Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

SAFB2 (scaffold attachment factor B2)

Identity

Alias_symbol (synonym)KIAA0138
Other alias-
HGNC (Hugo) SAFB2
LocusID (NCBI) 9667
Atlas_Id 46306
Location 19p13.3  [Link to chromosome band 19p13]
Location_base_pair Starts at 5586999 and ends at 5622927 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
SAFB2 (19p13.3) / DDX17 (22q13.1)SAFB2 (19p13.3) / KHSRP (19p13.3)SAFB2 (19p13.3) / LONP1 (19p13.3)
SAFB2 (19p13.3) / SAFB2 (19p13.3)cytochrome_b () / SAFB2 (19p13.3)SAFB2 19p13.3 / KHSRP 19p13.3
SAFB2 19p13.3 / LONP1 19p13.3

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

 


External links

Nomenclature
HGNC (Hugo)SAFB2   21605
Cards
Entrez_Gene (NCBI)SAFB2  9667  scaffold attachment factor B2
Aliases
GeneCards (Weizmann)SAFB2
Ensembl hg19 (Hinxton)ENSG00000130254 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000130254 [Gene_View]  chr19:5586999-5622927 [Contig_View]  SAFB2 [Vega]
ICGC DataPortalENSG00000130254
TCGA cBioPortalSAFB2
AceView (NCBI)SAFB2
Genatlas (Paris)SAFB2
WikiGenes9667
SOURCE (Princeton)SAFB2
Genetics Home Reference (NIH)SAFB2
Genomic and cartography
GoldenPath hg38 (UCSC)SAFB2  -     chr19:5586999-5622927 -  19p13.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SAFB2  -     19p13.3   [Description]    (hg19-Feb_2009)
EnsemblSAFB2 - 19p13.3 [CytoView hg19]  SAFB2 - 19p13.3 [CytoView hg38]
Mapping of homologs : NCBISAFB2 [Mapview hg19]  SAFB2 [Mapview hg38]
OMIM608066   
Gene and transcription
Genbank (Entrez)AK123246 AK296552 AK300501 AW136754 BC001216
RefSeq transcript (Entrez)NM_014649
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SAFB2
Cluster EST : UnigeneHs.655392 [ NCBI ]
CGAP (NCI)Hs.655392
Alternative Splicing GalleryENSG00000130254
Gene ExpressionSAFB2 [ NCBI-GEO ]   SAFB2 [ EBI - ARRAY_EXPRESS ]   SAFB2 [ SEEK ]   SAFB2 [ MEM ]
Gene Expression Viewer (FireBrowse)SAFB2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9667
GTEX Portal (Tissue expression)SAFB2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ14151   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ14151  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ14151
Splice isoforms : SwissVarQ14151
PhosPhoSitePlusQ14151
Domaine pattern : Prosite (Expaxy)RRM (PS50102)    SAP (PS50800)   
Domains : Interpro (EBI)Nucleotide-bd_a/b_plait    RRM_dom    SAP_dom   
Domain families : Pfam (Sanger)RRM_1 (PF00076)    SAP (PF02037)   
Domain families : Pfam (NCBI)pfam00076    pfam02037   
Domain families : Smart (EMBL)RRM (SM00360)  SAP (SM00513)  
Conserved Domain (NCBI)SAFB2
DMDM Disease mutations9667
Blocks (Seattle)SAFB2
SuperfamilyQ14151
Human Protein AtlasENSG00000130254
Peptide AtlasQ14151
HPRD06424
IPIIPI00005648   IPI00872777   IPI00910872   IPI01015604   IPI00942551   IPI01014784   
Protein Interaction databases
DIP (DOE-UCLA)Q14151
IntAct (EBI)Q14151
FunCoupENSG00000130254
BioGRIDSAFB2
STRING (EMBL)SAFB2
ZODIACSAFB2
Ontologies - Pathways
QuickGOQ14151
Ontology : AmiGOdouble-stranded DNA binding  RNA binding  protein binding  nucleus  nucleoplasm  cytoplasm  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  nuclear body  identical protein binding  intracellular membrane-bounded organelle  sequence-specific DNA binding  regulation of mRNA processing  Sertoli cell differentiation  regulation of androgen receptor signaling pathway  extracellular exosome  
Ontology : EGO-EBIdouble-stranded DNA binding  RNA binding  protein binding  nucleus  nucleoplasm  cytoplasm  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  nuclear body  identical protein binding  intracellular membrane-bounded organelle  sequence-specific DNA binding  regulation of mRNA processing  Sertoli cell differentiation  regulation of androgen receptor signaling pathway  extracellular exosome  
NDEx NetworkSAFB2
Atlas of Cancer Signalling NetworkSAFB2
Wikipedia pathwaysSAFB2
Orthology - Evolution
OrthoDB9667
GeneTree (enSembl)ENSG00000130254
Phylogenetic Trees/Animal Genes : TreeFamSAFB2
HOVERGENQ14151
HOGENOMQ14151
Homologs : HomoloGeneSAFB2
Homology/Alignments : Family Browser (UCSC)SAFB2
Gene fusions - Rearrangements
Fusion : MitelmanSAFB2/KHSRP [19p13.3/19p13.3]  
Fusion : MitelmanSAFB2/LONP1 [19p13.3/19p13.3]  [t(19;19)(p13;p13)]  
Fusion: TCGASAFB2 19p13.3 KHSRP 19p13.3 PRAD
Fusion: TCGASAFB2 19p13.3 LONP1 19p13.3 LUAD
Fusion Cancer (Beijing)cytochrome_b [SAFB2]  -  19p13.3 [FUSC000433]
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSAFB2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SAFB2
dbVarSAFB2
ClinVarSAFB2
1000_GenomesSAFB2 
Exome Variant ServerSAFB2
ExAC (Exome Aggregation Consortium)SAFB2 (select the gene name)
Genetic variants : HAPMAP9667
Genomic Variants (DGV)SAFB2 [DGVbeta]
DECIPHERSAFB2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSAFB2 
Mutations
ICGC Data PortalSAFB2 
TCGA Data PortalSAFB2 
Broad Tumor PortalSAFB2
OASIS PortalSAFB2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSAFB2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSAFB2
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 SAFB2
DgiDB (Drug Gene Interaction Database)SAFB2
DoCM (Curated mutations)SAFB2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SAFB2 (select a term)
intoGenSAFB2
Cancer3DSAFB2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608066   
Orphanet
MedgenSAFB2
Genetic Testing Registry SAFB2
NextProtQ14151 [Medical]
TSGene9667
GENETestsSAFB2
Target ValidationSAFB2
Huge Navigator SAFB2 [HugePedia]
snp3D : Map Gene to Disease9667
BioCentury BCIQSAFB2
ClinGenSAFB2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9667
Chemical/Pharm GKB GenePA134987683
Clinical trialSAFB2
Miscellaneous
canSAR (ICR)SAFB2 (select the gene name)
Probes
Litterature
PubMed34 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSAFB2
EVEXSAFB2
GoPubMedSAFB2
iHOPSAFB2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 25 19:29:52 CEST 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.