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    Slirp SRA stem-loop interacting RNA binding protein [ Mus musculus (house mouse) ]

    Gene ID: 380773, updated on 3-Nov-2024

    Summary

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    Official Symbol
    Slirpprovided by MGI
    Official Full Name
    SRA stem-loop interacting RNA binding proteinprovided by MGI
    Primary source
    MGI:MGI:1916394
    See related
    Ensembl:ENSMUSG00000021040 AllianceGenome:MGI:1916394
    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
    1810035L17Rik
    Summary
    Predicted to enable mRNA 3'-UTR binding activity and poly(G) binding activity. Acts upstream of or within several processes, including flagellated sperm motility; negative regulation of mitochondrial RNA catabolic process; and spermatid development. Located in several cellular components, including acrosomal vesicle; perinuclear region of cytoplasm; and sperm flagellum. Part of ribonucleoprotein complex. Is expressed in ovary and seminiferous cord. Orthologous to human SLIRP (SRA stem-loop interacting RNA binding protein). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in placenta adult (RPKM 41.2), liver E14 (RPKM 38.2) and 23 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Slirp in Genome Data Viewer
    Location:
    12 D2; 12 41.67 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (87490666..87496694)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (87443896..87449924)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_32886 Neighboring gene 60S ribosomal protein L21-like Neighboring gene alkB homolog 1, histone H2A dioxygenase Neighboring gene STARR-seq mESC enhancer starr_32888 Neighboring gene microRNA 3068 Neighboring gene STARR-seq mESC enhancer starr_32889 Neighboring gene neural regeneration protein Neighboring gene SNW domain containing 1 Neighboring gene STARR-seq mESC enhancer starr_32890 Neighboring gene RNA exonuclease 1 homolog pseudogene Neighboring gene GLE1 RNA export mediator pseudogene

    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 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. SLIRP Regulates the Rate of Mitochondrial Protein Synthesis and Protects LRPPRC from Degradation. Lagouge M, et al. PLoS Genet, 2015 Aug. PMID 26247782, Free PMC Article
    2. SLIRP, a small SRA binding protein, is a nuclear receptor corepressor. Hatchell EC, et al. Mol Cell, 2006 Jun 9. PMID 16762838
    3. A computational screen for regulators of oxidative phosphorylation implicates SLIRP in mitochondrial RNA homeostasis. Baughman JM, et al. PLoS Genet, 2009 Aug. PMID 19680543, Free PMC Article
    4. Enzymatically dissociated muscle fibers display rapid dedifferentiation and impaired mitochondrial calcium control. Gineste C, et al. iScience, 2022 Dec 22. PMID 36479146, Free PMC Article
    5. LRPPRC-mediated folding of the mitochondrial transcriptome. Siira SJ, et al. Nat Commun, 2017 Nov 16. PMID 29146908, Free PMC Article

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Study demonstrated that the LRPPRC-SLIRP complex is a global RNA chaperone that stabilizes RNA structures to expose the required sites for translation, stabilization, and polyadenylation.
      Title: LRPPRC-mediated folding of the mitochondrial transcriptome.
    2. both LRPPRC and SLIRP are required for maintaining mt-mRNA steady-state levels independent of their roles in stabilizing the other partner of the LRPPRC-SLIRP complex.
      Title: SLIRP Regulates the Rate of Mitochondrial Protein Synthesis and Protects LRPPRC from Degradation.
    3. SLIRP regulates male fertility, wherein its loss results in asthenozoospermia associated with compromised sperm structure and mitochondrial morphology.
      Title: Loss of the nuclear receptor corepressor SLIRP compromises male fertility.
    4. SLIRP plays an essential role in maintaining mitochondrial-localized mRNA transcripts that encode OxPhos protein subunits.
      Title: A computational screen for regulators of oxidative phosphorylation implicates SLIRP in mitochondrial RNA homeostasis.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

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    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 mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables poly(G) binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within flagellated sperm motility IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within mitochondrion organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of mitochondrial RNA catabolic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in positive regulation of mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within single fertilization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within spermatid development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in spermatogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in acrosomal vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in mitochondrion HDA PubMed 
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in perinuclear region of cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in sperm flagellum IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    SRA stem-loop-interacting RNA-binding protein, mitochondrial

    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_026958.3 → NP_081234.2  SRA stem-loop-interacting RNA-binding protein, mitochondrial

      See identical proteins and their annotated locations for NP_081234.2

      Status: VALIDATED

      Source sequence(s)
      BC116741, BU850988, CK372908
      Consensus CDS
      CCDS36503.1
      UniProtKB/Swiss-Prot
      Q497G4, Q99JH3, Q9D8T7
      UniProtKB/TrEMBL
      F8WHU8, Q14AR0
      Related
      ENSMUSP00000125341.2, ENSMUST00000161023.8
      Conserved Domains (2) summary
      COG0724
      Location:22 → 92
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12242
      Location:21 → 92
      RRM_SLIRP; RNA recognition motif found in SRA stem-loop-interacting RNA-binding protein (SLIRP) and similar proteins

    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_000078.7 Reference GRCm39 C57BL/6J

      Range
      87490666..87496694
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D8T7.2 GenPept UniProtKB/Swiss-Prot:Q9D8T7

    Gene LinkOut

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

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