Trmt2b (TRM2 tRNA methyltransferase 2B) - Rat Genome Database

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Gene: Trmt2b (TRM2 tRNA methyltransferase 2B) Mus musculus
Analyze
Symbol: Trmt2b
Name: TRM2 tRNA methyltransferase 2B
RGD ID: 1558508
MGI Page MGI
Description: Enables rRNA (uridine-C5-)-methyltransferase activity and tRNA (uracil(54)-C5)-methyltransferase activity, S-adenosyl methionine-dependent. Predicted to be involved in rRNA methylation and tRNA processing. Located in mitochondrion. Is expressed in olfactory cortex ventricular layer and telencephalon ventricular layer. Orthologous to human TRMT2B (tRNA methyltransferase 2 homolog B).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 4732479N06Rik; RP23-162B19.2; rRNA (uracil-5-)-methyltransferase TRMT2B; TRM2 homolog; TRM2 homolog B; TRM2 tRNA methyltransferase 2 homolog B; tRNA (uracil(54)-C(5))-methyltransferase homolog; tRNA (uracil-5-)-methyltransferase homolog; tRNA (uracil-5-)-methyltransferase homolog B
RGD Orthologs
Human
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X133,123,704 - 133,177,770 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX133,123,088 - 133,177,733 (-)EnsemblGRCm39 Ensembl
GRCm38X134,222,955 - 134,277,023 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX134,222,339 - 134,276,984 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X130,757,494 - 130,811,523 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X129,569,305 - 129,623,290 (-)NCBIMGSCv36mm8
CeleraX117,099,787 - 117,155,672 (-)NCBICelera
Cytogenetic MapXE3NCBI
cM MapX55.95NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitochondrial matrix  (ISO,ISS)
mitochondrion  (HDA,ISO)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:14610273   PMID:15782199   PMID:16141072   PMID:16141073   PMID:18614015   PMID:21267068  
PMID:21677750   PMID:23754746   PMID:31736397   PMID:38355793  


Genomics

Comparative Map Data
Trmt2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X133,123,704 - 133,177,770 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX133,123,088 - 133,177,733 (-)EnsemblGRCm39 Ensembl
GRCm38X134,222,955 - 134,277,023 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX134,222,339 - 134,276,984 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X130,757,494 - 130,811,523 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X129,569,305 - 129,623,290 (-)NCBIMGSCv36mm8
CeleraX117,099,787 - 117,155,672 (-)NCBICelera
Cytogenetic MapXE3NCBI
cM MapX55.95NCBI
TRMT2B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X100,973,366 - 101,052,111 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX101,009,346 - 101,052,116 (-)EnsemblGRCh38hg38GRCh38
GRCh37X100,264,339 - 100,307,100 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X100,151,187 - 100,193,726 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X100,070,692 - 100,113,215NCBI
CeleraX100,783,109 - 100,825,878 (-)NCBICelera
Cytogenetic MapXq22.1NCBI
HuRefX90,068,401 - 90,112,076 (-)NCBIHuRef
CHM1_1X100,157,442 - 100,200,214 (-)NCBICHM1_1
T2T-CHM13v2.0X99,416,819 - 99,495,549 (-)NCBIT2T-CHM13v2.0
Trmt2b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X101,716,656 - 101,777,105 (-)NCBIGRCr8
mRatBN7.2X97,425,712 - 97,483,821 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.0X105,056,890 - 105,114,876 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X104,954,402 - 104,996,021 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X121,694,841 - 121,745,024 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX98,467,198 - 98,525,152 (-)NCBICelera
Cytogenetic MapXq32NCBI
TRMT2B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X100,607,508 - 100,650,697 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X100,611,112 - 100,654,304 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X90,210,740 - 90,253,863 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X100,347,795 - 100,389,981 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX100,347,795 - 100,389,981 (-)Ensemblpanpan1.1panPan2
TRMT2B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X74,921,406 - 75,001,373 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X76,361,015 - 76,406,690 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X73,929,590 - 73,974,787 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X75,589,853 - 75,634,947 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X75,352,421 - 75,397,722 (-)NCBIUU_Cfam_GSD_1.0
Trmt2b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X63,344,143 - 63,381,368 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493681394,441 - 129,010 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493681393,738 - 130,928 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRMT2B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX82,690,392 - 82,735,521 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X82,638,456 - 82,741,659 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X90,777,612 - 90,810,528 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRMT2B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X89,259,251 - 89,391,444 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX89,354,510 - 89,382,861 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606514,273,687 - 14,312,223 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Trmt2b
1179 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:1999
Count of miRNA genes:679
Interacting mature miRNAs:823
Transcripts:ENSMUST00000087540, ENSMUST00000087541, ENSMUST00000113252, ENSMUST00000128115, ENSMUST00000145066
Prediction methods:Miranda, Pita, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
13208552Wght12_mweight 12 (mouse)X94043606149782996Mouse
13208556Lgth14_mbody length 14 (mouse)X94043606149782996Mouse
13824980Ferq1_mgenetic fertility QTL 1 (mouse)X54045360148782996Mouse
25314309Syncl5_msynaptonemal complex length 5 (mouse)X121909697152582996Mouse
13824981Svwq2_mseminal vesicle weight QTL 2 (mouse)X128900749153782996Mouse
1301209Cia19_mcollagen induced arthritis 19 (mouse)Not determinedX120993165160213038Mouse
10412164Cmv2_mcytomegalovirus resistance 2 (mouse)Not determinedX125685149159685269Mouse
1357823Spha3_msperm head anomaly 3 (mouse)Not determinedX102055848162758941Mouse
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7226295150107038Mouse
4141665Mhysq2_mmale hybrid sterility QTL 2 (mouse)Not determined71453852139203212Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000087540   ⟹   ENSMUSP00000084819
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX133,163,237 - 133,177,733 (-)Ensembl
GRCm38.p6 EnsemblX134,262,488 - 134,276,984 (-)Ensembl
Ensembl Acc Id: ENSMUST00000087541   ⟹   ENSMUSP00000084820
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX133,123,844 - 133,177,731 (-)Ensembl
GRCm38.p6 EnsemblX134,223,095 - 134,276,982 (-)Ensembl
Ensembl Acc Id: ENSMUST00000113252   ⟹   ENSMUSP00000108878
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX133,123,849 - 133,177,669 (-)Ensembl
GRCm38.p6 EnsemblX134,223,100 - 134,276,920 (-)Ensembl
Ensembl Acc Id: ENSMUST00000128115   ⟹   ENSMUSP00000138612
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX133,123,088 - 133,177,731 (-)Ensembl
GRCm38.p6 EnsemblX134,222,339 - 134,276,982 (-)Ensembl
Ensembl Acc Id: ENSMUST00000145066
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX133,123,845 - 133,177,676 (-)Ensembl
GRCm38.p6 EnsemblX134,223,096 - 134,276,927 (-)Ensembl
RefSeq Acc Id: NM_001167994   ⟹   NP_001161466
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X133,123,704 - 133,177,733 (-)NCBI
GRCm38X134,222,955 - 134,276,984 (-)NCBI
MGSCv37X130,757,494 - 130,811,523 (-)RGD
CeleraX117,099,787 - 117,155,672 (-)RGD
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001167995   ⟹   NP_001161467
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X133,163,233 - 133,177,733 (-)NCBI
GRCm38X134,262,484 - 134,276,984 (-)NCBI
MGSCv37X130,757,494 - 130,811,523 (-)RGD
CeleraX117,099,787 - 117,155,672 (-)RGD
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: NM_172540   ⟹   NP_766128
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X133,123,704 - 133,177,733 (-)NCBI
GRCm38X134,222,955 - 134,276,984 (-)NCBI
MGSCv37X130,757,494 - 130,811,523 (-)RGD
CeleraX117,099,787 - 117,155,672 (-)RGD
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006528514   ⟹   XP_006528577
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X133,123,844 - 133,177,759 (-)NCBI
GRCm38X134,223,095 - 134,277,013 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011247734   ⟹   XP_011246036
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X133,123,844 - 133,177,770 (-)NCBI
GRCm38X134,223,095 - 134,277,023 (-)NCBI
Sequence:
RefSeq Acc Id: NP_766128   ⟸   NM_172540
- Peptide Label: isoform a
- UniProtKB: Q8CE55 (UniProtKB/Swiss-Prot),   Q8BQJ6 (UniProtKB/Swiss-Prot),   S4R2E5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001161466   ⟸   NM_001167994
- Peptide Label: isoform a
- UniProtKB: Q8CE55 (UniProtKB/Swiss-Prot),   Q8BQJ6 (UniProtKB/Swiss-Prot),   S4R2E5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001161467   ⟸   NM_001167995
- Peptide Label: isoform b
- UniProtKB: Q8C8J3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006528577   ⟸   XM_006528514
- Peptide Label: isoform X1
- UniProtKB: S4R2E5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011246036   ⟸   XM_011247734
- Peptide Label: isoform X2
- UniProtKB: S4R2E5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000108878   ⟸   ENSMUST00000113252
Ensembl Acc Id: ENSMUSP00000084820   ⟸   ENSMUST00000087541
Ensembl Acc Id: ENSMUSP00000084819   ⟸   ENSMUST00000087540
Ensembl Acc Id: ENSMUSP00000138612   ⟸   ENSMUST00000128115
Protein Domains
Methyltransferase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8BQJ6-F1-model_v2 AlphaFold Q8BQJ6 1-493 view protein structure

Promoters
RGD ID:6846468
Promoter ID:MM_KWN:61854
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   MEF_B4,   MEF_B6
Transcripts:ENSMUST00000113254,   NM_001167994,   NM_001167995,   NM_172540,   OTTMUST00000045953,   OTTMUST00000045954
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X130,811,251 - 130,811,751 (-)MPROMDB
RGD ID:13681340
Promoter ID:EPDNEW_M24819
Type:initiation region
Name:Trmt2b_1
Description:Mus musculus TRM2 tRNA methyltransferase 2B , transcript variant3, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X134,276,936 - 134,276,996EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2442530 AgrOrtholog
Ensembl Genes ENSMUSG00000067369 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000087540 ENTREZGENE
  ENSMUST00000087541 ENTREZGENE
  ENSMUST00000087541.12 UniProtKB/Swiss-Prot
  ENSMUST00000113252 ENTREZGENE
  ENSMUST00000113252.8 UniProtKB/Swiss-Prot
  ENSMUST00000128115 ENTREZGENE
Gene3D-CATH 2.40.50.1070 UniProtKB/Swiss-Prot
  3.40.50.150 UniProtKB/Swiss-Prot
InterPro Methyltranfer_dom UniProtKB/Swiss-Prot
  SAM-dependent_MTases UniProtKB/Swiss-Prot
  TRM2_euk UniProtKB/Swiss-Prot
  tRNA_(uracil-5-)_MeTrfase_met UniProtKB/Swiss-Prot
  U5_MeTrfase_fam UniProtKB/Swiss-Prot
KEGG Report mmu:215201 UniProtKB/Swiss-Prot
MGD MGI:2442530 ENTREZGENE
NCBI Gene 215201 ENTREZGENE
PANTHER PTHR45904 UniProtKB/Swiss-Prot
  TRNA (URACIL(54)-C(5))-METHYLTRANSFERASE HOMOLOG UniProtKB/Swiss-Prot
Pfam Methyltransf_31 UniProtKB/Swiss-Prot
PhenoGen Trmt2b PhenoGen
PROSITE SAM_MT_RNA_M5U UniProtKB/Swiss-Prot
  SAM_MT_RNA_M5U_1 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF53335 UniProtKB/Swiss-Prot
UniProt Q8BQJ6 ENTREZGENE
  Q8C8J3 ENTREZGENE, UniProtKB/TrEMBL
  Q8CE55 ENTREZGENE
  S4R2E5 ENTREZGENE, UniProtKB/TrEMBL
  TRM2_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q8CE55 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-27 Trmt2b  TRM2 tRNA methyltransferase 2B    TRM2 tRNA methyltransferase 2 homolog B (S. cerevisiae)  Symbol and/or name change 5135510 APPROVED