Atlas of Genetics and Cytogenetics in Oncology and Haematology


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HOXD9 (homeobox D9)

Identity

Alias_namesHOX4C
HOX4
homeo box D9
Other aliasHox-4.3
Hox-5.2
HGNC (Hugo) HOXD9
LocusID (NCBI) 3235
Atlas_Id 45767
Location 2q31.1  [Link to chromosome band 2q31]
Location_base_pair Starts at 176987413 and ends at 176989645 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)HOXD9   5140
Cards
Entrez_Gene (NCBI)HOXD9  3235  homeobox D9
AliasesHOX4; HOX4C; Hox-4.3; Hox-5.2
GeneCards (Weizmann)HOXD9
Ensembl hg19 (Hinxton)ENSG00000128709 [Gene_View]  chr2:176987413-176989645 [Contig_View]  HOXD9 [Vega]
Ensembl hg38 (Hinxton)ENSG00000128709 [Gene_View]  chr2:176987413-176989645 [Contig_View]  HOXD9 [Vega]
ICGC DataPortalENSG00000128709
TCGA cBioPortalHOXD9
AceView (NCBI)HOXD9
Genatlas (Paris)HOXD9
WikiGenes3235
SOURCE (Princeton)HOXD9
Genetics Home Reference (NIH)HOXD9
Genomic and cartography
GoldenPath hg19 (UCSC)HOXD9  -     chr2:176987413-176989645 +  2q31.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)HOXD9  -     2q31.1   [Description]    (hg38-Dec_2013)
EnsemblHOXD9 - 2q31.1 [CytoView hg19]  HOXD9 - 2q31.1 [CytoView hg38]
Mapping of homologs : NCBIHOXD9 [Mapview hg19]  HOXD9 [Mapview hg38]
OMIM142982   
Gene and transcription
Genbank (Entrez)AI264311 BC044855 BF055327 BU732638 X59372
RefSeq transcript (Entrez)NM_014213
RefSeq genomic (Entrez)NC_000002 NC_018913 NG_009225 NT_005403 NW_004929305
Consensus coding sequences : CCDS (NCBI)HOXD9
Cluster EST : UnigeneHs.236646 [ NCBI ]
CGAP (NCI)Hs.236646
Alternative Splicing GalleryENSG00000128709
Gene ExpressionHOXD9 [ NCBI-GEO ]   HOXD9 [ EBI - ARRAY_EXPRESS ]   HOXD9 [ SEEK ]   HOXD9 [ MEM ]
Gene Expression Viewer (FireBrowse)HOXD9 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3235
GTEX Portal (Tissue expression)HOXD9
Protein : pattern, domain, 3D structure
UniProt/SwissProtP28356   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP28356  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP28356
Splice isoforms : SwissVarP28356
PhosPhoSitePlusP28356
Domaine pattern : Prosite (Expaxy)HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)   
Domains : Interpro (EBI)Homeobox_CS    Homeobox_dom    Homeobox_metazoa    Homeodomain-like    Hox9_activation_N   
Domain families : Pfam (Sanger)Homeobox (PF00046)    Hox9_act (PF04617)   
Domain families : Pfam (NCBI)pfam00046    pfam04617   
Domain families : Smart (EMBL)HOX (SM00389)  
Conserved Domain (NCBI)HOXD9
DMDM Disease mutations3235
Blocks (Seattle)HOXD9
SuperfamilyP28356
Human Protein AtlasENSG00000128709
Peptide AtlasP28356
HPRD00865
IPIIPI00942462   
Protein Interaction databases
DIP (DOE-UCLA)P28356
IntAct (EBI)P28356
FunCoupENSG00000128709
BioGRIDHOXD9
STRING (EMBL)HOXD9
ZODIACHOXD9
Ontologies - Pathways
QuickGOP28356
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  RNA polymerase II regulatory region sequence-specific DNA binding  transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding  nucleus  transcription, DNA-templated  single fertilization  skeletal muscle tissue development  adult locomotory behavior  anterior/posterior pattern specification  proximal/distal pattern formation  mammary gland development  embryonic forelimb morphogenesis  hindlimb morphogenesis  positive regulation of transcription from RNA polymerase II promoter  embryonic skeletal system morphogenesis  peripheral nervous system neuron development  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  RNA polymerase II regulatory region sequence-specific DNA binding  transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding  nucleus  transcription, DNA-templated  single fertilization  skeletal muscle tissue development  adult locomotory behavior  anterior/posterior pattern specification  proximal/distal pattern formation  mammary gland development  embryonic forelimb morphogenesis  hindlimb morphogenesis  positive regulation of transcription from RNA polymerase II promoter  embryonic skeletal system morphogenesis  peripheral nervous system neuron development  
NDEx NetworkHOXD9
Atlas of Cancer Signalling NetworkHOXD9
Wikipedia pathwaysHOXD9
Orthology - Evolution
OrthoDB3235
GeneTree (enSembl)ENSG00000128709
Phylogenetic Trees/Animal Genes : TreeFamHOXD9
HOVERGENP28356
HOGENOMP28356
Homologs : HomoloGeneHOXD9
Homology/Alignments : Family Browser (UCSC)HOXD9
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHOXD9 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HOXD9
dbVarHOXD9
ClinVarHOXD9
1000_GenomesHOXD9 
Exome Variant ServerHOXD9
ExAC (Exome Aggregation Consortium)HOXD9 (select the gene name)
Genetic variants : HAPMAP3235
Genomic Variants (DGV)HOXD9 [DGVbeta]
DECIPHER (Syndromes)2:176987413-176989645  ENSG00000128709
CONAN: Copy Number AnalysisHOXD9 
Mutations
ICGC Data PortalHOXD9 
TCGA Data PortalHOXD9 
Broad Tumor PortalHOXD9
OASIS PortalHOXD9 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHOXD9  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHOXD9
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 HOXD9
DgiDB (Drug Gene Interaction Database)HOXD9
DoCM (Curated mutations)HOXD9 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HOXD9 (select a term)
intoGenHOXD9
Cancer3DHOXD9(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM142982   
Orphanet
MedgenHOXD9
Genetic Testing Registry HOXD9
NextProtP28356 [Medical]
TSGene3235
GENETestsHOXD9
Huge Navigator HOXD9 [HugePedia]
snp3D : Map Gene to Disease3235
BioCentury BCIQHOXD9
ClinGenHOXD9 (curated)
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3235
Chemical/Pharm GKB GenePA29414
Clinical trialHOXD9
Miscellaneous
canSAR (ICR)HOXD9 (select the gene name)
Probes
Litterature
PubMed33 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHOXD9
EVEXHOXD9
GoPubMedHOXD9
iHOPHOXD9
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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