Trmt2a tRNA methyltransferase 2 homolog A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Trmt2aprovided by RGD
Official Full Name: tRNA methyltransferase 2 homolog Aprovided by RGD
Primary source: RGD:1310418
See related: EnsemblRapid:ENSRNOG00000001885 AllianceGenome:RGD:1310418
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Htf9c
Summary: Predicted to enable C-methyltransferase activity and tRNA (uracil(54)-C5)-methyltransferase activity, S-adenosyl methionine-dependent. Predicted to be involved in RNA processing and methylation. Orthologous to human TRMT2A (tRNA methyltransferase 2 homolog A). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 119.3), Spleen (RPKM 95.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 11q23

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (96241998..96246719, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (82737689..82742423, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (86885671..86890482, complement)

Chromosome 11 - NC_086029.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

RH136862 (e-PCR)
- UniSTS:218951

BF403357 (e-PCR)
- UniSTS:246425

Htf9c (e-PCR), detects polymorphism
- UniSTS:479165

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables C-methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables tRNA (uracil(54)-C5)-methyltransferase activity, S-adenosyl methionine-dependent	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in RNA processing	IEA Inferred from Electronic Annotation more info
involved_in methylation	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: tRNA (uracil-5-)-methyltransferase homolog A

Names: HpaII tiny fragments locus 9c; TRM2 tRNA methyltransferase 2 homolog A

NP_001011895.1

EC 2.1.1.35

XP_006248667.1

EC 2.1.1.35

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001011895.1 → NP_001011895.1 tRNA (uracil-5-)-methyltransferase homolog A

See identical proteins and their annotated locations for NP_001011895.1

Status: PROVISIONAL

Source sequence(s)

BC083619

UniProtKB/TrEMBL

A0A8I5ZNM4, A6JSH8, F7F7M9, Q5XIQ6

Related

ENSRNOP00000044510.3, ENSRNOT00000046183.6

Conserved Domains (4) summary

COG0724
Location:61 → 202

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

COG2265
Location:170 → 572

TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]

cd12439
Location:59 → 137

RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins

cl17173
Location:376 → 579

AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086029.1 Reference GRCr8

Range

96241998..96246719 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006248605.4 → XP_006248667.1 tRNA (uracil-5-)-methyltransferase homolog A isoform X1

See identical proteins and their annotated locations for XP_006248667.1

UniProtKB/TrEMBL

A0A8I5ZNM4

Related

ENSRNOP00000079605.1, ENSRNOT00000105074.2

Conserved Domains (2) summary

cd12439
Location:47 → 125

RRM_TRMT2A; RNA recognition motif (RRM) found in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins

cl17173
Location:158 → 560

AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...