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HDDC2 (HD domain containing 2)

Identity

Alias_namesC6orf74
chromosome 6 open reading frame 74
Alias_symbol (synonym)CGI-130
dJ167O5.2
Other aliasNS5ATP2
HGNC (Hugo) HDDC2
LocusID (NCBI) 51020
Atlas_Id 54353
Location 6q22.31  [Link to chromosome band 6q22]
Location_base_pair Starts at 125275350 and ends at 125302136 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
GALM (2p22.1) / HDDC2 (6q22.31)HDDC2 (6q22.31) / RPS6KC1 (1q32.3)HDDC2 (6q22.31) / SRPK1 (6p21.31)
HDDC2 (6q22.31) / STBD1 (4q21.1)HDDC2 (6q22.31) / TPD52L1 (6q22.31)HDDC2 6q22.31 / STBD1 4q21.1
HDDC2 6q22.31 / TPD52L1 6q22.31

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)HDDC2   21078
Cards
Entrez_Gene (NCBI)HDDC2  51020  HD domain containing 2
AliasesC6orf74; CGI-130; NS5ATP2; dJ167O5.2
GeneCards (Weizmann)HDDC2
Ensembl hg19 (Hinxton)ENSG00000111906 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000111906 [Gene_View]  chr6:125275350-125302136 [Contig_View]  HDDC2 [Vega]
ICGC DataPortalENSG00000111906
TCGA cBioPortalHDDC2
AceView (NCBI)HDDC2
Genatlas (Paris)HDDC2
WikiGenes51020
SOURCE (Princeton)HDDC2
Genetics Home Reference (NIH)HDDC2
Genomic and cartography
GoldenPath hg38 (UCSC)HDDC2  -     chr6:125275350-125302136 -  6q22.31   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HDDC2  -     6q22.31   [Description]    (hg19-Feb_2009)
EnsemblHDDC2 - 6q22.31 [CytoView hg19]  HDDC2 - 6q22.31 [CytoView hg38]
Mapping of homologs : NCBIHDDC2 [Mapview hg19]  HDDC2 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF151888 AF529363 BC001671 BC003357 BC061520
RefSeq transcript (Entrez)NM_016063
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)HDDC2
Cluster EST : UnigeneHs.32826 [ NCBI ]
CGAP (NCI)Hs.32826
Alternative Splicing GalleryENSG00000111906
Gene ExpressionHDDC2 [ NCBI-GEO ]   HDDC2 [ EBI - ARRAY_EXPRESS ]   HDDC2 [ SEEK ]   HDDC2 [ MEM ]
Gene Expression Viewer (FireBrowse)HDDC2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51020
GTEX Portal (Tissue expression)HDDC2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ7Z4H3   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ7Z4H3  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ7Z4H3
Splice isoforms : SwissVarQ7Z4H3
PhosPhoSitePlusQ7Z4H3
Domains : Interpro (EBI)HD/PDEase_dom    HD_domain   
Domain families : Pfam (Sanger)HD_3 (PF13023)   
Domain families : Pfam (NCBI)pfam13023   
Domain families : Smart (EMBL)HDc (SM00471)  
Conserved Domain (NCBI)HDDC2
DMDM Disease mutations51020
Blocks (Seattle)HDDC2
PDB (SRS)4DMB    4L1J    4L7E    4L7W   
PDB (PDBSum)4DMB    4L1J    4L7E    4L7W   
PDB (IMB)4DMB    4L1J    4L7E    4L7W   
PDB (RSDB)4DMB    4L1J    4L7E    4L7W   
Structural Biology KnowledgeBase4DMB    4L1J    4L7E    4L7W   
SCOP (Structural Classification of Proteins)4DMB    4L1J    4L7E    4L7W   
CATH (Classification of proteins structures)4DMB    4L1J    4L7E    4L7W   
SuperfamilyQ7Z4H3
Human Protein AtlasENSG00000111906
Peptide AtlasQ7Z4H3
HPRD12897
IPIIPI00872352   IPI00386751   IPI00783518   
Protein Interaction databases
DIP (DOE-UCLA)Q7Z4H3
IntAct (EBI)Q7Z4H3
FunCoupENSG00000111906
BioGRIDHDDC2
STRING (EMBL)HDDC2
ZODIACHDDC2
Ontologies - Pathways
QuickGOQ7Z4H3
Ontology : AmiGOprotein binding  mitochondrion  extracellular exosome  
Ontology : EGO-EBIprotein binding  mitochondrion  extracellular exosome  
NDEx NetworkHDDC2
Atlas of Cancer Signalling NetworkHDDC2
Wikipedia pathwaysHDDC2
Orthology - Evolution
OrthoDB51020
GeneTree (enSembl)ENSG00000111906
Phylogenetic Trees/Animal Genes : TreeFamHDDC2
HOVERGENQ7Z4H3
HOGENOMQ7Z4H3
Homologs : HomoloGeneHDDC2
Homology/Alignments : Family Browser (UCSC)HDDC2
Gene fusions - Rearrangements
Fusion : MitelmanGALM/HDDC2 [2p22.1/6q22.31]  [t(2;6)(p22;q22)]  
Fusion : MitelmanHDDC2/STBD1 [6q22.31/4q21.1]  [t(4;6)(q21;q22)]  
Fusion : MitelmanHDDC2/TPD52L1 [6q22.31/6q22.31]  [t(6;6)(q22;q22)]  
Fusion: TCGAHDDC2 6q22.31 STBD1 4q21.1 BRCA
Fusion: TCGAHDDC2 6q22.31 TPD52L1 6q22.31 BLCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHDDC2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HDDC2
dbVarHDDC2
ClinVarHDDC2
1000_GenomesHDDC2 
Exome Variant ServerHDDC2
ExAC (Exome Aggregation Consortium)HDDC2 (select the gene name)
Genetic variants : HAPMAP51020
Genomic Variants (DGV)HDDC2 [DGVbeta]
DECIPHERHDDC2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisHDDC2 
Mutations
ICGC Data PortalHDDC2 
TCGA Data PortalHDDC2 
Broad Tumor PortalHDDC2
OASIS PortalHDDC2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHDDC2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHDDC2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
BioMutasearch HDDC2
DgiDB (Drug Gene Interaction Database)HDDC2
DoCM (Curated mutations)HDDC2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HDDC2 (select a term)
intoGenHDDC2
Cancer3DHDDC2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenHDDC2
Genetic Testing Registry HDDC2
NextProtQ7Z4H3 [Medical]
TSGene51020
GENETestsHDDC2
Huge Navigator HDDC2 [HugePedia]
snp3D : Map Gene to Disease51020
BioCentury BCIQHDDC2
ClinGenHDDC2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51020
Chemical/Pharm GKB GenePA134943525
Clinical trialHDDC2
Miscellaneous
canSAR (ICR)HDDC2 (select the gene name)
Probes
Litterature
PubMed7 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHDDC2
EVEXHDDC2
GoPubMedHDDC2
iHOPHDDC2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri May 19 12:18:32 CEST 2017

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