Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SNX27 (sorting nexin family member 27)

Identity

Alias_symbol (synonym)MY014
KIAA0488
MGC20471
Other aliasMRT1
HGNC (Hugo) SNX27
LocusID (NCBI) 81609
Atlas_Id 43499
Location 1q21.3  [Link to chromosome band 1q21]
Location_base_pair Starts at 151612186 and ends at 151699083 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
PPP1R12B (1q32.1) / SNX27 (1q21.3)SNX27 (1q21.3) / ADAR (1q21.3)SNX27 (1q21.3) / C9orf78 (9q34.11)
SNX27 (1q21.3) / LOC100507443 (2q33.3)UCK2 (1q24.1) / SNX27 (1q21.3)SNX27 1q21.3 / ADAR 1q21.3
UCK2 1q24.1 / SNX27 1q21.3

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)SNX27   20073
Cards
Entrez_Gene (NCBI)SNX27  81609  sorting nexin family member 27
AliasesMRT1; MY014
GeneCards (Weizmann)SNX27
Ensembl hg19 (Hinxton)ENSG00000143376 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000143376 [Gene_View]  chr1:151612186-151699083 [Contig_View]  SNX27 [Vega]
ICGC DataPortalENSG00000143376
TCGA cBioPortalSNX27
AceView (NCBI)SNX27
Genatlas (Paris)SNX27
WikiGenes81609
SOURCE (Princeton)SNX27
Genetics Home Reference (NIH)SNX27
Genomic and cartography
GoldenPath hg38 (UCSC)SNX27  -     chr1:151612186-151699083 +  1q21.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SNX27  -     1q21.3   [Description]    (hg19-Feb_2009)
EnsemblSNX27 - 1q21.3 [CytoView hg19]  SNX27 - 1q21.3 [CytoView hg38]
Mapping of homologs : NCBISNX27 [Mapview hg19]  SNX27 [Mapview hg38]
OMIM611541   
Gene and transcription
Genbank (Entrez)AB007957 AF060509 AJ009640 AK001395 AY044866
RefSeq transcript (Entrez)NM_001330723 NM_030918
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SNX27
Cluster EST : UnigeneHs.192326 [ NCBI ]
CGAP (NCI)Hs.192326
Alternative Splicing GalleryENSG00000143376
Gene ExpressionSNX27 [ NCBI-GEO ]   SNX27 [ EBI - ARRAY_EXPRESS ]   SNX27 [ SEEK ]   SNX27 [ MEM ]
Gene Expression Viewer (FireBrowse)SNX27 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)81609
GTEX Portal (Tissue expression)SNX27
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96L92   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96L92  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96L92
Splice isoforms : SwissVarQ96L92
PhosPhoSitePlusQ96L92
Domaine pattern : Prosite (Expaxy)PDZ (PS50106)    PX (PS50195)    RA (PS50200)   
Domains : Interpro (EBI)PDZ    Phox    RA_dom    SNX27    Ubiquitin-rel_dom   
Domain families : Pfam (Sanger)PDZ (PF00595)    PX (PF00787)    RA (PF00788)   
Domain families : Pfam (NCBI)pfam00595    pfam00787    pfam00788   
Domain families : Smart (EMBL)PDZ (SM00228)  PX (SM00312)  
Conserved Domain (NCBI)SNX27
DMDM Disease mutations81609
Blocks (Seattle)SNX27
PDB (SRS)4HAS   
PDB (PDBSum)4HAS   
PDB (IMB)4HAS   
PDB (RSDB)4HAS   
Structural Biology KnowledgeBase4HAS   
SCOP (Structural Classification of Proteins)4HAS   
CATH (Classification of proteins structures)4HAS   
SuperfamilyQ96L92
Human Protein AtlasENSG00000143376
Peptide AtlasQ96L92
HPRD11591
IPIIPI00645303   IPI00328097   IPI00640980   IPI00879152   IPI00984096   IPI00893366   
Protein Interaction databases
DIP (DOE-UCLA)Q96L92
IntAct (EBI)Q96L92
FunCoupENSG00000143376
BioGRIDSNX27
STRING (EMBL)SNX27
ZODIACSNX27
Ontologies - Pathways
QuickGOQ96L92
Ontology : AmiGOestablishment of natural killer cell polarity  immunological synapse  protein binding  nucleoplasm  endosome  early endosome  cytosol  intracellular protein transport  signal transduction  endosome to lysosome transport  endosomal transport  retromer complex  early endosome membrane  phosphatidylinositol-3-phosphate binding  WASH complex  retrograde transport, endosome to plasma membrane  
Ontology : EGO-EBIestablishment of natural killer cell polarity  immunological synapse  protein binding  nucleoplasm  endosome  early endosome  cytosol  intracellular protein transport  signal transduction  endosome to lysosome transport  endosomal transport  retromer complex  early endosome membrane  phosphatidylinositol-3-phosphate binding  WASH complex  retrograde transport, endosome to plasma membrane  
NDEx NetworkSNX27
Atlas of Cancer Signalling NetworkSNX27
Wikipedia pathwaysSNX27
Orthology - Evolution
OrthoDB81609
GeneTree (enSembl)ENSG00000143376
Phylogenetic Trees/Animal Genes : TreeFamSNX27
HOVERGENQ96L92
HOGENOMQ96L92
Homologs : HomoloGeneSNX27
Homology/Alignments : Family Browser (UCSC)SNX27
Gene fusions - Rearrangements
Fusion : MitelmanPPP1R12B/SNX27 [1q32.1/1q21.3]  [t(1;1)(q21;q32)]  
Fusion : MitelmanSNX27/ADAR [1q21.3/1q21.3]  [t(1;1)(q21;q21)]  
Fusion : MitelmanUCK2/SNX27 [1q24.1/1q21.3]  [t(1;1)(q21;q24)]  
Fusion: TCGASNX27 1q21.3 ADAR 1q21.3 BRCA
Fusion: TCGAUCK2 1q24.1 SNX27 1q21.3 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSNX27 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SNX27
dbVarSNX27
ClinVarSNX27
1000_GenomesSNX27 
Exome Variant ServerSNX27
ExAC (Exome Aggregation Consortium)SNX27 (select the gene name)
Genetic variants : HAPMAP81609
Genomic Variants (DGV)SNX27 [DGVbeta]
DECIPHERSNX27 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSNX27 
Mutations
ICGC Data PortalSNX27 
TCGA Data PortalSNX27 
Broad Tumor PortalSNX27
OASIS PortalSNX27 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSNX27  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSNX27
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 SNX27
DgiDB (Drug Gene Interaction Database)SNX27
DoCM (Curated mutations)SNX27 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SNX27 (select a term)
intoGenSNX27
Cancer3DSNX27(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM611541   
Orphanet
MedgenSNX27
Genetic Testing Registry SNX27
NextProtQ96L92 [Medical]
TSGene81609
GENETestsSNX27
Target ValidationSNX27
Huge Navigator SNX27 [HugePedia]
snp3D : Map Gene to Disease81609
BioCentury BCIQSNX27
ClinGenSNX27
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD81609
Chemical/Pharm GKB GenePA134969143
Clinical trialSNX27
Miscellaneous
canSAR (ICR)SNX27 (select the gene name)
Probes
Litterature
PubMed44 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSNX27
EVEXSNX27
GoPubMedSNX27
iHOPSNX27
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:56:48 CEST 2017

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