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
Other aliasCRV
HERNS
HGNC (Hugo) TREX1
LocusID (NCBI) 11277
Atlas_Id 42696
Location 3p21.31  [Link to chromosome band 3p21]
Location_base_pair Starts at 48466230 and ends at 48467645 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)
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]
Ensembl hg38 (Hinxton)ENSG00000213689 [Gene_View]  ENSG00000213689 [Sequence]  chr3:48466230-48467645 [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 hg38 (UCSC)TREX1  -     chr3:48466230-48467645 +  3p21.31   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TREX1  -     3p21.31   [Description]    (hg19-Feb_2009)
GoldenPathTREX1 - 3p21.31 [CytoView hg19]  TREX1 - 3p21.31 [CytoView hg38]
ImmunoBaseENSG00000213689
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)
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]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)11277
GTEX Portal (Tissue expression)TREX1
Human Protein AtlasENSG00000213689-TREX1 [pathology]   [cell]   [tissue]
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
PhosPhoSitePlusQ9NSU2
Domains : Interpro (EBI)Exonuclease_RNaseT/DNA_pol3    RNaseH-like_sf    RNaseH_sf   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Domain families : Smart (EMBL)EXOIII (SM00479)  
Conserved Domain (NCBI)TREX1
DMDM Disease mutations11277
Blocks (Seattle)TREX1
SuperfamilyQ9NSU2
Human Protein Atlas [tissue]ENSG00000213689-TREX1 [tissue]
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 : AmiGOmagnesium ion binding  blood vessel development  kidney development  activation of immune response  macrophage activation involved in immune response  lymphoid progenitor cell differentiation  immunoglobulin biosynthetic process involved in immune response  immune response in brain or nervous system  inflammatory response to antigenic stimulus  T cell antigen processing and presentation  regulation of immunoglobulin production  heart morphogenesis  heart process  atrial cardiac muscle tissue development  double-stranded DNA binding  single-stranded DNA binding  nuclear envelope  endoplasmic reticulum membrane  cytosol  generation of precursor metabolites and energy  regulation of glycolytic process  DNA metabolic process  DNA replication  DNA repair  mismatch repair  DNA modification  DNA catabolic process  DNA recombination  oligosaccharyltransferase complex  3'-5'-exodeoxyribonuclease activity  3'-5'-exodeoxyribonuclease activity  DNA binding, bending  determination of adult lifespan  3'-5' exonuclease activity  3'-5' exonuclease activity  exodeoxyribonuclease III activity  regulation of gene expression  regulation of fatty acid metabolic process  transposition, RNA-mediated  MutLalpha complex binding  MutSalpha complex binding  regulation of type I interferon production  DNA duplex unwinding  adenyl deoxyribonucleotide binding  interferon-alpha production  regulation of tumor necrosis factor production  protein-DNA complex  cellular response to reactive oxygen species  cellular response to interferon-beta  CD86 biosynthetic process  protein homodimerization activity  protein homodimerization activity  apoptotic cell clearance  regulation of cellular respiration  nuclear replication fork  establishment of protein localization  metal ion binding  metal ion binding  regulation of lipid biosynthetic process  WW domain binding  regulation of inflammatory response  regulation of catalytic activity  protein stabilization  regulation of T cell activation  defense response to virus  type I interferon signaling pathway  negative regulation of type I interferon-mediated signaling pathway  regulation of protein complex stability  cellular response to gamma radiation  detection of stimulus involved in cell cycle checkpoint  detection of DNA damage stimulus involved in DNA damage checkpoint  signal transduction involved in DNA damage checkpoint  cellular response to hydroxyurea  nucleic acid phosphodiester bond hydrolysis  immune complex formation  DNA synthesis involved in UV-damage excision repair  regulation of lysosome organization  
Ontology : EGO-EBImagnesium ion binding  blood vessel development  kidney development  activation of immune response  macrophage activation involved in immune response  lymphoid progenitor cell differentiation  immunoglobulin biosynthetic process involved in immune response  immune response in brain or nervous system  inflammatory response to antigenic stimulus  T cell antigen processing and presentation  regulation of immunoglobulin production  heart morphogenesis  heart process  atrial cardiac muscle tissue development  double-stranded DNA binding  single-stranded DNA binding  nuclear envelope  endoplasmic reticulum membrane  cytosol  generation of precursor metabolites and energy  regulation of glycolytic process  DNA metabolic process  DNA replication  DNA repair  mismatch repair  DNA modification  DNA catabolic process  DNA recombination  oligosaccharyltransferase complex  3'-5'-exodeoxyribonuclease activity  3'-5'-exodeoxyribonuclease activity  DNA binding, bending  determination of adult lifespan  3'-5' exonuclease activity  3'-5' exonuclease activity  exodeoxyribonuclease III activity  regulation of gene expression  regulation of fatty acid metabolic process  transposition, RNA-mediated  MutLalpha complex binding  MutSalpha complex binding  regulation of type I interferon production  DNA duplex unwinding  adenyl deoxyribonucleotide binding  interferon-alpha production  regulation of tumor necrosis factor production  protein-DNA complex  cellular response to reactive oxygen species  cellular response to interferon-beta  CD86 biosynthetic process  protein homodimerization activity  protein homodimerization activity  apoptotic cell clearance  regulation of cellular respiration  nuclear replication fork  establishment of protein localization  metal ion binding  metal ion binding  regulation of lipid biosynthetic process  WW domain binding  regulation of inflammatory response  regulation of catalytic activity  protein stabilization  regulation of T cell activation  defense response to virus  type I interferon signaling pathway  negative regulation of type I interferon-mediated signaling pathway  regulation of protein complex stability  cellular response to gamma radiation  detection of stimulus involved in cell cycle checkpoint  detection of DNA damage stimulus involved in DNA damage checkpoint  signal transduction involved in DNA damage checkpoint  cellular response to hydroxyurea  nucleic acid phosphodiester bond hydrolysis  immune complex formation  DNA synthesis involved in UV-damage excision repair  regulation of lysosome organization  
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
HOGENOMQ9NSU2
Homologs : HomoloGeneTREX1
Homology/Alignments : Family Browser (UCSC)TREX1
Gene fusions - Rearrangements
Fusion : QuiverTREX1
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)ENSG00000213689
GNOMAD BrowserENSG00000213689
Varsome BrowserTREX1
Genetic variants : HAPMAP11277
Genomic Variants (DGV)TREX1 [DGVbeta]
DECIPHERTREX1 [patients]   [syndromes]   [variants]   [genes]  
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]  
Somatic Mutations in Cancer : COSMIC3DTREX1
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] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM152700    192315    225750    606609    610448   
Orphanet1309    3015    10818    11013    11994   
DisGeNETTREX1
MedgenTREX1
Genetic Testing Registry TREX1
NextProtQ9NSU2 [Medical]
TSGene11277
GENETestsTREX1
Target ValidationTREX1
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)
DataMed IndexTREX1
Probes
Litterature
PubMed105 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

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Nov 13 18:13:00 CET 2019

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