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    Snrpa1 small nuclear ribonucleoprotein polypeptide A' [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100361269, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Snrpa1provided by RGD
    Official Full Name
    small nuclear ribonucleoprotein polypeptide A'provided by RGD
    Primary source
    RGD:2320494
    See related
    EnsemblRapid:ENSRNOG00000011932 AllianceGenome:RGD:2320494
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable U2 snRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome and spermatogenesis. Predicted to be located in nuclear speck. Predicted to be part of U2 snRNP; U2-type catalytic step 2 spliceosome; and U2-type precatalytic spliceosome. Human ortholog(s) of this gene implicated in connective tissue disease. Orthologous to human SNRPA1 (small nuclear ribonucleoprotein polypeptide A'). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 142.1), Spleen (RPKM 99.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Snrpa1 in Genome Data Viewer
    Location:
    1q22
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (129051492..129065114)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (119641402..119654653)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (126961389..126974453)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102549305 Neighboring gene proprotein convertase subtilisin/kexin type 6 Neighboring gene ribosomal protein S29, pseudogene 9 Neighboring gene selenoprotein S Neighboring gene chondroitin sulfate synthase 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. The U2 small nuclear ribonucleoprotein particle as an autoantigen. Analysis with sera from patients with overlap syndromes. Craft J, et al. J Clin Invest, 1988 Jun. PMID 2968364, Free PMC Article
    2. Major spliceosome defects cause male infertility and are associated with nonobstructive azoospermia in humans. Wu H, et al. Proc Natl Acad Sci U S A, 2016 Apr 12. PMID 27035939, Free PMC Article
    3. Mass spectrometry and EST-database searching allows characterization of the multi-protein spliceosome complex. Neubauer G, et al. Nat Genet, 1998 Sep. PMID 9731529
    4. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, et al. Nucleic Acids Res, 2007. PMID 17537823, Free PMC Article
    5. Cryo-EM structure of a human spliceosome activated for step 2 of splicing. Bertram K, et al. Nature, 2017 Feb 16. PMID 28076346

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables U2 snRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U2 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type precatalytic spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    U2 small nuclear ribonucleoprotein A'
    Names
    U2 small nuclear ribonucleoprotein polypeptide A'

    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_001271323.1 → NP_001258252.1  U2 small nuclear ribonucleoprotein A'

      Status: VALIDATED

      Source sequence(s)
      FM044635, JAXUCZ010000001
      UniProtKB/TrEMBL
      A6JBP1, D3ZZR5
      Related
      ENSRNOP00000016758.4, ENSRNOT00000016758.10
      Conserved Domains (2) summary
      sd00031
      Location:22 → 43
      LRR_1; leucine-rich repeat [structural motif]
      pfam14580
      Location:1 → 175
      LRR_9; Leucine-rich repeat

    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_086019.1 Reference GRCr8

      Range
      129051492..129065114
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063282005.1 → XP_063138075.1  U2 small nuclear ribonucleoprotein A' isoform X2

      UniProtKB/TrEMBL
      A6JBP2, A6JBP4

    2. XM_006229323.5 → XP_006229385.1  U2 small nuclear ribonucleoprotein A' isoform X1

      UniProtKB/TrEMBL
      A0A8I6A4V4, D3ZLF6
      Related
      ENSRNOP00000041496.4, ENSRNOT00000045742.6
      Conserved Domains (4) summary
      smart00446
      Location:105 → 123
      LRRcap; occurring C-terminal to leucine-rich repeats
      sd00031
      Location:43 → 66
      LRR_1; leucine-rich repeat [structural motif]
      pfam12799
      Location:65 → 104
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:41 → 96
      LRR_8; Leucine rich repeat
    Nucleotide Protein Strain
    Heading Accession and Version

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