Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SNX3 (sorting nexin 3)

Identity

Alias_symbol (synonym)Grd19
Other aliasMCOPS8
SDP3
HGNC (Hugo) SNX3
LocusID (NCBI) 8724
Atlas_Id 43757
Location 6q21  [Link to chromosome band 6q21]
Location_base_pair Starts at 108211217 and ends at 108261260 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
OSTM1 (6q21) / SNX3 (6q21)RPL38 (17q25.1) / SNX3 (6q21)SNX3 (6q21) / SNX3 (6q21)
OSTM1 6q21 / SNX3 6q21

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)SNX3   11174
Cards
Entrez_Gene (NCBI)SNX3  8724  sorting nexin 3
AliasesGrd19; MCOPS8; SDP3
GeneCards (Weizmann)SNX3
Ensembl hg19 (Hinxton)ENSG00000112335 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000112335 [Gene_View]  ENSG00000112335 [Sequence]  chr6:108211217-108261260 [Contig_View]  SNX3 [Vega]
ICGC DataPortalENSG00000112335
TCGA cBioPortalSNX3
AceView (NCBI)SNX3
Genatlas (Paris)SNX3
WikiGenes8724
SOURCE (Princeton)SNX3
Genetics Home Reference (NIH)SNX3
Genomic and cartography
GoldenPath hg38 (UCSC)SNX3  -     chr6:108211217-108261260 -  6q21   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SNX3  -     6q21   [Description]    (hg19-Feb_2009)
EnsemblSNX3 - 6q21 [CytoView hg19]  SNX3 - 6q21 [CytoView hg38]
Mapping of homologs : NCBISNX3 [Mapview hg19]  SNX3 [Mapview hg38]
OMIM605930   
Gene and transcription
Genbank (Entrez)AB047360 AF034546 AF062483 AI921483 AK289476
RefSeq transcript (Entrez)NM_001300928 NM_001300929 NM_003795 NM_152827 NM_152828
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SNX3
Cluster EST : UnigeneHs.12102 [ NCBI ]
CGAP (NCI)Hs.12102
Alternative Splicing GalleryENSG00000112335
Gene ExpressionSNX3 [ NCBI-GEO ]   SNX3 [ EBI - ARRAY_EXPRESS ]   SNX3 [ SEEK ]   SNX3 [ MEM ]
Gene Expression Viewer (FireBrowse)SNX3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)8724
GTEX Portal (Tissue expression)SNX3
Human Protein AtlasENSG00000112335-SNX3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO60493   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO60493  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO60493
Splice isoforms : SwissVarO60493
PhosPhoSitePlusO60493
Domaine pattern : Prosite (Expaxy)PX (PS50195)   
Domains : Interpro (EBI)Phox    PX_dom_sf   
Domain families : Pfam (Sanger)PX (PF00787)   
Domain families : Pfam (NCBI)pfam00787   
Domain families : Smart (EMBL)PX (SM00312)  
Conserved Domain (NCBI)SNX3
DMDM Disease mutations8724
Blocks (Seattle)SNX3
PDB (SRS)2MXC    2YPS    5F0J    5F0L    5F0M    5F0P   
PDB (PDBSum)2MXC    2YPS    5F0J    5F0L    5F0M    5F0P   
PDB (IMB)2MXC    2YPS    5F0J    5F0L    5F0M    5F0P   
PDB (RSDB)2MXC    2YPS    5F0J    5F0L    5F0M    5F0P   
Structural Biology KnowledgeBase2MXC    2YPS    5F0J    5F0L    5F0M    5F0P   
SCOP (Structural Classification of Proteins)2MXC    2YPS    5F0J    5F0L    5F0M    5F0P   
CATH (Classification of proteins structures)2MXC    2YPS    5F0J    5F0L    5F0M    5F0P   
SuperfamilyO60493
Human Protein Atlas [tissue]ENSG00000112335-SNX3 [tissue]
Peptide AtlasO60493
HPRD09333
IPIIPI00815770   IPI00216508   IPI00029740   IPI00552276   
Protein Interaction databases
DIP (DOE-UCLA)O60493
IntAct (EBI)O60493
FunCoupENSG00000112335
BioGRIDSNX3
STRING (EMBL)SNX3
ZODIACSNX3
Ontologies - Pathways
QuickGOO60493
Ontology : AmiGOprotein binding  cytoplasm  early endosome  cytosol  cytosol  response to bacterium  endosome membrane  endosome membrane  phosphatidylinositol-5-phosphate binding  membrane invagination  positive regulation of neuron projection development  protein transport  Wnt signaling pathway  protein deubiquitination  protein phosphatase binding  protein to membrane docking  regulation of Wnt signaling pathway  clathrin-coated vesicle  retromer complex  early endosome membrane  early phagosome  phosphatidylinositol-3-phosphate binding  negative regulation of protein catabolic process  negative regulation of viral entry into host cell  negative regulation of phagocytosis  negative regulation of protein transport  extracellular exosome  phosphatidylinositol-4-phosphate binding  intralumenal vesicle formation  phosphatidylinositol-3,5-bisphosphate binding  negative regulation of early endosome to late endosome transport  
Ontology : EGO-EBIprotein binding  cytoplasm  early endosome  cytosol  cytosol  response to bacterium  endosome membrane  endosome membrane  phosphatidylinositol-5-phosphate binding  membrane invagination  positive regulation of neuron projection development  protein transport  Wnt signaling pathway  protein deubiquitination  protein phosphatase binding  protein to membrane docking  regulation of Wnt signaling pathway  clathrin-coated vesicle  retromer complex  early endosome membrane  early phagosome  phosphatidylinositol-3-phosphate binding  negative regulation of protein catabolic process  negative regulation of viral entry into host cell  negative regulation of phagocytosis  negative regulation of protein transport  extracellular exosome  phosphatidylinositol-4-phosphate binding  intralumenal vesicle formation  phosphatidylinositol-3,5-bisphosphate binding  negative regulation of early endosome to late endosome transport  
NDEx NetworkSNX3
Atlas of Cancer Signalling NetworkSNX3
Wikipedia pathwaysSNX3
Orthology - Evolution
OrthoDB8724
GeneTree (enSembl)ENSG00000112335
Phylogenetic Trees/Animal Genes : TreeFamSNX3
HOVERGENO60493
HOGENOMO60493
Homologs : HomoloGeneSNX3
Homology/Alignments : Family Browser (UCSC)SNX3
Gene fusions - Rearrangements
Fusion PortalOSTM1 6q21 SNX3 6q21 BRCA
Fusion : QuiverSNX3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSNX3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SNX3
dbVarSNX3
ClinVarSNX3
1000_GenomesSNX3 
Exome Variant ServerSNX3
ExAC (Exome Aggregation Consortium)ENSG00000112335
GNOMAD BrowserENSG00000112335
Varsome BrowserSNX3
Genetic variants : HAPMAP8724
Genomic Variants (DGV)SNX3 [DGVbeta]
DECIPHERSNX3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSNX3 
Mutations
ICGC Data PortalSNX3 
TCGA Data PortalSNX3 
Broad Tumor PortalSNX3
OASIS PortalSNX3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSNX3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSNX3
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SNX3
DgiDB (Drug Gene Interaction Database)SNX3
DoCM (Curated mutations)SNX3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SNX3 (select a term)
intoGenSNX3
Cancer3DSNX3(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605930   
Orphanet
DisGeNETSNX3
MedgenSNX3
Genetic Testing Registry SNX3
NextProtO60493 [Medical]
TSGene8724
GENETestsSNX3
Target ValidationSNX3
Huge Navigator SNX3 [HugePedia]
snp3D : Map Gene to Disease8724
BioCentury BCIQSNX3
ClinGenSNX3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD8724
Chemical/Pharm GKB GenePA36013
Clinical trialSNX3
Miscellaneous
canSAR (ICR)SNX3 (select the gene name)
Probes
Litterature
PubMed44 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSNX3
EVEXSNX3
GoPubMedSNX3
iHOPSNX3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 6 11:41:02 CET 2018

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