Atlas of Genetics and Cytogenetics in Oncology and Haematology

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XPR1 (xenotropic and polytropic retrovirus receptor 1)

Identity

Alias_namesxenotropic and polytropic retrovirus receptor
Alias_symbol (synonym)SYG1
X3
SLC53A1
Other aliasIBGC6
HGNC (Hugo) XPR1
LocusID (NCBI) 9213
Atlas_Id 42846
Location 1q25.3  [Link to chromosome band 1q25]
Location_base_pair Starts at 180632010 and ends at 180890279 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)
RFWD2 (1q25.1) / XPR1 (1q25.3)XPR1 (1q25.3) / BRINP3 (1q31.1)XPR1 (1q25.3) / KIFAP3 (1q24.2)
XPR1 (1q25.3) / RFWD2 (1q25.1)XPR1 (1q25.3) / TOR3A (1q25.2)XPR1 (1q25.3) / TRMT1L (1q25.3)
XPR1 (1q25.3) / TYW3 (1p31.1)RFWD2 1q25.1 / XPR1 1q25.3XPR1 1q25.3 FAM5C
XPR1 1q25.3 / KIFAP3 1q24.2XPR1 1q25.3 / RFWD2 1q25.1XPR1 1q25.3 / TOR3A 1q25.2
XPR1 1q25.3 / TYW3 1p31.1

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 6 ]
  Lung: Translocations in Small Cell Carcinoma
t(1;1)(p31;q25) XPR1/TYW3
t(1;1)(q24;q25) XPR1/KIFAP3
XPR1/TOR3A (1q25)
XPR1/TRMT1L (1q25)
t(1;1)(q25;q31) XPR1/BRINP3

External links

Nomenclature
HGNC (Hugo)XPR1   12827
Cards
Entrez_Gene (NCBI)XPR1  9213  xenotropic and polytropic retrovirus receptor 1
AliasesIBGC6; SLC53A1; SYG1; X3
GeneCards (Weizmann)XPR1
Ensembl hg19 (Hinxton)ENSG00000143324 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000143324 [Gene_View]  ENSG00000143324 [Sequence]  chr1:180632010-180890279 [Contig_View]  XPR1 [Vega]
ICGC DataPortalENSG00000143324
TCGA cBioPortalXPR1
AceView (NCBI)XPR1
Genatlas (Paris)XPR1
WikiGenes9213
SOURCE (Princeton)XPR1
Genetics Home Reference (NIH)XPR1
Genomic and cartography
GoldenPath hg38 (UCSC)XPR1  -     chr1:180632010-180890279 +  1q25.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)XPR1  -     1q25.3   [Description]    (hg19-Feb_2009)
GoldenPathXPR1 - 1q25.3 [CytoView hg19]  XPR1 - 1q25.3 [CytoView hg38]
ImmunoBaseENSG00000143324
Mapping of homologs : NCBIXPR1 [Mapview hg19]  XPR1 [Mapview hg38]
OMIM605237   616413   
Gene and transcription
Genbank (Entrez)AA425354 AB075495 AF089744 AF099082 AF115389
RefSeq transcript (Entrez)NM_001135669 NM_001328662 NM_004736
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)XPR1
Cluster EST : UnigeneHs.227656 [ NCBI ]
CGAP (NCI)Hs.227656
Alternative Splicing GalleryENSG00000143324
Gene ExpressionXPR1 [ NCBI-GEO ]   XPR1 [ EBI - ARRAY_EXPRESS ]   XPR1 [ SEEK ]   XPR1 [ MEM ]
Gene Expression Viewer (FireBrowse)XPR1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9213
GTEX Portal (Tissue expression)XPR1
Human Protein AtlasENSG00000143324-XPR1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UBH6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UBH6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UBH6
Splice isoforms : SwissVarQ9UBH6
PhosPhoSitePlusQ9UBH6
Domaine pattern : Prosite (Expaxy)EXS (PS51380)    SPX (PS51382)   
Domains : Interpro (EBI)EXS_C    SPX_dom   
Domain families : Pfam (Sanger)EXS (PF03124)    SPX (PF03105)   
Domain families : Pfam (NCBI)pfam03124    pfam03105   
Conserved Domain (NCBI)XPR1
DMDM Disease mutations9213
Blocks (Seattle)XPR1
PDB (RSDB)5IJH   
PDB Europe5IJH   
PDB (PDBSum)5IJH   
PDB (IMB)5IJH   
Structural Biology KnowledgeBase5IJH   
SCOP (Structural Classification of Proteins)5IJH   
CATH (Classification of proteins structures)5IJH   
SuperfamilyQ9UBH6
Human Protein Atlas [tissue]ENSG00000143324-XPR1 [tissue]
Peptide AtlasQ9UBH6
HPRD05574
IPIIPI00295447   IPI00217110   
Protein Interaction databases
DIP (DOE-UCLA)Q9UBH6
IntAct (EBI)Q9UBH6
FunCoupENSG00000143324
BioGRIDXPR1
STRING (EMBL)XPR1
ZODIACXPR1
Ontologies - Pathways
QuickGOQ9UBH6
Ontology : AmiGOinositol hexakisphosphate binding  inositol hexakisphosphate binding  virus receptor activity  transmembrane signaling receptor activity  G protein-coupled receptor activity  Golgi apparatus  plasma membrane  phosphate ion transport  G protein-coupled receptor signaling pathway  response to virus  phosphate ion transmembrane transporter activity  phosphate ion transmembrane transporter activity  efflux transmembrane transporter activity  integral component of membrane  cellular response to phosphate starvation  cellular phosphate ion homeostasis  intrinsic component of plasma membrane  phosphate ion transmembrane transport  signaling receptor activity  viral entry into host cell  
Ontology : EGO-EBIinositol hexakisphosphate binding  inositol hexakisphosphate binding  virus receptor activity  transmembrane signaling receptor activity  G protein-coupled receptor activity  Golgi apparatus  plasma membrane  phosphate ion transport  G protein-coupled receptor signaling pathway  response to virus  phosphate ion transmembrane transporter activity  phosphate ion transmembrane transporter activity  efflux transmembrane transporter activity  integral component of membrane  cellular response to phosphate starvation  cellular phosphate ion homeostasis  intrinsic component of plasma membrane  phosphate ion transmembrane transport  signaling receptor activity  viral entry into host cell  
NDEx NetworkXPR1
Atlas of Cancer Signalling NetworkXPR1
Wikipedia pathwaysXPR1
Orthology - Evolution
OrthoDB9213
GeneTree (enSembl)ENSG00000143324
Phylogenetic Trees/Animal Genes : TreeFamXPR1
HOGENOMQ9UBH6
Homologs : HomoloGeneXPR1
Homology/Alignments : Family Browser (UCSC)XPR1
Gene fusions - Rearrangements
Fusion : MitelmanRFWD2/XPR1 [1q25.1/1q25.3]  [t(1;1)(q25;q25)]  
Fusion : MitelmanXPR1/BRINP3 [1q25.3/1q31.1]  [t(1;1)(q25;q31)]  
Fusion : MitelmanXPR1/KIFAP3 [1q25.3/1q24.2]  [t(1;1)(q24;q25)]  
Fusion : MitelmanXPR1/RFWD2 [1q25.3/1q25.1]  [t(1;1)(q25;q25)]  
Fusion : MitelmanXPR1/TOR3A [1q25.3/1q25.2]  [t(1;1)(q25;q25)]  
Fusion : MitelmanXPR1/TRMT1L [1q25.3/1q25.3]  [t(1;1)(q25;q25)]  
Fusion : MitelmanXPR1/TYW3 [1q25.3/1p31.1]  [t(1;1)(p31;q25)]  
Fusion PortalRFWD2 1q25.1 XPR1 1q25.3 BRCA
Fusion PortalXPR1 1q25.3 FAM5C BRCA
Fusion PortalXPR1 1q25.3 KIFAP3 1q24.2 BRCA
Fusion PortalXPR1 1q25.3 RFWD2 1q25.1 BRCA
Fusion PortalXPR1 1q25.3 TOR3A 1q25.2 HNSC
Fusion PortalXPR1 1q25.3 TYW3 1p31.1 BRCA
Fusion : QuiverXPR1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerXPR1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)XPR1
dbVarXPR1
ClinVarXPR1
1000_GenomesXPR1 
Exome Variant ServerXPR1
ExAC (Exome Aggregation Consortium)ENSG00000143324
GNOMAD BrowserENSG00000143324
Varsome BrowserXPR1
Genetic variants : HAPMAP9213
Genomic Variants (DGV)XPR1 [DGVbeta]
DECIPHERXPR1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisXPR1 
Mutations
ICGC Data PortalXPR1 
TCGA Data PortalXPR1 
Broad Tumor PortalXPR1
OASIS PortalXPR1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICXPR1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DXPR1
Mutations and Diseases : HGMDXPR1
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 XPR1
DgiDB (Drug Gene Interaction Database)XPR1
DoCM (Curated mutations)XPR1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)XPR1 (select a term)
intoGenXPR1
Cancer3DXPR1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605237    616413   
Orphanet1923   
DisGeNETXPR1
MedgenXPR1
Genetic Testing Registry XPR1
NextProtQ9UBH6 [Medical]
TSGene9213
GENETestsXPR1
Target ValidationXPR1
Huge Navigator XPR1 [HugePedia]
snp3D : Map Gene to Disease9213
BioCentury BCIQXPR1
ClinGenXPR1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9213
Chemical/Pharm GKB GenePA37420
Clinical trialXPR1
Miscellaneous
canSAR (ICR)XPR1 (select the gene name)
DataMed IndexXPR1
Probes
Litterature
PubMed27 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineXPR1
EVEXXPR1
GoPubMedXPR1
iHOPXPR1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Nov 13 18:15:34 CET 2019
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