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PHF20 (PHD finger protein 20)

Identity

Alias_namesC20orf104
chromosome 20 open reading frame 104
Alias_symbol (synonym)dJ1121G12.1
TDRD20A
Other aliasGLEA2
HCA58
NZF
TZP
HGNC (Hugo) PHF20
LocusID (NCBI) 51230
Atlas_Id 51408
Location 20q11.22  [Link to chromosome band 20q11]
Location_base_pair Starts at 35772001 and ends at 35950366 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
C3orf70 (3q27.2) / PHF20 (20q11.22)CDK16 (Xp11.23) / PHF20 (20q11.22)EPB41L1 (20q11.23) / PHF20 (20q11.22)
GRIA3 (Xq25) / PHF20 (20q11.22)PHF20 (20q11.22) / ADNP (20q13.13)PHF20 (20q11.22) / DYNLRB1 (20q11.22)
PHF20 (20q11.22) / RBM39 (20q11.22)PHF20 (20q11.22) / RPN2 (20q11.23)PHF20 (20q11.22) / TP73-AS1 (1p36.32)
RPL38 (17q25.1) / PHF20 (20q11.22)UQCC1 (20q11.22) / PHF20 (20q11.22)EPB41L1 20q11.23 / PHF20 20q11.22
PHF20 20q11.22 / ADNP 20q13.13PHF20 20q11.22 / DYNLRB1 20q11.22PHF20 20q11.22 / RPN2 20q11.23

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)PHF20   16098
Cards
Entrez_Gene (NCBI)PHF20  51230  PHD finger protein 20
AliasesC20orf104; GLEA2; HCA58; NZF; 
TDRD20A; TZP
GeneCards (Weizmann)PHF20
Ensembl hg19 (Hinxton)ENSG00000025293 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000025293 [Gene_View]  chr20:35772001-35950366 [Contig_View]  PHF20 [Vega]
ICGC DataPortalENSG00000025293
TCGA cBioPortalPHF20
AceView (NCBI)PHF20
Genatlas (Paris)PHF20
WikiGenes51230
SOURCE (Princeton)PHF20
Genetics Home Reference (NIH)PHF20
Genomic and cartography
GoldenPath hg38 (UCSC)PHF20  -     chr20:35772001-35950366 +  20q11.22   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PHF20  -     20q11.22   [Description]    (hg19-Feb_2009)
EnsemblPHF20 - 20q11.22 [CytoView hg19]  PHF20 - 20q11.22 [CytoView hg38]
Mapping of homologs : NCBIPHF20 [Mapview hg19]  PHF20 [Mapview hg38]
OMIM610335   
Gene and transcription
Genbank (Entrez)AF220416 AF258787 AF348207 AK054597 AK090798
RefSeq transcript (Entrez)NM_016436
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PHF20
Cluster EST : UnigeneHs.517044 [ NCBI ]
CGAP (NCI)Hs.517044
Alternative Splicing GalleryENSG00000025293
Gene ExpressionPHF20 [ NCBI-GEO ]   PHF20 [ EBI - ARRAY_EXPRESS ]   PHF20 [ SEEK ]   PHF20 [ MEM ]
Gene Expression Viewer (FireBrowse)PHF20 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51230
GTEX Portal (Tissue expression)PHF20
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BVI0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BVI0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BVI0
Splice isoforms : SwissVarQ9BVI0
PhosPhoSitePlusQ9BVI0
Domaine pattern : Prosite (Expaxy)ZF_PHD_1 (PS01359)    ZINC_FINGER_C2H2_1 (PS00028)    ZINC_FINGER_C2H2_2 (PS50157)   
Domains : Interpro (EBI)DUF3776    Tudor    Zinc_finger_PHD-type_CS    Znf_C2H2    Znf_FYVE_PHD    Znf_PHD    Znf_RING/FYVE/PHD   
Domain families : Pfam (Sanger)DUF3776 (PF12618)   
Domain families : Pfam (NCBI)pfam12618   
Domain families : Smart (EMBL)PHD (SM00249)  TUDOR (SM00333)  
Conserved Domain (NCBI)PHF20
DMDM Disease mutations51230
Blocks (Seattle)PHF20
PDB (SRS)2LDM    3P8D    3Q1J    3QII    3SD4    5TAB    5TBN   
PDB (PDBSum)2LDM    3P8D    3Q1J    3QII    3SD4    5TAB    5TBN   
PDB (IMB)2LDM    3P8D    3Q1J    3QII    3SD4    5TAB    5TBN   
PDB (RSDB)2LDM    3P8D    3Q1J    3QII    3SD4    5TAB    5TBN   
Structural Biology KnowledgeBase2LDM    3P8D    3Q1J    3QII    3SD4    5TAB    5TBN   
SCOP (Structural Classification of Proteins)2LDM    3P8D    3Q1J    3QII    3SD4    5TAB    5TBN   
CATH (Classification of proteins structures)2LDM    3P8D    3Q1J    3QII    3SD4    5TAB    5TBN   
SuperfamilyQ9BVI0
Human Protein AtlasENSG00000025293
Peptide AtlasQ9BVI0
HPRD08514
IPIIPI00074876   IPI00827582   IPI00644602   IPI00645353   IPI00879589   IPI00880114   IPI00879973   
Protein Interaction databases
DIP (DOE-UCLA)Q9BVI0
IntAct (EBI)Q9BVI0
FunCoupENSG00000025293
BioGRIDPHF20
STRING (EMBL)PHF20
ZODIACPHF20
Ontologies - Pathways
QuickGOQ9BVI0
Ontology : AmiGOhistone acetyltransferase complex  RNA polymerase II regulatory region sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding  protein binding  nucleoplasm  nucleoplasm  cytosol  cytosol  transcription from RNA polymerase II promoter  zinc ion binding  nuclear membrane  histone H4-K5 acetylation  histone H4-K8 acetylation  histone H4-K16 acetylation  histone acetyltransferase activity (H4-K5 specific)  histone acetyltransferase activity (H4-K8 specific)  positive regulation of transcription from RNA polymerase II promoter  histone acetyltransferase activity (H4-K16 specific)  MLL1 complex  regulation of signal transduction by p53 class mediator  
Ontology : EGO-EBIhistone acetyltransferase complex  RNA polymerase II regulatory region sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding  protein binding  nucleoplasm  nucleoplasm  cytosol  cytosol  transcription from RNA polymerase II promoter  zinc ion binding  nuclear membrane  histone H4-K5 acetylation  histone H4-K8 acetylation  histone H4-K16 acetylation  histone acetyltransferase activity (H4-K5 specific)  histone acetyltransferase activity (H4-K8 specific)  positive regulation of transcription from RNA polymerase II promoter  histone acetyltransferase activity (H4-K16 specific)  MLL1 complex  regulation of signal transduction by p53 class mediator  
NDEx NetworkPHF20
Atlas of Cancer Signalling NetworkPHF20
Wikipedia pathwaysPHF20
Orthology - Evolution
OrthoDB51230
GeneTree (enSembl)ENSG00000025293
Phylogenetic Trees/Animal Genes : TreeFamPHF20
HOVERGENQ9BVI0
HOGENOMQ9BVI0
Homologs : HomoloGenePHF20
Homology/Alignments : Family Browser (UCSC)PHF20
Gene fusions - Rearrangements
Fusion : MitelmanEPB41L1/PHF20 [20q11.23/20q11.22]  [t(20;20)(q11;q11)]  
Fusion : MitelmanPHF20/ADNP [20q11.22/20q13.13]  [t(20;20)(q11;q13)]  
Fusion : MitelmanPHF20/DYNLRB1 [20q11.22/20q11.22]  [t(20;20)(q11;q11)]  
Fusion : MitelmanPHF20/RPN2 [20q11.22/20q11.23]  [t(20;20)(q11;q11)]  
Fusion: TCGAEPB41L1 20q11.23 PHF20 20q11.22 KIRC
Fusion: TCGAPHF20 20q11.22 ADNP 20q13.13 LUAD
Fusion: TCGAPHF20 20q11.22 DYNLRB1 20q11.22 BRCA
Fusion: TCGAPHF20 20q11.22 RPN2 20q11.23 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPHF20 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PHF20
dbVarPHF20
ClinVarPHF20
1000_GenomesPHF20 
Exome Variant ServerPHF20
ExAC (Exome Aggregation Consortium)PHF20 (select the gene name)
Genetic variants : HAPMAP51230
Genomic Variants (DGV)PHF20 [DGVbeta]
DECIPHERPHF20 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPHF20 
Mutations
ICGC Data PortalPHF20 
TCGA Data PortalPHF20 
Broad Tumor PortalPHF20
OASIS PortalPHF20 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPHF20  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPHF20
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 PHF20
DgiDB (Drug Gene Interaction Database)PHF20
DoCM (Curated mutations)PHF20 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PHF20 (select a term)
intoGenPHF20
Cancer3DPHF20(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610335   
Orphanet
MedgenPHF20
Genetic Testing Registry PHF20
NextProtQ9BVI0 [Medical]
TSGene51230
GENETestsPHF20
Target ValidationPHF20
Huge Navigator PHF20 [HugePedia]
snp3D : Map Gene to Disease51230
BioCentury BCIQPHF20
ClinGenPHF20
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51230
Chemical/Pharm GKB GenePA25644
Clinical trialPHF20
Miscellaneous
canSAR (ICR)PHF20 (select the gene name)
Probes
Litterature
PubMed31 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePHF20
EVEXPHF20
GoPubMedPHF20
iHOPPHF20
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 : Wed Jun 7 12:49:18 CEST 2017

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