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    Trub2 TruB pseudouridine (psi) synthase family member 2 [ Mus musculus (house mouse) ]

    Gene ID: 227682, updated on 21-Apr-2024

    Summary

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    Official Symbol
    Trub2provided by MGI
    Official Full Name
    TruB pseudouridine (psi) synthase family member 2provided by MGI
    Primary source
    MGI:MGI:2442186
    See related
    Ensembl:ENSMUSG00000039826 AllianceGenome:MGI:2442186
    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
    G430055L02Rik
    Summary
    Predicted to enable pseudouridine synthase activity. Predicted to be involved in mRNA pseudouridine synthesis and positive regulation of mitochondrial translation. Predicted to act upstream of or within mRNA processing and tRNA processing. Predicted to be located in mitochondrion and ribonucleoprotein granule. Is expressed in trunk unsegmented mesenchyme. Orthologous to human TRUB2 (TruB pseudouridine synthase family member 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in mammary gland adult (RPKM 13.6), subcutaneous fat pad adult (RPKM 12.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    2 B; 2 20.57 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (29651235..29677697, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (29761223..29787671, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E9194 Neighboring gene STARR-positive B cell enhancer ABC_E2607 Neighboring gene STARR-seq mESC enhancer starr_04057 Neighboring gene Rap guanine nucleotide exchange factor (GEF) 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:29526317-29526500 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:29529743-29529852 Neighboring gene STARR-seq mESC enhancer starr_04064 Neighboring gene STARR-positive B cell enhancer ABC_E9506 Neighboring gene STARR-positive B cell enhancer ABC_E2608 Neighboring gene STARR-seq mESC enhancer starr_04069 Neighboring gene STARR-seq mESC enhancer starr_04071 Neighboring gene proline rich transmembrane protein 1B Neighboring gene predicted gene 13547 Neighboring gene STARR-seq mESC enhancer starr_04073 Neighboring gene coenzyme Q4 Neighboring gene predicted gene, 52595 Neighboring gene solute carrier family 27 (fatty acid transporter), member 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. A Genome-Wide Association Study for Regulators of Micronucleus Formation in Mice. McIntyre RE, et al. G3 (Bethesda), 2016 Aug 9. PMID 27233670, Free PMC Article
    2. A complex oscillating network of signaling genes underlies the mouse segmentation clock. Dequéant ML, et al. Science, 2006 Dec 8. PMID 17095659
    3. Placentation defects are highly prevalent in embryonic lethal mouse mutants. Perez-Garcia V, et al. Nature, 2018 Mar 22. PMID 29539633, Free PMC Article
    4. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
    5. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article

    See all (17) 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)
    • Targeted (1) 
    • Endonuclease-mediated (1) 

    General gene information

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    Homology

    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 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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of mitochondrial translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in pseudouridine synthesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within tRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ribonucleoprotein granule ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    pseudouridylate synthase TRUB2, mitochondrial
    Names
    TruB pseudouridine (psi) synthase homolog 2
    mitochondrial mRNA pseudouridine synthase Trub2
    probable tRNA pseudouridine synthase 2
    psi55 synthase TRUB2
    tRNA pseudouridine 55 synthase TRUB2
    truB pseudouridine synthase homolog 2
    NP_001277424.1
    NP_001277425.1
    NP_663495.3
    XP_006497987.1
    XP_006497988.1

    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_001290495.1 → NP_001277424.1  pseudouridylate synthase TRUB2, mitochondrial isoform b

      See identical proteins and their annotated locations for NP_001277424.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate internal exon, resulting in translation initiation at an alternate start codon, compared to variant 1. The encoded isoform (b) has a distinct N-terminus and is shorter than isoform a.
      Source sequence(s)
      AK081579, AL845323, AU079587
      Conserved Domains (1) summary
      cl00130
      Location:9 → 165
      PseudoU_synth; Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi)

    2. NM_001290496.1 → NP_001277425.1  pseudouridylate synthase TRUB2, mitochondrial isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate exon that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (c) has a distinct C-terminus and is shorter than isoform a.
      Source sequence(s)
      AK081579, AK167294, AL845323, AU079587, BU053791
      Consensus CDS
      CCDS71016.1
      UniProtKB/TrEMBL
      A2ARC1, H3BKT7
      Related
      ENSMUSP00000135521.2, ENSMUST00000177467.8
      Conserved Domains (1) summary
      cl00130
      Location:11 → 178
      PseudoU_synth; Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi)

    3. NM_145520.5 → NP_663495.3  pseudouridylate synthase TRUB2, mitochondrial isoform a

      See identical proteins and their annotated locations for NP_663495.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AK081579, AK090004, AK167294, AL845323
      Consensus CDS
      CCDS15856.1
      UniProtKB/Swiss-Prot
      Q8BTK3, Q91WG3
      Related
      ENSMUSP00000041848.6, ENSMUST00000048044.12
      Conserved Domains (1) summary
      cd02868
      Location:11 → 283
      PseudoU_synth_hTruB2_like; Pseudouridine synthase, humanTRUB2_like

    RNA

    1. NR_110962.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks two internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK081579, AK167294, AL845323, AU079587, BU707805
      Related
      ENSMUST00000156846.8

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      29651235..29677697 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006497925.5 → XP_006497988.1  pseudouridylate synthase TRUB2, mitochondrial isoform X2

      Conserved Domains (1) summary
      cl00130
      Location:11 → 223
      PseudoU_synth; Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi)

    2. XM_006497924.5 → XP_006497987.1  pseudouridylate synthase TRUB2, mitochondrial isoform X1

      Conserved Domains (1) summary
      cl00130
      Location:11 → 223
      PseudoU_synth; Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q91WG3.1 GenPept UniProtKB/Swiss-Prot:Q91WG3

    Gene LinkOut

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

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