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TARDBP (TAR DNA binding protein)

Identity

Other namesALS10
TDP-43
HGNC (Hugo) TARDBP
LocusID (NCBI) 23435
Location 1p36.22
Location_base_pair Starts at 11072679 and ends at 11085549 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

External links

Nomenclature
HGNC (Hugo)TARDBP   11571
Cards
Entrez_Gene (NCBI)TARDBP  23435  TAR DNA binding protein
GeneCards (Weizmann)TARDBP
Ensembl hg19 (Hinxton) [Gene_View]  chr1:11072679-11085549 [Contig_View]  TARDBP [Vega]
Ensembl hg38 (Hinxton) [Gene_View]  chr1:11072679-11085549 [Contig_View]  TARDBP [Vega]
cBioPortalTARDBP
AceView (NCBI)TARDBP
Genatlas (Paris)TARDBP
WikiGenes23435
SOURCE (Princeton)TARDBP
Genomic and cartography
GoldenPath hg19 (UCSC)TARDBP  -     chr1:11072679-11085549 +  1p36.22   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)TARDBP  -     1p36.22   [Description]    (hg38-Dec_2013)
EnsemblTARDBP - 1p36.22 [CytoView hg19]  TARDBP - 1p36.22 [CytoView hg38]
Mapping of homologs : NCBITARDBP [Mapview hg19]  TARDBP [Mapview hg38]
OMIM605078   612069   
Gene and transcription
Genbank (Entrez)AF311304 AK222754 AK295920 AK299454 AK312416
RefSeq transcript (Entrez)NM_007375
RefSeq genomic (Entrez)AC_000133 NC_000001 NC_018912 NG_008734 NT_032977 NW_001838534 NW_004929289
Consensus coding sequences : CCDS (NCBI)TARDBP
Cluster EST : UnigeneHs.300624 [ NCBI ]
CGAP (NCI)Hs.300624
Alternative Splicing : Fast-db (Paris)GSHG0000114
Gene ExpressionTARDBP [ NCBI-GEO ]     TARDBP [ SEEK ]   TARDBP [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ13148 (Uniprot)
NextProtQ13148  [Medical]
With graphics : InterProQ13148
Splice isoforms : SwissVarQ13148 (Swissvar)
Domaine pattern : Prosite (Expaxy)RRM (PS50102)   
Domains : Interpro (EBI)Nucleotide-bd_a/b_plait    RRM_dom   
Related proteins : CluSTrQ13148
Domain families : Pfam (Sanger)RRM_1 (PF00076)   
Domain families : Pfam (NCBI)pfam00076   
Domain families : Smart (EMBL)RRM (SM00360)  
DMDM Disease mutations23435
Blocks (Seattle)Q13148
PDB (SRS)1WF0    2CQG    4BS2    4IUF   
PDB (PDBSum)1WF0    2CQG    4BS2    4IUF   
PDB (IMB)1WF0    2CQG    4BS2    4IUF   
PDB (RSDB)1WF0    2CQG    4BS2    4IUF   
Peptide AtlasQ13148
HPRD05466
IPIIPI00971018   IPI00025815   IPI00844544   IPI00910355   IPI00009928   IPI00977115   IPI00639819   
Protein Interaction databases
DIP (DOE-UCLA)Q13148
IntAct (EBI)Q13148
BioGRIDTARDBP
IntegromeDBTARDBP
STRING (EMBL)TARDBP
Ontologies - Pathways
QuickGOQ13148
Ontology : AmiGOnucleotide binding  double-stranded DNA binding  sequence-specific DNA binding transcription factor activity  RNA binding  mRNA 3'-UTR binding  protein binding  nucleus  nucleolus  regulation of transcription, DNA-templated  transcription from RNA polymerase II promoter  mRNA processing  cell death  RNA splicing  identical protein binding  negative regulation by host of viral transcription  poly(A) RNA binding  3'-UTR-mediated mRNA stabilization  
Ontology : EGO-EBInucleotide binding  double-stranded DNA binding  sequence-specific DNA binding transcription factor activity  RNA binding  mRNA 3'-UTR binding  protein binding  nucleus  nucleolus  regulation of transcription, DNA-templated  transcription from RNA polymerase II promoter  mRNA processing  cell death  RNA splicing  identical protein binding  negative regulation by host of viral transcription  poly(A) RNA binding  3'-UTR-mediated mRNA stabilization  
Protein Interaction DatabaseTARDBP
DoCM (Curated mutations)TARDBP
Wikipedia pathwaysTARDBP
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerTARDBP [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TARDBP
dbVarTARDBP
ClinVarTARDBP
1000_GenomesTARDBP 
Exome Variant ServerTARDBP
SNP (GeneSNP Utah)TARDBP
SNP : HGBaseTARDBP
Genetic variants : HAPMAPTARDBP
Genomic VariantsTARDBP  TARDBP [DGVbeta]
Mutations
Somatic Mutations in Cancer : COSMICTARDBP 
CONAN: Copy Number AnalysisTARDBP 
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
LOVD (Leiden Open Variation Database)Mendelian genes
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)1:11072679-11085549
Mutations and Diseases : HGMDTARDBP
OMIM605078    612069   
MedgenTARDBP
NextProtQ13148 [Medical]
GENETestsTARDBP
Disease Genetic AssociationTARDBP
Huge Navigator TARDBP [HugePedia]  TARDBP [HugeCancerGEM]
snp3D : Map Gene to Disease23435
DGIdb (Drug Gene Interaction db)TARDBP
General knowledge
Homologs : HomoloGeneTARDBP
Homology/Alignments : Family Browser (UCSC)TARDBP
Phylogenetic Trees/Animal Genes : TreeFamTARDBP
Chemical/Protein Interactions : CTD23435
Chemical/Pharm GKB GenePA36336
Clinical trialTARDBP
Other databases
Probes
Litterature
PubMed365 Pubmed reference(s) in Entrez
CoreMineTARDBP
GoPubMedTARDBP
iHOPTARDBP
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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Contributor(s)

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

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sun Dec 21 01:50:00 CET 2014

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