Trir (telomerase RNA component interacting RNase) - Rat Genome Database

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Gene: Trir (telomerase RNA component interacting RNase) Rattus norvegicus
Analyze
Symbol: Trir
Name: telomerase RNA component interacting RNase
RGD ID: 1564093
Description: Predicted to enable 3'-5' exonuclease activity and 5'-3' exonuclease activity. Predicted to be involved in rRNA catabolic process. Orthologous to human TRIR (telomerase RNA component interacting RNase); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; fipronil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC288920; LOC288920; RGD1564093; similar to RIKEN cDNA 2310036O22; uncharacterized protein C19orf43 homolog; uncharacterized protein LOC288920
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81940,029,952 - 40,033,368 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1940,029,952 - 40,033,368 (-)EnsemblGRCr8
mRatBN7.21923,125,083 - 23,128,502 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1923,125,083 - 23,128,510 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1929,947,673 - 29,951,092 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01930,602,037 - 30,605,456 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01932,824,721 - 32,828,140 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01926,142,720 - 26,146,136 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1926,142,720 - 26,146,136 (+)Ensemblrn6Rnor6.0
Rnor_5.01937,118,343 - 37,121,759 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41924,781,364 - 24,784,781 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1922,683,041 - 22,686,457 (-)NCBICelera
Cytogenetic Map19q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:28322335  


Genomics

Comparative Map Data
Trir
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81940,029,952 - 40,033,368 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1940,029,952 - 40,033,368 (-)EnsemblGRCr8
mRatBN7.21923,125,083 - 23,128,502 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1923,125,083 - 23,128,510 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1929,947,673 - 29,951,092 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01930,602,037 - 30,605,456 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01932,824,721 - 32,828,140 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01926,142,720 - 26,146,136 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1926,142,720 - 26,146,136 (+)Ensemblrn6Rnor6.0
Rnor_5.01937,118,343 - 37,121,759 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41924,781,364 - 24,784,781 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1922,683,041 - 22,686,457 (-)NCBICelera
Cytogenetic Map19q11NCBI
TRIR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381912,730,640 - 12,734,684 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1912,730,640 - 12,734,684 (-)Ensemblhg38GRCh38
GRCh371912,841,454 - 12,845,498 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361912,702,454 - 12,706,529 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1912,731,165 - 12,735,240 (-)NCBICelera
Cytogenetic Map19p13.13NCBI
HuRef1912,414,575 - 12,418,651 (-)NCBIHuRef
CHM1_11912,841,916 - 12,845,991 (-)NCBICHM1_1
T2T-CHM13v2.01912,855,132 - 12,859,177 (-)NCBIT2T-CHM13v2.0
Trir
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39885,753,440 - 85,756,920 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl885,753,452 - 85,756,915 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38885,026,811 - 85,030,291 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl885,026,823 - 85,030,286 (+)Ensemblmm10GRCm38
MGSCv37887,550,732 - 87,554,185 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36887,916,938 - 87,920,391 (+)NCBIMGSCv36mm8
Celera889,321,614 - 89,325,063 (+)NCBICelera
Cytogenetic Map8C3NCBI
cM Map841.49NCBI
Trir
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541531,831,093 - 31,834,796 (-)Ensembl
ChiLan1.0NW_00495541531,831,093 - 31,834,796 (-)NCBIChiLan1.0ChiLan1.0
TRIR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22017,660,322 - 17,664,443 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11916,660,873 - 16,665,206 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01912,293,236 - 12,297,338 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11913,038,516 - 13,045,720 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1913,038,837 - 13,046,866 (-)EnsemblpanPan2panpan1.1
TRIR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12049,400,082 - 49,403,533 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2049,400,179 - 49,403,530 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2049,273,689 - 49,277,140 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02049,918,506 - 49,921,957 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2049,918,604 - 49,921,955 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12049,129,578 - 49,133,027 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02049,555,921 - 49,559,367 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02049,798,588 - 49,802,039 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Trir
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118208,504,180 - 208,507,641 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366591,846,541 - 1,850,565 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366591,847,065 - 1,850,557 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl266,262,424 - 66,265,426 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1266,262,377 - 66,265,427 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2266,642,986 - 66,646,027 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRIR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1611,419,982 - 11,424,075 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl611,419,938 - 11,424,062 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660748,372,575 - 8,376,706 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trir
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624901356,151 - 360,001 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Trir
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11715,261,114 - 15,264,529 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:39
Interacting mature miRNAs:46
Transcripts:ENSRNOT00000005270
Prediction methods: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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19799775052997750Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)191922068964220689Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19799775052997750Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)19574806450748064Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
2303628Vencon9Ventilatory control QTL 90.005respiration trait (VT:0001943)minute ventilation (CMO:0000132)192318858668188586Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)193128753251431640Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19799775052997750Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19799775052997750Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
1554318Bmd5Bone mineral density QTL 512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)192318858668188586Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)192010930665109306Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)193009938347207961Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000005270   ⟹   ENSRNOP00000005270
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1940,029,952 - 40,033,368 (-)Ensembl
mRatBN7.2 Ensembl1923,125,083 - 23,128,510 (-)Ensembl
Rnor_6.0 Ensembl1926,142,720 - 26,146,136 (+)Ensembl
RefSeq Acc Id: NM_001105946   ⟹   NP_001099416
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,029,952 - 40,033,368 (-)NCBI
mRatBN7.21923,125,083 - 23,128,499 (-)NCBI
Rnor_6.01926,142,720 - 26,146,136 (+)NCBI
Rnor_5.01937,118,343 - 37,121,759 (+)NCBI
RGSC_v3.41924,781,364 - 24,784,781 (-)RGD
Celera1922,683,041 - 22,686,457 (-)RGD
Sequence:
RefSeq Acc Id: XM_063277832   ⟹   XP_063133902
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,030,640 - 40,033,315 (-)NCBI
RefSeq Acc Id: XM_063277833   ⟹   XP_063133903
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,030,619 - 40,033,315 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001099416 (Get FASTA)   NCBI Sequence Viewer  
  XP_063133902 (Get FASTA)   NCBI Sequence Viewer  
  XP_063133903 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL92166 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000005270
  ENSRNOP00000005270.2
RefSeq Acc Id: NP_001099416   ⟸   NM_001105946
- UniProtKB: D3ZGR7 (UniProtKB/TrEMBL),   A6IY38 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000005270   ⟸   ENSRNOT00000005270
RefSeq Acc Id: XP_063133903   ⟸   XM_063277833
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063133902   ⟸   XM_063277832
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZGR7-F1-model_v2 AlphaFold D3ZGR7 1-173 view protein structure

Transcriptome

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

Promoters
RGD ID:13701037
Promoter ID:EPDNEW_R11560
Type:multiple initiation site
Name:Trir_1
Description:telomerase RNA component interacting RNase
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_6.01926,142,759 - 26,142,819EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564093 AgrOrtholog
BioCyc Gene G2FUF-6140 BioCyc
Ensembl Genes ENSRNOG00000003863 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005270 ENTREZGENE
  ENSRNOT00000005270.5 UniProtKB/TrEMBL
InterPro TRIR UniProtKB/TrEMBL
KEGG Report rno:288920 UniProtKB/TrEMBL
NCBI Gene 288920 ENTREZGENE
PANTHER PTHR34753 UniProtKB/TrEMBL
  TELOMERASE RNA COMPONENT INTERACTING RNASE UniProtKB/TrEMBL
PhenoGen Trir PhenoGen
RatGTEx ENSRNOG00000003863 RatGTEx
UniProt A6IY38 ENTREZGENE, UniProtKB/TrEMBL
  D3ZGR7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-06-20 Trir  telomerase RNA component interacting RNase  RGD1564093  similar to RIKEN cDNA 2310036O22  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564093  similar to RIKEN cDNA 2310036O22   RGD1564093_predicted  similar to RIKEN cDNA 2310036O22 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564093_predicted  similar to RIKEN cDNA 2310036O22 (predicted)  LOC288920  similar to RIKEN cDNA 2310036O22  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC288920  similar to RIKEN cDNA 2310036O22      Symbol and Name status set to provisional 70820 PROVISIONAL