Aliases for SNX25 Gene

Aliases for SNX25 Gene

  • Sorting Nexin 25 2 3 5
  • Sorting Nexin-25 3 4
  • SBBI31 2 3
  • MSTP043 3
  • SNX25 5

External Ids for SNX25 Gene

Previous GeneCards Identifiers for SNX25 Gene

  • GC04P186865
  • GC04P186715
  • GC04P186881
  • GC04P186827
  • GC04P186506
  • GC04P186362
  • GC04P186131
  • GC04P181922
  • GC04P185205

Summaries for SNX25 Gene

GeneCards Summary for SNX25 Gene

SNX25 (Sorting Nexin 25) is a Protein Coding gene. Diseases associated with SNX25 include Spinocerebellar Ataxia, Autosomal Recessive 20 and Facioscapulohumeral Muscular Dystrophy 1. Gene Ontology (GO) annotations related to this gene include phosphatidylinositol binding and type I transforming growth factor beta receptor binding. An important paralog of this gene is SNX13.

UniProtKB/Swiss-Prot Summary for SNX25 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SNX25 Gene

Genomics for SNX25 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SNX25 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SNX25 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SNX25

Top Transcription factor binding sites by QIAGEN in the SNX25 gene promoter:
  • AML1a
  • AP-2alpha
  • AP-2alphaA
  • AP-2beta
  • AP-2gamma
  • E2F
  • E2F-1
  • ER-alpha
  • IRF-2
  • POU3F1

Genomic Locations for SNX25 Gene

Latest Assembly
chr4:185,204,237-185,370,185
(GRCh38/hg38)
Size:
165,949 bases
Orientation:
Plus strand

Previous Assembly
chr4:186,125,391-186,285,120
(GRCh37/hg19 by Entrez Gene)
Size:
159,730 bases
Orientation:
Plus strand

chr4:186,125,391-186,291,339
(GRCh37/hg19 by Ensembl)
Size:
165,949 bases
Orientation:
Plus strand

Genomic View for SNX25 Gene

Genes around SNX25 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNX25 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNX25 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNX25 Gene

Proteins for SNX25 Gene

  • Protein details for SNX25 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H3E2-SNX25_HUMAN
    Recommended name:
    Sorting nexin-25
    Protein Accession:
    Q9H3E2
    Secondary Accessions:
    • Q3ZT30
    • Q8N6K3

    Protein attributes for SNX25 Gene

    Size:
    840 amino acids
    Molecular mass:
    97945 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAG39294.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SNX25 Gene

    Alternative splice isoforms for SNX25 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SNX25 Gene

Post-translational modifications for SNX25 Gene

  • Ubiquitination at Lys197
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SNX25 Gene

Domains & Families for SNX25 Gene

Gene Families for SNX25 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted intracellular proteins

Protein Domains for SNX25 Gene

InterPro:
Blocks:
  • Phox-like
  • Sorting nexin, C-terminal

Suggested Antigen Peptide Sequences for SNX25 Gene

GenScript: Design optimal peptide antigens:
  • SNX25 protein (Q8N6K3_HUMAN)
  • cDNA: FLJ23161 fis, clone LNG09730 (Q9H5Q8_HUMAN)
  • Sorting nexin-25 (SNX25_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9H3E2

UniProtKB/Swiss-Prot:

SNX25_HUMAN :
  • Belongs to the sorting nexin family.
Family:
  • Belongs to the sorting nexin family.
genes like me logo Genes that share domains with SNX25: view

Function for SNX25 Gene

Molecular function for SNX25 Gene

UniProtKB/Swiss-Prot Function:
May be involved in several stages of intracellular trafficking.

Phenotypes From GWAS Catalog for SNX25 Gene

Gene Ontology (GO) - Molecular Function for SNX25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0035091 phosphatidylinositol binding IEA --
genes like me logo Genes that share ontologies with SNX25: view
genes like me logo Genes that share phenotypes with SNX25: view

Animal Models for SNX25 Gene

MGI Knock Outs for SNX25:
  • Snx25 Snx25<tm1b(KOMP)Wtsi>

miRNA for SNX25 Gene

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SNX25

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SNX25 Gene

Localization for SNX25 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNX25 Gene

Endosome membrane. Peripheral membrane protein. Note=Detected in endosome-derived secreted vesicles (exosomes) from malignant pleural effusions.

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 SNX25 gene
Compartment Confidence
endosome 4
cytosol 3
nucleus 2
plasma membrane 1
cytoskeleton 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SNX25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005768 endosome IEA --
GO:0010008 endosome membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0043231 intracellular membrane-bounded organelle IDA --
genes like me logo Genes that share ontologies with SNX25: view

Pathways & Interactions for SNX25 Gene

PathCards logo

SuperPathways for SNX25 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SNX25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0015031 protein transport IEA --
GO:0030512 negative regulation of transforming growth factor beta receptor signaling pathway IMP 21266196
GO:0032801 receptor catabolic process IMP 21266196
GO:0060394 negative regulation of pathway-restricted SMAD protein phosphorylation IMP 21266196
genes like me logo Genes that share ontologies with SNX25: view

No data available for Pathways by source and SIGNOR curated interactions for SNX25 Gene

Drugs & Compounds for SNX25 Gene

No Compound Related Data Available

Transcripts for SNX25 Gene

mRNA/cDNA for SNX25 Gene

10 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
8 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SNX25

Alternative Splicing Database (ASD) splice patterns (SP) for SNX25 Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b
SP1: -
SP2:
SP3: -
SP4: -

Relevant External Links for SNX25 Gene

GeneLoc Exon Structure for
SNX25

Expression for SNX25 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNX25 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SNX25 Gene

This gene is overexpressed in Testis (28.2) and Heart (27.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SNX25 Gene



Protein tissue co-expression partners for SNX25 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SNX25

SOURCE GeneReport for Unigene cluster for SNX25 Gene:

Hs.369091

Evidence on tissue expression from TISSUES for SNX25 Gene

  • Nervous system(4.4)
  • Heart(4.3)
genes like me logo Genes that share expression patterns with SNX25: view

Primer products for research

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNX25 Gene

Orthologs for SNX25 Gene

This gene was present in the common ancestor of animals.

Orthologs for SNX25 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SNX25 29 30
  • 99.56 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SNX25 29 30
  • 93.37 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia SNX25 30
  • 90 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia SNX25 29 30
  • 89.48 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Snx25 29
  • 86.93 (n)
Mouse
(Mus musculus)
Mammalia Snx25 29 16 30
  • 85.46 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 30
  • 79 (a)
OneToMany
-- 30
  • 78 (a)
OneToMany
-- 30
  • 74 (a)
OneToMany
Chicken
(Gallus gallus)
Aves SNX25 29 30
  • 79.5 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SNX25 30
  • 77 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia snx25 29
  • 74.73 (n)
Str.19293 29
African clawed frog
(Xenopus laevis)
Amphibia Xl.34411 29
Zebrafish
(Danio rerio)
Actinopterygii snx25 29 30
  • 69.92 (n)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta snz 29 30
  • 47.83 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000912 29
  • 44.72 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 30
  • 38 (a)
OneToOne
Species where no ortholog for SNX25 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 Vase (Ciona intestinalis)
  • 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 SNX25 Gene

ENSEMBL:
Gene Tree for SNX25 (if available)
TreeFam:
Gene Tree for SNX25 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SNX25: view image
Alliance of Genome Resources:
Additional Orthologs for SNX25

Paralogs for SNX25 Gene

Paralogs for SNX25 Gene

Pseudogenes.org Pseudogenes for SNX25 Gene

genes like me logo Genes that share paralogs with SNX25: view

Variants for SNX25 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SNX25 Gene

SNP ID Clinical significance and condition Chr 04 pos Variation AA Info Type
rs34120554 -- p.Thr725Ile
rs35700132 -- p.Glu318Lys
rs3756275 -- p.Ile586Val

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SNX25 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SNX25 Gene

Variant ID Type Subtype PubMed ID
dgv2970n106 CNV deletion 24896259
dgv2971n106 CNV deletion 24896259
dgv342e215 CNV deletion 23714750
esv1000121 CNV deletion 20482838
esv1138598 CNV deletion 17803354
esv1669184 CNV deletion 17803354
esv1972847 CNV deletion 18987734
esv2155800 CNV deletion 18987734
esv22414 CNV loss 19812545
esv2309931 CNV deletion 18987734
esv2449161 CNV deletion 19546169
esv2466192 CNV deletion 19546169
esv2656802 CNV deletion 23128226
esv2671747 CNV deletion 23128226
esv2728904 CNV deletion 23290073
esv2728905 CNV deletion 23290073
esv2728907 CNV deletion 23290073
esv2728908 CNV deletion 23290073
esv2728909 CNV deletion 23290073
esv3565180 CNV deletion 23714750
esv3565183 CNV deletion 23714750
esv3603488 CNV loss 21293372
esv3603489 CNV loss 21293372
esv3603490 CNV loss 21293372
esv3603491 CNV loss 21293372
esv4547 CNV loss 18987735
esv4601 CNV loss 18987735
esv5569 CNV loss 19470904
esv5811 CNV loss 19470904
esv995230 CNV deletion 20482838
nsv1074251 CNV deletion 25765185
nsv1074781 CNV deletion 25765185
nsv1109658 CNV deletion 24896259
nsv1137513 CNV deletion 24896259
nsv1139341 CNV deletion 24896259
nsv428456 CNV gain+loss 18775914
nsv461859 CNV loss 19166990
nsv596369 CNV loss 21841781
nsv596371 CNV loss 21841781
nsv596372 CNV loss 21841781

Variation tolerance for SNX25 Gene

Residual Variation Intolerance Score: 15.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.93; 59.53% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SNX25 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNX25
Leiden Open Variation Database (LOVD)
SNX25

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNX25 Gene

Disorders for SNX25 Gene

MalaCards: The human disease database

(2) MalaCards diseases for SNX25 Gene - From: COP

- elite association - COSMIC cancer census association via MalaCards
Search SNX25 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SNX25

genes like me logo Genes that share disorders with SNX25: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNX25 Gene

Publications for SNX25 Gene

  1. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4
  2. Sorting out the cellular functions of sorting nexins. (PMID: 12461558) Worby CA … Dixon JE (Nature reviews. Molecular cell biology 2002) 2 3
  3. VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. (PMID: 29507755) Yue Y … Liu J (Cell discovery 2018) 3
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3

Products for SNX25 Gene

Sources for SNX25 Gene