Trmt10c (tRNA methyltransferase 10C, mitochondrial RNase P subunit) - Rat Genome Database

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Gene: Trmt10c (tRNA methyltransferase 10C, mitochondrial RNase P subunit) Mus musculus
Analyze
Symbol: Trmt10c
Name: tRNA methyltransferase 10C, mitochondrial RNase P subunit
RGD ID: 1314895
MGI Page MGI
Description: Predicted to enable identical protein binding activity; tRNA binding activity; and tRNA methyltransferase activity. Predicted to be involved in mRNA methylation; mitochondrial tRNA processing; and positive regulation of mitochondrial translation. Predicted to act upstream of or within methylation and tRNA processing. Located in mitochondrion. Is expressed in several structures, including central nervous system; metanephros; phalanx; skin; and tooth. Human ortholog(s) of this gene implicated in combined oxidative phosphorylation deficiency 30. Orthologous to human TRMT10C (tRNA methyltransferase 10C, mitochondrial RNase P subunit).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1300018J16Rik; D16Ertd454; D16Ertd454e; MGC118020; mitochondrial ribonuclease P protein 1; mitochondrial RNase P protein 1; mRNA methyladenosine-N(1)-methyltransferase; Rg9mtd; Rg9mtd1; RNA (guanine-9-) methyltransferase domain containing 1; RNA (guanine-9-)-methyltransferase domain-containing protein 1; Rnmtd1; tRNA (adenine(9)-N(1))-methyltransferase; tRNA (guanine(9)-N(1))-methyltransferase; tRNA methyltransferase 10 homolog C; tRNA methyltransferase 10C
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391655,854,083 - 55,858,149 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1655,852,972 - 55,858,182 (-)EnsemblGRCm39 Ensembl
GRCm381656,033,720 - 56,037,786 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1656,032,609 - 56,037,819 (-)EnsemblGRCm38mm10GRCm38
MGSCv371656,033,833 - 56,037,887 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361655,958,671 - 55,962,727 (-)NCBIMGSCv36mm8
Celera1656,349,120 - 56,353,174 (-)NCBICelera
Cytogenetic Map16C1.1NCBI
cM Map1633.79NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, etal., Development 2000 Apr;127(8):1737-49.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. 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.
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10512203   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12904583   PMID:14610273   PMID:15741512   PMID:15840001   PMID:16141072  
PMID:16141073   PMID:18614015   PMID:18799693   PMID:21267068   PMID:21873635   PMID:24703694   PMID:26238476   PMID:32325033   PMID:35449600   PMID:36114006   PMID:36417873  


Genomics

Comparative Map Data
Trmt10c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391655,854,083 - 55,858,149 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1655,852,972 - 55,858,182 (-)EnsemblGRCm39 Ensembl
GRCm381656,033,720 - 56,037,786 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1656,032,609 - 56,037,819 (-)EnsemblGRCm38mm10GRCm38
MGSCv371656,033,833 - 56,037,887 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361655,958,671 - 55,962,727 (-)NCBIMGSCv36mm8
Celera1656,349,120 - 56,353,174 (-)NCBICelera
Cytogenetic Map16C1.1NCBI
cM Map1633.79NCBI
TRMT10C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383101,561,868 - 101,566,446 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3101,561,868 - 101,566,446 (+)EnsemblGRCh38hg38GRCh38
GRCh373101,280,712 - 101,285,290 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363102,763,402 - 102,767,779 (+)NCBINCBI36Build 36hg18NCBI36
Build 343102,763,402 - 102,767,777NCBI
Celera399,673,048 - 99,677,425 (+)NCBICelera
Cytogenetic Map3q12.3NCBI
HuRef398,649,589 - 98,654,197 (+)NCBIHuRef
CHM1_13101,243,751 - 101,248,361 (+)NCBICHM1_1
T2T-CHM13v2.03104,274,164 - 104,278,741 (+)NCBIT2T-CHM13v2.0
Trmt10c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81158,053,455 - 58,058,533 (+)NCBIGRCr8
mRatBN7.21144,584,388 - 44,589,466 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1144,584,113 - 44,589,568 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1153,360,710 - 53,365,798 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01146,022,325 - 46,027,413 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01145,146,488 - 45,151,576 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01147,047,342 - 47,052,420 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1147,047,342 - 47,052,418 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01150,229,232 - 50,234,310 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41145,559,299 - 45,564,377 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11145,616,887 - 45,621,964 (+)NCBI
Celera1144,334,937 - 44,340,015 (+)NCBICelera
Cytogenetic Map11q12NCBI
Trmt10c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554273,135,518 - 3,136,786 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554273,133,225 - 3,137,070 (+)NCBIChiLan1.0ChiLan1.0
TRMT10C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2299,519,074 - 99,523,476 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1399,523,856 - 99,528,459 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0398,671,176 - 98,675,743 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13105,350,939 - 105,355,548 (+)NCBIpanpan1.1PanPan1.1panPan2
TRMT10C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1337,944,675 - 7,949,402 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl337,945,929 - 7,949,272 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha338,099,240 - 8,103,577 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0338,083,913 - 8,088,266 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl338,084,141 - 8,088,264 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1337,971,544 - 7,975,882 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0338,017,896 - 8,022,436 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0338,358,192 - 8,362,532 (+)NCBIUU_Cfam_GSD_1.0
Trmt10c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602148,925,151 - 148,942,864 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366301,823,302 - 1,824,564 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366301,823,045 - 1,827,050 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRMT10C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13157,496,170 - 157,504,418 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113157,495,075 - 157,522,349 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213166,980,770 - 167,002,275 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TRMT10C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12279,307,124 - 79,311,496 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2279,307,444 - 79,308,658 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604187,251,890 - 87,256,421 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trmt10c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478915,422,758 - 15,424,002 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478915,420,199 - 15,424,401 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Trmt10c
208 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:440
Count of miRNA genes:342
Interacting mature miRNAs:387
Transcripts:ENSMUST00000059052
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226785Feml12_mfemur length 12, 5 week (mouse)16331786464620363Mouse
26884432Zlq7_mzygomatic length QTL 7, 10 week (mouse)16381786464620363Mouse
1357763Lp1_mlymphocyte proliferation 1 (mouse)Not determined16654297965466552Mouse
26884376Skwq4_mskull length QTL 4, 5 week (mouse)16841786490896888Mouse
1357517Bwtn1_mbody weight at necropsy 1 (mouse)Not determined162001932985600826Mouse
1300534Bmd15_mbone mineral density 15 (mouse)Not determined162193838355938574Mouse
4141179Ipng3_mimprinted postnatal growth 3 (mouse)Not determined2277525257594076Mouse
11059559Lmr12a_mleishmaniasis resistance 12a (mouse)162879281362792952Mouse
11059560Lmr12b_mleishmaniasis resistance 12b (mouse)162879281362792952Mouse
11049571Lmr12c_mleishmaniasis resistance 12c (mouse)162879281362792952Mouse
1300915Lmr12_mleishmaniasis resistance 12 (mouse)Not determined162879281362792952Mouse
1301070Cypr1_mcytokine production 1 (mouse)Not determined163231279566312933Mouse
4142187Arrd3_mage-related retinal degeneration 3 (mouse)Not determined3252290965466552Mouse
1302096Aod1a_mautoimmune ovarian dysgenesis 1a (mouse)Not determined163544664392573008Mouse
26884416Bzwq5_mbi-zygomatic width QTL 5, 5 week (mouse)163732036284696888Mouse
4142112Skts-fp3_mskin tumor susceptibility in FVB and PWK 3 (mouse)Not determined164005388172924385Mouse
11522747Eae41_mexperimental allergic encephalomyelitis susceptibility 41 (mouse)164039913478015472Mouse
1301138Pcd4ts3_mp-glycoprotein positive CD4 T cell subset 3 (mouse)Not determined164059392374594076Mouse
1357778Diobq_mdiet-induced obesity QTL (mouse)Not determined164219781782331174Mouse
4141212Imraq3_mimmune response to AAV2 QTL 3 (mouse)Not determined164438335078383506Mouse
1301719Remslp3_mrapid eye movement sleep 3 (mouse)Not determined164438335078383506Mouse
1558836Dice1b_mdetermination of interleukin 4 commitment 1b (mouse)Not determined164551100072274485Mouse
14928310Manh80_mmandible shape 80 (mouse)164821984182219841Mouse
1301394Eae11_msusceptibility to experimental allergic encephalomyelitis 11 (mouse)Not determined165356189187562035Mouse
14696806Smcl1_msmoke-mediated chord length 1 (mouse)165401530958330871Mouse
1301364Lith14_mlithogenic gene 14 (mouse)Not determined165566184689661961Mouse

Markers in Region
D16Ertd454e  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381656,033,736 - 56,033,968UniSTSGRCm38
MGSCv371656,033,849 - 56,034,081UniSTSGRCm37
Celera1656,349,136 - 56,349,368UniSTS
Cytogenetic Map16C1.1UniSTS
cM Map1635.9UniSTS
cM Map1633.79UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000059052   ⟹   ENSMUSP00000058954
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1655,852,972 - 55,858,182 (-)Ensembl
GRCm38.p6 Ensembl1656,032,609 - 56,037,819 (-)Ensembl
RefSeq Acc Id: NM_029092   ⟹   NP_083368
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391655,854,083 - 55,858,149 (-)NCBI
GRCm381656,033,720 - 56,037,786 (-)NCBI
MGSCv371656,033,833 - 56,037,887 (-)RGD
Celera1656,349,120 - 56,353,174 (-)RGD
cM Map16 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_083368   ⟸   NM_029092
- Peptide Label: precursor
- UniProtKB: Q8R588 (UniProtKB/Swiss-Prot),   Q9DBC1 (UniProtKB/Swiss-Prot),   Q3UFY8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000058954   ⟸   ENSMUST00000059052
Protein Domains
SAM-dependent MTase TRM10-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3UFY8-F1-model_v2 AlphaFold Q3UFY8 1-414 view protein structure

Promoters
RGD ID:8686380
Promoter ID:EPDNEW_M21220
Type:initiation region
Name:Trmt10c_1
Description:Mus musculus tRNA methyltransferase 10C , 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
GRCm381656,037,764 - 56,037,824EPDNEW
RGD ID:6827410
Promoter ID:MM_KWN:21251
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000063660
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361656,037,781 - 56,038,292 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1196261 AgrOrtholog
Ensembl Genes ENSMUSG00000044763 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000059052 ENTREZGENE
  ENSMUST00000059052.9 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.1280.30 UniProtKB/Swiss-Prot
InterPro MT_TRM10-typ UniProtKB/Swiss-Prot
  MT_TRM10-typ_sf UniProtKB/Swiss-Prot
  TRM10C UniProtKB/Swiss-Prot
  tRNA_m1G_MeTrfase_euk UniProtKB/Swiss-Prot
  tRNA_MeTrfase_TRMD/TRM10 UniProtKB/Swiss-Prot
KEGG Report mmu:52575 UniProtKB/Swiss-Prot
MGD MGI:1196261 ENTREZGENE
NCBI Gene 52575 ENTREZGENE
PANTHER PTHR13563 UniProtKB/Swiss-Prot
  PTHR13563:SF5 UniProtKB/Swiss-Prot
Pfam tRNA_m1G_MT UniProtKB/Swiss-Prot
PhenoGen Trmt10c PhenoGen
PROSITE SAM_MT_TRM10 UniProtKB/Swiss-Prot
UniProt Q3UFY8 ENTREZGENE
  Q8R588 ENTREZGENE
  Q9DBC1 ENTREZGENE
  TM10C_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q8R588 UniProtKB/Swiss-Prot
  Q9DBC1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-03-26 Trmt10c  tRNA methyltransferase 10C, mitochondrial RNase P subunit    tRNA methyltransferase 10C  Symbol and/or name change 5135510 APPROVED
2012-11-27 Trmt10c  tRNA methyltransferase 10C    tRNA methyltransferase 10 homolog C (S. cerevisiae)  Symbol and/or name change 5135510 APPROVED
2012-09-19 Trmt10c  tRNA methyltransferase 10 homolog C (S. cerevisiae)  Rg9mtd1  RNA (guanine-9-) methyltransferase domain containing 1  Symbol and/or name change 5135510 APPROVED