Ctu2 (cytosolic thiouridylase subunit 2) - Rat Genome Database

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Gene: Ctu2 (cytosolic thiouridylase subunit 2) Rattus norvegicus
Analyze
Symbol: Ctu2
Name: cytosolic thiouridylase subunit 2
RGD ID: 1562594
Description: Predicted to enable sulfurtransferase activity. Predicted to be involved in tRNA wobble position uridine thiolation. Predicted to be located in cytoplasm. Predicted to be part of protein-containing complex. Predicted to be active in cytosol. Orthologous to human CTU2 (cytosolic thiouridylase subunit 2); INTERACTS WITH bisphenol A; Soman; tetrachloromethane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cytoplasmic tRNA 2-thiolation protein 2; cytosolic thiouridylase subunit 2 homolog; cytosolic thiouridylase subunit 2 homolog (S. pombe); LOC292069; MGC125094; Ncs2; similar to RIKEN cDNA 2310061F22
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
GRCr81967,447,762 - 67,453,169 (+)NCBIGRCr8
mRatBN7.21950,539,184 - 50,544,629 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1950,539,352 - 50,544,623 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1957,334,554 - 57,339,522 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,014,331 - 58,019,558 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,233,177 - 60,238,145 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,300,531 - 55,305,543 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,300,395 - 55,305,702 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,009,931 - 66,014,988 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41952,765,786 - 52,771,016 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1949,778,881 - 49,784,108 (+)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
cytosol  (IBA,ISS)
protein-containing complex  (IEA,ISO)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Comprehensive gene review and curation RGD comprehensive gene curation
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:19017811  


Genomics

Comparative Map Data
Ctu2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81967,447,762 - 67,453,169 (+)NCBIGRCr8
mRatBN7.21950,539,184 - 50,544,629 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1950,539,352 - 50,544,623 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1957,334,554 - 57,339,522 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,014,331 - 58,019,558 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,233,177 - 60,238,145 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,300,531 - 55,305,543 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,300,395 - 55,305,702 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,009,931 - 66,014,988 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41952,765,786 - 52,771,016 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1949,778,881 - 49,784,108 (+)NCBICelera
Cytogenetic Map19q12NCBI
CTU2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381688,706,503 - 88,715,396 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1688,706,483 - 88,715,396 (+)EnsemblGRCh38hg38GRCh38
GRCh371688,772,911 - 88,781,804 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361687,300,392 - 87,309,295 (+)NCBINCBI36Build 36hg18NCBI36
Celera1673,276,731 - 73,278,805 (-)NCBICelera
Cytogenetic Map16q24.3NCBI
HuRef1674,467,287 - 74,477,681 (+)NCBIHuRef
CHM1_11690,184,233 - 90,193,064 (+)NCBICHM1_1
T2T-CHM13v2.01694,775,662 - 94,785,864 (+)NCBIT2T-CHM13v2.0
Ctu2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398123,202,882 - 123,209,831 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8123,202,882 - 123,210,877 (+)EnsemblGRCm39 Ensembl
GRCm388122,476,068 - 122,483,092 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8122,476,143 - 122,484,138 (+)EnsemblGRCm38mm10GRCm38
MGSCv378125,000,043 - 125,006,992 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368125,362,280 - 125,367,837 (+)NCBIMGSCv36mm8
MGSCv368122,545,627 - 122,551,185 (+)NCBIMGSCv36mm8
Celera8126,705,199 - 126,712,124 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map871.26NCBI
Ctu2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555412,610,021 - 2,618,197 (+)NCBIChiLan1.0ChiLan1.0
CTU2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21898,479,814 - 98,488,599 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116104,391,891 - 104,400,757 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01669,419,811 - 69,428,500 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11689,080,476 - 89,088,363 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1689,079,132 - 89,088,231 (+)Ensemblpanpan1.1panPan2
CTU2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1564,640,389 - 64,647,298 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl564,640,389 - 64,647,215 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha564,651,709 - 64,658,603 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0564,860,459 - 64,867,333 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl564,860,459 - 64,867,295 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1564,886,634 - 64,893,522 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0564,718,200 - 64,725,080 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0565,124,376 - 65,131,248 (-)NCBIUU_Cfam_GSD_1.0
Ctu2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934925,225,667 - 25,232,488 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936641980,533 - 984,506 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936641980,493 - 986,015 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CTU2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6964,566 - 976,832 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16964,551 - 976,881 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CTU2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1574,091,156 - 74,100,941 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl574,091,258 - 74,100,573 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660471,579,212 - 1,589,006 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ctu2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624746871,668 - 877,719 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624746871,707 - 878,047 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ctu2
19 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:113
Count of miRNA genes:94
Interacting mature miRNAs:104
Transcripts:ENSRNOT00000033316
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194997648153225766Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat

Markers in Region
RH131577  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81967,452,772 - 67,453,103 (+)Marker Load Pipeline
mRatBN7.21950,544,232 - 50,544,563 (+)MAPPERmRatBN7.2
Rnor_6.01955,305,147 - 55,305,477NCBIRnor6.0
Rnor_5.01966,014,592 - 66,014,922UniSTSRnor5.0
RGSC_v3.41952,770,620 - 52,770,950UniSTSRGSC3.4
Celera1949,783,712 - 49,784,042UniSTS
RH 3.4 Map19701.3UniSTS
Cytogenetic Map19q12UniSTS
RH141716  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21950,544,757 - 50,544,940 (+)MAPPERmRatBN7.2
Rnor_6.01955,305,672 - 55,305,854NCBIRnor6.0
Rnor_5.01966,015,117 - 66,015,299UniSTSRnor5.0
RGSC_v3.41952,771,145 - 52,771,327UniSTSRGSC3.4
Celera1949,784,237 - 49,784,419UniSTS
RH 3.4 Map19698.5UniSTS
Cytogenetic Map19q12UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000092169   ⟹   ENSRNOP00000069225
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1950,539,352 - 50,544,623 (+)Ensembl
Rnor_6.0 Ensembl1955,300,395 - 55,305,702 (+)Ensembl
RefSeq Acc Id: NM_001037094   ⟹   NP_001032171
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,447,942 - 67,453,169 (+)NCBI
mRatBN7.21950,539,402 - 50,544,629 (+)NCBI
Rnor_6.01955,300,531 - 55,305,543 (+)NCBI
Rnor_5.01966,009,931 - 66,014,988 (+)NCBI
RGSC_v3.41952,765,786 - 52,771,016 (+)RGD
Celera1949,778,881 - 49,784,108 (+)RGD
Sequence:
RefSeq Acc Id: XR_005496643
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,447,762 - 67,452,810 (+)NCBI
mRatBN7.21950,539,184 - 50,544,621 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001032171 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79393 (Get FASTA)   NCBI Sequence Viewer  
  AAH89862 (Get FASTA)   NCBI Sequence Viewer  
  AAI07465 (Get FASTA)   NCBI Sequence Viewer  
  EDL92752 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000069225.1
GenBank Protein Q3B7U4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001032171   ⟸   NM_001037094
- UniProtKB: Q6AXQ6 (UniProtKB/Swiss-Prot),   Q5FVN4 (UniProtKB/Swiss-Prot),   F1LQR2 (UniProtKB/Swiss-Prot),   Q3B7U4 (UniProtKB/Swiss-Prot),   A0A0G2JUT8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000069225   ⟸   ENSRNOT00000092169

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3B7U4-F1-model_v2 AlphaFold Q3B7U4 1-528 view protein structure

Transcriptome

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

Promoters
RGD ID:13701208
Promoter ID:EPDNEW_R11730
Type:single initiation site
Name:Ctu2_2
Description:cytosolic thiouridylase subunit 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11732  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01955,300,357 - 55,300,417EPDNEW
RGD ID:13701210
Promoter ID:EPDNEW_R11732
Type:single initiation site
Name:Ctu2_1
Description:cytosolic thiouridylase subunit 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11730  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01955,300,522 - 55,300,582EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562594 AgrOrtholog
BioCyc Gene G2FUF-5394 BioCyc
BioCyc Pathway PWY-7888 [tRNA-uridine 2-thiolation (cytoplasmic)] BioCyc
BioCyc Pathway Image PWY-7888 BioCyc
Ensembl Genes ENSRNOG00000051531 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000092169.2 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.620 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7111976 IMAGE-MGC_LOAD
  IMAGE:7126104 IMAGE-MGC_LOAD
  IMAGE:7454431 IMAGE-MGC_LOAD
InterPro CTU2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rossmann-like_a/b/a_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:292069 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:108958 IMAGE-MGC_LOAD
  MGC:125094 IMAGE-MGC_LOAD
  MGC:94910 IMAGE-MGC_LOAD
NCBI Gene 292069 ENTREZGENE
PANTHER CYTOPLASMIC TRNA 2-THIOLATION PROTEIN 2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR20882 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CTU2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ctu2 PhenoGen
RatGTEx ENSRNOG00000051531 RatGTEx
Superfamily-SCOP Adenine nucleotide alpha hydrolases-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JUT8 ENTREZGENE, UniProtKB/TrEMBL
  CTU2_RAT UniProtKB/Swiss-Prot
  F1LQR2 ENTREZGENE
  Q3B7U4 ENTREZGENE
  Q5FVN4 ENTREZGENE
  Q6AXQ6 ENTREZGENE
UniProt Secondary F1LQR2 UniProtKB/Swiss-Prot
  Q5FVN4 UniProtKB/Swiss-Prot
  Q6AXQ6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Ctu2  cytosolic thiouridylase subunit 2  Ctu2  cytosolic thiouridylase subunit 2 homolog (S. pombe)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-10-22 Ctu2  cytosolic thiouridylase subunit 2 homolog (S. pombe)  LOC292069  similar to RIKEN cDNA 2310061F22  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC292069  similar to RIKEN cDNA 2310061F22      Symbol and Name status set to provisional 70820 PROVISIONAL