Atlas of Genetics and Cytogenetics in Oncology and Haematology


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HOXD3 (homeobox D3)

Identity

Alias_namesHOX4A
HOX4
HOX1D
homeo box D3
Other aliasHox-4.1
HGNC (Hugo) HOXD3
LocusID (NCBI) 3232
Atlas_Id 45892
Location 2q31.1  [Link to chromosome band 2q31]
Location_base_pair Starts at 177028805 and ends at 177037826 bp from pter ( according to hg19-Feb_2009)

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)HOXD3   5137
Cards
Entrez_Gene (NCBI)HOXD3  3232  homeobox D3
AliasesHOX1D; HOX4; HOX4A; Hox-4.1
GeneCards (Weizmann)HOXD3
Ensembl hg19 (Hinxton)ENSG00000128652 [Gene_View]  chr2:177028805-177037826 [Contig_View]  HOXD3 [Vega]
Ensembl hg38 (Hinxton)ENSG00000128652 [Gene_View]  chr2:177028805-177037826 [Contig_View]  HOXD3 [Vega]
ICGC DataPortalENSG00000128652
TCGA cBioPortalHOXD3
AceView (NCBI)HOXD3
Genatlas (Paris)HOXD3
WikiGenes3232
SOURCE (Princeton)HOXD3
Genetics Home Reference (NIH)HOXD3
Genomic and cartography
GoldenPath hg19 (UCSC)HOXD3  -     chr2:177028805-177037826 +  2q31.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)HOXD3  -     2q31.1   [Description]    (hg38-Dec_2013)
EnsemblHOXD3 - 2q31.1 [CytoView hg19]  HOXD3 - 2q31.1 [CytoView hg38]
Mapping of homologs : NCBIHOXD3 [Mapview hg19]  HOXD3 [Mapview hg38]
OMIM142980   
Gene and transcription
Genbank (Entrez)BC005124 BC008789 DQ892974 DQ896222
RefSeq transcript (Entrez)NM_006898
RefSeq genomic (Entrez)NC_000002 NC_018913 NT_005403 NW_004929305
Consensus coding sequences : CCDS (NCBI)HOXD3
Cluster EST : UnigeneHs.93574 [ NCBI ]
CGAP (NCI)Hs.93574
Alternative Splicing GalleryENSG00000128652
Gene ExpressionHOXD3 [ NCBI-GEO ]   HOXD3 [ EBI - ARRAY_EXPRESS ]   HOXD3 [ SEEK ]   HOXD3 [ MEM ]
Gene Expression Viewer (FireBrowse)HOXD3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3232
GTEX Portal (Tissue expression)HOXD3
Protein : pattern, domain, 3D structure
UniProt/SwissProtP31249   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP31249  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP31249
Splice isoforms : SwissVarP31249
PhosPhoSitePlusP31249
Domaine pattern : Prosite (Expaxy)ANTENNAPEDIA (PS00032)    HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)   
Domains : Interpro (EBI)DUF4074    Homeobox_Antennapedia_CS    Homeobox_CS    Homeobox_dom    Homeobox_metazoa    Homeodomain-like   
Domain families : Pfam (Sanger)DUF4074 (PF13293)    Homeobox (PF00046)   
Domain families : Pfam (NCBI)pfam13293    pfam00046   
Domain families : Smart (EMBL)HOX (SM00389)  
Conserved Domain (NCBI)HOXD3
DMDM Disease mutations3232
Blocks (Seattle)HOXD3
SuperfamilyP31249
Human Protein AtlasENSG00000128652
Peptide AtlasP31249
HPRD00863
IPIIPI00215882   IPI00916830   
Protein Interaction databases
DIP (DOE-UCLA)P31249
IntAct (EBI)P31249
FunCoupENSG00000128652
BioGRIDHOXD3
STRING (EMBL)HOXD3
ZODIACHOXD3
Ontologies - Pathways
QuickGOP31249
Ontology : AmiGOtranscription factor activity, sequence-specific DNA binding  protein binding  nucleus  nucleus  nucleoplasm  transcription, DNA-templated  regulation of transcription, DNA-templated  cell-matrix adhesion  Notch signaling pathway  anterior/posterior pattern specification  positive regulation of gene expression  aggresome  glossopharyngeal nerve morphogenesis  thyroid gland development  sequence-specific DNA binding  positive regulation of neuron differentiation  embryonic skeletal system morphogenesis  cartilage development  
Ontology : EGO-EBItranscription factor activity, sequence-specific DNA binding  protein binding  nucleus  nucleus  nucleoplasm  transcription, DNA-templated  regulation of transcription, DNA-templated  cell-matrix adhesion  Notch signaling pathway  anterior/posterior pattern specification  positive regulation of gene expression  aggresome  glossopharyngeal nerve morphogenesis  thyroid gland development  sequence-specific DNA binding  positive regulation of neuron differentiation  embryonic skeletal system morphogenesis  cartilage development  
NDEx NetworkHOXD3
Atlas of Cancer Signalling NetworkHOXD3
Wikipedia pathwaysHOXD3
Orthology - Evolution
OrthoDB3232
GeneTree (enSembl)ENSG00000128652
Phylogenetic Trees/Animal Genes : TreeFamHOXD3
HOVERGENP31249
HOGENOMP31249
Homologs : HomoloGeneHOXD3
Homology/Alignments : Family Browser (UCSC)HOXD3
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHOXD3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HOXD3
dbVarHOXD3
ClinVarHOXD3
1000_GenomesHOXD3 
Exome Variant ServerHOXD3
ExAC (Exome Aggregation Consortium)HOXD3 (select the gene name)
Genetic variants : HAPMAP3232
Genomic Variants (DGV)HOXD3 [DGVbeta]
DECIPHER (Syndromes)2:177028805-177037826  ENSG00000128652
CONAN: Copy Number AnalysisHOXD3 
Mutations
ICGC Data PortalHOXD3 
TCGA Data PortalHOXD3 
Broad Tumor PortalHOXD3
OASIS PortalHOXD3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHOXD3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHOXD3
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 HOXD3
DgiDB (Drug Gene Interaction Database)HOXD3
DoCM (Curated mutations)HOXD3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HOXD3 (select a term)
intoGenHOXD3
Cancer3DHOXD3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM142980   
Orphanet
MedgenHOXD3
Genetic Testing Registry HOXD3
NextProtP31249 [Medical]
TSGene3232
GENETestsHOXD3
Huge Navigator HOXD3 [HugePedia]
snp3D : Map Gene to Disease3232
BioCentury BCIQHOXD3
ClinGenHOXD3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3232
Chemical/Pharm GKB GenePA29411
Clinical trialHOXD3
Miscellaneous
canSAR (ICR)HOXD3 (select the gene name)
Probes
Litterature
PubMed37 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHOXD3
EVEXHOXD3
GoPubMedHOXD3
iHOPHOXD3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 30 15:04:13 CEST 2017

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