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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SNX25 Gene

protein-coding   GIFtS: 46
GCID: GC04P186131

Sorting Nexin 25

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Sorting Nexin 251 2
SBBI312
Sorting Nexin-252

External Ids:    HGNC: 218831   Entrez Gene: 838912   Ensembl: ENSG000001097627   UniProtKB: Q9H3E23   

Export aliases for SNX25 gene to outside databases

Previous GC identifers: GC04P186865 GC04P186715 GC04P186881 GC04P186827 GC04P186506 GC04P186362 GC04P181922


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for SNX25 Gene: 
SNX25 (sorting nexin 25) is a protein-coding gene. Diseases associated with SNX25 include distal hereditary motor neuropathy, and facioscapulohumeral muscular dystrophy. GO annotations related to this gene include phosphatidylinositol binding. An important paralog of this gene is SNX13.

UniProtKB/Swiss-Prot: SNX25_HUMAN, Q9H3E2
Function: May be involved in several stages of intracellular trafficking (By similarity)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000004.11  NT_016354.19  NC_018915.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SNX25 gene promoter:
         ER-alpha   AML1a   POU3F1   AP-2gamma   IRF-2   E2F   E2F-1   AP-2beta   AP-2alpha   AP-2alphaA   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSNX25 promoter sequence
   Search SABiosciences Chromatin IP Primers for SNX25

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SNX25


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 4q35.1   Ensembl cytogenetic band:  4q35.1   HGNC cytogenetic band: 4q35.1

SNX25 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SNX25 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P186131:  view genomic region     (about GC identifiers)

Start:
186,125,391 bp from pter      End:
186,291,339 bp from pter
Size:
165,949 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SNX25_HUMAN, Q9H3E2 (See protein sequence)
Recommended Name: Sorting nexin-25  
Size: 840 amino acids; 97945 Da
Subcellular location: Endosome membrane; Peripheral membrane protein. Note=Detected in endosome-derived secreted
vesicles (exosomes) from malignant pleural effusions
Sequence caution: Sequence=AAG39294.1; Type=Erroneous initiation;
Secondary accessions: Q3ZT30

Explore the universe of human proteins at neXtProt for SNX25: NX_Q9H3E2

Explore proteomics data for SNX25 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9H3E2

  • SNX25 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SNX25 Protein Expression
    REFSEQ proteins: NP_114159.2  
    ENSEMBL proteins: 
     ENSP00000426255   ENSP00000264694   ENSP00000424826  

    Human Recombinant Protein Products for SNX25: 
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    Novus Biologicals SNX25 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for SNX25 

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0010008endosome membrane IEA--

    SNX25 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    SNX: Sorting nexins

    5 InterPro protein domains:
     IPR000342 Regulat_G_prot_signal
     IPR016137 Regulat_G_prot_signal_superfam
     IPR013937 Sorting_nexin_C
     IPR001683 Phox
     IPR003114 Phox_assoc

    Graphical View of Domain Structure for InterPro Entry Q9H3E2

    ProtoNet protein and cluster: Q9H3E2

    2 Blocks protein domains:
    IPB001683 Phox-like
    IPB013937 Sorting nexin


    UniProtKB/Swiss-Prot: SNX25_HUMAN, Q9H3E2
    Similarity: Belongs to the sorting nexin family
    Similarity: Contains 1 PX (phox homology) domain
    Similarity: Contains 1 PXA domain
    Similarity: Contains 1 RGS domain


    SNX25 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SNX25_HUMAN, Q9H3E2
    Function: May be involved in several stages of intracellular trafficking (By similarity)

         Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
    GO:0035091phosphatidylinositol binding IEA--
         
    SNX25 for ontologies           About GeneDecksing


    Animal Models:
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SNX25 
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    SwitchGear 3'UTR luciferase reporter plasmidSNX25 3' UTR sequence
    Inhib. RNA
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SNX25

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for SNX25 (ENSP000002646944) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    YWHAZENSP000003095034STRING: ENSP00000309503
    SH3GL3ENSP000003913724STRING: ENSP00000391372
    About this table

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007154cell communication IEA--
    GO:0015031protein transport IEA--
    GO:0038032termination of G-protein coupled receptor signaling pathway IEA--

    SNX25 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SNX25

    Search CenterWatch for drugs/clinical trials and news about SNX25

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SNX25 gene: 
    NM_031953.2  

    Unigene Cluster for SNX25:

    Sorting nexin 25
    Hs.369091  [show with all ESTs]
    Unigene Representative Sequence: AY601647
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000504273 ENST00000264694(uc003ixh.3 uc010ish.3) ENST00000506896
    ENST00000512853 ENST00000504959(uc003ixi.3) ENST00000513433
    miRNA
    Products:
         
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    8 QIAGEN miScript miRNA Assays for microRNAs that regulate SNX25:
    hsa-miR-9 hsa-miR-137 hsa-miR-3143 hsa-miR-3148 hsa-miR-548c-3p hsa-miR-583 hsa-miR-3916 hsa-miR-3125
    SwitchGear 3'UTR luciferase reporter plasmidSNX25 3' UTR sequence
    Inhib. RNA
    Products:
         
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SNX25
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SNX25

    Additional mRNA sequence: 

    AF113223.1 AK026814.1 AK095661.1 AY044656.1 AY601647.1 BC029868.1 

    9 DOTS entries:

    DT.308219  DT.121224541  DT.40113916  DT.95269902  DT.40112263  DT.410170  DT.92028415  DT.95180654 
    DT.40272662 

    24/79 AceView cDNA sequences (see all 79):

    AA481564 BM504651 AW316756 CA868291 CN479572 CA429206 BM472439 AI129945 
    CB112931 AA130263 BI763551 AY044656 BQ008931 AF113223 N72268 BM504976 
    AA627829 AW968034 CA868043 BC029868 NM_031953 AA626308 BX951557 AA705542 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for SNX25    About this scheme

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


    ECgene alternative splicing isoforms for SNX25

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SNX25 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TATATTGAAG
    SNX25 Expression
    About this image


    See SNX25 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SNX25

    SOURCE GeneReport for Unigene cluster: Hs.369091
        SABiosciences Custom PCR Arrays for SNX25
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SNX25

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

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

    Orthologs for SNX25 gene from 7/16 species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Snx251 , 5 sorting nexin 251, 5 85.46(n)1
    87.37(a)1
      8 (26.03 cM)5
    1021411  NM_207213.21  NP_997096.21 
     460332615 
    chicken
    (Gallus gallus)
    Aves SNX251 sorting nexin 25 79.61(n)
    82.09(a)
      422544  XM_420506.3  XP_420506.3 
    lizard
    (Anolis carolinensis)
    Reptilia SNX256
    Uncharacterized protein
    77(a)
    1 ↔ 1
    5(112906122-112977371)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.344112 Xenopus laevis transcribed sequence with moderate similarity more 85.27(n)    CA983208.1 
    zebrafish
    (Danio rerio)
    Actinopterygii snx251 sorting nexin 25 69.79(n)
    73.47(a)
      793657  NM_001163293.1  NP_001156765.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta snz1 snazarus 47.73(n)
    37(a)
      31704  NM_132193.1  NP_572421.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes MDM16
    Intermediate filament protein, required for nuclea...
    10(a)
    1 → many
    XIII(58939-62322)


    ENSEMBL Gene Tree for SNX25 (if available)
    TreeFam Gene Tree for SNX25 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SNX25 gene
    SNX132  SNX142  

    SNX25 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SNX25
    PGOHUM00000245197


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/3272 SNPs in SNX25 are shown (see all 3272)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 4 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1869706521,2
    C--186129324(+) ATGGCA/GCGATG 1 -- us2k10--------
    rs1904696511,2
    --186129342(+) ACTGCA/GACCTC 1 -- us2k10--------
    rs31082381,2
    C,F--186129357(-) TGAACC/TCCGGA 1 -- us2k110Minor allele frequency- T:0.44NA WA CSA EA 371
    rs1119867641,2
    C--186129450(+) CAGGCG/CTGAGC 1 -- us2k11Minor allele frequency- C:0.50CSA 2
    rs1819280321,2
    --186129460(+) CCACCA/GTGCCC 1 -- us2k10--------
    rs1417302121,2
    --186129513(+) CTTATC/TTTGAT 1 -- us2k10--------
    rs1178942631,2
    F--186129535(+) CATGGC/AAAAGT 1 -- us2k11Minor allele frequency- A:0.03EA 120
    rs1457002441,2
    --186129612(+) GGCGCA/GGTGGC 1 -- us2k10--------
    rs31128841,2
    C,F,A--186129622(+) CTTACG/ACCTAT 1 -- us2k17Minor allele frequency- A:0.46NA WA CSA 13
    rs1409488701,2
    --186129725(+) AAAAAC/TACAAA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for SNX25 (186125391 - 186291339 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 10/23 variations for SNX25 (see all 23):    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2671747CNV Deletion23128226
    esv2728907CNV Deletion23290073
    esv2309931CNV Deletion18987734
    esv4547CNV Deletion18987735
    esv2449161CNV Deletion19546169
    esv2466192CNV Deletion19546169
    esv995230CNV Deletion20482838
    esv1972847CNV Deletion18987734
    esv1669184CNV Deletion17803354
    esv1000121CNV Deletion20482838

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing SNX25
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    4 diseases for SNX25:    About MalaCards
    distal hereditary motor neuropathy    facioscapulohumeral muscular dystrophy    muscular dystrophy    neuropathy

    1 disease from the University of Copenhagen DISEASES database for SNX25:
    Distal hereditary motor neuropathy

    SNX25 for disorders           About GeneDecksing

    Genetic Association Database (GAD): SNX25

    Export disorders for SNX25 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SNX25 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SNX25)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    2. Sorting out the cellular functions of sorting nexins. (PubMed id 12461558)1, 3 Worby C.A. and Dixon J.E. (2002)
    3. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    4. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    5. SNX25 regulates TGF-I^ signaling by enhancing the rece ptor degradation. (PubMed id 21266196)1 Hao X....Chang Z. (2011)
    6. A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study. (PubMed id 17903299)4 Kathiresan S....Cupples L.A. (2007)
    7. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)
    8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    9. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)
    10. (PubMed id 14975938)2 

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 83891 HGNC: 21883 AceView: SNX25 Ensembl:ENSG00000109762 euGenes: HUgn83891
    ECgene: SNX25 H-InvDB: SNX25

    (According to HUGE)
    About This Section
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for SNX25 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SNX25 gene:
    Search GeneIP for patents involving SNX25

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