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SF3B5 (splicing factor 3b subunit 5)

Identity

Alias_namessplicing factor 3b, subunit 5, 10kDa
Alias_symbol (synonym)SF3b10
MGC3133
Ysf3
Other alias
HGNC (Hugo) SF3B5
LocusID (NCBI) 83443
Atlas_Id 73164
Location 6q24.2  [Link to chromosome band 6q24]
Location_base_pair Starts at 144094881 and ends at 144095617 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)

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)SF3B5   21083
Cards
Entrez_Gene (NCBI)SF3B5  83443  splicing factor 3b subunit 5
AliasesSF3b10; Ysf3
GeneCards (Weizmann)SF3B5
Ensembl hg19 (Hinxton)ENSG00000169976 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000169976 [Gene_View]  chr6:144094881-144095617 [Contig_View]  SF3B5 [Vega]
ICGC DataPortalENSG00000169976
TCGA cBioPortalSF3B5
AceView (NCBI)SF3B5
Genatlas (Paris)SF3B5
WikiGenes83443
SOURCE (Princeton)SF3B5
Genetics Home Reference (NIH)SF3B5
Genomic and cartography
GoldenPath hg38 (UCSC)SF3B5  -     chr6:144094881-144095617 -  6q24.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SF3B5  -     6q24.2   [Description]    (hg19-Feb_2009)
EnsemblSF3B5 - 6q24.2 [CytoView hg19]  SF3B5 - 6q24.2 [CytoView hg38]
Mapping of homologs : NCBISF3B5 [Mapview hg19]  SF3B5 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK074417 AK312079 AM393071 BC000198 BK000562
RefSeq transcript (Entrez)NM_031287
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SF3B5
Cluster EST : UnigeneHs.110695 [ NCBI ]
CGAP (NCI)Hs.110695
Alternative Splicing GalleryENSG00000169976
Gene ExpressionSF3B5 [ NCBI-GEO ]   SF3B5 [ EBI - ARRAY_EXPRESS ]   SF3B5 [ SEEK ]   SF3B5 [ MEM ]
Gene Expression Viewer (FireBrowse)SF3B5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)83443
GTEX Portal (Tissue expression)SF3B5
Human Protein AtlasENSG00000169976-SF3B5 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BWJ5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BWJ5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BWJ5
Splice isoforms : SwissVarQ9BWJ5
PhosPhoSitePlusQ9BWJ5
Domains : Interpro (EBI)SF3b5/RDS3-10    Splicing_factor_3B_subunit_5   
Domain families : Pfam (Sanger)SF3b10 (PF07189)   
Domain families : Pfam (NCBI)pfam07189   
Conserved Domain (NCBI)SF3B5
DMDM Disease mutations83443
Blocks (Seattle)SF3B5
PDB (SRS)5IFE   
PDB (PDBSum)5IFE   
PDB (IMB)5IFE   
PDB (RSDB)5IFE   
Structural Biology KnowledgeBase5IFE   
SCOP (Structural Classification of Proteins)5IFE   
CATH (Classification of proteins structures)5IFE   
SuperfamilyQ9BWJ5
Human Protein Atlas [tissue]ENSG00000169976-SF3B5 [tissue]
Peptide AtlasQ9BWJ5
HPRD18042
IPIIPI00010404   
Protein Interaction databases
DIP (DOE-UCLA)Q9BWJ5
IntAct (EBI)Q9BWJ5
FunCoupENSG00000169976
BioGRIDSF3B5
STRING (EMBL)SF3B5
ZODIACSF3B5
Ontologies - Pathways
QuickGOQ9BWJ5
Ontology : AmiGOmRNA splicing, via spliceosome  mRNA splicing, via spliceosome  nucleus  nucleoplasm  U2 snRNP  U12-type spliceosomal complex  precatalytic spliceosome  
Ontology : EGO-EBImRNA splicing, via spliceosome  mRNA splicing, via spliceosome  nucleus  nucleoplasm  U2 snRNP  U12-type spliceosomal complex  precatalytic spliceosome  
NDEx NetworkSF3B5
Atlas of Cancer Signalling NetworkSF3B5
Wikipedia pathwaysSF3B5
Orthology - Evolution
OrthoDB83443
GeneTree (enSembl)ENSG00000169976
Phylogenetic Trees/Animal Genes : TreeFamSF3B5
HOVERGENQ9BWJ5
HOGENOMQ9BWJ5
Homologs : HomoloGeneSF3B5
Homology/Alignments : Family Browser (UCSC)SF3B5
Gene fusions - Rearrangements
Fusion : QuiverSF3B5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSF3B5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SF3B5
dbVarSF3B5
ClinVarSF3B5
1000_GenomesSF3B5 
Exome Variant ServerSF3B5
ExAC (Exome Aggregation Consortium)ENSG00000169976
GNOMAD BrowserENSG00000169976
Genetic variants : HAPMAP83443
Genomic Variants (DGV)SF3B5 [DGVbeta]
DECIPHERSF3B5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSF3B5 
Mutations
ICGC Data PortalSF3B5 
TCGA Data PortalSF3B5 
Broad Tumor PortalSF3B5
OASIS PortalSF3B5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSF3B5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSF3B5
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SF3B5
DgiDB (Drug Gene Interaction Database)SF3B5
DoCM (Curated mutations)SF3B5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SF3B5 (select a term)
intoGenSF3B5
Cancer3DSF3B5(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETSF3B5
MedgenSF3B5
Genetic Testing Registry SF3B5
NextProtQ9BWJ5 [Medical]
TSGene83443
GENETestsSF3B5
Target ValidationSF3B5
Huge Navigator SF3B5 [HugePedia]
snp3D : Map Gene to Disease83443
BioCentury BCIQSF3B5
ClinGenSF3B5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD83443
Chemical/Pharm GKB GenePA134951632
Clinical trialSF3B5
Miscellaneous
canSAR (ICR)SF3B5 (select the gene name)
Probes
Litterature
PubMed22 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSF3B5
EVEXSF3B5
GoPubMedSF3B5
iHOPSF3B5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Feb 23 18:51:05 CET 2018

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