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TDP1 (tyrosyl-DNA phosphodiesterase 1)

Identity

Alias_symbol (synonym)FLJ11090
SCAN1
Other alias-
HGNC (Hugo) TDP1
LocusID (NCBI) 55775
Atlas_Id 42514
Location 14q32.11  [Link to chromosome band 14q32]
Location_base_pair Starts at 89955902 and ends at 90044764 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

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)TDP1   18884
Cards
Entrez_Gene (NCBI)TDP1  55775  tyrosyl-DNA phosphodiesterase 1
Aliases
GeneCards (Weizmann)TDP1
Ensembl hg19 (Hinxton)ENSG00000042088 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000042088 [Gene_View]  chr14:89955902-90044764 [Contig_View]  TDP1 [Vega]
ICGC DataPortalENSG00000042088
TCGA cBioPortalTDP1
AceView (NCBI)TDP1
Genatlas (Paris)TDP1
WikiGenes55775
SOURCE (Princeton)TDP1
Genetics Home Reference (NIH)TDP1
Genomic and cartography
GoldenPath hg38 (UCSC)TDP1  -     chr14:89955902-90044764 +  14q32.11   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TDP1  -     14q32.11   [Description]    (hg19-Feb_2009)
EnsemblTDP1 - 14q32.11 [CytoView hg19]  TDP1 - 14q32.11 [CytoView hg38]
Mapping of homologs : NCBITDP1 [Mapview hg19]  TDP1 [Mapview hg38]
OMIM607198   607250   
Gene and transcription
Genbank (Entrez)AF182002 AF182003 AK001952 AK023514 AK093235
RefSeq transcript (Entrez)NM_001008744 NM_001330205 NM_018319
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TDP1
Cluster EST : UnigeneHs.209945 [ NCBI ]
CGAP (NCI)Hs.209945
Alternative Splicing GalleryENSG00000042088
Gene ExpressionTDP1 [ NCBI-GEO ]   TDP1 [ EBI - ARRAY_EXPRESS ]   TDP1 [ SEEK ]   TDP1 [ MEM ]
Gene Expression Viewer (FireBrowse)TDP1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55775
GTEX Portal (Tissue expression)TDP1
Human Protein AtlasENSG00000042088-TDP1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NUW8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NUW8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NUW8
Splice isoforms : SwissVarQ9NUW8
PhosPhoSitePlusQ9NUW8
Domains : Interpro (EBI)Tdp1    TDP_C   
Domain families : Pfam (Sanger)Tyr-DNA_phospho (PF06087)   
Domain families : Pfam (NCBI)pfam06087   
Conserved Domain (NCBI)TDP1
DMDM Disease mutations55775
Blocks (Seattle)TDP1
PDB (SRS)1JY1    1MU7    1MU9    1NOP    1QZQ    1RFF    1RFI    1RG1    1RG2    1RGT    1RGU    1RH0   
PDB (PDBSum)1JY1    1MU7    1MU9    1NOP    1QZQ    1RFF    1RFI    1RG1    1RG2    1RGT    1RGU    1RH0   
PDB (IMB)1JY1    1MU7    1MU9    1NOP    1QZQ    1RFF    1RFI    1RG1    1RG2    1RGT    1RGU    1RH0   
PDB (RSDB)1JY1    1MU7    1MU9    1NOP    1QZQ    1RFF    1RFI    1RG1    1RG2    1RGT    1RGU    1RH0   
Structural Biology KnowledgeBase1JY1    1MU7    1MU9    1NOP    1QZQ    1RFF    1RFI    1RG1    1RG2    1RGT    1RGU    1RH0   
SCOP (Structural Classification of Proteins)1JY1    1MU7    1MU9    1NOP    1QZQ    1RFF    1RFI    1RG1    1RG2    1RGT    1RGU    1RH0   
CATH (Classification of proteins structures)1JY1    1MU7    1MU9    1NOP    1QZQ    1RFF    1RFI    1RG1    1RG2    1RGT    1RGU    1RH0   
SuperfamilyQ9NUW8
Human Protein Atlas [tissue]ENSG00000042088-TDP1 [tissue]
Peptide AtlasQ9NUW8
HPRD06226
IPIIPI00655885   IPI00872094   IPI01025383   IPI00384157   IPI01015250   IPI01025263   IPI01025841   IPI01025612   IPI01026060   IPI01025722   IPI01026278   IPI01025950   IPI01026148   IPI01026268   IPI01026464   
Protein Interaction databases
DIP (DOE-UCLA)Q9NUW8
IntAct (EBI)Q9NUW8
FunCoupENSG00000042088
BioGRIDTDP1
STRING (EMBL)TDP1
ZODIACTDP1
Ontologies - Pathways
QuickGOQ9NUW8
Ontology : AmiGOsingle strand break repair  single strand break repair  double-stranded DNA binding  single-stranded DNA binding  exonuclease activity  protein binding  nucleus  nucleus  cytoplasm  plasma membrane  DNA repair  double-strand break repair  3'-tyrosyl-DNA phosphodiesterase activity  intracellular membrane-bounded organelle  nucleic acid phosphodiester bond hydrolysis  
Ontology : EGO-EBIsingle strand break repair  single strand break repair  double-stranded DNA binding  single-stranded DNA binding  exonuclease activity  protein binding  nucleus  nucleus  cytoplasm  plasma membrane  DNA repair  double-strand break repair  3'-tyrosyl-DNA phosphodiesterase activity  intracellular membrane-bounded organelle  nucleic acid phosphodiester bond hydrolysis  
NDEx NetworkTDP1
Atlas of Cancer Signalling NetworkTDP1
Wikipedia pathwaysTDP1
Orthology - Evolution
OrthoDB55775
GeneTree (enSembl)ENSG00000042088
Phylogenetic Trees/Animal Genes : TreeFamTDP1
HOVERGENQ9NUW8
HOGENOMQ9NUW8
Homologs : HomoloGeneTDP1
Homology/Alignments : Family Browser (UCSC)TDP1
Gene fusions - Rearrangements
Tumor Fusion PortalTDP1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTDP1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TDP1
dbVarTDP1
ClinVarTDP1
1000_GenomesTDP1 
Exome Variant ServerTDP1
ExAC (Exome Aggregation Consortium)ENSG00000042088
GNOMAD BrowserENSG00000042088
Genetic variants : HAPMAP55775
Genomic Variants (DGV)TDP1 [DGVbeta]
DECIPHERTDP1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTDP1 
Mutations
ICGC Data PortalTDP1 
TCGA Data PortalTDP1 
Broad Tumor PortalTDP1
OASIS PortalTDP1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTDP1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTDP1
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 TDP1
DgiDB (Drug Gene Interaction Database)TDP1
DoCM (Curated mutations)TDP1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TDP1 (select a term)
intoGenTDP1
Cancer3DTDP1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607198    607250   
Orphanet12564   
DisGeNETTDP1
MedgenTDP1
Genetic Testing Registry TDP1
NextProtQ9NUW8 [Medical]
TSGene55775
GENETestsTDP1
Target ValidationTDP1
Huge Navigator TDP1 [HugePedia]
snp3D : Map Gene to Disease55775
BioCentury BCIQTDP1
ClinGenTDP1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55775
Chemical/Pharm GKB GenePA421
Clinical trialTDP1
Miscellaneous
canSAR (ICR)TDP1 (select the gene name)
Probes
Litterature
PubMed64 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTDP1
EVEXTDP1
GoPubMedTDP1
iHOPTDP1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 21 14:38:04 CET 2017

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