Atlas of Genetics and Cytogenetics in Oncology and Haematology


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ZKSCAN3 (zinc finger with KRAB and SCAN domains 3)

Identity

Other namesZF47
ZFP306
ZNF306
ZNF309
ZSCAN13
ZSCAN35
Zfp47
dJ874C20.1
dJ874C20.1.
zfp-47
HGNC (Hugo) ZKSCAN3
LocusID (NCBI) 80317
Atlas_Id 50355
Location 6p22.1
Location_base_pair Starts at 28317691 and ends at 28336954 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
C15orf40 (15q25.2) / ZKSCAN3 (6p22.1)

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)ZKSCAN3   13853
Cards
Entrez_Gene (NCBI)ZKSCAN3  80317  zinc finger with KRAB and SCAN domains 3
GeneCards (Weizmann)ZKSCAN3
Ensembl hg19 (Hinxton)ENSG00000189298 [Gene_View]  chr6:28317691-28336954 [Contig_View]  ZKSCAN3 [Vega]
Ensembl hg38 (Hinxton)ENSG00000189298 [Gene_View]  chr6:28317691-28336954 [Contig_View]  ZKSCAN3 [Vega]
ICGC DataPortalENSG00000189298
TCGA cBioPortalZKSCAN3
AceView (NCBI)ZKSCAN3
Genatlas (Paris)ZKSCAN3
WikiGenes80317
SOURCE (Princeton)ZKSCAN3
Genomic and cartography
GoldenPath hg19 (UCSC)ZKSCAN3  -     chr6:28317691-28336954 +  6p22.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)ZKSCAN3  -     6p22.1   [Description]    (hg38-Dec_2013)
EnsemblZKSCAN3 - 6p22.1 [CytoView hg19]  ZKSCAN3 - 6p22.1 [CytoView hg38]
Mapping of homologs : NCBIZKSCAN3 [Mapview hg19]  ZKSCAN3 [Mapview hg38]
OMIM612791   
Gene and transcription
Genbank (Entrez)AK091225 AK122790 AK313532 BC006118 BM762243
RefSeq transcript (Entrez)NM_001242894 NM_001242895 NM_024493
RefSeq genomic (Entrez)NC_000006 NC_018917 NT_007592 NW_004929326
Consensus coding sequences : CCDS (NCBI)ZKSCAN3
Cluster EST : UnigeneHs.485004 [ NCBI ]
CGAP (NCI)Hs.485004
Alternative Splicing : Fast-db (Paris)GSHG0025548
Alternative Splicing GalleryENSG00000189298
Gene ExpressionZKSCAN3 [ NCBI-GEO ]   ZKSCAN3 [ EBI - ARRAY_EXPRESS ]   ZKSCAN3 [ SEEK ]   ZKSCAN3 [ MEM ]
Gene Expression Viewer (FireBrowse)ZKSCAN3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)80317
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BRR0 (Uniprot)
NextProtQ9BRR0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BRR0
Splice isoforms : SwissVarQ9BRR0 (Swissvar)
PhosPhoSitePlusQ9BRR0
Domaine pattern : Prosite (Expaxy)SCAN_BOX (PS50804)    ZINC_FINGER_C2H2_1 (PS00028)    ZINC_FINGER_C2H2_2 (PS50157)   
Domains : Interpro (EBI)KRAB    Retrov_capsid_C    SCAN_dom    Znf_C2H2    Znf_C2H2-like    Znf_C2H2/integrase_DNA-bd   
Domain families : Pfam (Sanger)KRAB (PF01352)    SCAN (PF02023)    zf-C2H2 (PF00096)   
Domain families : Pfam (NCBI)pfam01352    pfam02023    pfam00096   
Domain families : Smart (EMBL)KRAB (SM00349)  SCAN (SM00431)  ZnF_C2H2 (SM00355)  
DMDM Disease mutations80317
Blocks (Seattle)ZKSCAN3
SuperfamilyQ9BRR0
Human Protein AtlasENSG00000189298
Peptide AtlasQ9BRR0
HPRD11705
IPIIPI00010069   IPI00903149   IPI00479796   
Protein Interaction databases
DIP (DOE-UCLA)Q9BRR0
IntAct (EBI)Q9BRR0
FunCoupENSG00000189298
BioGRIDZKSCAN3
STRING (EMBL)ZKSCAN3
ZODIACZKSCAN3
Ontologies - Pathways
QuickGOQ9BRR0
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  RNA polymerase II core promoter proximal region sequence-specific DNA binding  transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding  DNA binding  chromatin binding  transcription factor activity, sequence-specific DNA binding  protein binding  nucleus  cytoplasm  transcription, DNA-templated  autophagy  lysosome organization  negative regulation of autophagy  sequence-specific DNA binding  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  metal ion binding  negative regulation of cellular senescence  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  RNA polymerase II core promoter proximal region sequence-specific DNA binding  transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding  DNA binding  chromatin binding  transcription factor activity, sequence-specific DNA binding  protein binding  nucleus  cytoplasm  transcription, DNA-templated  autophagy  lysosome organization  negative regulation of autophagy  sequence-specific DNA binding  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  metal ion binding  negative regulation of cellular senescence  
NDEx Network
Atlas of Cancer Signalling NetworkZKSCAN3
Wikipedia pathwaysZKSCAN3
Orthology - Evolution
OrthoDB80317
GeneTree (enSembl)ENSG00000189298
Phylogenetic Trees/Animal Genes : TreeFamZKSCAN3
Homologs : HomoloGeneZKSCAN3
Homology/Alignments : Family Browser (UCSC)ZKSCAN3
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerZKSCAN3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ZKSCAN3
dbVarZKSCAN3
ClinVarZKSCAN3
1000_GenomesZKSCAN3 
Exome Variant ServerZKSCAN3
ExAC (Exome Aggregation Consortium)ZKSCAN3 (select the gene name)
SNP (GeneSNP Utah)ZKSCAN3
SNP : HGBaseZKSCAN3
Genetic variants : HAPMAPZKSCAN3
Genomic Variants (DGV)ZKSCAN3 [DGVbeta]
Mutations
ICGC Data PortalZKSCAN3 
TCGA Data PortalZKSCAN3 
Broad Tumor PortalZKSCAN3
OASIS PortalZKSCAN3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICZKSCAN3 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch ZKSCAN3
DgiDB (Drug Gene Interaction Database)ZKSCAN3
DoCM (Curated mutations)ZKSCAN3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ZKSCAN3 (select a term)
intoGenZKSCAN3
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)6:28317691-28336954
CONAN: Copy Number AnalysisZKSCAN3 
Mutations and Diseases : HGMDZKSCAN3
OMIM612791   
MedgenZKSCAN3
Genetic Testing Registry ZKSCAN3
NextProtQ9BRR0 [Medical]
TSGene80317
GENETestsZKSCAN3
Huge Navigator ZKSCAN3 [HugePedia]  ZKSCAN3 [HugeCancerGEM]
snp3D : Map Gene to Disease80317
BioCentury BCIQZKSCAN3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD80317
Chemical/Pharm GKB GenePA37821
Clinical trialZKSCAN3
Miscellaneous
canSAR (ICR)ZKSCAN3 (select the gene name)
Probes
Litterature
PubMed17 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineZKSCAN3
GoPubMedZKSCAN3
iHOPZKSCAN3
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 : Sat Apr 16 18:10:38 CEST 2016

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