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

    Gene ID: 72133, updated on 9-Dec-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 pre-miRNA binding activity and pseudouridine synthase activity. Predicted to be involved in mRNA pseudouridine synthesis; positive regulation of pre-miRNA processing; and tRNA modification. Predicted to be located in cytosol. Predicted to be active in nucleus. 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, Dec 2024]
    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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    See Trub1 in Genome Data Viewer
    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 (20) 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)
    • Endonuclease-mediated (2) 
    • Gene trapped (1) 
    • Targeted (2) 

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC107612

    Gene Ontology Provided by MGI

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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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