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    Slirp SRA stem-loop interacting RNA binding protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 688717, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Slirpprovided by RGD
    Official Full Name
    SRA stem-loop interacting RNA binding proteinprovided by RGD
    Primary source
    RGD:1585290
    See related
    AllianceGenome:RGD:1585290
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable mRNA 3'-UTR binding activity and poly(G) binding activity. Predicted to be involved in positive regulation of mRNA splicing, via spliceosome and spermatogenesis. Predicted to act upstream of or within several processes, including flagellated sperm motility; negative regulation of mitochondrial RNA catabolic process; and spermatid development. Predicted to be located in several cellular components, including acrosomal vesicle; perinuclear region of cytoplasm; and sperm flagellum. Predicted to be part of ribonucleoprotein complex. Predicted to be active in nucleus. Orthologous to human SLIRP (SRA stem-loop interacting RNA binding protein). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 102.5), Muscle (RPKM 90.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Slirp in Genome Data Viewer
    Location:
    6q31
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (112819684..112828715)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (107088760..107097791)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (111476768..111486039)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108351282 Neighboring gene uncharacterized LOC120103583 Neighboring gene alkB homolog 1, histone H2A dioxygenase Neighboring gene small nucleolar RNA, H/ACA box 58 Neighboring gene U6 spliceosomal RNA Neighboring gene SNW domain containing 1 Neighboring gene uncharacterized LOC134479240 Neighboring gene GLE1 RNA export mediator, pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. SLIRP, a small SRA binding protein, is a nuclear receptor corepressor. Hatchell EC, et al. Mol Cell, 2006 Jun 9. PMID 16762838
    2. LRPPRC is necessary for polyadenylation and coordination of translation of mitochondrial mRNAs. Ruzzenente B, et al. EMBO J, 2012 Jan 18. PMID 22045337, Free PMC Article
    3. Loss of the nuclear receptor corepressor SLIRP compromises male fertility. Colley SM, et al. PLoS One, 2013. PMID 23976951, Free PMC Article
    4. Phosphoproteome analysis of functional mitochondria isolated from resting human muscle reveals extensive phosphorylation of inner membrane protein complexes and enzymes. Zhao X, et al. Mol Cell Proteomics, 2011 Jan. PMID 20833797, Free PMC Article
    5. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within flagellated sperm motility ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within mitochondrion organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of mitochondrial RNA catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within single fertilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within spermatid development ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in acrosomal vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrial matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of ribonucleoprotein complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in sperm flagellum ISO
    Inferred from Sequence Orthology
    more info
    		  

    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_001109507.2 → NP_001102977.1  SRA stem-loop-interacting RNA-binding protein, mitochondrial

      See identical proteins and their annotated locations for NP_001102977.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A6JEA9, A6JEB0
      Conserved Domains (1) summary
      cd12242
      Location:21 → 92
      RRM_SLIRP; RNA recognition motif (RRM) found in SRA stem-loop-interacting RNA-binding protein (SLIRP) and similar proteins

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086024.1 Reference GRCr8

      Range
      112819684..112828715
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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