TRMT2A (tRNA methyltransferase 2 homolog A) - Rat Genome Database

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Gene: TRMT2A (tRNA methyltransferase 2 homolog A) Canis lupus familiaris
Analyze
Symbol: TRMT2A
Name: tRNA methyltransferase 2 homolog A
RGD ID: 12360477
Description: ENCODES a protein that exhibits C-methyltransferase activity (inferred); methyltransferase activity (inferred); nucleic acid binding (inferred); INVOLVED IN methylation (inferred); RNA processing (inferred); ASSOCIATED WITH autism spectrum disorder (ortholog); autistic disorder (ortholog); chromosome 22q11.2 deletion syndrome, distal (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: TRM2 tRNA methyltransferase 2 homolog A; tRNA (uracil-5-)-methyltransferase homolog A
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
CanFam3.12629,219,549 - 29,224,155 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2629,219,812 - 29,226,233 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2629,178,491 - 29,183,068 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02630,623,618 - 30,628,196 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2630,623,786 - 30,630,273 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12628,671,464 - 28,676,060 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02628,296,828 - 28,301,424 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02629,381,756 - 29,386,414 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
TRMT2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12629,219,549 - 29,224,155 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2629,219,812 - 29,226,233 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2629,178,491 - 29,183,068 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02630,623,618 - 30,628,196 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2630,623,786 - 30,630,273 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12628,671,464 - 28,676,060 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02628,296,828 - 28,301,424 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02629,381,756 - 29,386,414 (+)NCBIUU_Cfam_GSD_1.0
TRMT2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382220,111,875 - 20,117,226 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2220,111,875 - 20,117,392 (-)EnsemblGRCh38hg38GRCh38
GRCh372220,099,398 - 20,104,749 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362218,479,398 - 18,484,768 (-)NCBINCBI36Build 36hg18NCBI36
Celera223,951,448 - 3,956,818 (-)NCBICelera
Cytogenetic Map22q11.21ENTREZGENE
HuRef223,720,050 - 3,725,479 (-)NCBIHuRef
CHM1_12220,099,073 - 20,104,502 (-)NCBICHM1_1
T2T-CHM13v2.02220,490,925 - 20,496,276 (-)NCBIT2T-CHM13v2.0
Trmt2a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391618,066,747 - 18,072,636 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1618,066,543 - 18,072,636 (+)EnsemblGRCm39 Ensembl
GRCm381618,248,847 - 18,254,772 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1618,248,679 - 18,254,772 (+)EnsemblGRCm38mm10GRCm38
MGSCv371618,248,976 - 18,253,595 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361618,162,242 - 18,167,065 (+)NCBIMGSCv36mm8
Celera1618,821,629 - 18,826,248 (+)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1611.31NCBI
Trmt2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81196,241,998 - 96,246,719 (-)NCBIGRCr8
mRatBN7.21182,737,689 - 82,742,423 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1182,737,689 - 82,742,336 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1191,466,077 - 91,470,686 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01184,127,305 - 84,131,914 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01183,180,820 - 83,185,429 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01186,885,671 - 86,890,482 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,885,626 - 86,890,390 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01189,979,609 - 89,984,427 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41184,731,490 - 84,736,099 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11184,772,087 - 84,776,696 (-)NCBI
Celera1181,514,696 - 81,519,305 (-)NCBICelera
Cytogenetic Map11q23NCBI
Trmt2a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544217,993,434 - 17,997,850 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544217,993,130 - 17,997,944 (+)NCBIChiLan1.0ChiLan1.0
TRMT2A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22329,738,978 - 29,744,352 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12232,285,632 - 32,291,342 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0222,872,328 - 2,877,732 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12218,544,736 - 18,550,174 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2218,544,736 - 18,550,174 (-)Ensemblpanpan1.1panPan2
Trmt2a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118138,734,886 - 138,739,581 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366194,014,508 - 4,020,569 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366194,015,072 - 4,020,163 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRMT2A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1451,489,892 - 51,494,190 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11451,489,889 - 51,494,204 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21455,126,931 - 55,131,237 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TRMT2A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1195,622,542 - 5,627,923 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl195,622,630 - 5,627,257 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660851,305,872 - 1,311,254 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trmt2a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624747722,607 - 727,947 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624747722,901 - 727,979 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TRMT2A
62 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


Ensembl Acc Id: ENSCAFT00000022517   ⟹   ENSCAFP00000020906
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2629,219,812 - 29,224,155 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000071097   ⟹   ENSCAFP00000062278
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2629,219,812 - 29,226,233 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845048654   ⟹   ENSCAFP00845038167
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2630,623,786 - 30,630,273 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845048851   ⟹   ENSCAFP00845038325
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2630,623,786 - 30,628,194 (+)Ensembl
RefSeq Acc Id: XM_005636571   ⟹   XP_005636628
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12629,219,549 - 29,224,155 (+)NCBI
Dog10K_Boxer_Tasha2629,178,491 - 29,183,068 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038437499   ⟹   XP_038293427
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02630,623,618 - 30,628,196 (+)NCBI
RefSeq Acc Id: XM_038512368   ⟹   XP_038368296
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12628,671,464 - 28,676,060 (+)NCBI
RefSeq Acc Id: XM_038574512   ⟹   XP_038430440
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02629,381,756 - 29,386,414 (+)NCBI
RefSeq Acc Id: XM_038640082   ⟹   XP_038496010
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02628,296,828 - 28,301,424 (+)NCBI
RefSeq Acc Id: XP_005636628   ⟸   XM_005636571
- Peptide Label: isoform X1
- UniProtKB: A0A8C0RNG0 (UniProtKB/TrEMBL),   A0A8C0K3J7 (UniProtKB/TrEMBL),   A0A8I3Q3B5 (UniProtKB/TrEMBL),   A0A8P0NG25 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCAFP00000062278   ⟸   ENSCAFT00000071097
Ensembl Acc Id: ENSCAFP00000020906   ⟸   ENSCAFT00000022517
RefSeq Acc Id: XP_038368296   ⟸   XM_038512368
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038496010   ⟸   XM_038640082
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038293427   ⟸   XM_038437499
- Peptide Label: isoform X1
- UniProtKB: A0A8C0RNG0 (UniProtKB/TrEMBL),   A0A8C0K3J7 (UniProtKB/TrEMBL),   A0A8I3Q3B5 (UniProtKB/TrEMBL),   A0A8P0NG25 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038430440   ⟸   XM_038574512
- Peptide Label: isoform X2
Ensembl Acc Id: ENSCAFP00845038167   ⟸   ENSCAFT00845048654
Ensembl Acc Id: ENSCAFP00845038325   ⟸   ENSCAFT00845048851
Protein Domains
RRM

Promoters
RGD ID:13688030
Promoter ID:EPDNEW_C6100
Type:multiple initiation site
Name:TRMT2A_1
Description:tRNA methyltransferase 2 homolog A
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
CanFam3.12629,219,747 - 29,219,807EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000014190 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030018934 UniProtKB/TrEMBL
  ENSCAFG00040021316 UniProtKB/TrEMBL
  ENSCAFG00845027597 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000022517.5 UniProtKB/TrEMBL
  ENSCAFT00000071097.2 UniProtKB/TrEMBL
  ENSCAFT00030034797.1 UniProtKB/TrEMBL
  ENSCAFT00030034843.1 UniProtKB/TrEMBL
  ENSCAFT00040039544.1 UniProtKB/TrEMBL
  ENSCAFT00040039595.1 UniProtKB/TrEMBL
  ENSCAFT00845048654.1 UniProtKB/TrEMBL
  ENSCAFT00845048851 ENTREZGENE
  ENSCAFT00845048851.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.1070 UniProtKB/TrEMBL
  3.30.70.330 UniProtKB/TrEMBL
  3.40.50.150 UniProtKB/TrEMBL
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
  SAM-dependent_MTases UniProtKB/TrEMBL
  TRM2_euk UniProtKB/TrEMBL
  TRMT2A_RRM UniProtKB/TrEMBL
  U5_MeTrfase_fam UniProtKB/TrEMBL
KEGG Report cfa:477564 UniProtKB/TrEMBL
NCBI Gene TRMT2A ENTREZGENE
PANTHER PTHR45904 UniProtKB/TrEMBL
  TRNA (URACIL-5-)-METHYLTRANSFERASE HOMOLOG A UniProtKB/TrEMBL
Pfam tRNA_U5-meth_tr UniProtKB/TrEMBL
PROSITE RRM UniProtKB/TrEMBL
  SAM_MT_RNA_M5U UniProtKB/TrEMBL
Superfamily-SCOP SSF53335 UniProtKB/TrEMBL
  SSF54928 UniProtKB/TrEMBL
UniProt A0A8C0K3J7 ENTREZGENE
  A0A8C0NUH0_CANLF UniProtKB/TrEMBL
  A0A8C0RNG0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PU00_CANLF UniProtKB/TrEMBL
  A0A8I3Q3B5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0NG25 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:47858 ENTREZGENE