Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SPOP (speckle type BTB/POZ protein)

Identity

Alias_namesspeckle-type POZ protein
Alias_symbol (synonym)TEF2
BTBD32
Other alias
HGNC (Hugo) SPOP
LocusID (NCBI) 8405
Atlas_Id 50818
Location 17q21.33  [Link to chromosome band 17q21]
Location_base_pair Starts at 49598884 and ends at 49678163 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)
LRIF1 (1p13.3) / SPOP (17q21.33)MGST3 (1q24.1) / SPOP (17q21.33)PHB (17q21.33) / SPOP (17q21.33)
SEC14L1 (17q25.2) / SPOP (17q21.33)SORBS1 (10q24.1) / SPOP (17q21.33)SPOP (17q21.33) / ARL5C (17q12)
SPOP (17q21.33) / C6orf132 (6p21.1)SPOP (17q21.33) / FAM117A (17q21.33)SPOP (17q21.33) / GPATCH1 (19q13.11)
SPOP (17q21.33) / PRDM16 (1p36.32)SPOP (17q21.33) / SLC35B1 (17q21.33)SPOP (17q21.33) / SNF8 (17q21.32)
SPOP (17q21.33) / TAC4 (17q21.33)SPOP (17q21.33) / TAOK1 (17q11.2)SPOP (17q21.33) / TRNAU1AP (1p35.3)
SPOP (17q21.33) / XYLT2 (17q21.33)SEC14L1 17q25.2 / SPOP 17q21.33SPOP 17q21.33 / ARL5C 17q12
SPOP 17q21.33 / FAM117A 17q21.33SPOP 17q21.33 / GPATCH1 19q13.11SPOP 17q21.33 / PRDM16 1p36.32
SPOP 17q21.33 / SLC35B1 17q21.33SPOP 17q21.33 / TAC4 17q21.33SPOP 17q21.33 / TAOK1 17q11.2
SPOP 17q21.33 / XYLT2 17q21.33

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) [ 9 ]
  Nervous system: Astrocytoma with t(1;17)(p36;q21) SPOP/PRDM16
t(17;17)(q11;q21) SPOP/TAOK1
t(17;17)(q12;q21) SPOP/ARL5C
SPOP/FAM117A (17q21)
SPOP/SLC35B1 (17q21)
SPOP/TAC4 (17q21)
SPOP/XYLT2 (17q21)
t(17;17)(q21;q25) SEC14L1/SPOP
t(17;19)(q21;q13) SPOP/GPATCH1


External links

Nomenclature
HGNC (Hugo)SPOP   11254
Cards
Entrez_Gene (NCBI)SPOP  8405  speckle type BTB/POZ protein
AliasesBTBD32; TEF2
GeneCards (Weizmann)SPOP
Ensembl hg19 (Hinxton)ENSG00000121067 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000121067 [Gene_View]  ENSG00000121067 [Sequence]  chr17:49598884-49678163 [Contig_View]  SPOP [Vega]
ICGC DataPortalENSG00000121067
TCGA cBioPortalSPOP
AceView (NCBI)SPOP
Genatlas (Paris)SPOP
WikiGenes8405
SOURCE (Princeton)SPOP
Genetics Home Reference (NIH)SPOP
Genomic and cartography
GoldenPath hg38 (UCSC)SPOP  -     chr17:49598884-49678163 -  17q21.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SPOP  -     17q21.33   [Description]    (hg19-Feb_2009)
GoldenPathSPOP - 17q21.33 [CytoView hg19]  SPOP - 17q21.33 [CytoView hg38]
ImmunoBaseENSG00000121067
Mapping of homologs : NCBISPOP [Mapview hg19]  SPOP [Mapview hg38]
OMIM602650   
Gene and transcription
Genbank (Entrez)AJ000644 AK123385 AK222589 AK293045 AK293587
RefSeq transcript (Entrez)NM_001007226 NM_001007227 NM_001007228 NM_001007229 NM_001007230 NM_003563
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SPOP
Cluster EST : UnigeneHs.740407 [ NCBI ]
CGAP (NCI)Hs.740407
Alternative Splicing GalleryENSG00000121067
Gene ExpressionSPOP [ NCBI-GEO ]   SPOP [ EBI - ARRAY_EXPRESS ]   SPOP [ SEEK ]   SPOP [ MEM ]
Gene Expression Viewer (FireBrowse)SPOP [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)8405
GTEX Portal (Tissue expression)SPOP
Human Protein AtlasENSG00000121067-SPOP [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO43791   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO43791  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO43791
Splice isoforms : SwissVarO43791
PhosPhoSitePlusO43791
Domaine pattern : Prosite (Expaxy)BTB (PS50097)    MATH (PS50144)   
Domains : Interpro (EBI)BTB/POZ_dom    MATH/TRAF_dom    SKP1/BTB/POZ_sf    SPOP_C    TRAF-like   
Domain families : Pfam (Sanger)BTB (PF00651)    MATH (PF00917)   
Domain families : Pfam (NCBI)pfam00651    pfam00917   
Domain families : Smart (EMBL)BTB (SM00225)  MATH (SM00061)  
Conserved Domain (NCBI)SPOP
DMDM Disease mutations8405
Blocks (Seattle)SPOP
PDB (RSDB)2CR2    3HQH    3HQI    3HQL    3HQM    3HSV    3HTM    3HU6    3IVB    3IVQ    3IVV    4EOZ    4HS2    4J8Z    4O1V   
PDB Europe2CR2    3HQH    3HQI    3HQL    3HQM    3HSV    3HTM    3HU6    3IVB    3IVQ    3IVV    4EOZ    4HS2    4J8Z    4O1V   
PDB (PDBSum)2CR2    3HQH    3HQI    3HQL    3HQM    3HSV    3HTM    3HU6    3IVB    3IVQ    3IVV    4EOZ    4HS2    4J8Z    4O1V   
PDB (IMB)2CR2    3HQH    3HQI    3HQL    3HQM    3HSV    3HTM    3HU6    3IVB    3IVQ    3IVV    4EOZ    4HS2    4J8Z    4O1V   
Structural Biology KnowledgeBase2CR2    3HQH    3HQI    3HQL    3HQM    3HSV    3HTM    3HU6    3IVB    3IVQ    3IVV    4EOZ    4HS2    4J8Z    4O1V   
SCOP (Structural Classification of Proteins)2CR2    3HQH    3HQI    3HQL    3HQM    3HSV    3HTM    3HU6    3IVB    3IVQ    3IVV    4EOZ    4HS2    4J8Z    4O1V   
CATH (Classification of proteins structures)2CR2    3HQH    3HQI    3HQL    3HQM    3HSV    3HTM    3HU6    3IVB    3IVQ    3IVV    4EOZ    4HS2    4J8Z    4O1V   
SuperfamilyO43791
Human Protein Atlas [tissue]ENSG00000121067-SPOP [tissue]
Peptide AtlasO43791
HPRD16004
IPIIPI00013978   IPI01009694   IPI01010923   IPI00966181   IPI00965122   IPI00967807   IPI00964933   IPI00964082   IPI00967213   IPI00964049   IPI00965440   IPI00967561   IPI00965937   
Protein Interaction databases
DIP (DOE-UCLA)O43791
IntAct (EBI)O43791
FunCoupENSG00000121067
BioGRIDSPOP
STRING (EMBL)SPOP
ZODIACSPOP
Ontologies - Pathways
QuickGOO43791
Ontology : AmiGOprotein binding  nucleus  nucleus  nucleoplasm  cytoplasm  ubiquitin-dependent protein catabolic process  protein ubiquitination  nuclear speck  regulation of proteolysis  Cul3-RING ubiquitin ligase complex  ubiquitin protein ligase binding  ubiquitin protein ligase binding  proteasome-mediated ubiquitin-dependent protein catabolic process  proteasome-mediated ubiquitin-dependent protein catabolic process  
Ontology : EGO-EBIprotein binding  nucleus  nucleus  nucleoplasm  cytoplasm  ubiquitin-dependent protein catabolic process  protein ubiquitination  nuclear speck  regulation of proteolysis  Cul3-RING ubiquitin ligase complex  ubiquitin protein ligase binding  ubiquitin protein ligase binding  proteasome-mediated ubiquitin-dependent protein catabolic process  proteasome-mediated ubiquitin-dependent protein catabolic process  
NDEx NetworkSPOP
Atlas of Cancer Signalling NetworkSPOP
Wikipedia pathwaysSPOP
Orthology - Evolution
OrthoDB8405
GeneTree (enSembl)ENSG00000121067
Phylogenetic Trees/Animal Genes : TreeFamSPOP
HOGENOMO43791
Homologs : HomoloGeneSPOP
Homology/Alignments : Family Browser (UCSC)SPOP
Gene fusions - Rearrangements
Fusion : MitelmanSEC14L1/SPOP [17q25.2/17q21.33]  [t(17;17)(q21;q25)]  
Fusion : MitelmanSPOP/ARL5C [17q21.33/17q12]  [t(17;17)(q12;q21)]  
Fusion : MitelmanSPOP/FAM117A [17q21.33/17q21.33]  [t(17;17)(q21;q21)]  
Fusion : MitelmanSPOP/GPATCH1 [17q21.33/19q13.11]  [t(17;19)(q21;q13)]  
Fusion : MitelmanSPOP/PRDM16 [17q21.33/1p36.32]  [t(1;17)(p36;q21)]  
Fusion : MitelmanSPOP/SLC35B1 [17q21.33/17q21.33]  [t(17;17)(q21;q21)]  
Fusion : MitelmanSPOP/TAC4 [17q21.33/17q21.33]  [t(17;17)(q21;q21)]  
Fusion : MitelmanSPOP/TAOK1 [17q21.33/17q11.2]  [t(17;17)(q11;q21)]  
Fusion : MitelmanSPOP/XYLT2 [17q21.33/17q21.33]  [t(17;17)(q21;q21)]  
Fusion PortalSEC14L1 17q25.2 SPOP 17q21.33 LUSC
Fusion PortalSPOP 17q21.33 ARL5C 17q12 BRCA
Fusion PortalSPOP 17q21.33 FAM117A 17q21.33 KIRC
Fusion PortalSPOP 17q21.33 GPATCH1 19q13.11 LUAD
Fusion PortalSPOP 17q21.33 PRDM16 1p36.32 LGG
Fusion PortalSPOP 17q21.33 SLC35B1 17q21.33 LUSC OV
Fusion PortalSPOP 17q21.33 TAC4 17q21.33 BRCA
Fusion PortalSPOP 17q21.33 TAOK1 17q11.2 BRCA
Fusion PortalSPOP 17q21.33 XYLT2 17q21.33 BRCA
Fusion : QuiverSPOP
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSPOP [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SPOP
dbVarSPOP
ClinVarSPOP
1000_GenomesSPOP 
Exome Variant ServerSPOP
ExAC (Exome Aggregation Consortium)ENSG00000121067
GNOMAD BrowserENSG00000121067
Varsome BrowserSPOP
Genetic variants : HAPMAP8405
Genomic Variants (DGV)SPOP [DGVbeta]
DECIPHERSPOP [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSPOP 
Mutations
ICGC Data PortalSPOP 
TCGA Data PortalSPOP 
Broad Tumor PortalSPOP
OASIS PortalSPOP [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSPOP  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSPOP
intOGen PortalSPOP
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SPOP
DgiDB (Drug Gene Interaction Database)SPOP
DoCM (Curated mutations)SPOP (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SPOP (select a term)
intoGenSPOP
Cancer3DSPOP(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM602650   
Orphanet
DisGeNETSPOP
MedgenSPOP
Genetic Testing Registry SPOP
NextProtO43791 [Medical]
TSGene8405
GENETestsSPOP
Target ValidationSPOP
Huge Navigator SPOP [HugePedia]
snp3D : Map Gene to Disease8405
BioCentury BCIQSPOP
ClinGenSPOP
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD8405
Chemical/Pharm GKB GenePA36084
Clinical trialSPOP
Miscellaneous
canSAR (ICR)SPOP (select the gene name)
DataMed IndexSPOP
Probes
Litterature
PubMed95 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSPOP
EVEXSPOP
GoPubMedSPOP
iHOPSPOP
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Jun 7 18:18:14 CEST 2019

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