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HOXD13 (homeobox D13)

Identity

Alias_namesHOX4I
SPD
homeo box D13
Other aliasBDE
BDSD
HGNC (Hugo) HOXD13
LocusID (NCBI) 3239
Atlas_Id 161
Location 2q31.1  [Link to chromosome band 2q31]
Location_base_pair Starts at 176957532 and ends at 176960666 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
HOXD13 (2q31.1) / NUP98 (11p15.4)NUP98 (11p15.4) / HOXD13 (2q31.1)

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

 


Other Leukemias implicated (Data extracted from papers in the Atlas) [ 3 ]
  t(1;11)(q23;p15) NUP98/PRRX1
t(2;11)(q31;p15) NUP98/HOXD13::t(2;11)(q31;p15) NUP98/HOXD11
t(4;11)(q21;p15) NUP98/RAP1GDS1


External links

Nomenclature
HGNC (Hugo)HOXD13   5136
Cards
Entrez_Gene (NCBI)HOXD13  3239  homeobox D13
AliasesBDE; BDSD; HOX4I; SPD
GeneCards (Weizmann)HOXD13
Ensembl hg19 (Hinxton)ENSG00000128714 [Gene_View]  chr2:176957532-176960666 [Contig_View]  HOXD13 [Vega]
Ensembl hg38 (Hinxton)ENSG00000128714 [Gene_View]  chr2:176957532-176960666 [Contig_View]  HOXD13 [Vega]
ICGC DataPortalENSG00000128714
TCGA cBioPortalHOXD13
AceView (NCBI)HOXD13
Genatlas (Paris)HOXD13
WikiGenes3239
SOURCE (Princeton)HOXD13
Genetics Home Reference (NIH)HOXD13
Genomic and cartography
GoldenPath hg19 (UCSC)HOXD13  -     chr2:176957532-176960666 +  2q31.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)HOXD13  -     2q31.1   [Description]    (hg38-Dec_2013)
EnsemblHOXD13 - 2q31.1 [CytoView hg19]  HOXD13 - 2q31.1 [CytoView hg38]
Mapping of homologs : NCBIHOXD13 [Mapview hg19]  HOXD13 [Mapview hg38]
OMIM113200   113300   142989   186000   186300   192350   610713   
Gene and transcription
Genbank (Entrez)BC148863 BC152760 BG204577 BX100910
RefSeq transcript (Entrez)NM_000523
RefSeq genomic (Entrez)NC_000002 NC_018913 NG_008137 NT_005403 NW_004929305
Consensus coding sequences : CCDS (NCBI)HOXD13
Cluster EST : UnigeneHs.152414 [ NCBI ]
CGAP (NCI)Hs.152414
Alternative Splicing GalleryENSG00000128714
Gene ExpressionHOXD13 [ NCBI-GEO ]   HOXD13 [ EBI - ARRAY_EXPRESS ]   HOXD13 [ SEEK ]   HOXD13 [ MEM ]
Gene Expression Viewer (FireBrowse)HOXD13 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3239
GTEX Portal (Tissue expression)HOXD13
Protein : pattern, domain, 3D structure
UniProt/SwissProtP35453   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP35453  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP35453
Splice isoforms : SwissVarP35453
PhosPhoSitePlusP35453
Domaine pattern : Prosite (Expaxy)HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)   
Domains : Interpro (EBI)Homeobox_CS    Homeobox_dom    Homeodomain-like    HoxA13_N   
Domain families : Pfam (Sanger)Homeobox (PF00046)    HoxA13_N (PF12284)   
Domain families : Pfam (NCBI)pfam00046    pfam12284   
Domain families : Smart (EMBL)HOX (SM00389)  
Conserved Domain (NCBI)HOXD13
DMDM Disease mutations3239
Blocks (Seattle)HOXD13
SuperfamilyP35453
Human Protein AtlasENSG00000128714
Peptide AtlasP35453
HPRD00872
IPIIPI00871270   
Protein Interaction databases
DIP (DOE-UCLA)P35453
IntAct (EBI)P35453
FunCoupENSG00000128714
BioGRIDHOXD13
STRING (EMBL)HOXD13
ZODIACHOXD13
Ontologies - Pathways
QuickGOP35453
Ontology : AmiGORNA polymerase II core promoter proximal region sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding  skeletal system development  DNA binding  chromatin binding  nucleus  regulation of transcription, DNA-templated  transcription from RNA polymerase II promoter  multicellular organism development  anterior/posterior pattern specification  male genitalia development  regulation of cell proliferation  embryonic digit morphogenesis  positive regulation of transcription from RNA polymerase II promoter  embryonic hindgut morphogenesis  prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis  morphogenesis of an epithelial fold  branch elongation of an epithelium  regulation of branching involved in prostate gland morphogenesis  
Ontology : EGO-EBIRNA polymerase II core promoter proximal region sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding  skeletal system development  DNA binding  chromatin binding  nucleus  regulation of transcription, DNA-templated  transcription from RNA polymerase II promoter  multicellular organism development  anterior/posterior pattern specification  male genitalia development  regulation of cell proliferation  embryonic digit morphogenesis  positive regulation of transcription from RNA polymerase II promoter  embryonic hindgut morphogenesis  prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis  morphogenesis of an epithelial fold  branch elongation of an epithelium  regulation of branching involved in prostate gland morphogenesis  
NDEx NetworkHOXD13
Atlas of Cancer Signalling NetworkHOXD13
Wikipedia pathwaysHOXD13
Orthology - Evolution
OrthoDB3239
GeneTree (enSembl)ENSG00000128714
Phylogenetic Trees/Animal Genes : TreeFamHOXD13
HOVERGENP35453
HOGENOMP35453
Homologs : HomoloGeneHOXD13
Homology/Alignments : Family Browser (UCSC)HOXD13
Gene fusions - Rearrangements
Fusion : MitelmanNUP98/HOXD13 [11p15.4/2q31.1]  [t(2;11)(q31;p15)]  
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHOXD13 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HOXD13
dbVarHOXD13
ClinVarHOXD13
1000_GenomesHOXD13 
Exome Variant ServerHOXD13
ExAC (Exome Aggregation Consortium)HOXD13 (select the gene name)
Genetic variants : HAPMAP3239
Genomic Variants (DGV)HOXD13 [DGVbeta]
DECIPHER (Syndromes)2:176957532-176960666  ENSG00000128714
CONAN: Copy Number AnalysisHOXD13 
Mutations
ICGC Data PortalHOXD13 
TCGA Data PortalHOXD13 
Broad Tumor PortalHOXD13
OASIS PortalHOXD13 [ Somatic mutations - Copy number]
Cancer Gene: CensusHOXD13 
Somatic Mutations in Cancer : COSMICHOXD13  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHOXD13
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch HOXD13
DgiDB (Drug Gene Interaction Database)HOXD13
DoCM (Curated mutations)HOXD13 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HOXD13 (select a term)
intoGenHOXD13
Cancer3DHOXD13(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM113200    113300    142989    186000    186300    192350    610713   
Orphanet603    21043    21041    12328    12331    12310   
MedgenHOXD13
Genetic Testing Registry HOXD13
NextProtP35453 [Medical]
TSGene3239
GENETestsHOXD13
Huge Navigator HOXD13 [HugePedia]
snp3D : Map Gene to Disease3239
BioCentury BCIQHOXD13
ClinGenHOXD13 (curated)
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3239
Chemical/Pharm GKB GenePA29410
Clinical trialHOXD13
Miscellaneous
canSAR (ICR)HOXD13 (select the gene name)
Probes
Litterature
PubMed61 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHOXD13
EVEXHOXD13
GoPubMedHOXD13
iHOPHOXD13
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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