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Thumpd3 THUMP domain containing 3 [ Mus musculus (house mouse) ]

Gene ID: 14911, updated on 11-Apr-2024

Summary

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Official Symbol
Thumpd3provided by MGI
Official Full Name
THUMP domain containing 3provided by MGI
Primary source
MGI:MGI:1277973
See related
Ensembl:ENSMUSG00000030264 AllianceGenome:MGI:1277973
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gtrosa26as; Gt(ROSA)26asSor
Summary
Predicted to enable tRNA (guanine) methyltransferase activity. Predicted to be involved in tRNA methylation. Predicted to act upstream of or within methylation. Predicted to be located in cytosol and nucleolus. Is expressed in central nervous system; craniocervical region bone; and sensory organ. Orthologous to human THUMPD3 (THUMP domain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis adult (RPKM 10.3), placenta adult (RPKM 8.3) and 25 other tissues See more
Orthologs
human all
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Genomic context

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Location:
6 E3; 6 52.73 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (113023292..113045239)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (113046302..113068278)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_17031 Neighboring gene STARR-positive B cell enhancer ABC_E4853 Neighboring gene predicted gene, 23244 Neighboring gene predicted gene, 43868 Neighboring gene gene trap ROSA 26, Philippe Soriano Neighboring gene predicted gene, 22591 Neighboring gene STARR-seq mESC enhancer starr_17032 Neighboring gene STARR-seq mESC enhancer starr_17033 Neighboring gene SET domain containing 5 Neighboring gene lipoma HMGIC fusion partner-like protein 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Disruption of overlapping transcripts in the ROSA beta geo 26 gene trap strain leads to widespread expression of beta-galactosidase in mouse embryos and hematopoietic cells. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 1997 Apr 15. PMID 9108056, Free PMC Article
  2. Promoter traps in embryonic stem cells: a genetic screen to identify and mutate developmental genes in mice. Friedrich G, et al. Genes Dev, 1991 Sep. PMID 1653172
  3. A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. McKee AE, et al. BMC Dev Biol, 2005 Jul 20. PMID 16033648, Free PMC Article
  4. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
  5. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables tRNA (guanine(6)-N2)-methyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables tRNA (guanine(7)-N2)-methyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables tRNA (guanine) methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables tRNA binding IEA
Inferred from Electronic Annotation
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA methylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in tRNA methylation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within tRNA processing IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
tRNA (guanine(6)-N2)-methyltransferase THUMP3
Names
THUMP domain-containing protein 3
gene trap ROSA 26 antisense, Philippe Soriano
gtROSA26asSor
NP_001342195.1
NP_001396883.1
NP_001396884.1
NP_032214.1
XP_036021758.1

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_001355266.2 → NP_001342195.1  tRNA (guanine(6)-N2)-methyltransferase THUMP3

    Status: VALIDATED

    Source sequence(s)
    AC155722
    Consensus CDS
    CCDS20410.1
    UniProtKB/Swiss-Prot
    P97770, Q99M45, Q9D3P0
    Conserved Domains (2) summary
    cd11715
    Location:42 → 288
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:295 → 480
    UPF0020; Putative RNA methylase family UPF0020

  2. NM_001409954.1 → NP_001396883.1  tRNA (guanine(6)-N2)-methyltransferase THUMP3

    Status: VALIDATED

    Source sequence(s)
    AC155722
    UniProtKB/Swiss-Prot
    P97770, Q99M45, Q9D3P0

  3. NM_001409955.1 → NP_001396884.1  tRNA (guanine(6)-N2)-methyltransferase THUMP3

    Status: VALIDATED

    Source sequence(s)
    AC155722
    UniProtKB/Swiss-Prot
    P97770, Q99M45, Q9D3P0

  4. NM_008188.4 → NP_032214.1  tRNA (guanine(6)-N2)-methyltransferase THUMP3

    See identical proteins and their annotated locations for NP_032214.1

    Status: VALIDATED

    Source sequence(s)
    AC155722
    Consensus CDS
    CCDS20410.1
    UniProtKB/Swiss-Prot
    P97770, Q99M45, Q9D3P0
    Related
    ENSMUSP00000032398.9, ENSMUST00000032398.15
    Conserved Domains (2) summary
    cd11715
    Location:42 → 288
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:295 → 480
    UPF0020; Putative RNA methylase family UPF0020

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    113023292..113045239
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036165865.1 → XP_036021758.1  tRNA (guanine(6)-N2)-methyltransferase THUMP3 isoform X1

    UniProtKB/Swiss-Prot
    P97770, Q99M45, Q9D3P0
    Conserved Domains (2) summary
    cd11715
    Location:42 → 288
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:295 → 480
    UPF0020; Putative RNA methylase family UPF0020
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P97770.1 GenPept UniProtKB/Swiss-Prot:P97770

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