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TREX1 three prime repair exonuclease 1 [ Homo sapiens (human) ]

Gene ID: 11277, updated on 17-Jan-2022

Summary

Official Symbol
TREX1provided by HGNC
Official Full Name
three prime repair exonuclease 1provided by HGNC
Primary source
HGNC:HGNC:12269
See related
Ensembl:ENSG00000213689 MIM:606609
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CRV; AGS1; DRN3; HERNS; RVCLS
Summary
This gene encodes a nuclear protein with 3' exonuclease activity. The encoded protein may play a role in DNA repair and serve as a proofreading function for DNA polymerase. Mutations in this gene result in Aicardi-Goutieres syndrome, chilblain lupus, Cree encephalitis, and other diseases of the immune system. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2012]
Annotation information
Note: GeneID 11277 was annotated as a single gene with two non-overlapping coding regions. GeneID 11277 now represents only the downstream coding region encoding three prime repair exonuclease 1. The upstream coding region is represented by geneID 84126. [29 May 2007]
Expression
Ubiquitous expression in spleen (RPKM 9.5), lymph node (RPKM 7.7) and 25 other tissues See more
Orthologs
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Genomic context

See TREX1 in Genome Data Viewer
Location:
3p21.31
Exon count:
3
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (48465830..48467645)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (48507229..48509044)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene plexin B1 Neighboring gene uncharacterized LOC105377077 Neighboring gene coiled-coil domain containing 51 Neighboring gene ATRIP-TREX1 readthrough Neighboring gene translation machinery associated 7 homolog Neighboring gene ATR interacting protein Neighboring gene shisa family member 5 Neighboring gene 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4 Neighboring gene microRNA 6823

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 replication requires TREX1 expression in human cervicovaginal explants as shown through TREX1 knockdown PubMed
SiRNA-mediated knockdown of one of the components of the SET complex, TREX1, inhibits HIV-1 infection with significantly reduced levels of integrated HIV-1 DNA and viral production in HeLa-CD4 cells, human cervicovaginal explants or humanized mice PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough ATRIP-TREX1

Readthrough gene: ATRIP-TREX1, Included gene: ATRIP

Homology

Clone Names

  • DKFZp434J0310

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 3'-5' exonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
enables 3'-5'-exodeoxyribonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables 3'-5'-exodeoxyribonuclease activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables DNA binding, bending IEA
Inferred from Electronic Annotation
more info
 
enables MutLalpha complex binding IDA
Inferred from Direct Assay
more info
 
enables MutSalpha complex binding IDA
Inferred from Direct Assay
more info
 
enables WW domain binding IEA
Inferred from Electronic Annotation
more info
 
enables adenyl deoxyribonucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables double-stranded DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables exodeoxyribonuclease III activity IDA
Inferred from Direct Assay
more info
PubMed 
enables magnesium ion binding IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding NAS
Non-traceable Author Statement
more info
PubMed 
enables protein homodimerization activity IEA
Inferred from Electronic Annotation
more info
 
enables single-stranded DNA binding TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
involved_in CD86 biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
involved_in DNA catabolic process, exonucleolytic IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in DNA duplex unwinding IEA
Inferred from Electronic Annotation
more info
 
involved_in DNA metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in DNA modification IEA
Inferred from Electronic Annotation
more info
 
involved_in DNA recombination NAS
Non-traceable Author Statement
more info
PubMed 
involved_in DNA repair TAS
Traceable Author Statement
more info
PubMed 
involved_in DNA replication NAS
Non-traceable Author Statement
more info
PubMed 
involved_in DNA synthesis involved in UV-damage excision repair IEA
Inferred from Electronic Annotation
more info
 
involved_in T cell antigen processing and presentation IEA
Inferred from Electronic Annotation
more info
 
involved_in activation of immune response IEA
Inferred from Electronic Annotation
more info
 
involved_in apoptotic cell clearance IEA
Inferred from Electronic Annotation
more info
 
involved_in atrial cardiac muscle tissue development IEA
Inferred from Electronic Annotation
more info
 
involved_in blood vessel development IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to gamma radiation IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to hydroxyurea IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to interferon-beta IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to reactive oxygen species IEA
Inferred from Electronic Annotation
more info
 
involved_in defense response to virus IEA
Inferred from Electronic Annotation
more info
 
involved_in determination of adult lifespan IEA
Inferred from Electronic Annotation
more info
 
involved_in establishment of protein localization IEA
Inferred from Electronic Annotation
more info
 
involved_in generation of precursor metabolites and energy IEA
Inferred from Electronic Annotation
more info
 
involved_in heart morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in heart process IEA
Inferred from Electronic Annotation
more info
 
involved_in immune complex formation IEA
Inferred from Electronic Annotation
more info
 
involved_in immune response in brain or nervous system IEA
Inferred from Electronic Annotation
more info
 
involved_in inflammatory response to antigenic stimulus IEA
Inferred from Electronic Annotation
more info
 
involved_in kidney development IEA
Inferred from Electronic Annotation
more info
 
involved_in lymphoid progenitor cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in macrophage activation involved in immune response IEA
Inferred from Electronic Annotation
more info
 
involved_in mismatch repair NAS
Non-traceable Author Statement
more info
PubMed 
involved_in mitotic G1 DNA damage checkpoint signaling IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of innate immune response IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of type I interferon-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in protein stabilization IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of T cell activation IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of catalytic activity IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of cellular respiration IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of fatty acid metabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of glycolytic process IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of immunoglobulin production IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of inflammatory response IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of lipid biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of lysosome organization IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of protein complex stability IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of tumor necrosis factor production IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of type I interferon production IEA
Inferred from Electronic Annotation
more info
 
involved_in transposition, RNA-mediated IEA
Inferred from Electronic Annotation
more info
 
involved_in type I interferon signaling pathway IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in endoplasmic reticulum membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
located_in nuclear envelope NAS
Non-traceable Author Statement
more info
PubMed 
located_in nuclear replication fork IEA
Inferred from Electronic Annotation
more info
 
part_of oligosaccharyltransferase complex IEA
Inferred from Electronic Annotation
more info
 
part_of protein-DNA complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
three-prime repair exonuclease 1
Names
3' repair exonuclease 1
3'-5' exonuclease TREX1
DNase III
deoxyribonuclease III
NP_009179.2
NP_338599.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_009820.2 RefSeqGene

    Range
    5401..6816
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_282

mRNA and Protein(s)

  1. NM_007248.5NP_009179.2  three-prime repair exonuclease 1 isoform c

    See identical proteins and their annotated locations for NP_009179.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses an alternate splice site in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The resulting isoform (c) has a shorter N-terminus, compared to isoform a.
    Source sequence(s)
    AC134772, AF319566, AF319569, AJ243797, BT020053, W24304
    Consensus CDS
    CCDS59451.1
    UniProtKB/Swiss-Prot
    Q9NSU2
    UniProtKB/TrEMBL
    Q5TZT0
    Related
    ENSP00000415972.1, ENST00000444177.1
    Conserved Domains (1) summary
    cl10012
    Location:4201
    DnaQ_like_exo; DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily
  2. NM_033629.6NP_338599.1  three-prime repair exonuclease 1 isoform b

    See identical proteins and their annotated locations for NP_338599.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The resulting isoform (b) has a shorter N-terminus, compared to isoform a.
    Source sequence(s)
    AF319569, AL137745, BT020053
    Consensus CDS
    CCDS2769.1
    UniProtKB/Swiss-Prot
    Q9NSU2
    Related
    ENSP00000486676.2, ENST00000625293.3
    Conserved Domains (1) summary
    cl10012
    Location:14211
    DnaQ_like_exo; DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    48465830..48467645
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_016381.5: Suppressed sequence

    Description
    NM_016381.5: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
  2. NM_033627.3: Suppressed sequence

    Description
    NM_033627.3: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript, which represents a rare readthrough event.
  3. NM_033628.2: Suppressed sequence

    Description
    NM_033628.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript, which represents a rare readthrough event.
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