Atlas of Genetics and Cytogenetics in Oncology and Haematology


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PHF2 (PHD finger protein 2)

Identity

Alias_symbol (synonym)KIAA0662
JHDM1E
CENP-35
Other aliasGRC5
KDM7C
HGNC (Hugo) PHF2
LocusID (NCBI) 5253
Atlas_Id 50847
Location 9q22.31  [Link to chromosome band 9q22]
Location_base_pair Starts at 93576627 and ends at 93679587 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
PHF2 (9q22.31) / BPTF (17q24.2)

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)PHF2   8920
Cards
Entrez_Gene (NCBI)PHF2  5253  PHD finger protein 2
AliasesCENP-35; GRC5; JHDM1E; KDM7C
GeneCards (Weizmann)PHF2
Ensembl hg19 (Hinxton)ENSG00000197724 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000197724 [Gene_View]  chr9:93576627-93679587 [Contig_View]  PHF2 [Vega]
ICGC DataPortalENSG00000197724
TCGA cBioPortalPHF2
AceView (NCBI)PHF2
Genatlas (Paris)PHF2
WikiGenes5253
SOURCE (Princeton)PHF2
Genetics Home Reference (NIH)PHF2
Genomic and cartography
GoldenPath hg38 (UCSC)PHF2  -     chr9:93576627-93679587 +  9q22.31   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PHF2  -     9q22.31   [Description]    (hg19-Feb_2009)
EnsemblPHF2 - 9q22.31 [CytoView hg19]  PHF2 - 9q22.31 [CytoView hg38]
Mapping of homologs : NCBIPHF2 [Mapview hg19]  PHF2 [Mapview hg38]
OMIM604351   
Gene and transcription
Genbank (Entrez)AB014562 AF043725 AK294861 AL834263 BC028051
RefSeq transcript (Entrez)NM_005392 NM_024517
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PHF2
Cluster EST : UnigeneHs.211441 [ NCBI ]
CGAP (NCI)Hs.211441
Alternative Splicing GalleryENSG00000197724
Gene ExpressionPHF2 [ NCBI-GEO ]   PHF2 [ EBI - ARRAY_EXPRESS ]   PHF2 [ SEEK ]   PHF2 [ MEM ]
Gene Expression Viewer (FireBrowse)PHF2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5253
GTEX Portal (Tissue expression)PHF2
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75151   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75151  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75151
Splice isoforms : SwissVarO75151
Catalytic activity : Enzyme1.14.11.- [ Enzyme-Expasy ]   1.14.11.-1.14.11.- [ IntEnz-EBI ]   1.14.11.- [ BRENDA ]   1.14.11.- [ KEGG ]   
PhosPhoSitePlusO75151
Domaine pattern : Prosite (Expaxy)JMJC (PS51184)    ZF_PHD_1 (PS01359)    ZF_PHD_2 (PS50016)   
Domains : Interpro (EBI)JmjC_dom    Zinc_finger_PHD-type_CS    Znf_FYVE_PHD    Znf_PHD    Znf_PHD-finger    Znf_RING/FYVE/PHD   
Domain families : Pfam (Sanger)JmjC (PF02373)    PHD (PF00628)   
Domain families : Pfam (NCBI)pfam02373    pfam00628   
Domain families : Smart (EMBL)JmjC (SM00558)  PHD (SM00249)  
Conserved Domain (NCBI)PHF2
DMDM Disease mutations5253
Blocks (Seattle)PHF2
PDB (SRS)3KQI    3PTR    3PU3    3PU8    3PUA    3PUS   
PDB (PDBSum)3KQI    3PTR    3PU3    3PU8    3PUA    3PUS   
PDB (IMB)3KQI    3PTR    3PU3    3PU8    3PUA    3PUS   
PDB (RSDB)3KQI    3PTR    3PU3    3PU8    3PUA    3PUS   
Structural Biology KnowledgeBase3KQI    3PTR    3PU3    3PU8    3PUA    3PUS   
SCOP (Structural Classification of Proteins)3KQI    3PTR    3PU3    3PU8    3PUA    3PUS   
CATH (Classification of proteins structures)3KQI    3PTR    3PU3    3PU8    3PUA    3PUS   
SuperfamilyO75151
Human Protein AtlasENSG00000197724
Peptide AtlasO75151
HPRD05071
IPIIPI00867617   IPI00440145   IPI00247096   
Protein Interaction databases
DIP (DOE-UCLA)O75151
IntAct (EBI)O75151
FunCoupENSG00000197724
BioGRIDPHF2
STRING (EMBL)PHF2
ZODIACPHF2
Ontologies - Pathways
QuickGOO75151
Ontology : AmiGOkinetochore  condensed chromosome kinetochore  liver development  transcription coactivator activity  iron ion binding  protein binding  nucleus  nucleoplasm  nucleolus  cytosol  transcription, DNA-templated  protein demethylation  zinc ion binding  histone demethylase activity  histone demethylase activity  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  methylated histone binding  dioxygenase activity  oxidation-reduction process  negative regulation of chromatin silencing at rDNA  
Ontology : EGO-EBIkinetochore  condensed chromosome kinetochore  liver development  transcription coactivator activity  iron ion binding  protein binding  nucleus  nucleoplasm  nucleolus  cytosol  transcription, DNA-templated  protein demethylation  zinc ion binding  histone demethylase activity  histone demethylase activity  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  methylated histone binding  dioxygenase activity  oxidation-reduction process  negative regulation of chromatin silencing at rDNA  
NDEx NetworkPHF2
Atlas of Cancer Signalling NetworkPHF2
Wikipedia pathwaysPHF2
Orthology - Evolution
OrthoDB5253
GeneTree (enSembl)ENSG00000197724
Phylogenetic Trees/Animal Genes : TreeFamPHF2
HOVERGENO75151
HOGENOMO75151
Homologs : HomoloGenePHF2
Homology/Alignments : Family Browser (UCSC)PHF2
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPHF2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PHF2
dbVarPHF2
ClinVarPHF2
1000_GenomesPHF2 
Exome Variant ServerPHF2
ExAC (Exome Aggregation Consortium)PHF2 (select the gene name)
Genetic variants : HAPMAP5253
Genomic Variants (DGV)PHF2 [DGVbeta]
DECIPHERPHF2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPHF2 
Mutations
ICGC Data PortalPHF2 
TCGA Data PortalPHF2 
Broad Tumor PortalPHF2
OASIS PortalPHF2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPHF2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPHF2
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 PHF2
DgiDB (Drug Gene Interaction Database)PHF2
DoCM (Curated mutations)PHF2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PHF2 (select a term)
intoGenPHF2
Cancer3DPHF2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604351   
Orphanet
MedgenPHF2
Genetic Testing Registry PHF2
NextProtO75151 [Medical]
TSGene5253
GENETestsPHF2
Target ValidationPHF2
Huge Navigator PHF2 [HugePedia]
snp3D : Map Gene to Disease5253
BioCentury BCIQPHF2
ClinGenPHF2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5253
Chemical/Pharm GKB GenePA33260
Clinical trialPHF2
Miscellaneous
canSAR (ICR)PHF2 (select the gene name)
Probes
Litterature
PubMed20 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePHF2
EVEXPHF2
GoPubMedPHF2
iHOPPHF2
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 12:49:17 CEST 2017

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