Atlas of Genetics and Cytogenetics in Oncology and Haematology


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ATRX (alpha thalassemia/mental retardation syndrome X-linked)

Identity

Other namesATR2
JMS
MRXHF1
RAD54
RAD54L
SFM1
SHS
XH2
XNP
ZNF-HX
HGNC (Hugo) ATRX
LocusID (NCBI) 546
Location Xq21.1
Location_base_pair Starts at 76760356 and ends at 77041755 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)ATRX   886
Cards
Entrez_Gene (NCBI)ATRX  546  alpha thalassemia/mental retardation syndrome X-linked
GeneCards (Weizmann)ATRX
Ensembl (Hinxton)ENSG00000085224 [Gene_View]  chrX:76760356-77041755 [Contig_View]  ATRX [Vega]
ICGC DataPortalENSG00000085224
cBioPortalATRX
AceView (NCBI)ATRX
Genatlas (Paris)ATRX
WikiGenes546
SOURCE (Princeton)NM_000489 NM_138270 NM_138271
Genomic and cartography
GoldenPath (UCSC)ATRX  -  Xq21.1   chrX:76760356-77041755 -  Xq21.1   [Description]    (hg19-Feb_2009)
EnsemblATRX - Xq21.1 [CytoView]
Mapping of homologs : NCBIATRX [Mapview]
OMIM300032   300448   301040   309580   
Gene and transcription
Genbank (Entrez)AA484729 AA732359 AB102641 AB208928 AB209545
RefSeq transcript (Entrez)NM_000489 NM_138270 NM_138271
RefSeq genomic (Entrez)AC_000155 NC_000023 NC_018934 NG_008838 NT_011651 NW_001842376 NW_004929444
Consensus coding sequences : CCDS (NCBI)ATRX
Cluster EST : UnigeneHs.653797 [ NCBI ]
CGAP (NCI)Hs.653797
Alternative Splicing : Fast-db (Paris)GSHG0032191
Alternative Splicing GalleryENSG00000085224
Gene ExpressionATRX [ NCBI-GEO ]     ATRX [ SEEK ]   ATRX [ MEM ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP46100 (Uniprot)
NextProtP46100  [Medical]
With graphics : InterProP46100
Splice isoforms : SwissVarP46100 (Swissvar)
Catalytic activity : Enzyme3.6.4.12 [ Enzyme-Expasy ]   3.6.4.123.6.4.12 [ IntEnz-EBI ]   3.6.4.12 [ BRENDA ]   3.6.4.12 [ KEGG ]   
Domaine pattern : Prosite (Expaxy)ADD (PS51533)    HELICASE_ATP_BIND_1 (PS51192)    HELICASE_CTER (PS51194)   
Domains : Interpro (EBI)ADD [organisation]   Helicase_ATP-bd [organisation]   Helicase_C [organisation]   P-loop_NTPase [organisation]   SNF2_N [organisation]   Znf_FYVE_PHD [organisation]   Znf_RING [organisation]   Znf_RING/FYVE/PHD [organisation]  
Related proteins : CluSTrP46100
Domain families : Pfam (Sanger)Helicase_C (PF00271)    SNF2_N (PF00176)   
Domain families : Pfam (NCBI)pfam00271    pfam00176   
Domain families : Smart (EMBL)DEXDc (SM00487)  HELICc (SM00490)  RING (SM00184)  
DMDM Disease mutations546
Blocks (Seattle)P46100
PDB (SRS)2JM1    2LBM    2LD1    3QL9    3QLA    3QLC    3QLN   
PDB (PDBSum)2JM1    2LBM    2LD1    3QL9    3QLA    3QLC    3QLN   
PDB (IMB)2JM1    2LBM    2LD1    3QL9    3QLA    3QLC    3QLN   
PDB (RSDB)2JM1    2LBM    2LD1    3QL9    3QLA    3QLC    3QLN   
Human Protein AtlasENSG00000085224 [gene] [tissue] [antibody] [cell] [cancer]
Peptide AtlasP46100
HPRD02069
IPIIPI00297633   IPI00883721   IPI00938010   IPI00845355   IPI00220109   IPI00940810   IPI00552321   IPI01025076   IPI00647789   
Protein Interaction databases
DIP (DOE-UCLA)P46100
IntAct (EBI)P46100
FunCoupENSG00000085224
BioGRIDATRX
InParanoidP46100
Interologous Interaction database P46100
IntegromeDBATRX
STRING (EMBL)ATRX
Ontologies - Pathways
Ontology : AmiGODNA binding  DNA helicase activity  chromatin binding  helicase activity  protein binding  ATP binding  nucleus  nuclear heterochromatin  nucleolus  cytoplasm  mitochondrion  ATP catabolic process  DNA repair  DNA methylation  DNA recombination  nucleosome assembly  DNA replication-independent nucleosome assembly  chromatin remodeling  transcription, DNA-templated  regulation of transcription, DNA-templated  zinc ion binding  positive regulation of nuclear cell cycle DNA replication  DNA translocase activity  PML body  DNA damage response, signal transduction by p53 class mediator  forebrain development  replication fork processing  telomeric heterochromatin  positive regulation of telomere maintenance  DNA duplex unwinding  methylated histone binding  histone binding  positive regulation of transcription from RNA polymerase II promoter  chromo shadow domain binding  SWI/SNF superfamily-type complex  cellular response to hydroxyurea  negative regulation of telomeric RNA transcription from RNA pol II promoter  
Ontology : EGO-EBIDNA binding  DNA helicase activity  chromatin binding  helicase activity  protein binding  ATP binding  nucleus  nuclear heterochromatin  nucleolus  cytoplasm  mitochondrion  ATP catabolic process  DNA repair  DNA methylation  DNA recombination  nucleosome assembly  DNA replication-independent nucleosome assembly  chromatin remodeling  transcription, DNA-templated  regulation of transcription, DNA-templated  zinc ion binding  positive regulation of nuclear cell cycle DNA replication  DNA translocase activity  PML body  DNA damage response, signal transduction by p53 class mediator  forebrain development  replication fork processing  telomeric heterochromatin  positive regulation of telomere maintenance  DNA duplex unwinding  methylated histone binding  histone binding  positive regulation of transcription from RNA polymerase II promoter  chromo shadow domain binding  SWI/SNF superfamily-type complex  cellular response to hydroxyurea  negative regulation of telomeric RNA transcription from RNA pol II promoter  
Protein Interaction DatabaseATRX
Wikipedia pathwaysATRX
Gene fusion - rearrangments
Polymorphisms : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)ATRX
snp3D : Map Gene to Disease546
SNP (GeneSNP Utah)ATRX
SNP : HGBaseATRX
Genetic variants : HAPMAPATRX
Exome VariantATRX
1000_GenomesATRX 
ICGC programENSG00000085224 
Cancer Gene: CensusATRX 
Somatic Mutations in Cancer : COSMICATRX 
CONAN: Copy Number AnalysisATRX 
Mutations and Diseases : HGMDATRX
Mutations and Diseases : intOGenATRX
Genomic VariantsATRX  ATRX [DGVbeta]
dbVarATRX
ClinVarATRX
Pred. of missensesPolyPhen-2  SIFT(SG)  SIFT(JCVI)  Align-GVGD  MutAssessor  Mutanalyser  
Pred. splicesGeneSplicer  Human Splicing Finder  MaxEntScan  
Diseases
OMIM300032    300448    301040    309580   
MedgenATRX
GENETestsATRX
Disease Genetic AssociationATRX
Huge Navigator ATRX [HugePedia]  ATRX [HugeCancerGEM]
General knowledge
Homologs : HomoloGeneATRX
Homology/Alignments : Family Browser (UCSC)ATRX
Phylogenetic Trees/Animal Genes : TreeFamATRX
Chemical/Protein Interactions : CTD546
Chemical/Pharm GKB GenePA25179
Clinical trialATRX
Cancer Resource (Charite)ENSG00000085224
Other databases
Probes
Litterature
PubMed138 Pubmed reference(s) in Entrez
CoreMineATRX
iHOPATRX
OncoSearchATRX
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
Updated12-2013Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Aug 26 16:39:13 CEST 2014

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