Atlas of Genetics and Cytogenetics in Oncology and Haematology


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TREX1 (three prime repair exonuclease 1)

Identity

Alias_namesAGS1
Aicardi-Goutieres syndrome 1
Alias_symbol (synonym)DRN3
HGNC (Hugo) TREX1
LocusID (NCBI) 11277
Atlas_Id 42696
Location 3p21.31  [Link to chromosome band 3p21]
Location_base_pair Starts at 48506919 and ends at 48509044 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
TREX1 (3p21.31) / TREX1 (3p21.31)

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)TREX1   12269
LRG (Locus Reference Genomic)LRG_282
Cards
Entrez_Gene (NCBI)TREX1  11277  three prime repair exonuclease 1
AliasesAGS1; CRV; DRN3; HERNS
GeneCards (Weizmann)TREX1
Ensembl hg19 (Hinxton)ENSG00000213689 [Gene_View]  chr3:48506919-48509044 [Contig_View]  TREX1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000213689 [Gene_View]  chr3:48506919-48509044 [Contig_View]  TREX1 [Vega]
ICGC DataPortalENSG00000213689
TCGA cBioPortalTREX1
AceView (NCBI)TREX1
Genatlas (Paris)TREX1
WikiGenes11277
SOURCE (Princeton)TREX1
Genetics Home Reference (NIH)TREX1
Genomic and cartography
GoldenPath hg19 (UCSC)TREX1  -     chr3:48506919-48509044 +  3p21.31   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)TREX1  -     3p21.31   [Description]    (hg38-Dec_2013)
EnsemblTREX1 - 3p21.31 [CytoView hg19]  TREX1 - 3p21.31 [CytoView hg38]
Mapping of homologs : NCBITREX1 [Mapview hg19]  TREX1 [Mapview hg38]
OMIM152700   192315   225750   606609   610448   
Gene and transcription
Genbank (Entrez)AF151105 AJ243797 AK315196 AL137745 BC019863
RefSeq transcript (Entrez)NM_007248 NM_016381 NM_033627 NM_033628 NM_033629
RefSeq genomic (Entrez)NC_000003 NC_018914 NG_009820 NG_041782 NT_022517 NW_004929309
Consensus coding sequences : CCDS (NCBI)TREX1
Cluster EST : UnigeneHs.744646 [ NCBI ]
CGAP (NCI)Hs.744646
Alternative Splicing GalleryENSG00000213689
Gene ExpressionTREX1 [ NCBI-GEO ]   TREX1 [ EBI - ARRAY_EXPRESS ]   TREX1 [ SEEK ]   TREX1 [ MEM ]
Gene Expression Viewer (FireBrowse)TREX1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)11277
GTEX Portal (Tissue expression)TREX1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NSU2   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NSU2  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NSU2
Splice isoforms : SwissVarQ9NSU2
Catalytic activity : Enzyme3.1.11.2 [ Enzyme-Expasy ]   3.1.11.23.1.11.2 [ IntEnz-EBI ]   3.1.11.2 [ BRENDA ]   3.1.11.2 [ KEGG ]   
PhosPhoSitePlusQ9NSU2
Domains : Interpro (EBI)RNaseH-like_dom   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)TREX1
DMDM Disease mutations11277
Blocks (Seattle)TREX1
SuperfamilyQ9NSU2
Human Protein AtlasENSG00000213689
Peptide AtlasQ9NSU2
HPRD09423
IPIIPI00220019   IPI00411455   IPI00085084   IPI00872616   
Protein Interaction databases
DIP (DOE-UCLA)Q9NSU2
IntAct (EBI)Q9NSU2
FunCoupENSG00000213689
BioGRIDTREX1
STRING (EMBL)TREX1
ZODIACTREX1
Ontologies - Pathways
QuickGOQ9NSU2
Ontology : AmiGOsingle-stranded DNA binding  protein binding  nuclear envelope  endoplasmic reticulum membrane  cytosol  DNA metabolic process  DNA replication  DNA repair  mismatch repair  DNA recombination  3'-5'-exodeoxyribonuclease activity  3'-5' exonuclease activity  3'-5' exonuclease activity  exodeoxyribonuclease III activity  MutLalpha complex binding  MutSalpha complex binding  regulation of type I interferon production  protein homodimerization activity  protein homodimerization activity  metal ion binding  metal ion binding  nucleic acid phosphodiester bond hydrolysis  nucleic acid phosphodiester bond hydrolysis  nucleic acid phosphodiester bond hydrolysis  nucleic acid phosphodiester bond hydrolysis  
Ontology : EGO-EBIsingle-stranded DNA binding  protein binding  nuclear envelope  endoplasmic reticulum membrane  cytosol  DNA metabolic process  DNA replication  DNA repair  mismatch repair  DNA recombination  3'-5'-exodeoxyribonuclease activity  3'-5' exonuclease activity  3'-5' exonuclease activity  exodeoxyribonuclease III activity  MutLalpha complex binding  MutSalpha complex binding  regulation of type I interferon production  protein homodimerization activity  protein homodimerization activity  metal ion binding  metal ion binding  nucleic acid phosphodiester bond hydrolysis  nucleic acid phosphodiester bond hydrolysis  nucleic acid phosphodiester bond hydrolysis  nucleic acid phosphodiester bond hydrolysis  
Pathways : BIOCARTARole of BRCA1, BRCA2 and ATR in Cancer Susceptibility [Genes]   
Pathways : KEGGCytosolic DNA-sensing pathway   
NDEx NetworkTREX1
Atlas of Cancer Signalling NetworkTREX1
Wikipedia pathwaysTREX1
Orthology - Evolution
OrthoDB11277
GeneTree (enSembl)ENSG00000213689
Phylogenetic Trees/Animal Genes : TreeFamTREX1
HOVERGENQ9NSU2
HOGENOMQ9NSU2
Homologs : HomoloGeneTREX1
Homology/Alignments : Family Browser (UCSC)TREX1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTREX1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TREX1
dbVarTREX1
ClinVarTREX1
1000_GenomesTREX1 
Exome Variant ServerTREX1
ExAC (Exome Aggregation Consortium)TREX1 (select the gene name)
Genetic variants : HAPMAP11277
Genomic Variants (DGV)TREX1 [DGVbeta]
DECIPHER (Syndromes)3:48506919-48509044  ENSG00000213689
CONAN: Copy Number AnalysisTREX1 
Mutations
ICGC Data PortalTREX1 
TCGA Data PortalTREX1 
Broad Tumor PortalTREX1
OASIS PortalTREX1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTREX1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTREX1
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
BioMutasearch TREX1
DgiDB (Drug Gene Interaction Database)TREX1
DoCM (Curated mutations)TREX1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TREX1 (select a term)
intoGenTREX1
Cancer3DTREX1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM152700    192315    225750    606609    610448   
Orphanet1309    3015    10818    11013    11994   
MedgenTREX1
Genetic Testing Registry TREX1
NextProtQ9NSU2 [Medical]
TSGene11277
GENETestsTREX1
Huge Navigator TREX1 [HugePedia]
snp3D : Map Gene to Disease11277
BioCentury BCIQTREX1
ClinGenTREX1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD11277
Chemical/Pharm GKB GenePA36949
Clinical trialTREX1
Miscellaneous
canSAR (ICR)TREX1 (select the gene name)
Probes
Litterature
PubMed80 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTREX1
EVEXTREX1
GoPubMedTREX1
iHOPTREX1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Nov 18 19:54:30 CET 2016

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