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MBD3 (methyl-CpG binding domain protein 3)

Identity

HGNC (Hugo) MBD3
LocusID (NCBI) 53615
Atlas_Id 41310
Location 19p13.3
Location_base_pair Starts at 1576670 and ends at 1592760 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2015)
ULK2 17p11.2 / MBD3 19p13.3

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)MBD3   6918
Cards
Entrez_Gene (NCBI)MBD3  53615  methyl-CpG binding domain protein 3
GeneCards (Weizmann)MBD3
Ensembl hg19 (Hinxton)ENSG00000071655 [Gene_View]  chr19:1576670-1592760 [Contig_View]  MBD3 [Vega]
Ensembl hg38 (Hinxton)ENSG00000071655 [Gene_View]  chr19:1576670-1592760 [Contig_View]  MBD3 [Vega]
ICGC DataPortalENSG00000071655
TCGA cBioPortalMBD3
AceView (NCBI)MBD3
Genatlas (Paris)MBD3
WikiGenes53615
SOURCE (Princeton)MBD3
Genomic and cartography
GoldenPath hg19 (UCSC)MBD3  -     chr19:1576670-1592760 -  19p13.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)MBD3  -     19p13.3   [Description]    (hg38-Dec_2013)
EnsemblMBD3 - 19p13.3 [CytoView hg19]  MBD3 - 19p13.3 [CytoView hg38]
Mapping of homologs : NCBIMBD3 [Mapview hg19]  MBD3 [Mapview hg38]
OMIM603573   
Gene and transcription
Genbank (Entrez)AA576859 AF072247 AK001474 AK021532 AK092508
RefSeq transcript (Entrez)NM_001281453 NM_001281454 NM_003926
RefSeq genomic (Entrez)NC_000019 NC_018930 NG_029897 NT_011295 NW_004929412
Consensus coding sequences : CCDS (NCBI)MBD3
Cluster EST : UnigeneHs.595754 [ NCBI ]
CGAP (NCI)Hs.595754
Alternative Splicing : Fast-db (Paris)GSHG0015321
Alternative Splicing GalleryENSG00000071655
Gene ExpressionMBD3 [ NCBI-GEO ]     MBD3 [ SEEK ]   MBD3 [ MEM ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)53615
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95983 (Uniprot)
NextProtO95983  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95983
Splice isoforms : SwissVarO95983 (Swissvar)
PhosPhoSitePlusO95983
Domaine pattern : Prosite (Expaxy)MBD (PS50982)   
Domains : Interpro (EBI)DNA-bd_dom    MeCpG-bd_2/3_C_dom    Methyl_CpG_DNA-bd   
Domain families : Pfam (Sanger)MBD (PF01429)    MBD_C (PF14048)   
Domain families : Pfam (NCBI)pfam01429    pfam14048   
Domain families : Smart (EMBL)MBD (SM00391)  
DMDM Disease mutations53615
Blocks (Seattle)MBD3
PDB (SRS)2MB7   
PDB (PDBSum)2MB7   
PDB (IMB)2MB7   
PDB (RSDB)2MB7   
Structural Biology KnowledgeBase2MB7   
SCOP (Structural Classification of Proteins)2MB7   
CATH (Classification of proteins structures)2MB7   
Human Protein AtlasENSG00000071655
Peptide AtlasO95983
HPRD04653
IPIIPI00439194   IPI00439195   IPI00382954   
Protein Interaction databases
DIP (DOE-UCLA)O95983
IntAct (EBI)O95983
FunCoupENSG00000071655
BioGRIDMBD3
IntegromeDBMBD3
STRING (EMBL)MBD3
ZODIACMBD3
Ontologies - Pathways
QuickGOO95983
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  nuclear chromatin  heterochromatin  RNA polymerase II core promoter proximal region sequence-specific DNA binding  RNA polymerase II distal enhancer sequence-specific DNA binding  in utero embryonic development  DNA binding  protein binding  nucleoplasm  cytoplasm  chromatin organization  methylation-dependent chromatin silencing  transcription, DNA-templated  brain development  heart development  aging  methyl-CpG binding  tissue development  histone acetylation  NuRD complex  nucleosomal DNA binding  response to nutrient levels  response to estradiol  ATP-dependent chromatin remodeling  protein complex  regulation of DNA methylation  embryonic organ development  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  nuclear chromatin  heterochromatin  RNA polymerase II core promoter proximal region sequence-specific DNA binding  RNA polymerase II distal enhancer sequence-specific DNA binding  in utero embryonic development  DNA binding  protein binding  nucleoplasm  cytoplasm  chromatin organization  methylation-dependent chromatin silencing  transcription, DNA-templated  brain development  heart development  aging  methyl-CpG binding  tissue development  histone acetylation  NuRD complex  nucleosomal DNA binding  response to nutrient levels  response to estradiol  ATP-dependent chromatin remodeling  protein complex  regulation of DNA methylation  embryonic organ development  
Pathways : BIOCARTADownregulated of MTA-3 in ER-negative Breast Tumors [Genes]   
Protein Interaction DatabaseMBD3
Atlas of Cancer Signalling NetworkMBD3
Wikipedia pathwaysMBD3
Orthology - Evolution
OrthoDB53615
GeneTree (enSembl)ENSG00000071655
Phylogenetic Trees/Animal Genes : TreeFamMBD3
Homologs : HomoloGeneMBD3
Homology/Alignments : Family Browser (UCSC)MBD3
Gene fusions - Rearrangements
Fusion: TCGAULK2 17p11.2 MBD3 19p13.3 BRCA
Polymorphisms : SNP, variants
NCBI Variation ViewerMBD3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)MBD3
dbVarMBD3
ClinVarMBD3
1000_GenomesMBD3 
Exome Variant ServerMBD3
Exome Aggregation Consortium (ExAC)ENSG00000071655
SNP (GeneSNP Utah)MBD3
SNP : HGBaseMBD3
Genetic variants : HAPMAPMBD3
Genomic Variants (DGV)MBD3 [DGVbeta]
Mutations
ICGC Data PortalMBD3 
TCGA Data PortalMBD3 
Tumor PortalMBD3
TCGA Copy Number PortalMBD3
Somatic Mutations in Cancer : COSMICMBD3 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch MBD3
DgiDB (Drug Gene Interaction Database)MBD3
DoCM (Curated mutations)MBD3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)MBD3 (select a term)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)19:1576670-1592760
CONAN: Copy Number AnalysisMBD3 
Mutations and Diseases : HGMDMBD3
OMIM603573   
MedgenMBD3
NextProtO95983 [Medical]
TSGene53615
GENETestsMBD3
Huge Navigator MBD3 [HugePedia]  MBD3 [HugeCancerGEM]
snp3D : Map Gene to Disease53615
BioCentury BCIQMBD3
General knowledge
Chemical/Protein Interactions : CTD53615
Chemical/Pharm GKB GenePA30661
Clinical trialMBD3
Other databases
Probes
Litterature
PubMed74 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineMBD3
GoPubMedMBD3
iHOPMBD3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Jan 16 18:59:23 CET 2016

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