets SELPLG into endosomes, but has no effect on SELPLG internalization from the cell surface, or on SELPLG-mediated cell-cell adhesion.

Additional gene information for SNX20 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNX20 Gene

Genomics for SNX20 Gene

GeneHancer (GH) Regulatory Elements for SNX20 Gene

Promoters and enhancers for SNX20 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
GH16I050678 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 581.5 -1.3 -1251 8.8 HDGF PKNOX1 FOXA2 SMAD1 RB1 BATF KLF5 IRF4 RAD21 SCRT2 SNX20 NOD2 BRD7 CYLD ADCY7
GH16I050695 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 21.2 -16.6 -16594 5.4 HDGF PKNOX1 CLOCK ATF1 SMAD1 DMAP1 IRF4 ZNF766 ZNF207 ATF7 NOD2 SNX20 CYLD ADCY7 GC16P050707 PIR45400
GH16I050740 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 18.9 -63.1 -63132 7.7 HDGF PKNOX1 FOXA2 ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF207 ZNF143 CYLD LOC102724907 NOD2 PAPD5 SNX20 BRD7 ADCY7 MIR3181 LOC105371251
GH16I050367 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 11.7 +312.6 312565 2.7 HDGF PKNOX1 ARNT SIN3A YBX1 ZNF2 POLR2B ZNF302 E2F8 ZNF143 BRD7 ENSG00000261393 ZNF423 PAPD5 SNX20
GH16I050151 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 11.7 +527.3 527269 4.6 HDGF PKNOX1 FOXA2 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 IRF4 LOC101927250 PAPD5 HEATR3 SNX20 CNEP1R1 BRD7 GC16M050159
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SNX20 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SNX20 gene promoter:

Genomic Locations for SNX20 Gene

Genomic Locations for SNX20 Gene
chr16:50,666,300-50,681,353
(GRCh38/hg38)
Size:
15,054 bases
Orientation:
Minus strand
chr16:50,700,211-50,715,264
(GRCh37/hg19)

Genomic View for SNX20 Gene

Genes around SNX20 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNX20 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNX20 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNX20 Gene

Proteins for SNX20 Gene

  • Protein details for SNX20 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7Z614-SNX20_HUMAN
    Recommended name:
    Sorting nexin-20
    Protein Accession:
    Q7Z614
    Secondary Accessions:
    • A8K9D5
    • Q08E98
    • Q6P4H2
    • Q8IV59

    Protein attributes for SNX20 Gene

    Size:
    316 amino acids
    Molecular mass:
    36178 Da
    Quaternary structure:
    • Interacts with SELPLG (PubMed:18196517). Interaction with SELPLG is controversial.

    Alternative splice isoforms for SNX20 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SNX20 Gene

Post-translational modifications for SNX20 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SNX20 Gene

No data available for DME Specific Peptides for SNX20 Gene

Domains & Families for SNX20 Gene

Gene Families for SNX20 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SNX20 Gene

Suggested Antigen Peptide Sequences for SNX20 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q7Z614

UniProtKB/Swiss-Prot:

SNX20_HUMAN :
  • The PX domain binds phosphatidylinositol 3-phosphate which is necessary for localization to the endosomes.
  • Belongs to the sorting nexin family.
Domain:
  • The PX domain binds phosphatidylinositol 3-phosphate which is necessary for localization to the endosomes.
Family:
  • Belongs to the sorting nexin family.
genes like me logo Genes that share domains with SNX20: view

Function for SNX20 Gene

Molecular function for SNX20 Gene

UniProtKB/Swiss-Prot Function:
May play a role in cellular vesicle trafficking. Has been proposed to function as a sorting protein that targets SELPLG into endosomes, but has no effect on SELPLG internalization from the cell surface, or on SELPLG-mediated cell-cell adhesion.

Phenotypes From GWAS Catalog for SNX20 Gene

Gene Ontology (GO) - Molecular Function for SNX20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16189514
GO:0005546 phosphatidylinositol-4,5-bisphosphate binding ISS --
GO:0008289 lipid binding IEA --
GO:0032266 phosphatidylinositol-3-phosphate binding ISS --
GO:0035091 phosphatidylinositol binding IEA --
genes like me logo Genes that share ontologies with SNX20: view
genes like me logo Genes that share phenotypes with SNX20: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SNX20

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNX20 Gene

Localization for SNX20 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNX20 Gene

Early endosome membrane; Peripheral membrane protein; Cytoplasmic side. Cell membrane. Cytoplasm. Nucleus.

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 SNX20 gene
Compartment Confidence
nucleus 5
endosome 5
plasma membrane 4
cytosol 3
extracellular 1
mitochondrion 1
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SNX20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0005768 endosome IEA --
GO:0005886 plasma membrane IEA --
genes like me logo Genes that share ontologies with SNX20: view

Pathways & Interactions for SNX20 Gene

SuperPathways for SNX20 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SNX20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0015031 protein transport IEA --
genes like me logo Genes that share ontologies with SNX20: view

No data available for Pathways by source and SIGNOR curated interactions for SNX20 Gene

Drugs & Compounds for SNX20 Gene

No Compound Related Data Available

Transcripts for SNX20 Gene

Unigene Clusters for SNX20 Gene

Sorting nexin 20:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNX20 Gene

No ASD Table

Relevant External Links for SNX20 Gene

GeneLoc Exon Structure for
SNX20
ECgene alternative splicing isoforms for
SNX20

Expression for SNX20 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNX20 Gene

mRNA differential expression in normal tissues according to GTEx for SNX20 Gene

This gene is overexpressed in Whole Blood (x24.1) and Spleen (x4.9).

Protein differential expression in normal tissues from HIPED for SNX20 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (35.0) and CD4 Tcells (13.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SNX20 Gene



Protein tissue co-expression partners for SNX20 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SNX20 Gene:

SNX20

SOURCE GeneReport for Unigene cluster for SNX20 Gene:

Hs.715778

Evidence on tissue expression from TISSUES for SNX20 Gene

  • Blood(4.1)
  • Lung(3.5)
genes like me logo Genes that share expression patterns with SNX20: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNX20 Gene

Orthologs for SNX20 Gene

This gene was present in the common ancestor of animals.

Orthologs for SNX20 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNX20 33 34
  • 98.73 (n)
dog
(Canis familiaris)
Mammalia SNX20 33 34
  • 82.59 (n)
cow
(Bos Taurus)
Mammalia SNX20 33 34
  • 82.43 (n)
mouse
(Mus musculus)
Mammalia Snx20 33 16 34
  • 80.13 (n)
rat
(Rattus norvegicus)
Mammalia Snx20 33
  • 78.85 (n)
oppossum
(Monodelphis domestica)
Mammalia SNX20 34
  • 63 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNX20 34
  • 61 (a)
OneToOne
chicken
(Gallus gallus)
Aves LOC100857504 33
  • 60.61 (n)
SNX20 34
  • 50 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SNX20 34
  • 48 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100495982 33
  • 55.22 (n)
zebrafish
(Danio rerio)
Actinopterygii LOC794759 33
  • 56.07 (n)
snx20 34
  • 41 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG3077 34
  • 23 (a)
OneToMany
Species where no ortholog for SNX20 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)
  • worm (Caenorhabditis elegans)

Evolution for SNX20 Gene

ENSEMBL:
Gene Tree for SNX20 (if available)
TreeFam:
Gene Tree for SNX20 (if available)

Paralogs for SNX20 Gene

Paralogs for SNX20 Gene

(1) SIMAP similar genes for SNX20 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with SNX20: view

Variants for SNX20 Gene

Sequence variations from dbSNP and Humsavar for SNX20 Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs1000381424 -- 50,676,712(-) T/C/G intron_variant
rs1000632392 -- 50,677,807(-) T/A intron_variant
rs1000646066 -- 50,682,678(-) C/T upstream_transcript_variant
rs1000656894 -- 50,678,060(-) TT/T intron_variant
rs1000686688 -- 50,682,522(-) G/C/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SNX20 Gene

Variant ID Type Subtype PubMed ID
esv3638608 CNV gain 21293372

Variation tolerance for SNX20 Gene

Residual Variation Intolerance Score: 84% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.53; 55.61% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SNX20 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNX20

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNX20 Gene

Disorders for SNX20 Gene

Additional Disease Information for SNX20

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

No disorders were found for SNX20 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNX20 Gene

Publications for SNX20 Gene

  1. SLIC-1/sorting nexin 20: a novel sorting nexin that directs subcellular distribution of PSGL-1. (PMID: 18196517) Schaff UY … Simon SI (European journal of immunology 2008) 2 3 4 58
  2. 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
  3. Genomewide association study of leprosy. (PMID: 20018961) Zhang FR … Liu JJ (The New England journal of medicine 2009) 3 44 58
  4. The Phox (PX) domain proteins and membrane traffic. (PMID: 16782399) Seet LF … Hong W (Biochimica et biophysica acta 2006) 2 3 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for SNX20 Gene

Sources for SNX20 Gene

Content
Loading form....