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

Gene ID: 380773, updated on 11-Apr-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 RNA binding activity. Acts upstream of or within several processes, including flagellated sperm motility; mitochondrion morphogenesis; and negative regulation of mitochondrial RNA catabolic process. 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, Apr 2022]
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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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
  • 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. 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
  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. SLIRP, a small SRA binding protein, is a nuclear receptor corepressor. Hatchell EC, et al. Mol Cell, 2006 Jun 9. PMID 16762838
  5. LRPPRC-mediated folding of the mitochondrial transcriptome. Siira SJ, et al. Nat Commun, 2017 Nov 16. PMID 29146908, Free PMC Article

See all (27) 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 nucleic acid binding IEA
Inferred from Electronic Annotation
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 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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