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SCAF8 (SR-related CTD associated factor 8)

Identity

Alias (NCBI)RBM16
HGNC (Hugo) SCAF8
HGNC Alias symbKIAA1116
HGNC Previous nameRBM16
HGNC Previous nameRNA binding motif protein 16
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

 



External links

Nomenclature
HGNC (Hugo)SCAF8   20959
Cards
Entrez_Gene (NCBI)SCAF8    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
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)
GoldenPathSCAF8 - 6q25.2 [CytoView hg19]  SCAF8 - 6q25.2 [CytoView hg38]
ImmunoBaseENSG00000213079
genome Data Viewer NCBISCAF8 [Mapview hg19]  
OMIM616024   
Gene and transcription
Genbank (Entrez)AB029039 AK001530 AK023859 AK295651 AK302969
RefSeq transcript (Entrez)NM_001286188 NM_001286189 NM_001286194 NM_001286199 NM_014892
Consensus coding sequences : CCDS (NCBI)SCAF8
Alternative Splicing GalleryENSG00000213079
Gene ExpressionSCAF8 [ NCBI-GEO ]   SCAF8 [ EBI - ARRAY_EXPRESS ]   SCAF8 [ SEEK ]   SCAF8 [ MEM ]
Gene Expression Viewer (FireBrowse)SCAF8 [ Firebrowse - Broad ]
GenevisibleExpression of SCAF8 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
PhosPhoSitePlusQ9UPN6
Domaine pattern : Prosite (Expaxy)CID (PS51391)    RRM (PS50102)   
Domains : Interpro (EBI)CID_dom    ENTH_VHS    Nucleotide-bd_a/b_plait_sf    RBD_domain_sf    RRM_dom    SCAF8_RRM   
Domain families : Pfam (Sanger)CID (PF04818)    RRM_1 (PF00076)   
Domain families : Pfam (NCBI)pfam04818    pfam00076   
Domain families : Smart (EMBL)RPR (SM00582)  RRM (SM00360)  
Conserved Domain (NCBI)SCAF8
PDB (RSDB)2DIW    3D9I    3D9J    3D9K    3D9L    3D9M    3D9N    3D9O    3D9P   
PDB Europe2DIW    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   
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
AlphaFold pdb e-kbQ9UPN6   
Human Protein Atlas [tissue]ENSG00000213079-SCAF8 [tissue]
HPRD11487
Protein Interaction databases
DIP (DOE-UCLA)Q9UPN6
IntAct (EBI)Q9UPN6
BioGRIDSCAF8
STRING (EMBL)SCAF8
ZODIACSCAF8
Ontologies - Pathways
QuickGOQ9UPN6
Ontology : AmiGORNA polymerase II complex binding  RNA binding  mRNA binding  protein binding  nucleus  nucleoplasm  cytoplasm  mRNA cleavage factor complex  termination of RNA polymerase II transcription  mRNA polyadenylation  nuclear matrix  positive regulation of DNA-templated transcription, elongation  RNA polymerase core enzyme binding  RNA polymerase II C-terminal domain phosphoserine binding  negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled  
Ontology : EGO-EBIRNA polymerase II complex binding  RNA binding  mRNA binding  protein binding  nucleus  nucleoplasm  cytoplasm  mRNA cleavage factor complex  termination of RNA polymerase II transcription  mRNA polyadenylation  nuclear matrix  positive regulation of DNA-templated transcription, elongation  RNA polymerase core enzyme binding  RNA polymerase II C-terminal domain phosphoserine binding  negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled  
NDEx NetworkSCAF8
Atlas of Cancer Signalling NetworkSCAF8
Wikipedia pathwaysSCAF8
Orthology - Evolution
OrthoDB22828
GeneTree (enSembl)ENSG00000213079
Phylogenetic Trees/Animal Genes : TreeFamSCAF8
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
MonarchSCAF8
1000_GenomesSCAF8 
Exome Variant ServerSCAF8
GNOMAD BrowserENSG00000213079
Varsome BrowserSCAF8
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]  
Somatic Mutations in Cancer : COSMIC3DSCAF8
Mutations and Diseases : HGMDSCAF8
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
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)
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]
GENETestsSCAF8
Target ValidationSCAF8
Huge Navigator SCAF8 [HugePedia]
ClinGenSCAF8
Clinical trials, drugs, therapy
MyCancerGenomeSCAF8
Protein Interactions : CTDSCAF8
Pharm GKB GenePA128394587
PharosQ9UPN6
Clinical trialSCAF8
Miscellaneous
canSAR (ICR)SCAF8
HarmonizomeSCAF8
DataMed IndexSCAF8
Probes
Litterature
PubMed34 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXSCAF8
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Sep 15 23:27:49 CEST 2021

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