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Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret
Donations are also welcome

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HOXA4 (homeobox A4)

Identity

Other namesHOX1
HOX1D
HGNC (Hugo) HOXA4
LocusID (NCBI) 3201
Location 7p15.2
Location_base_pair Starts at 27168126 and ends at 27170399 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)HOXA4   5105
Cards
Entrez_Gene (NCBI)HOXA4  3201  homeobox A4
GeneCards (Weizmann)HOXA4
Ensembl hg19 (Hinxton)ENSG00000197576 [Gene_View]  chr7:27168126-27170399 [Contig_View]  HOXA4 [Vega]
Ensembl hg38 (Hinxton)ENSG00000197576 [Gene_View]  chr7:27168126-27170399 [Contig_View]  HOXA4 [Vega]
ICGC DataPortalENSG00000197576
cBioPortalHOXA4
AceView (NCBI)HOXA4
Genatlas (Paris)HOXA4
WikiGenes3201
SOURCE (Princeton)HOXA4
Genomic and cartography
GoldenPath hg19 (UCSC)HOXA4  -     chr7:27168126-27170399 -  7p15.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)HOXA4  -     7p15.2   [Description]    (hg38-Dec_2013)
EnsemblHOXA4 - 7p15.2 [CytoView hg19]  HOXA4 - 7p15.2 [CytoView hg38]
Mapping of homologs : NCBIHOXA4 [Mapview hg19]  HOXA4 [Mapview hg38]
OMIM142953   
Gene and transcription
Genbank (Entrez)AI277552 AW445008 BC126994 BC160036 M74297
RefSeq transcript (Entrez)NM_002141
RefSeq genomic (Entrez)AC_000139 NC_000007 NC_018918 NT_007819 NW_001839003 NW_004929329
Consensus coding sequences : CCDS (NCBI)HOXA4
Cluster EST : UnigeneHs.721126 [ NCBI ]
CGAP (NCI)Hs.721126
Alternative Splicing : Fast-db (Paris)GSHG0028076
Alternative Splicing GalleryENSG00000197576
Gene ExpressionHOXA4 [ NCBI-GEO ]     HOXA4 [ SEEK ]   HOXA4 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ00056 (Uniprot)
NextProtQ00056  [Medical]
With graphics : InterProQ00056
Splice isoforms : SwissVarQ00056 (Swissvar)
Domaine pattern : Prosite (Expaxy)ANTENNAPEDIA (PS00032)    HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)   
Domains : Interpro (EBI)Homeobox_antennapedia    Homeobox_Antennapedia_CS    Homeobox_CS    Homeobox_dom    Homeobox_metazoa    Homeodomain-like   
Related proteins : CluSTrQ00056
Domain families : Pfam (Sanger)Homeobox (PF00046)   
Domain families : Pfam (NCBI)pfam00046   
Domain families : Smart (EMBL)HOX (SM00389)  
DMDM Disease mutations3201
Blocks (Seattle)Q00056
Human Protein AtlasENSG00000197576
Peptide AtlasQ00056
HPRD00841
IPIIPI00020926   IPI00828097   IPI01022445   IPI01022302   IPI01021536   
Protein Interaction databases
DIP (DOE-UCLA)Q00056
IntAct (EBI)Q00056
FunCoupENSG00000197576
BioGRIDHOXA4
IntegromeDBHOXA4
STRING (EMBL)HOXA4
Ontologies - Pathways
QuickGOQ00056
Ontology : AmiGOsequence-specific DNA binding transcription factor activity  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  anatomical structure morphogenesis  anterior/posterior pattern specification  sequence-specific DNA binding  embryonic skeletal system morphogenesis  
Ontology : EGO-EBIsequence-specific DNA binding transcription factor activity  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  anatomical structure morphogenesis  anterior/posterior pattern specification  sequence-specific DNA binding  embryonic skeletal system morphogenesis  
Protein Interaction DatabaseHOXA4
DoCM (Curated mutations)HOXA4
Wikipedia pathwaysHOXA4
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerHOXA4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HOXA4
dbVarHOXA4
ClinVarHOXA4
1000_GenomesHOXA4 
Exome Variant ServerHOXA4
SNP (GeneSNP Utah)HOXA4
SNP : HGBaseHOXA4
Genetic variants : HAPMAPHOXA4
Genomic Variants (DGV)HOXA4 [DGVbeta]
Mutations
ICGC Data PortalENSG00000197576 
Somatic Mutations in Cancer : COSMICHOXA4 
CONAN: Copy Number AnalysisHOXA4 
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
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)7:27168126-27170399
Mutations and Diseases : HGMDHOXA4
OMIM142953   
MedgenHOXA4
NextProtQ00056 [Medical]
GENETestsHOXA4
Disease Genetic AssociationHOXA4
Huge Navigator HOXA4 [HugePedia]  HOXA4 [HugeCancerGEM]
snp3D : Map Gene to Disease3201
DGIdb (Drug Gene Interaction db)HOXA4
General knowledge
Homologs : HomoloGeneHOXA4
Homology/Alignments : Family Browser (UCSC)HOXA4
Phylogenetic Trees/Animal Genes : TreeFamHOXA4
Chemical/Protein Interactions : CTD3201
Chemical/Pharm GKB GenePA29382
Clinical trialHOXA4
Cancer Resource (Charite)ENSG00000197576
Other databases
Probes
Litterature
PubMed27 Pubmed reference(s) in Entrez
CoreMineHOXA4
GoPubMedHOXA4
iHOPHOXA4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2014Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Feb 14 16:13:57 CET 2015
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