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SCAF11 (SR-related CTD associated factor 11)

Identity

Alias_namesSFRS2IP
SRSF2IP
splicing factor, arginine/serine-rich 2, interacting protein
serine/arginine-rich splicing factor 2, interacting protein
Alias_symbol (synonym)SIP1
SRRP129
CASP11
Other alias
HGNC (Hugo) SCAF11
LocusID (NCBI) 9169
Atlas_Id 54601
Location 12q12  [Link to chromosome band 12q12]
Location_base_pair Starts at 45919131 and ends at 45990618 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ARID2 (12q12) / SCAF11 (12q12)RPAP3 (12q13.11) / SCAF11 (12q12)SCAF11 (12q12) / ADCY8 (8q24.22)
SCAF11 (12q12) / CTNNB1 (3p22.1)SCAF11 (12q12) / MALAT1 (11q13.1)SCAF11 (12q12) / RNF145 (5q33.3)
SCAF11 (12q12) / TFPI (2q32.1)SCAF11 (12q12) / ZMIZ1 (10q22.3)ARID2 12q12 / SCAF11 12q12
SCAF11 12q12 / ADCY8 8q24.22

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) [ 2 ]
  Lung: Translocations in Adenocarcinoma
Lung: Translocations in Small Cell Carcinoma


External links

Nomenclature
HGNC (Hugo)SCAF11   10784
Cards
Entrez_Gene (NCBI)SCAF11  9169  SR-related CTD associated factor 11
AliasesCASP11; SFRS2IP; SIP1; SRRP129; 
SRSF2IP
GeneCards (Weizmann)SCAF11
Ensembl hg19 (Hinxton)ENSG00000139218 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000139218 [Gene_View]  chr12:45919131-45990618 [Contig_View]  SCAF11 [Vega]
ICGC DataPortalENSG00000139218
TCGA cBioPortalSCAF11
AceView (NCBI)SCAF11
Genatlas (Paris)SCAF11
WikiGenes9169
SOURCE (Princeton)SCAF11
Genetics Home Reference (NIH)SCAF11
Genomic and cartography
GoldenPath hg38 (UCSC)SCAF11  -     chr12:45919131-45990618 -  12q12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SCAF11  -     12q12   [Description]    (hg19-Feb_2009)
EnsemblSCAF11 - 12q12 [CytoView hg19]  SCAF11 - 12q12 [CytoView hg38]
Mapping of homologs : NCBISCAF11 [Mapview hg19]  SCAF11 [Mapview hg38]
OMIM603668   
Gene and transcription
Genbank (Entrez)AF030234 AF147405 AK025132 AK026473 AK096682
RefSeq transcript (Entrez)NM_004719
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SCAF11
Cluster EST : UnigeneHs.210367 [ NCBI ]
CGAP (NCI)Hs.210367
Alternative Splicing GalleryENSG00000139218
Gene ExpressionSCAF11 [ NCBI-GEO ]   SCAF11 [ EBI - ARRAY_EXPRESS ]   SCAF11 [ SEEK ]   SCAF11 [ MEM ]
Gene Expression Viewer (FireBrowse)SCAF11 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9169
GTEX Portal (Tissue expression)SCAF11
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ99590   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ99590  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ99590
Splice isoforms : SwissVarQ99590
PhosPhoSitePlusQ99590
Domaine pattern : Prosite (Expaxy)ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS   
Domain families : Pfam (Sanger)zf-RING_2 (PF13639)   
Domain families : Pfam (NCBI)pfam13639   
Domain families : Smart (EMBL)RING (SM00184)  
Conserved Domain (NCBI)SCAF11
DMDM Disease mutations9169
Blocks (Seattle)SCAF11
SuperfamilyQ99590
Human Protein AtlasENSG00000139218
Peptide AtlasQ99590
HPRD04720
IPIIPI00746412   IPI00181359   IPI01020692   IPI01022765   IPI00852713   IPI00794542   IPI00853340   
Protein Interaction databases
DIP (DOE-UCLA)Q99590
IntAct (EBI)Q99590
FunCoupENSG00000139218
BioGRIDSCAF11
STRING (EMBL)SCAF11
ZODIACSCAF11
Ontologies - Pathways
QuickGOQ99590
Ontology : AmiGOspliceosomal complex assembly  RNA splicing, via transesterification reactions  RNA binding  protein binding  nucleus  nucleoplasm  nucleolus  mRNA processing  zinc ion binding  RNA splicing  nuclear body  
Ontology : EGO-EBIspliceosomal complex assembly  RNA splicing, via transesterification reactions  RNA binding  protein binding  nucleus  nucleoplasm  nucleolus  mRNA processing  zinc ion binding  RNA splicing  nuclear body  
NDEx NetworkSCAF11
Atlas of Cancer Signalling NetworkSCAF11
Wikipedia pathwaysSCAF11
Orthology - Evolution
OrthoDB9169
GeneTree (enSembl)ENSG00000139218
Phylogenetic Trees/Animal Genes : TreeFamSCAF11
HOVERGENQ99590
HOGENOMQ99590
Homologs : HomoloGeneSCAF11
Homology/Alignments : Family Browser (UCSC)SCAF11
Gene fusions - Rearrangements
Fusion : MitelmanRPAP3/SCAF11 [12q13.11/12q12]  [del(12)(q12q13)]  
Fusion : MitelmanSCAF11/ADCY8 [12q12/8q24.22]  [t(8;12)(q24;q12)]  
Fusion: TCGAARID2 12q12 SCAF11 12q12 SKCM
Fusion: TCGASCAF11 12q12 ADCY8 8q24.22 LUSC
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSCAF11 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SCAF11
dbVarSCAF11
ClinVarSCAF11
1000_GenomesSCAF11 
Exome Variant ServerSCAF11
ExAC (Exome Aggregation Consortium)SCAF11 (select the gene name)
Genetic variants : HAPMAP9169
Genomic Variants (DGV)SCAF11 [DGVbeta]
DECIPHERSCAF11 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSCAF11 
Mutations
ICGC Data PortalSCAF11 
TCGA Data PortalSCAF11 
Broad Tumor PortalSCAF11
OASIS PortalSCAF11 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSCAF11  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSCAF11
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 SCAF11
DgiDB (Drug Gene Interaction Database)SCAF11
DoCM (Curated mutations)SCAF11 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SCAF11 (select a term)
intoGenSCAF11
Cancer3DSCAF11(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603668   
Orphanet
MedgenSCAF11
Genetic Testing Registry SCAF11
NextProtQ99590 [Medical]
TSGene9169
GENETestsSCAF11
Huge Navigator SCAF11 [HugePedia]
snp3D : Map Gene to Disease9169
BioCentury BCIQSCAF11
ClinGenSCAF11
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9169
Chemical/Pharm GKB GenePA35700
Clinical trialSCAF11
Miscellaneous
canSAR (ICR)SCAF11 (select the gene name)
Probes
Litterature
PubMed27 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSCAF11
EVEXSCAF11
GoPubMedSCAF11
iHOPSCAF11
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri May 19 12:36:10 CEST 2017

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