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

Gene ID: 100361269, updated on 10-Oct-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, Apr 2022]
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 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

  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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