Trex1 (three prime repair exonuclease 1) - Rat Genome Database

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Pathways
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Gene: Trex1 (three prime repair exonuclease 1) Chinchilla lanigera
Analyze
Symbol: Trex1
Name: three prime repair exonuclease 1
RGD ID: 8988706
Description: ENCODES a protein that exhibits 3'-5' exonuclease activity (ortholog); 3'-5'-DNA exonuclease activity (ortholog); adenyl deoxyribonucleotide binding (ortholog); INVOLVED IN activation of immune response (ortholog); adaptive immune response (ortholog); apoptotic cell clearance (ortholog); PARTICIPATES IN DNA replication pathway; G2/M DNA damage checkpoint pathway; ASSOCIATED WITH Aicardi-Goutieres syndrome (ortholog); Aicardi-Goutieres Syndrome 1 (ortholog); brain disease (ortholog); FOUND IN cytoplasm (ortholog); cytosol (ortholog); endoplasmic reticulum (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: three-prime repair exonuclease 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955532533,877 - 535,767 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955532533,877 - 535,767 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Trex1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955532533,877 - 535,767 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955532533,877 - 535,767 (+)NCBIChiLan1.0ChiLan1.0
TREX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38348,465,830 - 48,467,645 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl348,465,811 - 48,467,645 (+)EnsemblGRCh38hg38GRCh38
GRCh37348,507,229 - 48,509,044 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36348,482,233 - 48,484,048 (+)NCBINCBI36Build 36hg18NCBI36
Build 34348,463,221 - 48,482,058NCBI
Celera348,458,088 - 48,459,903 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef348,560,949 - 48,563,074 (+)NCBIHuRef
CHM1_1348,459,219 - 48,461,344 (+)NCBICHM1_1
T2T-CHM13v2.0348,493,835 - 48,495,650 (+)NCBIT2T-CHM13v2.0
Trex1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399108,887,000 - 108,888,791 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9108,887,001 - 108,888,802 (-)EnsemblGRCm39 Ensembl
GRCm389109,057,932 - 109,059,723 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9109,057,933 - 109,059,734 (-)EnsemblGRCm38mm10GRCm38
MGSCv379108,960,446 - 108,962,237 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369108,915,338 - 108,917,129 (-)NCBIMGSCv36mm8
Celera9108,616,714 - 108,618,505 (-)NCBICelera
Cytogenetic Map9F2NCBI
cM Map959.63NCBI
Trex1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88118,585,082 - 118,586,382 (-)NCBIGRCr8
mRatBN7.28109,706,613 - 109,707,913 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8109,706,613 - 109,708,796 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8115,321,502 - 115,322,802 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08113,520,676 - 113,521,976 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08111,363,483 - 111,364,783 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08117,796,127 - 117,797,427 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8117,796,128 - 117,797,427 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08117,147,872 - 117,149,172 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48114,071,508 - 114,072,509 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18114,092,776 - 114,106,801 (-)NCBI
Celera8108,998,058 - 108,999,059 (-)NCBICelera
Cytogenetic Map8q32NCBI
TREX1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2248,440,555 - 48,442,557 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1348,445,488 - 48,447,908 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0348,387,762 - 48,389,693 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1349,469,406 - 49,471,371 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl349,470,222 - 49,471,331 (+)Ensemblpanpan1.1panPan2
TREX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12040,624,845 - 40,626,840 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2040,624,891 - 40,626,906 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2040,542,323 - 40,544,332 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02041,110,233 - 41,112,242 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2041,107,235 - 41,112,226 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12040,347,667 - 40,349,676 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02040,752,252 - 40,754,261 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02041,032,948 - 41,034,957 (-)NCBIUU_Cfam_GSD_1.0
Trex1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560263,503,993 - 63,505,949 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936529264,468 - 266,422 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936529264,535 - 266,451 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TREX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1331,179,291 - 31,180,747 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11331,177,604 - 31,180,764 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21334,561,987 - 34,563,735 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TREX1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1229,869,502 - 9,871,659 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041157,219,548 - 157,221,411 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trex1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247302,431,999 - 2,432,959 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247302,431,270 - 2,433,010 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000012984   ⟹   ENSCLAP00000012836
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_004955532533,877 - 535,767 (+)Ensembl
RefSeq Acc Id: XM_005410151   ⟹   XP_005410208
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_004955532533,877 - 535,767 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005410208 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000012836.1
RefSeq Acc Id: XP_005410208   ⟸   XM_005410151
- Sequence:
Ensembl Acc Id: ENSCLAP00000012836   ⟸   ENSCLAT00000012984
Protein Domains
Exonuclease


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000008862 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000012984.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.420.10 UniProtKB/TrEMBL
InterPro Exonuclease_RNaseT/DNA_pol3 UniProtKB/TrEMBL
  RNaseH-like_sf UniProtKB/TrEMBL
  RNaseH_sf UniProtKB/TrEMBL
  TREX1/2 UniProtKB/TrEMBL
NCBI Gene Trex1 ENTREZGENE
PANTHER PTHR13058 UniProtKB/TrEMBL
  THREE-PRIME REPAIR EXONUCLEASE 1 UniProtKB/TrEMBL
SMART EXOIII UniProtKB/TrEMBL
Superfamily-SCOP SSF53098 UniProtKB/TrEMBL
UniProt A0A8C2VD10_CHILA UniProtKB/TrEMBL