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Trub1 TruB pseudouridine (psi) synthase family member 1 [ Mus musculus (house mouse) ]

Gene ID: 72133, updated on 21-Apr-2024

Summary

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Official Symbol
Trub1provided by MGI
Official Full Name
TruB pseudouridine (psi) synthase family member 1provided by MGI
Primary source
MGI:MGI:1919383
See related
Ensembl:ENSMUSG00000025086 AllianceGenome:MGI:1919383
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
2610009I02Rik; 9030425C13Rik
Summary
Predicted to enable pseudouridine synthase activity. Predicted to be involved in mRNA pseudouridine synthesis and tRNA modification. Predicted to be located in cytosol and nucleus. Predicted to be active in mitochondrion. Is expressed in pectoral girdle and thoracic body wall musculature and testis. Orthologous to human TRUB1 (TruB pseudouridine synthase family member 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 6.4), CNS E18 (RPKM 5.2) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
19 D2; 19 52.25 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (57441323..57479437)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (57452892..57491005)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene FHF complex subunit HOOK interacting protein 2A Neighboring gene RIKEN cDNA 2600017C09 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:57486570-57486679 Neighboring gene predicted gene, 41874 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:57506098-57506303 Neighboring gene RIKEN cDNA 6720468P15 gene Neighboring gene predicted gene, 32932

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. Identification of Modifier Genes in a Mouse Model of Gaucher Disease. Klein AD, et al. Cell Rep, 2016 Sep 6. PMID 27568557
  2. The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data. Koscielny G, et al. Nucleic Acids Res, 2014 Jan. PMID 24194600, Free PMC Article
  3. 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
  4. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
  5. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (2) 
  • Endonuclease-mediated (2) 

General gene information

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Markers

Homology

Clone Names

  • MGC107612

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables isomerase activity IEA
Inferred from Electronic Annotation
more info
  
enables pre-miRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables pseudouridine synthase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables pseudouridine synthase activity ISO
Inferred from Sequence Orthology
more info
  
enables tRNA pseudouridine(55) synthase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in RNA modification IEA
Inferred from Electronic Annotation
more info
  
involved_in RNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA pseudouridine synthesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in mRNA pseudouridine synthesis ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of pre-miRNA processing ISO
Inferred from Sequence Orthology
more info
  
involved_in pseudouridine synthesis IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA modification IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in tRNA modification 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 IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
pseudouridylate synthase TRUB1
Names
TruB pseudouridine (psi) synthase homolog 1
probable tRNA pseudouridine synthase 1
psi55 synthase TRUB1
tRNA pseudouridine 55 synthase TRUB1
truB pseudouridine synthase homolog 1
NP_082391.1
NP_084115.2
XP_006527419.2
XP_006527420.2

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_028115.3 → NP_082391.1  pseudouridylate synthase TRUB1 isoform 1

    See identical proteins and their annotated locations for NP_082391.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC140413, AK031674, BY094716
    Consensus CDS
    CCDS29926.1
    UniProtKB/Swiss-Prot
    Q5EBH7, Q8C0D0, Q9D331
    UniProtKB/TrEMBL
    Q7TQK3
    Related
    ENSMUSP00000026073.7, ENSMUST00000026073.14
    Conserved Domains (2) summary
    TIGR00431
    Location:58 → 275
    TruB; tRNA pseudouridine(55) synthase
    cl00130
    Location:58 → 313
    PseudoU_synth; Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi)

  2. NM_029839.3 → NP_084115.2  pseudouridylate synthase TRUB1 isoform 2

    See identical proteins and their annotated locations for NP_084115.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC140413, AK018525, AK031674, BY094716
    Consensus CDS
    CCDS29927.1
    UniProtKB/TrEMBL
    Q3TPW0
    Related
    ENSMUSP00000026072.4, ENSMUST00000026072.5
    Conserved Domains (1) summary
    cl00130
    Location:58 → 233
    PseudoU_synth; Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi)

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_000085.7 Reference GRCm39 C57BL/6J

    Range
    57441323..57479437
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006527357.5 → XP_006527420.2  pseudouridylate synthase TRUB1 isoform X2

    UniProtKB/TrEMBL
    Q3TPW0
    Conserved Domains (1) summary
    cl00130
    Location:58 → 260
    PseudoU_synth; Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi)

  2. XM_006527356.4 → XP_006527419.2  pseudouridylate synthase TRUB1 isoform X1

    UniProtKB/TrEMBL
    Q7TQK3
    Conserved Domains (1) summary
    cl00130
    Location:58 → 280
    PseudoU_synth; Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi)

RNA

  1. XR_004940175.1 RNA Sequence

  2. XR_386517.5 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8C0D0.1 GenPept UniProtKB/Swiss-Prot:Q8C0D0

Gene LinkOut

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