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    Snrpd3 small nuclear ribonucleoprotein D3 polypeptide [ Rattus norvegicus (Norway rat) ]

    Gene ID: 687711, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Snrpd3provided by RGD
    Official Full Name
    small nuclear ribonucleoprotein D3 polypeptideprovided by RGD
    Primary source
    RGD:1597573
    See related
    EnsemblRapid:ENSRNOG00000050410 AllianceGenome:RGD:1597573
    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
    Enables U1 snRNP binding activity. Predicted to be involved in spliceosomal snRNP assembly. Predicted to act upstream of or within protein methylation. Part of U1 snRNP. Human ortholog(s) of this gene implicated in systemic lupus erythematosus. Orthologous to human SNRPD3 (small nuclear ribonucleoprotein D3 polypeptide). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 103.8), Thymus (RPKM 95.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Snrpd3 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (13129555..13145100, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (13130112..13145947, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (14080562..14095644, complement)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene gamma-glutamyltransferase 1 Neighboring gene uncharacterized LOC120098976 Neighboring gene leucine rich repeat containing 75B Neighboring gene guanylyl cyclase domain containing 1 Neighboring gene uncharacterized LOC102556392 Neighboring gene microRNA 327 Neighboring gene uncharacterized LOC102556333

    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. Effect of dsDNA binding to SmD-derived peptides on clinical accuracy in the diagnosis of systemic lupus erythematosus. Mahler M, et al. Arthritis Res Ther, 2007. PMID 17640359, Free PMC Article
    2. Identification of genes associated with local aggressiveness and metastatic behavior in soft tissue tumors. Cunha IW, et al. Transl Oncol, 2010 Feb. PMID 20165692, Free PMC Article
    3. Separation of nuclear protein complexes by blue native polyacrylamide gel electrophoresis. Nováková Z, et al. Electrophoresis, 2006 Apr. PMID 16502463
    4. Two distinct arginine methyltransferases are required for biogenesis of Sm-class ribonucleoproteins. Gonsalvez GB, et al. J Cell Biol, 2007 Aug 27. PMID 17709427, Free PMC Article
    5. Spliceosome Sm proteins D1, D3, and B/B' are asymmetrically dimethylated at arginine residues in the nucleus. Miranda TB, et al. Biochem Biophys Res Commun, 2004 Oct 15. PMID 15369763

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables U1 snRNP binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables U7 snRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone pre-mRNA DCP binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables telomerase RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein methylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spliceosomal snRNP assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spliceosomal snRNP assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of SMN-Sm protein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of SMN-Sm protein complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U1 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U1 snRNP IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U1 snRNP ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U12-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 U4 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U4 snRNP ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U4/U6 x U5 tri-snRNP complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U5 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U7 snRNP ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of commitment complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of methylosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear body 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 pICln-Sm protein complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of precatalytic spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of spliceosomal tri-snRNP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of telomerase holoenzyme complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    small nuclear ribonucleoprotein Sm D3

    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_001399538.1 → NP_001386467.1  small nuclear ribonucleoprotein Sm D3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/TrEMBL
      A6JKJ9, M0R907
      Related
      ENSRNOP00000065967.1, ENSRNOT00000075517.5
      Conserved Domains (1) summary
      cd01721
      Location:6 → 75
      Sm_D3; Sm protein D3

    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_086038.1 Reference GRCr8

      Range
      13129555..13145100 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017601884.3 → XP_017457373.1  small nuclear ribonucleoprotein Sm D3 isoform X1

      UniProtKB/TrEMBL
      A6JKJ9, M0R907
      Conserved Domains (1) summary
      cd01721
      Location:6 → 75
      Sm_D3; Sm protein D3
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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