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HDDC2 (HD domain containing 2)

Identity

Alias (NCBI)C6orf74
CGI-130
NS5ATP2
dJ167O5.2
HGNC (Hugo) HDDC2
HGNC Alias symbCGI-130
dJ167O5.2
HGNC Previous nameC6orf74
HGNC Previous namechromosome 6 open reading frame 74
LocusID (NCBI) 51020
Atlas_Id 54353
Location 6q22.31  [Link to chromosome band 6q22]
Location_base_pair Starts at 125275350 and ends at 125301967 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
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

 



Other Leukemias implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(2;6)(p22;q22) GALM/HDDC2


External links

 

Nomenclature
HGNC (Hugo)HDDC2   21078
Cards
Entrez_Gene (NCBI)HDDC2    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]  ENSG00000111906 [Sequence]  chr6:125275350-125301967 [Contig_View]  HDDC2 [Vega]
ICGC DataPortalENSG00000111906
TCGA cBioPortalHDDC2
AceView (NCBI)HDDC2
Genatlas (Paris)HDDC2
SOURCE (Princeton)HDDC2
Genetics Home Reference (NIH)HDDC2
Genomic and cartography
GoldenPath hg38 (UCSC)HDDC2  -     chr6:125275350-125301967 -  6q22.31   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HDDC2  -     6q22.31   [Description]    (hg19-Feb_2009)
GoldenPathHDDC2 - 6q22.31 [CytoView hg19]  HDDC2 - 6q22.31 [CytoView hg38]
ImmunoBaseENSG00000111906
Genome Data Viewer NCBIHDDC2 [Mapview hg19]  
Gene and transcription
Genbank (Entrez)AF151888 AF529363 BC001671 BC003357 BC061520
RefSeq transcript (Entrez)NM_016063
Consensus coding sequences : CCDS (NCBI)HDDC2
Gene ExpressionHDDC2 [ NCBI-GEO ]   HDDC2 [ EBI - ARRAY_EXPRESS ]   HDDC2 [ SEEK ]   HDDC2 [ MEM ]
Gene Expression Viewer (FireBrowse)HDDC2 [ Firebrowse - Broad ]
GenevisibleExpression of HDDC2 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51020
GTEX Portal (Tissue expression)HDDC2
Human Protein AtlasENSG00000111906-HDDC2 [pathology]   [cell]   [tissue]
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
PhosPhoSitePlusQ7Z4H3
Domaine pattern : Prosite (Expaxy)HD (PS51831)   
Domains : Interpro (EBI)HD/PDEase_dom    HD_domain    YfbR/HDDC2   
Domain families : Pfam (Sanger)HD_3 (PF13023)   
Domain families : Pfam (NCBI)pfam13023   
Domain families : Smart (EMBL)HDc (SM00471)  
Conserved Domain (NCBI)HDDC2
PDB (RSDB)4DMB    4L1J    4L7E    4L7W   
PDB Europe4DMB    4L1J    4L7E    4L7W   
PDB (PDBSum)4DMB    4L1J    4L7E    4L7W   
PDB (IMB)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
AlphaFold pdb e-kbQ7Z4H3   
Human Protein Atlas [tissue]ENSG00000111906-HDDC2 [tissue]
HPRD12897
Protein Interaction databases
DIP (DOE-UCLA)Q7Z4H3
IntAct (EBI)Q7Z4H3
BioGRIDHDDC2
STRING (EMBL)HDDC2
ZODIACHDDC2
Ontologies - Pathways
QuickGOQ7Z4H3
Ontology : AmiGO5'-deoxynucleotidase activity  protein binding  cytoplasm  dephosphorylation  metal ion binding  
Ontology : EGO-EBI5'-deoxynucleotidase activity  protein binding  cytoplasm  dephosphorylation  metal ion binding  
NDEx NetworkHDDC2
Atlas of Cancer Signalling NetworkHDDC2
Wikipedia pathwaysHDDC2
Orthology - Evolution
OrthoDB51020
GeneTree (enSembl)ENSG00000111906
Phylogenetic Trees/Animal Genes : TreeFamHDDC2
Homologs : HomoloGeneHDDC2
Homology/Alignments : Family Browser (UCSC)HDDC2
Gene fusions - Rearrangements
Fusion : MitelmanGALM/HDDC2 [2p22.1/6q22.31]  
Fusion : MitelmanHDDC2/STBD1 [6q22.31/4q21.1]  
Fusion : MitelmanHDDC2/TPD52L1 [6q22.31/6q22.31]  
Fusion : QuiverHDDC2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHDDC2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HDDC2
dbVarHDDC2
ClinVarHDDC2
MonarchHDDC2
1000_GenomesHDDC2 
Exome Variant ServerHDDC2
GNOMAD BrowserENSG00000111906
Varsome BrowserHDDC2
ACMGHDDC2 variants
VarityQ7Z4H3
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]  
Somatic Mutations in Cancer : COSMIC3DHDDC2
Mutations and Diseases : HGMDHDDC2
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaHDDC2
DgiDB (Drug Gene Interaction Database)HDDC2
DoCM (Curated mutations)HDDC2
CIViC (Clinical Interpretations of Variants in Cancer)HDDC2
Cancer3DHDDC2
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETHDDC2
MedgenHDDC2
Genetic Testing Registry HDDC2
NextProtQ7Z4H3 [Medical]
GENETestsHDDC2
Target ValidationHDDC2
Huge Navigator HDDC2 [HugePedia]
ClinGenHDDC2
Clinical trials, drugs, therapy
MyCancerGenomeHDDC2
Protein Interactions : CTDHDDC2
Pharm GKB GenePA134943525
PharosQ7Z4H3
Clinical trialHDDC2
Miscellaneous
canSAR (ICR)HDDC2
HarmonizomeHDDC2
DataMed IndexHDDC2
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXHDDC2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Oct 4 15:12:11 CEST 2021

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