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SF3A3 (splicing factor 3a subunit 3)

Identity

Alias_namessplicing factor 3a, subunit 3, 60kD
splicing factor 3a, subunit 3, 60kDa
Alias_symbol (synonym)SF3a60
SAP61
PRP9
PRPF9
Other alias
HGNC (Hugo) SF3A3
LocusID (NCBI) 10946
Atlas_Id 54613
Location 1p34.3  [Link to chromosome band 1p34]
Location_base_pair Starts at 37956980 and ends at 37990110 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
GRM5 (11q14.2) / SF3A3 (1p34.3)IFNAR1 (21q22.11) / SF3A3 (1p34.3)INPP5B (1p34.3) / SF3A3 (1p34.3)
MTF1 (1p34.3) / SF3A3 (1p34.3)SF3A3 (1p34.3) / GNL2 (1p34.3)SF3A3 (1p34.3) / SF3A3 (1p34.3)
SF3A3 (1p34.3) / TOX4 (14q11.2)SPTBN1 (2p16.2) / SF3A3 (1p34.3)MTF1 1p34.3 / SF3A3 1p34.3

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  Lung: Translocations in Small Cell Carcinoma


External links

Nomenclature
HGNC (Hugo)SF3A3   10767
Cards
Entrez_Gene (NCBI)SF3A3  10946  splicing factor 3a subunit 3
AliasesPRP9; PRPF9; SAP61; SF3a60
GeneCards (Weizmann)SF3A3
Ensembl hg19 (Hinxton)ENSG00000183431 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000183431 [Gene_View]  chr1:37956980-37990110 [Contig_View]  SF3A3 [Vega]
ICGC DataPortalENSG00000183431
TCGA cBioPortalSF3A3
AceView (NCBI)SF3A3
Genatlas (Paris)SF3A3
WikiGenes10946
SOURCE (Princeton)SF3A3
Genetics Home Reference (NIH)SF3A3
Genomic and cartography
GoldenPath hg38 (UCSC)SF3A3  -     chr1:37956980-37990110 -  1p34.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SF3A3  -     1p34.3   [Description]    (hg19-Feb_2009)
EnsemblSF3A3 - 1p34.3 [CytoView hg19]  SF3A3 - 1p34.3 [CytoView hg38]
Mapping of homologs : NCBISF3A3 [Mapview hg19]  SF3A3 [Mapview hg38]
OMIM605596   
Gene and transcription
Genbank (Entrez)AI492088 AK026887 AK128438 AK222554 AK291181
RefSeq transcript (Entrez)NM_001320830 NM_006802
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SF3A3
Cluster EST : UnigeneHs.77897 [ NCBI ]
CGAP (NCI)Hs.77897
Alternative Splicing GalleryENSG00000183431
Gene ExpressionSF3A3 [ NCBI-GEO ]   SF3A3 [ EBI - ARRAY_EXPRESS ]   SF3A3 [ SEEK ]   SF3A3 [ MEM ]
Gene Expression Viewer (FireBrowse)SF3A3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10946
GTEX Portal (Tissue expression)SF3A3
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ12874   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ12874  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ12874
Splice isoforms : SwissVarQ12874
PhosPhoSitePlusQ12874
Domaine pattern : Prosite (Expaxy)ZF_MATRIN (PS50171)   
Domains : Interpro (EBI)DUF3449    SF3A3    SF3A3_dom    SF3a60_bindingd    Znf_C2H2_matrin   
Domain families : Pfam (Sanger)DUF3449 (PF11931)    SF3A3 (PF16837)    SF3a60_bindingd (PF12108)   
Domain families : Pfam (NCBI)pfam11931    pfam16837    pfam12108   
Conserved Domain (NCBI)SF3A3
DMDM Disease mutations10946
Blocks (Seattle)SF3A3
PDB (SRS)2DT7   
PDB (PDBSum)2DT7   
PDB (IMB)2DT7   
PDB (RSDB)2DT7   
Structural Biology KnowledgeBase2DT7   
SCOP (Structural Classification of Proteins)2DT7   
CATH (Classification of proteins structures)2DT7   
SuperfamilyQ12874
Human Protein AtlasENSG00000183431
Peptide AtlasQ12874
HPRD10411
IPIIPI00029764   IPI00908449   
Protein Interaction databases
DIP (DOE-UCLA)Q12874
IntAct (EBI)Q12874
FunCoupENSG00000183431
BioGRIDSF3A3
STRING (EMBL)SF3A3
ZODIACSF3A3
Ontologies - Pathways
QuickGOQ12874
Ontology : AmiGORNA splicing, via transesterification reactions  mRNA 3'-splice site recognition  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  RNA binding  RNA binding  protein binding  nucleoplasm  nucleoplasm  spliceosomal complex  mRNA processing  zinc ion binding  RNA splicing  nuclear speck  catalytic step 2 spliceosome  
Ontology : EGO-EBIRNA splicing, via transesterification reactions  mRNA 3'-splice site recognition  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  RNA binding  RNA binding  protein binding  nucleoplasm  nucleoplasm  spliceosomal complex  mRNA processing  zinc ion binding  RNA splicing  nuclear speck  catalytic step 2 spliceosome  
Pathways : KEGGSpliceosome   
NDEx NetworkSF3A3
Atlas of Cancer Signalling NetworkSF3A3
Wikipedia pathwaysSF3A3
Orthology - Evolution
OrthoDB10946
GeneTree (enSembl)ENSG00000183431
Phylogenetic Trees/Animal Genes : TreeFamSF3A3
HOVERGENQ12874
HOGENOMQ12874
Homologs : HomoloGeneSF3A3
Homology/Alignments : Family Browser (UCSC)SF3A3
Gene fusions - Rearrangements
Fusion : MitelmanINPP5B/SF3A3 [1p34.3/1p34.3]  [t(1;1)(p34;p34)]  
Fusion : MitelmanMTF1/SF3A3 [1p34.3/1p34.3]  [t(1;1)(p34;p34)]  
Fusion : MitelmanSF3A3/GNL2 [1p34.3/1p34.3]  [t(1;1)(p34;p34)]  
Fusion: TCGAMTF1 1p34.3 SF3A3 1p34.3 BRCA GBM
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSF3A3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SF3A3
dbVarSF3A3
ClinVarSF3A3
1000_GenomesSF3A3 
Exome Variant ServerSF3A3
ExAC (Exome Aggregation Consortium)SF3A3 (select the gene name)
Genetic variants : HAPMAP10946
Genomic Variants (DGV)SF3A3 [DGVbeta]
DECIPHERSF3A3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSF3A3 
Mutations
ICGC Data PortalSF3A3 
TCGA Data PortalSF3A3 
Broad Tumor PortalSF3A3
OASIS PortalSF3A3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSF3A3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSF3A3
intOGen PortalSF3A3
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 SF3A3
DgiDB (Drug Gene Interaction Database)SF3A3
DoCM (Curated mutations)SF3A3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SF3A3 (select a term)
intoGenSF3A3
Cancer3DSF3A3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605596   
Orphanet
MedgenSF3A3
Genetic Testing Registry SF3A3
NextProtQ12874 [Medical]
TSGene10946
GENETestsSF3A3
Target ValidationSF3A3
Huge Navigator SF3A3 [HugePedia]
snp3D : Map Gene to Disease10946
BioCentury BCIQSF3A3
ClinGenSF3A3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10946
Chemical/Pharm GKB GenePA35685
Clinical trialSF3A3
Miscellaneous
canSAR (ICR)SF3A3 (select the gene name)
Probes
Litterature
PubMed63 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSF3A3
EVEXSF3A3
GoPubMedSF3A3
iHOPSF3A3
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 : Wed Jun 7 12:55:11 CEST 2017

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