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TRMT2A tRNA methyltransferase 2 homolog A [ Homo sapiens (human) ]

Gene ID: 27037, updated on 6-Sep-2022

Summary

Official Symbol
TRMT2Aprovided by HGNC
Official Full Name
tRNA methyltransferase 2 homolog Aprovided by HGNC
Primary source
HGNC:HGNC:24974
See related
Ensembl:ENSG00000099899 MIM:611151; AllianceGenome:HGNC:24974
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HTF9C
Summary
The protein encoded by this gene is of unknown function. However, it is orthologous to the mouse Trmt2a gene and contains an RNA methyltransferase domain. Expression of this gene varies during the cell cycle, with aberrant expression being a possible biomarker in certain breast cancers. Several transcript variants encoding two different isoforms have been found for this gene. [provided by RefSeq, Apr 2012]
Expression
Ubiquitous expression in spleen (RPKM 11.1), testis (RPKM 10.2) and 25 other tissues See more
Orthologs
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Genomic context

See TRMT2A in Genome Data Viewer
Location:
22q11.21
Exon count:
14
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (20111875..20117226, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (20490925..20496276, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (20099398..20104749, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene DGCR8 microprocessor complex subunit Neighboring gene microRNA 3618 Neighboring gene microRNA 1306 Neighboring gene microRNA 6816 Neighboring gene RAN binding protein 1 Neighboring gene small nucleolar RNA, H/ACA box 77B Neighboring gene zinc finger DHHC-type palmitoyltransferase 8

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC102728

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
 
involved_in tRNA methylation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in cytosol TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
tRNA (uracil-5-)-methyltransferase homolog A
Names
TRM2 tRNA methyltransferase 2 homolog A
hpaII tiny fragments locus 9c protein
mRNA (uracil-5-)-methyltransferase TRMT2A
NP_001244923.1
NP_001317968.1
NP_073564.3
NP_892029.2
XP_011528441.1
XP_011528444.1

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)

  1. NM_001257994.2NP_001244923.1  tRNA (uracil-5-)-methyltransferase homolog A isoform b

    See identical proteins and their annotated locations for NP_001244923.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice junction at the 5' end of a coding exon compared to variant 1. The resulting isoform (b) has a shorter and distinct C-terminus compared to isoform a.
    Source sequence(s)
    AC006547, AI539558, AK057029
    Consensus CDS
    CCDS58793.1
    UniProtKB/Swiss-Prot
    Q8IZ69
    Related
    ENSP00000384968.3, ENST00000404751.7
    Conserved Domains (4) summary
    COG0724
    Location:70161
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    COG2265
    Location:179540
    TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
    cd12439
    Location:68146
    RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins
    cl17173
    Location:385541
    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). ...
  2. NM_001331039.2NP_001317968.1  tRNA (uracil-5-)-methyltransferase homolog A isoform c

    Status: REVIEWED

    Source sequence(s)
    AC006547, CA440188
    Consensus CDS
    CCDS82693.1
    UniProtKB/TrEMBL
    F2Z2W7
    Related
    ENSP00000395738.2, ENST00000439169.2
    Conserved Domains (4) summary
    COG0724
    Location:70161
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    COG2265
    Location:179599
    TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
    cd12439
    Location:68146
    RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins
    cl17173
    Location:385606
    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). ...
  3. NM_022727.6NP_073564.3  tRNA (uracil-5-)-methyltransferase homolog A isoform a

    See identical proteins and their annotated locations for NP_073564.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a). Variants 1 and 2 both encode the same isoform (a).
    Source sequence(s)
    AC006547, AI539558, BC017184, BX349795
    Consensus CDS
    CCDS13774.1
    UniProtKB/Swiss-Prot
    Q8IZ69, Q9H732
    Related
    ENSP00000252136.7, ENST00000252136.12
    Conserved Domains (2) summary
    COG2265
    Location:179581
    TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
    cd12439
    Location:68146
    RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins
  4. NM_182984.5NP_892029.2  tRNA (uracil-5-)-methyltransferase homolog A isoform a

    See identical proteins and their annotated locations for NP_892029.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).
    Source sequence(s)
    AI539558, BC017184, BX349795
    Consensus CDS
    CCDS13774.1
    UniProtKB/Swiss-Prot
    Q8IZ69, Q9H732
    Related
    ENSP00000385807.3, ENST00000403707.7
    Conserved Domains (2) summary
    COG2265
    Location:179581
    TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
    cd12439
    Location:68146
    RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p14 Primary Assembly

    Range
    20111875..20117226 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011530139.4XP_011528441.1  tRNA (uracil-5-)-methyltransferase homolog A isoform X1

    UniProtKB/TrEMBL
    F2Z2W7
    Conserved Domains (4) summary
    COG0724
    Location:70161
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    COG2265
    Location:179599
    TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
    cd12439
    Location:68146
    RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins
    cl17173
    Location:385606
    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). ...
  2. XM_011530142.4XP_011528444.1  tRNA (uracil-5-)-methyltransferase homolog A isoform X2

    See identical proteins and their annotated locations for XP_011528444.1

    Conserved Domains (2) summary
    COG2265
    Location:63273
    TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
    cl17173
    Location:59280
    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). ...

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060946.1 Alternate T2T-CHM13v2.0

    Range
    20490925..20496276 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)