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SCAF8 (SR-related CTD associated factor 8)

Identity

Alias_namesRBM16
RNA binding motif protein 16
Alias_symbol (synonym)KIAA1116
Other alias
HGNC (Hugo) SCAF8
LocusID (NCBI) 22828
Atlas_Id 72996
Location 6q25.2  [Link to chromosome band 6q25]
Location_base_pair Starts at 154733378 and ends at 154834244 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)
ANKHD1-EIF4EBP3 (5q31.3) / SCAF8 (6q25.2)DBN1 (5q35.3) / SCAF8 (6q25.2)GPR89A (1q21.1) / SCAF8 (6q25.2)
LOC100302640 () / SCAF8 (6q25.2)MYO1D (17q11.2) / SCAF8 (6q25.2)SCAF8 (6q25.2) / ATPAF1 (1p33)
SCAF8 (6q25.2) / GINM1 (6q25.1)SCAF8 (6q25.2) / LATS1 (6q25.1)SCAF8 (6q25.2) / SAMD5 (6q24.3)
SCAF8 (6q25.2) / VWA8 (13q14.11)TAF1D (11q21) / SCAF8 (6q25.2)SCAF8 SAMD5
SCAF8 KIAA0564

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) [ 3 ]
  t(6;6)(q24;q25) SCAF8/SAMD5
t(6;6)(q25;q25) SCAF8/GINM1
t(6;13)(q25;q14) SCAF8/VWA8


External links

Nomenclature
HGNC (Hugo)SCAF8   20959
Cards
Entrez_Gene (NCBI)SCAF8  22828  SR-related CTD associated factor 8
AliasesRBM16
GeneCards (Weizmann)SCAF8
Ensembl hg19 (Hinxton)ENSG00000213079 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000213079 [Gene_View]  ENSG00000213079 [Sequence]  chr6:154733378-154834244 [Contig_View]  SCAF8 [Vega]
ICGC DataPortalENSG00000213079
TCGA cBioPortalSCAF8
AceView (NCBI)SCAF8
Genatlas (Paris)SCAF8
WikiGenes22828
SOURCE (Princeton)SCAF8
Genetics Home Reference (NIH)SCAF8
Genomic and cartography
GoldenPath hg38 (UCSC)SCAF8  -     chr6:154733378-154834244 +  6q25.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SCAF8  -     6q25.2   [Description]    (hg19-Feb_2009)
EnsemblSCAF8 - 6q25.2 [CytoView hg19]  SCAF8 - 6q25.2 [CytoView hg38]
Mapping of homologs : NCBISCAF8 [Mapview hg19]  SCAF8 [Mapview hg38]
OMIM616024   
Gene and transcription
Genbank (Entrez)AB029039 AK001530 AK023859 AK295651 AK302969
RefSeq transcript (Entrez)NM_001286188 NM_001286189 NM_001286194 NM_001286199 NM_014892
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SCAF8
Cluster EST : UnigeneHs.591329 [ NCBI ]
CGAP (NCI)Hs.591329
Alternative Splicing GalleryENSG00000213079
Gene ExpressionSCAF8 [ NCBI-GEO ]   SCAF8 [ EBI - ARRAY_EXPRESS ]   SCAF8 [ SEEK ]   SCAF8 [ MEM ]
Gene Expression Viewer (FireBrowse)SCAF8 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)22828
GTEX Portal (Tissue expression)SCAF8
Human Protein AtlasENSG00000213079-SCAF8 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UPN6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UPN6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UPN6
Splice isoforms : SwissVarQ9UPN6
PhosPhoSitePlusQ9UPN6
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)SCAF8
DMDM Disease mutations22828
Blocks (Seattle)SCAF8
PDB (SRS)2DIW    3D9I    3D9J    3D9K    3D9L    3D9M    3D9N    3D9O    3D9P   
PDB (PDBSum)2DIW    3D9I    3D9J    3D9K    3D9L    3D9M    3D9N    3D9O    3D9P   
PDB (IMB)2DIW    3D9I    3D9J    3D9K    3D9L    3D9M    3D9N    3D9O    3D9P   
PDB (RSDB)2DIW    3D9I    3D9J    3D9K    3D9L    3D9M    3D9N    3D9O    3D9P   
Structural Biology KnowledgeBase2DIW    3D9I    3D9J    3D9K    3D9L    3D9M    3D9N    3D9O    3D9P   
SCOP (Structural Classification of Proteins)2DIW    3D9I    3D9J    3D9K    3D9L    3D9M    3D9N    3D9O    3D9P   
CATH (Classification of proteins structures)2DIW    3D9I    3D9J    3D9K    3D9L    3D9M    3D9N    3D9O    3D9P   
SuperfamilyQ9UPN6
Human Protein Atlas [tissue]ENSG00000213079-SCAF8 [tissue]
Peptide AtlasQ9UPN6
HPRD11487
IPIIPI01012434   IPI00871240   
Protein Interaction databases
DIP (DOE-UCLA)Q9UPN6
IntAct (EBI)Q9UPN6
FunCoupENSG00000213079
BioGRIDSCAF8
STRING (EMBL)SCAF8
ZODIACSCAF8
Ontologies - Pathways
QuickGOQ9UPN6
Ontology : AmiGORNA binding  protein binding  nucleoplasm  spliceosomal complex  mRNA processing  RNA splicing  nuclear matrix  RNA polymerase core enzyme binding  
Ontology : EGO-EBIRNA binding  protein binding  nucleoplasm  spliceosomal complex  mRNA processing  RNA splicing  nuclear matrix  RNA polymerase core enzyme binding  
NDEx NetworkSCAF8
Atlas of Cancer Signalling NetworkSCAF8
Wikipedia pathwaysSCAF8
Orthology - Evolution
OrthoDB22828
GeneTree (enSembl)ENSG00000213079
Phylogenetic Trees/Animal Genes : TreeFamSCAF8
HOVERGENQ9UPN6
HOGENOMQ9UPN6
Homologs : HomoloGeneSCAF8
Homology/Alignments : Family Browser (UCSC)SCAF8
Gene fusions - Rearrangements
Fusion PortalSCAF8 SAMD5
Fusion PortalSCAF8 KIAA0564
Fusion : QuiverSCAF8
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSCAF8 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SCAF8
dbVarSCAF8
ClinVarSCAF8
1000_GenomesSCAF8 
Exome Variant ServerSCAF8
ExAC (Exome Aggregation Consortium)ENSG00000213079
GNOMAD BrowserENSG00000213079
Varsome BrowserSCAF8
Genetic variants : HAPMAP22828
Genomic Variants (DGV)SCAF8 [DGVbeta]
DECIPHERSCAF8 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSCAF8 
Mutations
ICGC Data PortalSCAF8 
TCGA Data PortalSCAF8 
Broad Tumor PortalSCAF8
OASIS PortalSCAF8 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSCAF8  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSCAF8
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 SCAF8
DgiDB (Drug Gene Interaction Database)SCAF8
DoCM (Curated mutations)SCAF8 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SCAF8 (select a term)
intoGenSCAF8
Cancer3DSCAF8(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM616024   
Orphanet
DisGeNETSCAF8
MedgenSCAF8
Genetic Testing Registry SCAF8
NextProtQ9UPN6 [Medical]
TSGene22828
GENETestsSCAF8
Target ValidationSCAF8
Huge Navigator SCAF8 [HugePedia]
snp3D : Map Gene to Disease22828
BioCentury BCIQSCAF8
ClinGenSCAF8
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD22828
Chemical/Pharm GKB GenePA128394587
Clinical trialSCAF8
Miscellaneous
canSAR (ICR)SCAF8 (select the gene name)
Probes
Litterature
PubMed19 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSCAF8
EVEXSCAF8
GoPubMedSCAF8
iHOPSCAF8
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 : Mon Jul 30 14:28:07 CEST 2018

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