TRMU (tRNA mitochondrial 2-thiouridylase) - Rat Genome Database

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Gene: TRMU (tRNA mitochondrial 2-thiouridylase) Canis lupus familiaris
Analyze
Symbol: TRMU
Name: tRNA mitochondrial 2-thiouridylase
RGD ID: 12168025
Description: ENCODES a protein that exhibits ATP binding (inferred); sulfurtransferase activity (inferred); transferase activity (inferred); INVOLVED IN tRNA processing (inferred); ASSOCIATED WITH aminoglycoside-induced deafness (ortholog); genetic disease (ortholog); infantile liver failure syndrome (ortholog); FOUND IN mitochondrion (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: mitochondrial tRNA-specific 2-thiouridylase 1; tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11019,841,813 - 19,859,514 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1019,841,854 - 19,859,470 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1019,764,367 - 19,782,082 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01020,575,454 - 20,593,140 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1020,575,455 - 20,593,150 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11020,296,080 - 20,313,753 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01020,608,580 - 20,626,275 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01020,790,582 - 20,808,285 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitochondrion  (IBA,IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
TRMU
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11019,841,813 - 19,859,514 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1019,841,854 - 19,859,470 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1019,764,367 - 19,782,082 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01020,575,454 - 20,593,140 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1020,575,455 - 20,593,150 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11020,296,080 - 20,313,753 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01020,608,580 - 20,626,275 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01020,790,582 - 20,808,285 (-)NCBIUU_Cfam_GSD_1.0
TRMU
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382246,335,714 - 46,357,340 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2246,330,875 - 46,357,340 (+)EnsemblGRCh38hg38GRCh38
GRCh372246,731,611 - 46,753,237 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362245,109,962 - 45,131,901 (+)NCBINCBI36Build 36hg18NCBI36
Build 342245,051,840 - 45,073,755NCBI
Celera2230,638,682 - 30,660,621 (+)NCBICelera
Cytogenetic Map22q13.31NCBI
HuRef2229,675,305 - 29,697,244 (+)NCBIHuRef
CHM1_12246,690,038 - 46,711,977 (+)NCBICHM1_1
T2T-CHM13v2.02246,820,411 - 46,842,039 (+)NCBIT2T-CHM13v2.0
Trmu
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391585,763,505 - 85,781,595 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1585,763,513 - 85,781,595 (+)EnsemblGRCm39 Ensembl
GRCm381585,879,309 - 85,897,394 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1585,879,312 - 85,897,394 (+)EnsemblGRCm38mm10GRCm38
MGSCv371585,709,757 - 85,727,823 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361585,707,093 - 85,725,159 (+)NCBIMGSCv36mm8
Celera1588,013,106 - 88,031,085 (+)NCBICelera
Cytogenetic Map15E2NCBI
cM Map1540.42NCBI
Trmu
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87118,849,586 - 118,866,190 (+)NCBIGRCr8
mRatBN7.27116,969,750 - 116,987,704 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7116,969,756 - 116,986,355 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7118,720,858 - 118,737,557 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07120,946,484 - 120,963,183 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07120,916,047 - 120,932,746 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07126,756,140 - 126,772,749 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7126,756,151 - 126,772,749 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07126,467,257 - 126,483,589 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47123,881,485 - 123,898,025 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17123,915,747 - 123,932,255 (+)NCBI
Celera7113,260,784 - 113,277,379 (+)NCBICelera
Cytogenetic Map7q34NCBI
Trmu
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541330,440,282 - 30,453,860 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541330,440,014 - 30,453,860 (+)NCBIChiLan1.0ChiLan1.0
TRMU
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22356,165,104 - 56,187,609 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12258,859,489 - 58,881,682 (+)NCBINHGRI_mPanPan1
PanPan1.12245,399,506 - 45,421,439 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2245,399,506 - 45,421,439 (+)Ensemblpanpan1.1panPan2
Trmu
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049453,570,169 - 3,589,343 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366293,567,999 - 3,589,371 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366293,570,163 - 3,589,324 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRMU
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl53,208,118 - 3,224,366 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.153,208,122 - 3,224,382 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.25571,288 - 583,273 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TRMU
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11928,816,293 - 28,838,259 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1928,816,524 - 28,837,935 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604596,691,214 - 96,713,268 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trmu
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247523,538,558 - 3,553,377 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247523,538,558 - 3,552,847 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TRMU
211 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_014117279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022424285 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038488301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038488302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038488303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038550206 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038550207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038550208 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038614194 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038614195 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038614196 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038679539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038679540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038679541 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_538325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000099 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSCAFT00000001213   ⟹   ENSCAFP00000001109
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1019,841,854 - 19,859,470 (-)Ensembl
Ensembl Acc Id: ENSCAFT00000070895   ⟹   ENSCAFP00000063762
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1019,841,854 - 19,857,978 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845017478   ⟹   ENSCAFP00845013603
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1020,575,455 - 20,593,150 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845017519   ⟹   ENSCAFP00845013634
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1020,575,455 - 20,591,614 (-)Ensembl
RefSeq Acc Id: XM_014117279   ⟹   XP_013972754
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11019,841,813 - 19,857,689 (-)NCBI
Dog10K_Boxer_Tasha1019,764,367 - 19,780,258 (-)NCBI
Sequence:
RefSeq Acc Id: XM_022424285   ⟹   XP_022279993
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11019,841,813 - 19,857,686 (-)NCBI
Dog10K_Boxer_Tasha1019,764,367 - 19,780,236 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038488301   ⟹   XP_038344229
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11020,296,080 - 20,313,753 (-)NCBI
RefSeq Acc Id: XM_038488302   ⟹   XP_038344230
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11020,296,080 - 20,311,945 (-)NCBI
RefSeq Acc Id: XM_038488303   ⟹   XP_038344231
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11020,296,080 - 20,311,923 (-)NCBI
RefSeq Acc Id: XM_038550206   ⟹   XP_038406134
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01020,790,582 - 20,808,285 (-)NCBI
RefSeq Acc Id: XM_038550207   ⟹   XP_038406135
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01020,790,582 - 20,806,463 (-)NCBI
RefSeq Acc Id: XM_038550208   ⟹   XP_038406136
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01020,790,582 - 20,806,441 (-)NCBI
RefSeq Acc Id: XM_038614194   ⟹   XP_038470122
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01020,608,580 - 20,626,275 (-)NCBI
RefSeq Acc Id: XM_038614195   ⟹   XP_038470123
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01020,608,580 - 20,624,465 (-)NCBI
RefSeq Acc Id: XM_038614196   ⟹   XP_038470124
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01020,608,580 - 20,624,443 (-)NCBI
RefSeq Acc Id: XM_038679539   ⟹   XP_038535467
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01020,575,454 - 20,593,140 (-)NCBI
RefSeq Acc Id: XM_038679540   ⟹   XP_038535468
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01020,575,454 - 20,591,326 (-)NCBI
RefSeq Acc Id: XM_038679541   ⟹   XP_038535469
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01020,575,454 - 20,591,304 (-)NCBI
RefSeq Acc Id: XM_538325   ⟹   XP_538325
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11019,841,813 - 19,859,514 (-)NCBI
Dog10K_Boxer_Tasha1019,764,367 - 19,782,082 (-)NCBI
Sequence:
RefSeq Acc Id: XP_538325   ⟸   XM_538325
- Peptide Label: isoform X1
- UniProtKB: A0A8C0KA63 (UniProtKB/TrEMBL),   A0A8C0QQ09 (UniProtKB/TrEMBL),   A0A8I3N2T0 (UniProtKB/TrEMBL),   A0A8C0MJX4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013972754   ⟸   XM_014117279
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_022279993   ⟸   XM_022424285
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSCAFP00000001109   ⟸   ENSCAFT00000001213
Ensembl Acc Id: ENSCAFP00000063762   ⟸   ENSCAFT00000070895
RefSeq Acc Id: XP_038344229   ⟸   XM_038488301
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038344230   ⟸   XM_038488302
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038344231   ⟸   XM_038488303
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038470122   ⟸   XM_038614194
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038470123   ⟸   XM_038614195
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038470124   ⟸   XM_038614196
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038535467   ⟸   XM_038679539
- Peptide Label: isoform X1
- UniProtKB: A0A8C0KA63 (UniProtKB/TrEMBL),   A0A8C0QQ09 (UniProtKB/TrEMBL),   A0A8I3N2T0 (UniProtKB/TrEMBL),   A0A8C0MJX4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038535468   ⟸   XM_038679540
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038535469   ⟸   XM_038679541
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038406134   ⟸   XM_038550206
- Peptide Label: isoform X1
- UniProtKB: A0A8C0KA63 (UniProtKB/TrEMBL),   A0A8C0MJX4 (UniProtKB/TrEMBL),   A0A8C0QQ09 (UniProtKB/TrEMBL),   A0A8I3N2T0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038406135   ⟸   XM_038550207
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038406136   ⟸   XM_038550208
- Peptide Label: isoform X2
Ensembl Acc Id: ENSCAFP00845013634   ⟸   ENSCAFT00845017519
Ensembl Acc Id: ENSCAFP00845013603   ⟸   ENSCAFT00845017478
Protein Domains
tRNA-specific 2-thiouridylase MnmA-like C-terminal   tRNA-specific 2-thiouridylase MnmA-like central

Promoters
RGD ID:13684923
Promoter ID:EPDNEW_C2991
Type:initiation region
Name:TRMU_1
Description:tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11019,859,470 - 19,859,530EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000000779 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030008053 UniProtKB/TrEMBL
  ENSCAFG00040008407 UniProtKB/TrEMBL
  ENSCAFG00845009937 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000001213.5 UniProtKB/TrEMBL
  ENSCAFT00000070895.2 UniProtKB/TrEMBL
  ENSCAFT00030014802.1 UniProtKB/TrEMBL
  ENSCAFT00040015712.1 UniProtKB/TrEMBL
  ENSCAFT00845017478 ENTREZGENE
  ENSCAFT00845017478.1 UniProtKB/TrEMBL
  ENSCAFT00845017519.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.280 UniProtKB/TrEMBL
  3.40.50.620 UniProtKB/TrEMBL
  Translation factors UniProtKB/TrEMBL
InterPro Adenine_a_hdrlase_dom UniProtKB/TrEMBL
  MnmA-like_C UniProtKB/TrEMBL
  MnmA-like_central UniProtKB/TrEMBL
  Rossmann-like_a/b/a_fold UniProtKB/TrEMBL
  tRNA-specific_2-thiouridylase UniProtKB/TrEMBL
NCBI Gene TRMU ENTREZGENE
PANTHER MITOCHONDRIAL TRNA-SPECIFIC 2-THIOURIDYLASE 1 UniProtKB/TrEMBL
  TRNA 5-METHYLAMINOMETHYL-2-THIOURIDYLATE -METHYLTRANSFERASE UniProtKB/TrEMBL
Pfam tRNA_Me_trans UniProtKB/TrEMBL
  tRNA_Me_trans_C UniProtKB/TrEMBL
  tRNA_Me_trans_M UniProtKB/TrEMBL
Superfamily-SCOP Adenine nucleotide alpha hydrolases-like UniProtKB/TrEMBL
UniProt A0A8C0KA63 ENTREZGENE
  A0A8C0MJX4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0QQ09 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3N2T0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NPQ1_CANLF UniProtKB/TrEMBL
  A0A8P0TFD2_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:47861 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-07-27 TRMU  tRNA mitochondrial 2-thiouridylase  TRMU  tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase  Symbol and/or name change 19259463 PROVISIONAL