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Aliases for SNX13 Gene

Aliases for SNX13 Gene

  • Sorting Nexin 13 2 3 5
  • RGS-PX1 3 4
  • Rgs Domain- And Phox Domain-Containing Protein 3
  • RGS Domain- And PHOX Domain-Containing Protein 4
  • Sorting Nexin-13 3
  • KIAA0713 4

External Ids for SNX13 Gene

Previous GeneCards Identifiers for SNX13 Gene

  • GC07M017477
  • GC07M017576
  • GC07M017605

Summaries for SNX13 Gene

Entrez Gene Summary for SNX13 Gene

  • This gene encodes a PHOX domain- and RGS domain-containing protein that belongs to the sorting nexin (SNX) family and the regulator of G protein signaling (RGS) family. The PHOX domain is a phosphoinositide binding domain, and the SNX family members are involved in intracellular trafficking. The RGS family members are regulatory molecules that act as GTPase activating proteins for G alpha subunits of heterotrimeric G proteins. The RGS domain of this protein interacts with G alpha(s), accelerates its GTP hydrolysis, and attenuates G alpha(s)-mediated signaling. Overexpression of this protein delayes lysosomal degradation of the epidermal growth factor receptor. Because of its bifunctional role, this protein may link heterotrimeric G protein signaling and vesicular trafficking. [provided by RefSeq, Jul 2008]

GeneCards Summary for SNX13 Gene

SNX13 (Sorting Nexin 13) is a Protein Coding gene. GO annotations related to this gene include phosphatidylinositol binding and phosphatidylinositol-3-phosphate binding. An important paralog of this gene is SNX25.

UniProtKB/Swiss-Prot for SNX13 Gene

  • May be involved in several stages of intracellular trafficking. May play a role in endosome homeostasis (By similarity). Acts as a GAP for Galphas.

Gene Wiki entry for SNX13 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNX13 Gene

Genomics for SNX13 Gene

Regulatory Elements for SNX13 Gene

Enhancers for SNX13 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
GH07F017915 0.2 Ensembl 22.8 +25.1 25118 0.4 SNX13 PIR53320 PIR58942
GH07F017965 0.8 ENCODE 19 -25.4 -25376 1.6 JUND JUN FOS SNX13 HDAC9 RNMTL1P2 GC07P017971
GH07F017962 0.7 ENCODE 12.1 -22.7 -22731 1.2 BCOR TFAP4 TEAD1 HLF NR2F1 CEBPB OVOL3 CEBPG RARA OSR2 SNX13 HDAC9 RNMTL1P2 GC07P017971
GH07F017933 0.6 Ensembl 11.1 +5.8 5818 3.0 HDAC1 ZNF384 ZNF664 CBX5 SCRT2 IKZF1 GLIS1 ZBTB33 KDM1A NFE2 SNX13 ENSG00000279048 PIR53320
GH07F017937 0.2 ENCODE 10.6 +0.7 702 3.7 HDGF PKNOX1 ARID4B SIN3A DMAP1 YY1 ZNF143 ZNF207 SP3 NFYC SNX13 ENSG00000279048 PIR53320
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SNX13 on UCSC Golden Path with GeneCards custom track

Promoters for SNX13 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000622557 718 3601 HDGF PKNOX1 ARID4B SIN3A DMAP1 YY1 ZNF143 ZNF207 NFYC ZHX2

Genomic Location for SNX13 Gene

Chromosome:
7
Start:
17,790,761 bp from pter
End:
17,940,518 bp from pter
Size:
149,758 bases
Orientation:
Minus strand

Genomic View for SNX13 Gene

Genes around SNX13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNX13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNX13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNX13 Gene

Proteins for SNX13 Gene

  • Protein details for SNX13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5W8-SNX13_HUMAN
    Recommended name:
    Sorting nexin-13
    Protein Accession:
    Q9Y5W8
    Secondary Accessions:
    • B2RCI9
    • O94821
    • Q8WVZ2
    • Q8WXH8

    Protein attributes for SNX13 Gene

    Size:
    968 amino acids
    Molecular mass:
    112189 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH22060.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAA34433.1; Type=Frameshift; Positions=887; Evidence={ECO:0000305};

    Alternative splice isoforms for SNX13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SNX13 Gene

Post-translational modifications for SNX13 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SNX13 Gene

Domains & Families for SNX13 Gene

Gene Families for SNX13 Gene

Suggested Antigen Peptide Sequences for SNX13 Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y5W8

UniProtKB/Swiss-Prot:

SNX13_HUMAN :
  • The PX domain mediates interaction with membranes enriched in phosphatidylinositol 3-phosphate.
  • Belongs to the sorting nexin family.
Domain:
  • The PX domain mediates interaction with membranes enriched in phosphatidylinositol 3-phosphate.
  • Contains 1 PX (phox homology) domain.
  • Contains 1 PXA domain.
  • Contains 1 RGS domain.
Family:
  • Belongs to the sorting nexin family.
genes like me logo Genes that share domains with SNX13: view

Function for SNX13 Gene

Molecular function for SNX13 Gene

UniProtKB/Swiss-Prot Function:
May be involved in several stages of intracellular trafficking. May play a role in endosome homeostasis (By similarity). Acts as a GAP for Galphas.

Gene Ontology (GO) - Molecular Function for SNX13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008289 lipid binding IEA --
GO:0032266 phosphatidylinositol-3-phosphate binding IDA 25148684
GO:0035091 phosphatidylinositol binding IEA,IDA 11729322
genes like me logo Genes that share ontologies with SNX13: view
genes like me logo Genes that share phenotypes with SNX13: view

Animal Models for SNX13 Gene

MGI Knock Outs for SNX13:

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SNX13 Gene

Localization for SNX13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNX13 Gene

Early endosome membrane; Peripheral membrane protein; Cytoplasmic side.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SNX13 Gene COMPARTMENTS Subcellular localization image for SNX13 gene
Compartment Confidence
endosome 5
endoplasmic reticulum 3
plasma membrane 1
vacuole 1

Gene Ontology (GO) - Cellular Components for SNX13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005769 early endosome IDA 11729322
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0031901 early endosome membrane IEA --
genes like me logo Genes that share ontologies with SNX13: view

Pathways & Interactions for SNX13 Gene

SuperPathways for SNX13 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SNX13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0006886 intracellular protein transport IMP 11729322
GO:0009968 negative regulation of signal transduction IEA --
GO:0015031 protein transport IEA --
GO:0043547 positive regulation of GTPase activity IDA 11729322
genes like me logo Genes that share ontologies with SNX13: view

No data available for Pathways by source and SIGNOR curated interactions for SNX13 Gene

Drugs & Compounds for SNX13 Gene

(1) Drugs for SNX13 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with SNX13: view

Transcripts for SNX13 Gene

Unigene Clusters for SNX13 Gene

Sorting nexin 13:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNX13 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^
SP1: - - - -
SP2: - - - -
SP3: - -
SP4: - -
SP5:
SP6: - - -

ExUns: 21a · 21b ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28a · 28b ^ 29
SP1: - -
SP2:
SP3:
SP4:
SP5:
SP6:

Relevant External Links for SNX13 Gene

GeneLoc Exon Structure for
SNX13
ECgene alternative splicing isoforms for
SNX13

Expression for SNX13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNX13 Gene

Protein differential expression in normal tissues from HIPED for SNX13 Gene

This gene is overexpressed in Platelet (18.7), Placenta (11.5), Retina (7.7), and Peripheral blood mononuclear cells (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SNX13 Gene



NURSA nuclear receptor signaling pathways regulating expression of SNX13 Gene:

SNX13

SOURCE GeneReport for Unigene cluster for SNX13 Gene:

Hs.487648
genes like me logo Genes that share expression patterns with SNX13: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for SNX13 Gene

Orthologs for SNX13 Gene

This gene was present in the common ancestor of animals.

Orthologs for SNX13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNX13 34 35
  • 99.69 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SNX13 35
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SNX13 34 35
  • 95.13 (n)
cow
(Bos Taurus)
Mammalia SNX13 34 35
  • 93.99 (n)
mouse
(Mus musculus)
Mammalia Snx13 34 16 35
  • 93.07 (n)
oppossum
(Monodelphis domestica)
Mammalia SNX13 35
  • 92 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Snx13 34
  • 90.77 (n)
chicken
(Gallus gallus)
Aves SNX13 34 35
  • 84.81 (n)
lizard
(Anolis carolinensis)
Reptilia SNX13 35
  • 87 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia snx13 34
  • 79.77 (n)
Str.19364 34
zebrafish
(Danio rerio)
Actinopterygii snx13 34 35
  • 70.17 (n)
worm
(Caenorhabditis elegans)
Secernentea CELE_Y116A8C.26 34
  • 47.29 (n)
snx-13 35
  • 34 (a)
OneToOne
Y116A8C.26 36
  • 33 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.737 35
  • 42 (a)
OneToMany
-- 35
  • 30 (a)
OneToMany
Species where no ortholog for SNX13 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 SNX13 Gene

ENSEMBL:
Gene Tree for SNX13 (if available)
TreeFam:
Gene Tree for SNX13 (if available)

Paralogs for SNX13 Gene

Paralogs for SNX13 Gene

(1) SIMAP similar genes for SNX13 Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with SNX13: view

Variants for SNX13 Gene

Sequence variations from dbSNP and Humsavar for SNX13 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs10085395 -- 17,928,582(+) TAATA(C/T)CTAAA intron-variant
rs10085397 -- 17,928,717(+) GTAGG(C/T)GTTAA intron-variant
rs10216315 -- 17,931,087(+) ATTAA(C/G)ACTAT intron-variant
rs10224916 -- 17,801,284(+) gaata(C/T)gtacc intron-variant
rs10226396 -- 17,937,243(+) AAGTT(C/G)AATGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SNX13 Gene

Variant ID Type Subtype PubMed ID
esv1984816 CNV deletion 18987734
esv23642 CNV loss 19812545
esv2463128 CNV deletion 19546169
esv2734066 CNV deletion 23290073
esv2734067 CNV deletion 23290073
esv2734068 CNV deletion 23290073
esv2734069 CNV deletion 23290073
esv2734070 CNV deletion 23290073
esv993770 CNV deletion 20482838
esv996210 CNV gain 20482838
nsv1022746 CNV gain 25217958
nsv1025023 CNV gain 25217958
nsv1161506 CNV duplication 26073780
nsv365749 CNV deletion 16902084
nsv606357 CNV gain 21841781
nsv830913 CNV gain+loss 17160897

Variation tolerance for SNX13 Gene

Residual Variation Intolerance Score: 10.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.73; 32.91% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SNX13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNX13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNX13 Gene

Disorders for SNX13 Gene

Relevant External Links for SNX13

Genetic Association Database (GAD)
SNX13
Human Genome Epidemiology (HuGE) Navigator
SNX13
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNX13

No disorders were found for SNX13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNX13 Gene

Publications for SNX13 Gene

  1. RGS-PX1, a GAP for GalphaS and sorting nexin in vesicular trafficking. (PMID: 11729322) Zheng B. … Farquhar M.G. (Science 2001) 2 3 4 22 64
  2. A large family of endosome-localized proteins related to sorting nexin 1. (PMID: 11485546) Teasdale R.D. … Gleeson P.A. (Biochem. J. 2001) 2 3 4 64
  3. 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
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. An unappreciated role for RNA surveillance. (PMID: 14759258) Hillman R.T. … Brenner S.E. (Genome Biol. 2004) 3 4 64

Products for SNX13 Gene

Sources for SNX13 Gene

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