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    Parn poly(A)-specific ribonuclease (deadenylation nuclease) [ Mus musculus (house mouse) ]

    Gene ID: 74108, updated on 9-Sep-2018

    Summary

    Official Symbol
    Parnprovided by MGI
    Official Full Name
    poly(A)-specific ribonuclease (deadenylation nuclease)provided by MGI
    Primary source
    MGI:MGI:1921358
    See related
    Ensembl:ENSMUSG00000022685
    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
    DAN; 1200003I18Rik
    Expression
    Ubiquitous expression in placenta adult (RPKM 9.2), bladder adult (RPKM 7.8) and 28 other tissues See more
    Orthologs

    Genomic context

    See Parn in Genome Data Viewer
    Location:
    16; 16 A1
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 16 NC_000082.6 (13537964..13668199, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 16 NC_000082.5 (13538057..13668263, complement)

    Chromosome 16 - NC_000082.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 32817 Neighboring gene microRNA 6365 Neighboring gene RIKEN cDNA 2310015D24 gene Neighboring gene predicted gene, 33329 Neighboring gene bifunctional apoptosis regulator Neighboring gene bifunctional apoptosis regulator Neighboring gene phospholipase A2, group X Neighboring gene phospholipase A2, group X, opposite strand

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1) 
    • Endonuclease-mediated (1) 

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    3'-5'-exoribonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    cation binding ISO
    Inferred from Sequence Orthology
    more info
     
    exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    nuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    poly(A)-specific ribonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    poly(A)-specific ribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    RNA phosphodiester bond hydrolysis, exonucleolytic ISO
    Inferred from Sequence Orthology
    more info
     
    box H/ACA snoRNA 3'-end processing ISO
    Inferred from Sequence Orthology
    more info
     
    mRNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    miRNA catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    ncRNA deadenylation ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
    Inferred from Electronic Annotation
    more info
     
    nuclear-transcribed mRNA poly(A) tail shortening IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear-transcribed mRNA poly(A) tail shortening IDA
    Inferred from Direct Assay
    more info
    PubMed 
    polyadenylation-dependent snoRNA 3'-end processing ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of telomerase activity ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of telomere maintenance via telomerase ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of telomerase RNA localization to Cajal body ISO
    Inferred from Sequence Orthology
    more info
     
    telomerase RNA stabilization ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    poly(A)-specific ribonuclease PARN
    Names
    polyadenylate-specific ribonuclease
    NP_083037.1
    XP_006522715.1
    XP_011244325.1
    XP_011244326.1
    XP_017172633.1
    XP_017172634.1

    NCBI Reference Sequences (RefSeq)

    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_001358452.1NP_001345381.1  poly(A)-specific ribonuclease PARN isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
      Source sequence(s)
      AC154564, AC154607
      Conserved Domains (2) summary
      pfam08675
      Location:412486
      RNA_bind; RNA binding domain
      pfam04857
      Location:3364
      CAF1; CAF1 family ribonuclease
    2. NM_001358453.1NP_001345382.1  poly(A)-specific ribonuclease PARN isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an exon in the coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.
      Source sequence(s)
      AC154564, AC154607
      Conserved Domains (2) summary
      pfam08675
      Location:409483
      RNA_bind; RNA binding domain
      pfam04857
      Location:3361
      CAF1; CAF1 family ribonuclease
    3. NM_028761.3NP_083037.1  poly(A)-specific ribonuclease PARN isoform 1

      See identical proteins and their annotated locations for NP_083037.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC154564, AC154607
      Consensus CDS
      CCDS37259.1
      UniProtKB/Swiss-Prot
      Q8VDG3
      UniProtKB/TrEMBL
      A0A0R4J0P6
      Related
      ENSMUSP00000055969.8, ENSMUST00000058884.9
      Conserved Domains (2) summary
      pfam04857
      Location:3383
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:431505
      RNA_bind; RNA binding domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000082.6 Reference GRCm38.p4 C57BL/6J

      Range
      13537964..13668199 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011246023.2XP_011244325.1  poly(A)-specific ribonuclease PARN isoform X1

      Conserved Domains (2) summary
      pfam08675
      Location:412486
      RNA_bind; RNA binding domain
      pfam04857
      Location:3364
      CAF1; CAF1 family ribonuclease
    2. XM_017317145.1XP_017172634.1  poly(A)-specific ribonuclease PARN isoform X4

    3. XM_011246024.2XP_011244326.1  poly(A)-specific ribonuclease PARN isoform X2

      Conserved Domains (2) summary
      pfam08675
      Location:409483
      RNA_bind; RNA binding domain
      pfam04857
      Location:3361
      CAF1; CAF1 family ribonuclease
    4. XM_006522652.2XP_006522715.1  poly(A)-specific ribonuclease PARN isoform X3

      See identical proteins and their annotated locations for XP_006522715.1

      Conserved Domains (2) summary
      pfam04857
      Location:1322
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:370444
      RNA_bind; RNA binding domain
    5. XM_017317144.1XP_017172633.1  poly(A)-specific ribonuclease PARN isoform X3

      Conserved Domains (2) summary
      pfam04857
      Location:1322
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:370444
      RNA_bind; RNA binding domain
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