Trex1 three prime repair exonuclease 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Trex1provided by RGD
Official Full Name: three prime repair exonuclease 1provided by RGD
Primary source: RGD:1311998
See related: Ensembl:ENSRNOG00000022540 AllianceGenome:RGD:1311998
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1309596
Summary: Predicted to enable several functions, including DNA binding activity; WW domain binding activity; and mismatch repair complex binding activity. Predicted to be involved in DNA catabolic process, exonucleolytic. Predicted to act upstream of or within several processes, including DNA metabolic process; cellular response to cytokine stimulus; and regulation of generation of precursor metabolites and energy. Predicted to be located in cytosol; endoplasmic reticulum; and nuclear replication fork. Predicted to be part of oligosaccharyltransferase complex and protein-DNA complex. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in Aicardi-Goutieres syndrome; Chilblain lupus; retinal vasculopathy with cerebral leukodystrophy; and systemic lupus erythematosus. Orthologous to human TREX1 (three prime repair exonuclease 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 103.4), Spleen (RPKM 99.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q32

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (118585082..118586382, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (109706613..109707913, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (117796127..117797427, complement)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

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Markers

BE101097 (e-PCR)
- UniSTS:243500

RH131155 (e-PCR)
- UniSTS:214438

AU041952 (e-PCR)
- UniSTS:159920

RH129942 (e-PCR)
- UniSTS:213230

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 3'-5' exonuclease activity	ISO Inferred from Sequence Orthology more info
enables 3'-5'-DNA exonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables 3'-5'-DNA exonuclease activity	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA binding, bending	ISO Inferred from Sequence Orthology more info
enables MutLalpha complex binding	ISO Inferred from Sequence Orthology more info
enables MutSalpha complex binding	ISO Inferred from Sequence Orthology more info
enables WW domain binding	ISO Inferred from Sequence Orthology more info
enables adenyl deoxyribonucleotide binding	ISO Inferred from Sequence Orthology more info
enables double-stranded DNA 3'-5' DNA exonuclease activity	ISO Inferred from Sequence Orthology more info
enables double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables magnesium ion binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within CD86 biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in DNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within DNA catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA damage response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA duplex unwinding	ISO Inferred from Sequence Orthology more info
involved_in DNA metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA modification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA replication	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA synthesis involved in UV-damage excision repair	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell antigen processing and presentation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within activation of immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within adaptive immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within apoptotic cell clearance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within atrial cardiac muscle tissue development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within blood vessel development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to UV	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to gamma radiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to hydroxyurea	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to interferon-beta	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to organic substance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to oxidative stress	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to reactive oxygen species	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to type I interferon	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within defense response to virus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within determination of adult lifespan	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of protein localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within generation of precursor metabolites and energy	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immune complex formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immune response in brain or nervous system	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inflammatory response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inflammatory response to antigenic stimulus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within innate immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymphoid progenitor cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within macrophage activation involved in immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mitotic G1 DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cGAS/STING signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of innate immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of type I interferon-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within organ or tissue specific immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein stabilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of T cell activation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of cellular respiration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of fatty acid metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of glycolytic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of immunoglobulin production	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of innate immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of lipid biosynthetic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of lysosome organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of protein complex stability	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of type I interferon production	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to UV	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retrotransposition	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within type I interferon-mediated signaling pathway	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in nuclear replication fork	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of oligosaccharyltransferase complex	ISO Inferred from Sequence Orthology more info
part_of protein-DNA complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: three-prime repair exonuclease 1

NP_001020160.1

EC 3.1.11.2

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

NM_001024989.1 → NP_001020160.1 three-prime repair exonuclease 1

See identical proteins and their annotated locations for NP_001020160.1

Status: PROVISIONAL

Source sequence(s)

BC091242

UniProtKB/TrEMBL

F7F432, Q5BK16

Related

ENSRNOP00000034541.3, ENSRNOT00000033719.6

Conserved Domains (1) summary

cd06136
Location:14 → 211

TREX1_2; DEDDh 3'-5' exonuclease domain of three prime repair exonuclease (TREX)1, TREX2, and similar proteins