Xrn1 (5'-3' exoribonuclease 1) - Rat Genome Database

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Gene: Xrn1 (5'-3' exoribonuclease 1) Rattus norvegicus
Analyze
Symbol: Xrn1
Name: 5'-3' exoribonuclease 1
RGD ID: 1309713
Description: Predicted to enable 5'-3' RNA exonuclease activity; G-quadruplex DNA binding activity; and RNA binding activity. Involved in several processes, including cellular response to cycloheximide; cellular response to puromycin; and response to testosterone. Located in P-body; dendrite; and neuronal cell body. Human ortholog(s) of this gene implicated in Alzheimer's disease. Orthologous to human XRN1 (5'-3' exoribonuclease 1); PARTICIPATES IN ribosome biogenesis pathway; RNA degradation pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,4-methylenedioxymethamphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 5'-3' exoribonuclease 1-like; LOC100911537; LOC300944; RGD1309713; similar to 5-3 exonuclease
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88105,407,785 - 105,516,967 (+)NCBIGRCr8
mRatBN7.2896,527,871 - 96,637,385 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl896,528,195 - 96,632,739 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8102,194,582 - 102,298,640 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08100,393,834 - 100,497,894 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0898,232,779 - 98,336,841 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08103,774,125 - 103,883,563 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8103,774,358 - 103,878,899 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08103,224,942 - 103,334,089 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48101,018,972 - 101,124,770 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera895,973,269 - 96,077,718 (+)NCBICelera
Cytogenetic Map8q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xrn1RatAlzheimer's disease susceptibilityISOXRN1 (Homo sapiens)11528589DNA:snp:intron:c.1883+365T>C (rs1351965) (human)RGD 
Xrn1RatStaphylococcal Infections susceptibilityISOXRN1 (Homo sapiens)11530009DNA:snp:intron:c.2339+1477G>A (rs7643377) (human)RGD 
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xrn1RatNeurodevelopmental Disorders  ISOXRN1 (Homo sapiens)8554872ClinVar Annotator: match by term: Neurodevelopmental disorderClinVarPMID:25741868

1 to 20 of 65 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xrn1Rat1,2-dimethylhydrazine multiple interactionsISOXrn1 (Mus musculus)6480464Folic Acid inhibits the reaction [1 and 2-Dimethylhydrazine results in decreased expression of XRN1 mRNA]CTDPMID:22206623
Xrn1Rat1,2-dimethylhydrazine decreases expressionISOXrn1 (Mus musculus)64804641 and 2-Dimethylhydrazine results in decreased expression of XRN1 mRNACTDPMID:22206623
Xrn1Rat17alpha-ethynylestradiol increases expressionEXP 6480464Ethinyl Estradiol results in increased expression of XRN1 mRNACTDPMID:29097150
Xrn1Rat17beta-hydroxy-17-methylestra-4,9,11-trien-3-one increases expressionISOXRN1 (Homo sapiens)6480464Metribolone results in increased expression of XRN1 proteinCTDPMID:25797256
Xrn1Rat17beta-hydroxy-17-methylestra-4,9,11-trien-3-one multiple interactionsISOXRN1 (Homo sapiens)6480464MIR204 mRNA inhibits the reaction [Metribolone results in increased expression of XRN1 protein]CTDPMID:25797256
Xrn1Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOXrn1 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of XRN1 mRNACTDPMID:21570461
Xrn1Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of XRN1 mRNACTDPMID:32109520
Xrn1Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOXrn1 (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of XRN1 mRNACTDPMID:21354282
Xrn1Rat2-methylcholine affects expressionISOXRN1 (Homo sapiens)6480464beta-methylcholine affects the expression of XRN1 mRNACTDPMID:21179406
Xrn1Rat3,4-methylenedioxymethamphetamine decreases expressionEXP 6480464N-Methyl-3 and 4-methylenedioxyamphetamine results in decreased expression of XRN1 mRNACTDPMID:30071829
Xrn1Rat4-amino-2,6-dinitrotoluene affects expressionEXP 64804644-amino-2 and 6-dinitrotoluene affects the expression of XRN1 mRNACTDPMID:21346803
Xrn1Ratall-trans-retinoic acid increases expressionISOXRN1 (Homo sapiens)6480464Tretinoin results in increased expression of XRN1 mRNACTDPMID:33167477
Xrn1Ratantirheumatic drug decreases expressionISOXRN1 (Homo sapiens)6480464Antirheumatic Agents results in decreased expression of XRN1 mRNACTDPMID:24449571
Xrn1Rataristolochic acid A decreases expressionISOXRN1 (Homo sapiens)6480464aristolochic acid I results in decreased expression of XRN1 mRNACTDPMID:33212167
Xrn1Ratarsenite(3-) multiple interactionsISOXRN1 (Homo sapiens)6480464arsenite inhibits the reaction [G3BP1 protein binds to XRN1 mRNA]CTDPMID:32406909
Xrn1Ratbenzo[a]pyrene decreases expressionISOXRN1 (Homo sapiens)6480464Benzo(a)pyrene results in decreased expression of XRN1 mRNACTDPMID:20064835
Xrn1Ratbenzo[a]pyrene decreases methylationISOXrn1 (Mus musculus)6480464Benzo(a)pyrene results in decreased methylation of XRN1 intronCTDPMID:27901495
Xrn1Ratbenzo[a]pyrene increases expressionISOXrn1 (Mus musculus)6480464Benzo(a)pyrene results in increased expression of XRN1 mRNACTDPMID:15034205
Xrn1Ratbenzo[a]pyrene multiple interactionsISOXrn1 (Mus musculus)6480464AHR protein inhibits the reaction [Benzo(a)pyrene results in increased expression of XRN1 mRNA]CTDPMID:15034205
Xrn1Ratbis(2-ethylhexyl) phthalate increases expressionISOXrn1 (Mus musculus)6480464Diethylhexyl Phthalate results in increased expression of XRN1 mRNACTDPMID:34319233

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Biological Process
1 to 15 of 15 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xrn1Ratcellular response to cycloheximide  IEP 11085566 RGD 
Xrn1Ratcellular response to puromycin  IEP 12791033 RGD 
Xrn1Rathistone mRNA catabolic process involved_inISOXRN1 (Homo sapiens)1624291 PMID:18172165RGDPMID:18172165
Xrn1Rathistone mRNA catabolic process involved_inIEAUniProtKB:Q8IZH2 and ensembl:ENSP000003767071600115GO_REF:0000107EnsemblGO_REF:0000107
Xrn1Ratnegative regulation of translation  IMP 11085566 RGD 
Xrn1Ratnuclear mRNA surveillance involved_inISOXRN1 (Homo sapiens)1624291 PMID:17545563RGDPMID:17545563
Xrn1Ratnuclear mRNA surveillance involved_inIEAUniProtKB:Q8IZH2 and ensembl:ENSP000003767071600115GO_REF:0000107EnsemblGO_REF:0000107
Xrn1Ratnuclear-transcribed mRNA catabolic process involved_inISOXRN1 (Homo sapiens)1624291 PMID:17545563RGDPMID:17545563
Xrn1Ratnuclear-transcribed mRNA catabolic process involved_inIEAInterPro:IPR0164941600115GO_REF:0000002InterProGO_REF:0000002
Xrn1Ratnuclear-transcribed mRNA catabolic process involved_inIBAFB:FBgn0020261 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Xrn1Ratnuclear-transcribed mRNA catabolic process involved_inIEAUniProtKB:Q8IZH2 and ensembl:ENSP000003767071600115GO_REF:0000107EnsemblGO_REF:0000107
Xrn1Ratresponse to testosterone  IEP 11085566 RGD 
Xrn1RatrRNA catabolic process involved_inISOXRN1 (Homo sapiens)1624291 PMID:20368444RGDPMID:20368444
Xrn1RatrRNA catabolic process involved_inIEAUniProtKB:Q8IZH2 and ensembl:ENSP000003767071600115GO_REF:0000107EnsemblGO_REF:0000107
Xrn1RatrRNA catabolic process involved_inIBAPANTHER:PTN004352441 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
1 to 15 of 15 rows

Cellular Component
1 to 10 of 10 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xrn1Ratcytoplasm located_inISOXrn1 (Mus musculus)1624291 PMID:9049243RGDPMID:9049243
Xrn1Ratcytosol located_inISOXRN1 (Homo sapiens) more ...1624291 RGDGO_REF:0000052
Xrn1Ratcytosol located_inIEAUniProtKB:Q8IZH2 and ensembl:ENSP000003767071600115GO_REF:0000107EnsemblGO_REF:0000107
Xrn1Ratdendrite  IDA 11085566 RGD 
Xrn1Ratneuronal cell body  IDA 11085566 RGD 
Xrn1Ratnucleus is_active_inIBAFB:FBgn0031868 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Xrn1RatP-body  IDA 12791034 RGD 
Xrn1RatP-body located_inISOXrn1 (Mus musculus)1624291 PMID:18625844RGDPMID:18625844
Xrn1Ratplasma membrane located_inISOXRN1 (Homo sapiens) more ...1624291 RGDGO_REF:0000052
Xrn1Ratplasma membrane located_inIEAUniProtKB:Q8IZH2 and ensembl:ENSP000003767071600115GO_REF:0000107EnsemblGO_REF:0000107
1 to 10 of 10 rows

Molecular Function
1 to 17 of 17 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xrn1Rat5'-3' exonuclease activity enablesIEAInterPro:IPR0164941600115GO_REF:0000002InterProGO_REF:0000002
Xrn1Rat5'-3' RNA exonuclease activity enablesISOXRN1 (Homo sapiens)1624291 PMID:26950371RGDPMID:26950371
Xrn1Rat5'-3' RNA exonuclease activity enablesIEAUniProtKB:Q8IZH2 and ensembl:ENSP000003767071600115GO_REF:0000107EnsemblGO_REF:0000107
Xrn1Rat5'-3' RNA exonuclease activity enablesIBACGD:CAL0000180194 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Xrn1Rat5'-3' RNA exonuclease activity enablesISOXrn1 (Mus musculus)1624291 PMID:9049243RGDPMID:9049243
Xrn1Ratexonuclease activity enablesIEAUniProtKB-KW:KW-02691600115GO_REF:0000043UniProtGO_REF:0000043
Xrn1Ratexonuclease activity enablesIEAInterPro:IPR0048591600115GO_REF:0000002InterProGO_REF:0000002
Xrn1RatG-quadruplex DNA binding enablesISOXrn1 (Mus musculus)1624291 PMID:9049243RGDPMID:9049243
Xrn1RatG-quadruplex RNA binding enablesISOXrn1 (Mus musculus)1624291 PMID:9049243RGDPMID:9049243
Xrn1Rathydrolase activity enablesIEAUniProtKB-KW:KW-03781600115GO_REF:0000043UniProtGO_REF:0000043
Xrn1Ratnuclease activity enablesIEAUniProtKB-KW:KW-05401600115GO_REF:0000043UniProtGO_REF:0000043
Xrn1Ratnucleic acid binding enablesIEAInterPro:IPR0048591600115GO_REF:0000002InterProGO_REF:0000002
Xrn1Ratprotein binding enablesISOXRN1 (Homo sapiens)1624291UniProtKB:P26651 more ...RGDPMID:15687258 more ...
Xrn1Ratprotein binding enablesISOXrn1 (Mus musculus)1624291UniProtKB:B2RR83 and PMID:29033321RGDPMID:29033321
Xrn1RatRNA binding enablesIBAMGI:891964 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Xrn1Rattelomerase RNA binding enablesISOXRN1 (Homo sapiens)1624291RNAcentral:URS00004A7003_9606 PMID:26950371RGDPMID:26950371
Xrn1Rattelomerase RNA binding enablesIEAUniProtKB:Q8IZH2 and ensembl:ENSP000003767071600115GO_REF:0000107EnsemblGO_REF:0000107
1 to 17 of 17 rows

Imported Annotations - KEGG (archival)

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xrn1Ratribosome biogenesis pathway   IEA 6907045 KEGGrno:03008
Xrn1RatRNA degradation pathway  IEA 6907045 KEGGrno:03018

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#
Reference Title
Reference Citation
1. A dual yet opposite growth-regulating function of miR-204 and its target XRN1 in prostate adenocarcinoma cells and neuroendocrine-like prostate cancer cells. Ding M, etal., Oncotarget. 2015 Apr 10;6(10):7686-700.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Synaptic control of mRNA translation by reversible assembly of XRN1 bodies. Luchelli L, etal., J Cell Sci. 2015 Apr 15;128(8):1542-54. doi: 10.1242/jcs.163295. Epub 2015 Mar 3.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
10. Beta-amyloid toxicity modifier genes and the risk of Alzheimer's disease. Rosenthal SL, etal., Am J Neurodegener Dis. 2012;1(2):191-8.
11. A monoclonal antibody against p53 cross-reacts with processing bodies. Thomas MG, etal., PLoS One. 2012;7(5):e36447. doi: 10.1371/journal.pone.0036447. Epub 2012 May 10.
12. Genome wide association study of SNP-, gene-, and pathway-based approaches to identify genes influencing susceptibility to Staphylococcus aureus infections. Ye Z, etal., Front Genet. 2014 May 9;5:125. doi: 10.3389/fgene.2014.00125. eCollection 2014.
1 to 12 of 12 rows
PMID:9049243   PMID:17545563   PMID:18172165   PMID:18625844   PMID:19946888   PMID:20368444   PMID:22658674   PMID:22681889   PMID:26950371  



Xrn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88105,407,785 - 105,516,967 (+)NCBIGRCr8
mRatBN7.2896,527,871 - 96,637,385 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl896,528,195 - 96,632,739 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8102,194,582 - 102,298,640 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08100,393,834 - 100,497,894 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0898,232,779 - 98,336,841 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08103,774,125 - 103,883,563 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8103,774,358 - 103,878,899 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08103,224,942 - 103,334,089 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48101,018,972 - 101,124,770 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera895,973,269 - 96,077,718 (+)NCBICelera
Cytogenetic Map8q31NCBI
XRN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383142,306,610 - 142,448,037 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3142,306,607 - 142,448,062 (-)EnsemblGRCh38hg38GRCh38
GRCh373142,025,452 - 142,166,879 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363143,508,139 - 143,649,543 (-)NCBINCBI36Build 36hg18NCBI36
Build 343143,508,149 - 143,649,551NCBI
Celera3140,448,929 - 140,590,249 (-)NCBICelera
Cytogenetic Map3q23NCBI
HuRef3139,398,527 - 139,539,986 (-)NCBIHuRef
CHM1_13141,988,482 - 142,129,875 (-)NCBICHM1_1
T2T-CHM13v2.03145,053,903 - 145,195,321 (-)NCBIT2T-CHM13v2.0
Xrn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39995,836,803 - 95,939,859 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl995,836,813 - 95,939,856 (+)EnsemblGRCm39 Ensembl
GRCm38995,954,750 - 96,057,806 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl995,954,760 - 96,057,803 (+)EnsemblGRCm38mm10GRCm38
MGSCv37995,855,179 - 95,953,453 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36995,764,221 - 95,861,980 (+)NCBIMGSCv36mm8
Celera995,521,247 - 95,619,349 (+)NCBICelera
Cytogenetic Map9E3.3NCBI
Xrn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555083,441,683 - 3,561,805 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555083,441,540 - 3,561,896 (+)NCBIChiLan1.0ChiLan1.0
XRN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22140,215,062 - 140,359,614 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13140,219,799 - 140,364,357 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03139,337,337 - 139,481,479 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13146,930,988 - 147,073,827 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3146,930,988 - 147,073,827 (-)Ensemblpanpan1.1panPan2
XRN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12338,031,633 - 38,131,413 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2338,032,841 - 38,131,293 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2338,020,211 - 38,058,721 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02338,560,332 - 38,663,551 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2338,564,712 - 38,663,541 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12338,242,400 - 38,345,593 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02338,319,385 - 38,422,540 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02338,563,654 - 38,666,694 (-)NCBIUU_Cfam_GSD_1.0
Xrn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560277,219,073 - 77,333,675 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365403,963,387 - 4,073,322 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365403,959,156 - 4,073,785 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
XRN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1383,065,957 - 83,174,477 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11383,063,810 - 83,174,497 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21390,871,657 - 90,977,467 (-)NCBISscrofa10.2Sscrofa10.2susScr3
XRN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11548,174,262 - 48,310,527 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1548,174,316 - 48,305,641 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604121,109,515 - 21,245,814 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Xrn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473018,907,959 - 19,020,724 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473018,903,506 - 19,021,392 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Xrn1
318 total Variants


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain Variant Page
8 103251212 103251213 G A snv ZFDM (KyushuU) View more Information

Predicted Target Of
Summary Value
Count of predictions:187
Count of miRNA genes:132
Interacting mature miRNAs:145
Transcripts:ENSRNOT00000014481, ENSRNOT00000074705
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


1 to 10 of 44 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)854259986100382532Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat

1 to 10 of 44 rows
RH133436  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2896,632,348 - 96,632,540 (+)MAPPERmRatBN7.2
Rnor_6.08103,878,527 - 103,878,718NCBIRnor6.0
Rnor_5.08103,329,053 - 103,329,244UniSTSRnor5.0
RGSC_v3.48101,124,199 - 101,124,390UniSTSRGSC3.4
Celera896,077,315 - 96,077,506UniSTS
RH 3.4 Map81052.7UniSTS
Cytogenetic Map8q31UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31


1 to 21 of 21 rows
RefSeq Transcripts NM_001305240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243596 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243599 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766573 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081170 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081173 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063265209 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063265210 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063265211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063265212 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_217233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010053953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_594087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
1 to 21 of 21 rows

Ensembl Acc Id: ENSRNOT00000014481   ⟹   ENSRNOP00000014481
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl896,528,195 - 96,632,739 (+)Ensembl
Rnor_6.0 Ensembl8103,774,358 - 103,878,899 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000102470   ⟹   ENSRNOP00000077966
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl896,528,292 - 96,584,614 (+)Ensembl
RefSeq Acc Id: NM_001305240   ⟹   NP_001292169
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,785 - 105,512,334 (+)NCBI
mRatBN7.2896,528,195 - 96,632,752 (+)NCBI
Rnor_6.08103,774,378 - 103,878,930 (+)NCBI
Celera895,973,269 - 96,077,718 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243594   ⟹   XP_006243656
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,516,967 (+)NCBI
mRatBN7.2896,527,875 - 96,637,385 (+)NCBI
Rnor_6.08103,774,127 - 103,883,563 (+)NCBI
Rnor_5.08103,224,942 - 103,334,089 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243596   ⟹   XP_006243658
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,516,967 (+)NCBI
mRatBN7.2896,527,871 - 96,637,385 (+)NCBI
Rnor_6.08103,774,126 - 103,883,563 (+)NCBI
Rnor_5.08103,224,942 - 103,334,089 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243598   ⟹   XP_006243660
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,516,967 (+)NCBI
mRatBN7.2896,527,873 - 96,637,385 (+)NCBI
Rnor_6.08103,774,127 - 103,883,563 (+)NCBI
Rnor_5.08103,224,942 - 103,334,089 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008766573   ⟹   XP_008764795
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,459,010 (+)NCBI
mRatBN7.2896,527,874 - 96,579,513 (+)NCBI
Rnor_6.08103,774,384 - 103,825,662 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039081170   ⟹   XP_038937098
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,516,967 (+)NCBI
mRatBN7.2896,527,873 - 96,637,385 (+)NCBI
RefSeq Acc Id: XM_039081171   ⟹   XP_038937099
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,516,967 (+)NCBI
mRatBN7.2896,527,875 - 96,637,385 (+)NCBI
RefSeq Acc Id: XM_039081172   ⟹   XP_038937100
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,485,552 (+)NCBI
mRatBN7.2896,527,872 - 96,605,961 (+)NCBI
RefSeq Acc Id: XM_039081173   ⟹   XP_038937101
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,436,854 - 105,516,967 (+)NCBI
mRatBN7.2896,557,267 - 96,637,385 (+)NCBI
RefSeq Acc Id: XM_063265209   ⟹   XP_063121279
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,516,967 (+)NCBI
RefSeq Acc Id: XM_063265210   ⟹   XP_063121280
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,516,967 (+)NCBI
RefSeq Acc Id: XM_063265211   ⟹   XP_063121281
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,422,079 - 105,516,967 (+)NCBI
RefSeq Acc Id: XM_063265212   ⟹   XP_063121282
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,459,010 (+)NCBI
RefSeq Acc Id: XM_217233   ⟹   XP_217233
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,516,967 (+)NCBI
mRatBN7.2896,527,879 - 96,637,385 (+)NCBI
Rnor_6.08103,774,127 - 103,883,563 (+)NCBI
Rnor_5.08103,224,942 - 103,334,089 (+)NCBI
RGSC_v3.48101,018,972 - 101,124,770 (+)RGD
Sequence:
RefSeq Acc Id: XR_010053953
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88105,407,863 - 105,440,738 (+)NCBI
1 to 5 of 16 rows
1 to 5 of 16 rows
RefSeq Acc Id: XP_217233   ⟸   XM_217233
- Peptide Label: isoform X4
- UniProtKB: D4ABN8 (UniProtKB/TrEMBL),   A6I270 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243656   ⟸   XM_006243594
- Peptide Label: isoform X1
- UniProtKB: A6I270 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243658   ⟸   XM_006243596
- Peptide Label: isoform X3
- UniProtKB: A6I270 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243660   ⟸   XM_006243598
- Peptide Label: isoform X6
- UniProtKB: A6I270 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008764795   ⟸   XM_008766573
- Peptide Label: isoform X12
- UniProtKB: A0A8I5XWP1 (UniProtKB/TrEMBL)
- Sequence:
5'-3' exoribonuclease 1 D1   5'-3' exoribonuclease 1 SH3-like   Exoribonuclease Xrn1 D2/D3   Xrn1 helical   Xrn1 N-terminal

Name Modeler Protein Id AA Range Protein Structure
AF-D4ABN8-F1-model_v2 AlphaFold D4ABN8 1-1723 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13696189
Promoter ID:EPDNEW_R6714
Type:initiation region
Name:Xrn1_1
Description:5'-3' exoribonuclease 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08103,774,421 - 103,774,481EPDNEW


1 to 34 of 34 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-29468 BioCyc
Ensembl Genes ENSRNOG00000042951 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014481 ENTREZGENE
  ENSRNOT00000014481.9 UniProtKB/TrEMBL
  ENSRNOT00000102470 ENTREZGENE
  ENSRNOT00000102470.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.1050 UniProtKB/TrEMBL
  2.170.260.40 UniProtKB/TrEMBL
  2.30.30.750 UniProtKB/TrEMBL
  3.40.50.12390 UniProtKB/TrEMBL
InterPro 5_3_exoribonuclease UniProtKB/TrEMBL
  5_3_exoribonuclease_1 UniProtKB/TrEMBL
  Put_53exo UniProtKB/TrEMBL
  SH3_12 UniProtKB/TrEMBL
  XRN1_D1 UniProtKB/TrEMBL
  XRN1_D1_sf UniProtKB/TrEMBL
  XRN1_D2_D3 UniProtKB/TrEMBL
  Xrn1_helical UniProtKB/TrEMBL
  XRN1_SH3_sf UniProtKB/TrEMBL
NCBI Gene 300944 ENTREZGENE
PANTHER 5'-3' EXORIBONUCLEASE 1 UniProtKB/TrEMBL
  PTHR12341 UniProtKB/TrEMBL
Pfam SH3_12 UniProtKB/TrEMBL
  XRN1_D1 UniProtKB/TrEMBL
  XRN1_D2_D3 UniProtKB/TrEMBL
  XRN_M UniProtKB/TrEMBL
  XRN_N UniProtKB/TrEMBL
PhenoGen Xrn1 PhenoGen
PIRSF Exonuclease_Xnr1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000042951 RatGTEx
Superfamily-SCOP dsRNA-binding domain-like UniProtKB/TrEMBL
UniProt A0A8I5XWP1 ENTREZGENE, UniProtKB/TrEMBL
  A6I270 ENTREZGENE, UniProtKB/TrEMBL
  D4ABN8 ENTREZGENE, UniProtKB/TrEMBL
1 to 34 of 34 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Xrn1  5'-3' exoribonuclease 1  LOC100911537  5'-3' exoribonuclease 1-like  Data merged from RGD:6492433 737654 PROVISIONAL
2012-07-05 LOC100911537  5'-3' exoribonuclease 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Xrn1  5'-3' exoribonuclease 1   Xrn1_predicted  5'-3' exoribonuclease 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Xrn1_predicted  5'-3' exoribonuclease 1 (predicted)  RGD1309713_predicted  similar to 5-3 exonuclease (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1309713_predicted  similar to 5-3 exonuclease (predicted)  LOC300944_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC300944_predicted  similar to 5-3 exonuclease (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL