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

CHD3 (chromodomain helicase DNA binding protein 3)

Identity

Alias_symbol (synonym)Mi-2a
ZFH
Mi2-ALPHA
Other alias
HGNC (Hugo) CHD3
LocusID (NCBI) 1107
Atlas_Id 40071
Location 17p13.1  [Link to chromosome band 17p13]
Location_base_pair Starts at 7884805 and ends at 7912757 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
CHD3 (17p13.1) / CHD3 (17p13.1)CHD3 (17p13.1) / DNAH2 (17p13.1)CHD3 (17p13.1) / GDI1 (Xq28)
CHD3 (17p13.1) / NARS (18q21.31)CHD3 (17p13.1) / PHLPP2 (16q22.2)CHD3 (17p13.1) / PTPRF (1p34.2)
NUDT3 (6p21.31) / CHD3 (17p13.1)PPDPF (20q13.33) / CHD3 (17p13.1)SLC25A35 (17p13.1) / CHD3 (17p13.1)
TMEM108 (3q22.1) / CHD3 (17p13.1)

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)CHD3   1918
Cards
Entrez_Gene (NCBI)CHD3  1107  chromodomain helicase DNA binding protein 3
AliasesMi-2a; Mi2-ALPHA; ZFH
GeneCards (Weizmann)CHD3
Ensembl hg19 (Hinxton)ENSG00000170004 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000170004 [Gene_View]  chr17:7884805-7912757 [Contig_View]  CHD3 [Vega]
ICGC DataPortalENSG00000170004
TCGA cBioPortalCHD3
AceView (NCBI)CHD3
Genatlas (Paris)CHD3
WikiGenes1107
SOURCE (Princeton)CHD3
Genetics Home Reference (NIH)CHD3
Genomic and cartography
GoldenPath hg38 (UCSC)CHD3  -     chr17:7884805-7912757 +  17p13.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CHD3  -     17p13.1   [Description]    (hg19-Feb_2009)
EnsemblCHD3 - 17p13.1 [CytoView hg19]  CHD3 - 17p13.1 [CytoView hg38]
Mapping of homologs : NCBICHD3 [Mapview hg19]  CHD3 [Mapview hg38]
OMIM602120   
Gene and transcription
Genbank (Entrez)AF064844 AK096555 AK125928 AK296725 AK296937
RefSeq transcript (Entrez)NM_001005271 NM_001005273 NM_005852
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CHD3
Cluster EST : UnigeneHs.25601 [ NCBI ]
CGAP (NCI)Hs.25601
Alternative Splicing GalleryENSG00000170004
Gene ExpressionCHD3 [ NCBI-GEO ]   CHD3 [ EBI - ARRAY_EXPRESS ]   CHD3 [ SEEK ]   CHD3 [ MEM ]
Gene Expression Viewer (FireBrowse)CHD3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1107
GTEX Portal (Tissue expression)CHD3
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ12873   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ12873  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ12873
Splice isoforms : SwissVarQ12873
Catalytic activity : Enzyme3.6.4.12 [ Enzyme-Expasy ]   3.6.4.123.6.4.12 [ IntEnz-EBI ]   3.6.4.12 [ BRENDA ]   3.6.4.12 [ KEGG ]   
PhosPhoSitePlusQ12873
Domaine pattern : Prosite (Expaxy)CHROMO_1 (PS00598)    CHROMO_2 (PS50013)    DEAH_ATP_HELICASE (PS00690)    HELICASE_ATP_BIND_1 (PS51192)    HELICASE_CTER (PS51194)    ZF_PHD_1 (PS01359)    ZF_PHD_2 (PS50016)   
Domains : Interpro (EBI)###############################################################################################################################################################################################################################################################                                                                               
Domain families : Pfam (Sanger)CHDCT2 (PF08074)    CHDNT (PF08073)    Chromo (PF00385)    DUF1086 (PF06461)    DUF1087 (PF06465)    Helicase_C (PF00271)    PHD (PF00628)    SNF2_N (PF00176)   
Domain families : Pfam (NCBI)pfam08074    pfam08073    pfam00385    pfam06461    pfam06465    pfam00271    pfam00628    pfam00176   
Domain families : Smart (EMBL)CHROMO (SM00298)  DEXDc (SM00487)  DUF1086 (SM01146)  DUF1087 (SM01147)  HELICc (SM00490)  PHD (SM00249)  
Conserved Domain (NCBI)CHD3
DMDM Disease mutations1107
Blocks (Seattle)CHD3
SuperfamilyQ12873
Human Protein AtlasENSG00000170004
Peptide AtlasQ12873
HPRD09071
IPIIPI00373870   IPI00411592   IPI00910580   IPI00465222   IPI00879130   IPI00879599   IPI00879443   
Protein Interaction databases
DIP (DOE-UCLA)Q12873
IntAct (EBI)Q12873
FunCoupENSG00000170004
BioGRIDCHD3
STRING (EMBL)CHD3
ZODIACCHD3
Ontologies - Pathways
QuickGOQ12873
Ontology : AmiGODNA binding  RNA binding  ATP-dependent DNA helicase activity  helicase activity  histone deacetylase activity  protein binding  ATP binding  nucleus  nucleus  nucleoplasm  nucleolus  cytoplasm  centrosome  microtubule organizing center  chromatin assembly or disassembly  transcription, DNA-templated  regulation of transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  spindle organization  centrosome cycle  zinc ion binding  histone deacetylation  NuRD complex  DNA duplex unwinding  regulation of signal transduction by p53 class mediator  
Ontology : EGO-EBIDNA binding  RNA binding  ATP-dependent DNA helicase activity  helicase activity  histone deacetylase activity  protein binding  ATP binding  nucleus  nucleus  nucleoplasm  nucleolus  cytoplasm  centrosome  microtubule organizing center  chromatin assembly or disassembly  transcription, DNA-templated  regulation of transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  spindle organization  centrosome cycle  zinc ion binding  histone deacetylation  NuRD complex  DNA duplex unwinding  regulation of signal transduction by p53 class mediator  
NDEx NetworkCHD3
Atlas of Cancer Signalling NetworkCHD3
Wikipedia pathwaysCHD3
Orthology - Evolution
OrthoDB1107
GeneTree (enSembl)ENSG00000170004
Phylogenetic Trees/Animal Genes : TreeFamCHD3
HOVERGENQ12873
HOGENOMQ12873
Homologs : HomoloGeneCHD3
Homology/Alignments : Family Browser (UCSC)CHD3
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCHD3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CHD3
dbVarCHD3
ClinVarCHD3
1000_GenomesCHD3 
Exome Variant ServerCHD3
ExAC (Exome Aggregation Consortium)CHD3 (select the gene name)
Genetic variants : HAPMAP1107
Genomic Variants (DGV)CHD3 [DGVbeta]
DECIPHERCHD3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCHD3 
Mutations
ICGC Data PortalCHD3 
TCGA Data PortalCHD3 
Broad Tumor PortalCHD3
OASIS PortalCHD3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCHD3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCHD3
intOGen PortalCHD3
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 CHD3
DgiDB (Drug Gene Interaction Database)CHD3
DoCM (Curated mutations)CHD3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CHD3 (select a term)
intoGenCHD3
Cancer3DCHD3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM602120   
Orphanet
MedgenCHD3
Genetic Testing Registry CHD3
NextProtQ12873 [Medical]
TSGene1107
GENETestsCHD3
Huge Navigator CHD3 [HugePedia]
snp3D : Map Gene to Disease1107
BioCentury BCIQCHD3
ClinGenCHD3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD1107
Chemical/Pharm GKB GenePA26454
Clinical trialCHD3
Miscellaneous
canSAR (ICR)CHD3 (select the gene name)
Probes
Litterature
PubMed83 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCHD3
EVEXCHD3
GoPubMedCHD3
iHOPCHD3
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 : Fri May 19 12:10:26 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.