Trmt61a (tRNA methyltransferase 61A) - Rat Genome Database

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Gene: Trmt61a (tRNA methyltransferase 61A) Rattus norvegicus
Analyze
Symbol: Trmt61a
Name: tRNA methyltransferase 61A
RGD ID: 1359191
Description: Predicted to enable mRNA (adenine-N1-)-methyltransferase activity. Predicted to be involved in mRNA methylation and tRNA methylation. Predicted to be part of tRNA (m1A) methyltransferase complex. Predicted to be active in nucleus. Orthologous to human TRMT61A (tRNA methyltransferase 61A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Gcd14; GCD14 and PCMT domain containing protein RGD1359191; GCD14/PCMT domain containing protein; GCD14/PCMT domain containing protein RGD1359191; LOC103692719; MGC94251; mRNA methyladenosine-N(1)-methyltransferase catalytic subunit TRMT61A; RGD1359191; similar to RIKEN cDNA 6720458F09 gene; Trm61; tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A; tRNA (adenine-N(1)-)-methyltransferase catalytic subunit TRM61; tRNA (adenine-N(1)-)-methyltransferase catalytic subunit TRMT61A; tRNA methyltransferase 61 homolog A; tRNA methyltransferase 61 homolog A (S. cerevisiae); tRNA(m1A58)-methyltransferase subunit TRM61; tRNA(m1A58)-methyltransferase subunit TRMT61A; tRNA(m1A58)MTase subunit TRM61; tRNA(m1A58)MTase subunit TRMT61A
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26130,737,230 - 130,743,251 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6130,737,219 - 130,743,243 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6130,904,351 - 130,910,340 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.06131,200,333 - 131,206,322 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.06130,567,314 - 130,573,306 (+)NCBIRnor_WKY
Rnor_6.06136,150,768 - 136,156,785 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6136,150,785 - 136,250,752 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06144,259,958 - 144,265,948 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46136,460,061 - 136,466,051 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.16136,466,247 - 136,472,238 (+)NCBI
Celera6128,292,547 - 128,298,537 (+)NCBICelera
Cytogenetic Map6q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process
mRNA methylation  (ISO,ISS)
tRNA methylation  (IBA,ISO)

Cellular Component

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. null JRS Domain-based curation
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
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
7. 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:15489334   PMID:16043508   PMID:29072297   PMID:29107537  


Genomics

Comparative Map Data
Trmt61a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26130,737,230 - 130,743,251 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6130,737,219 - 130,743,243 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6130,904,351 - 130,910,340 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.06131,200,333 - 131,206,322 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.06130,567,314 - 130,573,306 (+)NCBIRnor_WKY
Rnor_6.06136,150,768 - 136,156,785 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6136,150,785 - 136,250,752 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06144,259,958 - 144,265,948 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46136,460,061 - 136,466,051 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.16136,466,247 - 136,472,238 (+)NCBI
Celera6128,292,547 - 128,298,537 (+)NCBICelera
Cytogenetic Map6q32NCBI
TRMT61A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3814103,529,196 - 103,537,073 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl14103,529,196 - 103,537,073 (+)EnsemblGRCh38hg38GRCh38
GRCh3714103,995,533 - 104,003,410 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3614103,065,262 - 103,073,163 (+)NCBINCBI36Build 36hg18NCBI36
Build 3414103,065,261 - 103,072,135NCBI
Celera1484,049,737 - 84,057,638 (+)NCBICelera
Cytogenetic Map14q32.33NCBI
HuRef1484,173,869 - 84,181,770 (+)NCBIHuRef
CHM1_114103,933,703 - 103,941,603 (+)NCBICHM1_1
T2T-CHM13v2.01497,765,240 - 97,773,117 (+)NCBIT2T-CHM13v2.0
Trmt61a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912111,644,539 - 111,650,336 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12111,644,539 - 111,650,336 (+)EnsemblGRCm39 Ensembl
GRCm3812111,678,105 - 111,683,902 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12111,678,105 - 111,683,902 (+)EnsemblGRCm38mm10GRCm38
MGSCv3712112,916,316 - 112,922,113 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3612112,125,951 - 112,131,708 (+)NCBIMGSCv36mm8
Celera12116,252,156 - 116,255,241 (+)NCBICelera
Cytogenetic Map12F1NCBI
Trmt61a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555382,383,666 - 2,396,402 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555382,383,666 - 2,393,667 (+)NCBIChiLan1.0ChiLan1.0
TRMT61A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.114103,966,755 - 103,977,942 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl14103,966,755 - 103,974,697 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01484,151,067 - 84,167,111 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TRMT61A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1871,294,129 - 71,300,679 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl871,294,303 - 71,300,687 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha870,804,995 - 70,811,676 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0871,569,543 - 71,576,222 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl871,569,577 - 71,576,219 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1871,258,633 - 71,265,303 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0871,298,368 - 71,305,046 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0871,697,586 - 71,704,265 (+)NCBIUU_Cfam_GSD_1.0
Trmt61a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244086402,771,284 - 2,783,809 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366211,599,309 - 1,606,939 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049366211,600,241 - 1,607,039 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRMT61A
(Sus scrofa - pig)
No map positions available.
TRMT61A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12481,464,312 - 81,476,867 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605368,773,512 - 68,780,294 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trmt61a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247341,335,091 - 1,344,714 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247341,335,946 - 1,342,253 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Trmt61a
29 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:153
Count of miRNA genes:117
Interacting mature miRNAs:144
Transcripts:ENSRNOT00000015308
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)685311061133478515Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)686894788131894788Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)688047916133047916Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)694968928137848904Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)696833997140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6100671796132340886Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6105156861140994061Rat
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6106752656132339866Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6112636280140994061Rat
1641917Colcr5Colorectal carcinoma resistance QTL 53.180.0009intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)6122549046137801795Rat
2293085Iddm29Insulin dependent diabetes mellitus QTL 297.66blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)6122549046140286318Rat
61329Eae9Experimental allergic encephalomyelitis QTL 93.7body mass (VT:0001259)change in body weight (CMO:0002045)6122549046140994061Rat
2312560Pur20Proteinuria QTL 202.10.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)6125628133137801795Rat

Markers in Region
RH132260  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26130,742,988 - 130,743,173 (+)MAPPERmRatBN7.2
Rnor_6.06136,250,236 - 136,250,420NCBIRnor6.0
Rnor_6.06136,156,525 - 136,156,709NCBIRnor6.0
Rnor_5.06144,260,030 - 144,260,214UniSTSRnor5.0
RGSC_v3.46136,465,795 - 136,465,979UniSTSRGSC3.4
Celera6128,298,281 - 128,298,465UniSTS
RH 3.4 Map6780.9UniSTS
Cytogenetic Map6q32UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 8 2
Below cutoff 3 24 32 24 17 24 2 4 58 26 35 11 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015308   ⟹   ENSRNOP00000015308
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6130,737,219 - 130,743,243 (+)Ensembl
Rnor_6.0 Ensembl6136,150,791 - 136,156,781 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078211   ⟹   ENSRNOP00000071623
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6136,150,785 - 136,250,752 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000086997   ⟹   ENSRNOP00000072725
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6136,245,027 - 136,249,594 (+)Ensembl
RefSeq Acc Id: NM_001007706   ⟹   NP_001007707
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26130,737,255 - 130,743,245 (+)NCBI
Rnor_6.06136,150,791 - 136,156,781 (+)NCBI
Rnor_5.06144,259,958 - 144,265,948 (-)NCBI
RGSC_v3.46136,460,061 - 136,466,051 (+)RGD
Celera6128,292,547 - 128,298,537 (+)RGD
Sequence:
RefSeq Acc Id: XM_008764938   ⟹   XP_008763160
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26130,737,230 - 130,743,251 (+)NCBI
Rnor_6.06136,150,768 - 136,156,785 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001007707 (Get FASTA)   NCBI Sequence Viewer  
  XP_008763160 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79198 (Get FASTA)   NCBI Sequence Viewer  
  EDL97455 (Get FASTA)   NCBI Sequence Viewer  
  Q6AY46 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001007707   ⟸   NM_001007706
- UniProtKB: Q6AY46 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008763160   ⟸   XM_008764938
- Peptide Label: isoform X1
- UniProtKB: Q6AY46 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000015308   ⟸   ENSRNOT00000015308
RefSeq Acc Id: ENSRNOP00000072725   ⟸   ENSRNOT00000086997
RefSeq Acc Id: ENSRNOP00000071623   ⟸   ENSRNOT00000078211

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AY46-F1-model_v2 AlphaFold Q6AY46 1-290 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359191 AgrOrtholog
BioCyc Gene G2FUF-35835 BioCyc
BioCyc Pathway PWY-6829 [tRNA methylation (yeast)] BioCyc
Ensembl Genes ENSRNOG00000011398 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000015308 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015308 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.150 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7131557 IMAGE-MGC_LOAD
InterPro SAM-dependent_MTases UniProtKB/Swiss-Prot
  tRNA_MeTrfase_Gcd14 UniProtKB/Swiss-Prot
KEGG Report rno:314462 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94251 IMAGE-MGC_LOAD
NCBI Gene 314462 ENTREZGENE
PANTHER PTHR12133 UniProtKB/Swiss-Prot
Pfam GCD14 UniProtKB/Swiss-Prot
PhenoGen Trmt61a PhenoGen
PIRSF GCD14 UniProtKB/Swiss-Prot
PROSITE SAM_TRM61 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF53335 UniProtKB/Swiss-Prot
UniProt Q6AY46 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Trmt61a  tRNA methyltransferase 61A  LOC103692719  tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A  Data Merged 737654 PROVISIONAL
2014-12-01 Trmt61a  tRNA methyltransferase 61A  Trmt61a  tRNA methyltransferase 61 homolog A (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-08-25 LOC103692719  tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A      Symbol and Name status set to provisional 70820 PROVISIONAL
2009-06-12 Trmt61a  tRNA methyltransferase 61 homolog A (S. cerevisiae)  RGD1359191  GCD14/PCMT domain containing protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-06-27 RGD1359191  GCD14/PCMT domain containing protein  RGD1359191  GCD14/PCMT domain containing protein RGD1359191  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 RGD1359191  GCD14 and PCMT domain containing protein RGD1359191  MGC94251  similar to RIKEN cDNA 6720458F09 gene  Symbol and Name updated 1299863 APPROVED
2005-07-29 MGC94251  similar to RIKEN cDNA 6720458F09 gene      Symbol and Name status set to provisional 70820 PROVISIONAL