Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SCAF4 (SR-related CTD associated factor 4)

Identity

Alias_namesSFRS15
splicing factor, arginine/serine-rich 15
Alias_symbol (synonym)KIAA1172
DKFZp434E098
SRA4
Other alias
HGNC (Hugo) SCAF4
LocusID (NCBI) 57466
Atlas_Id 72995
Location 21q22.11  [Link to chromosome band 21q22]
Location_base_pair Starts at 31671000 and ends at 31732118 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)
SCAF4 (21q22.11) / CLEC2D (12p13.31)SCAF4 (21q22.11) / HLCS (21q22.13)SCAF4 (21q22.11) / SCAF4 (21q22.11)
SF3B2 (11q13.1) / SCAF4 (21q22.11)

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)SCAF4   19304
Cards
Entrez_Gene (NCBI)SCAF4  57466  SR-related CTD associated factor 4
AliasesSFRS15; SRA4
GeneCards (Weizmann)SCAF4
Ensembl hg19 (Hinxton)ENSG00000156304 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000156304 [Gene_View]  chr21:31671000-31732118 [Contig_View]  SCAF4 [Vega]
ICGC DataPortalENSG00000156304
TCGA cBioPortalSCAF4
AceView (NCBI)SCAF4
Genatlas (Paris)SCAF4
WikiGenes57466
SOURCE (Princeton)SCAF4
Genetics Home Reference (NIH)SCAF4
Genomic and cartography
GoldenPath hg38 (UCSC)SCAF4  -     chr21:31671000-31732118 -  21q22.11   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SCAF4  -     21q22.11   [Description]    (hg19-Feb_2009)
EnsemblSCAF4 - 21q22.11 [CytoView hg19]  SCAF4 - 21q22.11 [CytoView hg38]
Mapping of homologs : NCBISCAF4 [Mapview hg19]  SCAF4 [Mapview hg38]
OMIM616023   
Gene and transcription
Genbank (Entrez)AB032998 AF023142 AK025748 AK027017 AK057840
RefSeq transcript (Entrez)NM_001145444 NM_001145445 NM_020706
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SCAF4
Cluster EST : UnigeneHs.17255 [ NCBI ]
CGAP (NCI)Hs.17255
Alternative Splicing GalleryENSG00000156304
Gene ExpressionSCAF4 [ NCBI-GEO ]   SCAF4 [ EBI - ARRAY_EXPRESS ]   SCAF4 [ SEEK ]   SCAF4 [ MEM ]
Gene Expression Viewer (FireBrowse)SCAF4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57466
GTEX Portal (Tissue expression)SCAF4
Human Protein AtlasENSG00000156304-SCAF4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95104   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO95104  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95104
Splice isoforms : SwissVarO95104
PhosPhoSitePlusO95104
Domaine pattern : Prosite (Expaxy)CID (PS51391)    RRM (PS50102)   
Domains : Interpro (EBI)CID_dom    ENTH_VHS    Nucleotide-bd_a/b_plait    RNA_pol_II-bd    RRM_dom   
Domain families : Pfam (Sanger)CTD_bind (PF04818)    RRM_1 (PF00076)   
Domain families : Pfam (NCBI)pfam04818    pfam00076   
Domain families : Smart (EMBL)RPR (SM00582)  RRM (SM00360)  
Conserved Domain (NCBI)SCAF4
DMDM Disease mutations57466
Blocks (Seattle)SCAF4
SuperfamilyO95104
Human Protein Atlas [tissue]ENSG00000156304-SCAF4 [tissue]
Peptide AtlasO95104
HPRD11551
IPIIPI00181702   IPI00397794   IPI00923625   
Protein Interaction databases
DIP (DOE-UCLA)O95104
IntAct (EBI)O95104
FunCoupENSG00000156304
BioGRIDSCAF4
STRING (EMBL)SCAF4
ZODIACSCAF4
Ontologies - Pathways
QuickGOO95104
Ontology : AmiGORNA binding  nucleoplasm  
Ontology : EGO-EBIRNA binding  nucleoplasm  
NDEx NetworkSCAF4
Atlas of Cancer Signalling NetworkSCAF4
Wikipedia pathwaysSCAF4
Orthology - Evolution
OrthoDB57466
GeneTree (enSembl)ENSG00000156304
Phylogenetic Trees/Animal Genes : TreeFamSCAF4
HOVERGENO95104
HOGENOMO95104
Homologs : HomoloGeneSCAF4
Homology/Alignments : Family Browser (UCSC)SCAF4
Gene fusions - Rearrangements
Fusion: Tumor Portal SCAF4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSCAF4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SCAF4
dbVarSCAF4
ClinVarSCAF4
1000_GenomesSCAF4 
Exome Variant ServerSCAF4
ExAC (Exome Aggregation Consortium)ENSG00000156304
GNOMAD BrowserENSG00000156304
Genetic variants : HAPMAP57466
Genomic Variants (DGV)SCAF4 [DGVbeta]
DECIPHERSCAF4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSCAF4 
Mutations
ICGC Data PortalSCAF4 
TCGA Data PortalSCAF4 
Broad Tumor PortalSCAF4
OASIS PortalSCAF4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSCAF4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSCAF4
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 SCAF4
DgiDB (Drug Gene Interaction Database)SCAF4
DoCM (Curated mutations)SCAF4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SCAF4 (select a term)
intoGenSCAF4
Cancer3DSCAF4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM616023   
Orphanet
MedgenSCAF4
Genetic Testing Registry SCAF4
NextProtO95104 [Medical]
TSGene57466
GENETestsSCAF4
Target ValidationSCAF4
Huge Navigator SCAF4 [HugePedia]
snp3D : Map Gene to Disease57466
BioCentury BCIQSCAF4
ClinGenSCAF4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57466
Chemical/Pharm GKB GenePA134903281
Clinical trialSCAF4
Miscellaneous
canSAR (ICR)SCAF4 (select the gene name)
Probes
Litterature
PubMed31 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSCAF4
EVEXSCAF4
GoPubMedSCAF4
iHOPSCAF4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Nov 9 12:26:21 CET 2017

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