Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SNX5 (sorting nexin 5)

Identity

Other alias-
HGNC (Hugo) SNX5
LocusID (NCBI) 27131
Atlas_Id 53258
Location 20p11.23  [Link to chromosome band 20p11]
Location_base_pair Starts at 17941596 and ends at 17968991 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)
EPC1 (10p11.22) / SNX5 (20p11.23)MAFIP () / SNX5 (20p11.23)PRMT2 (21q22.3) / SNX5 (20p11.23)
SNX5 (20p11.23) / C8orf44-SGK3 (8q13.1)SNX5 (20p11.23) / SLC35C2 (20q13.12)

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)SNX5   14969
Cards
Entrez_Gene (NCBI)SNX5  27131  sorting nexin 5
Aliases
GeneCards (Weizmann)SNX5
Ensembl hg19 (Hinxton)ENSG00000089006 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000089006 [Gene_View]  chr20:17941596-17968991 [Contig_View]  SNX5 [Vega]
ICGC DataPortalENSG00000089006
TCGA cBioPortalSNX5
AceView (NCBI)SNX5
Genatlas (Paris)SNX5
WikiGenes27131
SOURCE (Princeton)SNX5
Genetics Home Reference (NIH)SNX5
Genomic and cartography
GoldenPath hg38 (UCSC)SNX5  -     chr20:17941596-17968991 -  20p11.23   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SNX5  -     20p11.23   [Description]    (hg19-Feb_2009)
EnsemblSNX5 - 20p11.23 [CytoView hg19]  SNX5 - 20p11.23 [CytoView hg38]
Mapping of homologs : NCBISNX5 [Mapview hg19]  SNX5 [Mapview hg38]
OMIM605937   
Gene and transcription
Genbank (Entrez)AF121855 AK001793 AK026227 AK054634 AK123903
RefSeq transcript (Entrez)NM_001282454 NM_014426 NM_152227
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SNX5
Cluster EST : UnigeneHs.316890 [ NCBI ]
CGAP (NCI)Hs.316890
Alternative Splicing GalleryENSG00000089006
Gene ExpressionSNX5 [ NCBI-GEO ]   SNX5 [ EBI - ARRAY_EXPRESS ]   SNX5 [ SEEK ]   SNX5 [ MEM ]
Gene Expression Viewer (FireBrowse)SNX5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)27131
GTEX Portal (Tissue expression)SNX5
Human Protein AtlasENSG00000089006-SNX5 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y5X3   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y5X3  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y5X3
Splice isoforms : SwissVarQ9Y5X3
PhosPhoSitePlusQ9Y5X3
Domaine pattern : Prosite (Expaxy)PX (PS50195)   
Domains : Interpro (EBI)Phox    SNX5    SNX5/SNX6/SNX32    Vps5_C   
Domain families : Pfam (Sanger)PX (PF00787)    Vps5 (PF09325)   
Domain families : Pfam (NCBI)pfam00787    pfam09325   
Conserved Domain (NCBI)SNX5
DMDM Disease mutations27131
Blocks (Seattle)SNX5
PDB (SRS)1SYS   
PDB (PDBSum)1SYS   
PDB (IMB)1SYS   
PDB (RSDB)1SYS   
Structural Biology KnowledgeBase1SYS   
SCOP (Structural Classification of Proteins)1SYS   
CATH (Classification of proteins structures)1SYS   
SuperfamilyQ9Y5X3
Human Protein Atlas [tissue]ENSG00000089006-SNX5 [tissue]
Peptide AtlasQ9Y5X3
HPRD10439
IPIIPI00295209   IPI00922618   IPI00513893   IPI00386781   IPI00515089   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y5X3
IntAct (EBI)Q9Y5X3
FunCoupENSG00000089006
BioGRIDSNX5
STRING (EMBL)SNX5
ZODIACSNX5
Ontologies - Pathways
QuickGOQ9Y5X3
Ontology : AmiGOruffle  phagocytic cup  protein binding  early endosome  cytosol  intracellular protein transport  pinocytosis  vesicle organization  regulation of macroautophagy  cytoplasmic vesicle membrane  retromer complex  retromer, tubulation complex  extrinsic component of cytoplasmic side of plasma membrane  extrinsic component of endosome membrane  early endosome membrane  dynactin binding  phosphatidylinositol binding  phosphatidylinositol binding  retrograde transport, endosome to Golgi  retrograde transport, endosome to Golgi  cadherin binding  protein heterodimerization activity  macropinocytic cup  tubular endosome  
Ontology : EGO-EBIruffle  phagocytic cup  protein binding  early endosome  cytosol  intracellular protein transport  pinocytosis  vesicle organization  regulation of macroautophagy  cytoplasmic vesicle membrane  retromer complex  retromer, tubulation complex  extrinsic component of cytoplasmic side of plasma membrane  extrinsic component of endosome membrane  early endosome membrane  dynactin binding  phosphatidylinositol binding  phosphatidylinositol binding  retrograde transport, endosome to Golgi  retrograde transport, endosome to Golgi  cadherin binding  protein heterodimerization activity  macropinocytic cup  tubular endosome  
NDEx NetworkSNX5
Atlas of Cancer Signalling NetworkSNX5
Wikipedia pathwaysSNX5
Orthology - Evolution
OrthoDB27131
GeneTree (enSembl)ENSG00000089006
Phylogenetic Trees/Animal Genes : TreeFamSNX5
HOVERGENQ9Y5X3
HOGENOMQ9Y5X3
Homologs : HomoloGeneSNX5
Homology/Alignments : Family Browser (UCSC)SNX5
Gene fusions - Rearrangements
Tumor Fusion PortalSNX5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSNX5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SNX5
dbVarSNX5
ClinVarSNX5
1000_GenomesSNX5 
Exome Variant ServerSNX5
ExAC (Exome Aggregation Consortium)ENSG00000089006
GNOMAD BrowserENSG00000089006
Genetic variants : HAPMAP27131
Genomic Variants (DGV)SNX5 [DGVbeta]
DECIPHERSNX5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSNX5 
Mutations
ICGC Data PortalSNX5 
TCGA Data PortalSNX5 
Broad Tumor PortalSNX5
OASIS PortalSNX5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSNX5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSNX5
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SNX5
DgiDB (Drug Gene Interaction Database)SNX5
DoCM (Curated mutations)SNX5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SNX5 (select a term)
intoGenSNX5
Cancer3DSNX5(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605937   
Orphanet
DisGeNETSNX5
MedgenSNX5
Genetic Testing Registry SNX5
NextProtQ9Y5X3 [Medical]
TSGene27131
GENETestsSNX5
Target ValidationSNX5
Huge Navigator SNX5 [HugePedia]
snp3D : Map Gene to Disease27131
BioCentury BCIQSNX5
ClinGenSNX5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD27131
Chemical/Pharm GKB GenePA37945
Clinical trialSNX5
Miscellaneous
canSAR (ICR)SNX5 (select the gene name)
Probes
Litterature
PubMed37 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSNX5
EVEXSNX5
GoPubMedSNX5
iHOPSNX5
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 21 14:35:56 CET 2017

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