Atlas of Genetics and Cytogenetics in Oncology and Haematology

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ZNF540 (zinc finger protein 540)

Identity

Alias_symbol (synonym)DKFZp547B0714
Other aliasNbla10512
HGNC (Hugo) ZNF540
LocusID (NCBI) 163255
Atlas_Id 76219
Location 19q13.12  [Link to chromosome band 19q13]
Location_base_pair Starts at 37594830 and ends at 37614178 bp from pter ( according to hg38-Dec_2013)

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)ZNF540   25331
Cards
Entrez_Gene (NCBI)ZNF540  163255  zinc finger protein 540
AliasesNbla10512
GeneCards (Weizmann)ZNF540
Ensembl hg19 (Hinxton)ENSG00000171817 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000171817 [Gene_View]  chr19:37594830-37614178 [Contig_View]  ZNF540 [Vega]
ICGC DataPortalENSG00000171817
TCGA cBioPortalZNF540
AceView (NCBI)ZNF540
Genatlas (Paris)ZNF540
WikiGenes163255
SOURCE (Princeton)ZNF540
Genetics Home Reference (NIH)ZNF540
Genomic and cartography
GoldenPath hg38 (UCSC)ZNF540  -     chr19:37594830-37614178 +  19q13.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)ZNF540  -     19q13.12   [Description]    (hg19-Feb_2009)
EnsemblZNF540 - 19q13.12 [CytoView hg19]  ZNF540 - 19q13.12 [CytoView hg38]
Mapping of homologs : NCBIZNF540 [Mapview hg19]  ZNF540 [Mapview hg38]
OMIM613903   
Gene and transcription
Genbank (Entrez)AB074186 AK122597 AK131388 AK290486 AL832100
RefSeq transcript (Entrez)NM_001172225 NM_001172226 NM_152606
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)ZNF540
Cluster EST : UnigeneHs.728927 [ NCBI ]
CGAP (NCI)Hs.728927
Alternative Splicing GalleryENSG00000171817
Gene ExpressionZNF540 [ NCBI-GEO ]   ZNF540 [ EBI - ARRAY_EXPRESS ]   ZNF540 [ SEEK ]   ZNF540 [ MEM ]
Gene Expression Viewer (FireBrowse)ZNF540 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)163255
GTEX Portal (Tissue expression)ZNF540
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8NDQ6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8NDQ6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8NDQ6
Splice isoforms : SwissVarQ8NDQ6
PhosPhoSitePlusQ8NDQ6
Domaine pattern : Prosite (Expaxy)KRAB (PS50805)    ZINC_FINGER_C2H2_1 (PS00028)    ZINC_FINGER_C2H2_2 (PS50157)   
Domains : Interpro (EBI)KRAB    Znf_C2H2    Znf_C2H2-like    Znf_C2H2/integrase_DNA-bd   
Domain families : Pfam (Sanger)KRAB (PF01352)    zf-C2H2 (PF00096)    zf-C2H2_6 (PF13912)   
Domain families : Pfam (NCBI)pfam01352    pfam00096    pfam13912   
Domain families : Smart (EMBL)KRAB (SM00349)  ZnF_C2H2 (SM00355)  
Conserved Domain (NCBI)ZNF540
DMDM Disease mutations163255
Blocks (Seattle)ZNF540
SuperfamilyQ8NDQ6
Human Protein AtlasENSG00000171817
Peptide AtlasQ8NDQ6
HPRD15827
IPIIPI00168568   IPI00383994   IPI00442104   IPI00847356   
Protein Interaction databases
DIP (DOE-UCLA)Q8NDQ6
IntAct (EBI)Q8NDQ6
FunCoupENSG00000171817
BioGRIDZNF540
STRING (EMBL)ZNF540
ZODIACZNF540
Ontologies - Pathways
QuickGOQ8NDQ6
Ontology : AmiGOtranslation repressor activity, nucleic acid binding  DNA binding  transcription factor activity, sequence-specific DNA binding  protein binding  nucleus  nucleoplasm  cytoplasm  cytosol  transcription, DNA-templated  negative regulation of translation  intracellular membrane-bounded organelle  negative regulation of transcription, DNA-templated  metal ion binding  
Ontology : EGO-EBItranslation repressor activity, nucleic acid binding  DNA binding  transcription factor activity, sequence-specific DNA binding  protein binding  nucleus  nucleoplasm  cytoplasm  cytosol  transcription, DNA-templated  negative regulation of translation  intracellular membrane-bounded organelle  negative regulation of transcription, DNA-templated  metal ion binding  
NDEx NetworkZNF540
Atlas of Cancer Signalling NetworkZNF540
Wikipedia pathwaysZNF540
Orthology - Evolution
OrthoDB163255
GeneTree (enSembl)ENSG00000171817
Phylogenetic Trees/Animal Genes : TreeFamZNF540
HOVERGENQ8NDQ6
HOGENOMQ8NDQ6
Homologs : HomoloGeneZNF540
Homology/Alignments : Family Browser (UCSC)ZNF540
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerZNF540 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ZNF540
dbVarZNF540
ClinVarZNF540
1000_GenomesZNF540 
Exome Variant ServerZNF540
ExAC (Exome Aggregation Consortium)ZNF540 (select the gene name)
Genetic variants : HAPMAP163255
Genomic Variants (DGV)ZNF540 [DGVbeta]
DECIPHERZNF540 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisZNF540 
Mutations
ICGC Data PortalZNF540 
TCGA Data PortalZNF540 
Broad Tumor PortalZNF540
OASIS PortalZNF540 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICZNF540  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDZNF540
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 ZNF540
DgiDB (Drug Gene Interaction Database)ZNF540
DoCM (Curated mutations)ZNF540 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ZNF540 (select a term)
intoGenZNF540
Cancer3DZNF540(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM613903   
Orphanet
MedgenZNF540
Genetic Testing Registry ZNF540
NextProtQ8NDQ6 [Medical]
TSGene163255
GENETestsZNF540
Target ValidationZNF540
Huge Navigator ZNF540 [HugePedia]
snp3D : Map Gene to Disease163255
BioCentury BCIQZNF540
ClinGenZNF540
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD163255
Chemical/Pharm GKB GenePA134980975
Clinical trialZNF540
Miscellaneous
canSAR (ICR)ZNF540 (select the gene name)
Probes
Litterature
PubMed5 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineZNF540
EVEXZNF540
GoPubMedZNF540
iHOPZNF540
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 18 13:44:54 CEST 2017
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