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    Parn poly(A)-specific ribonuclease [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360464, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Parnprovided by RGD
    Official Full Name
    poly(A)-specific ribonucleaseprovided by RGD
    Primary source
    RGD:1565449
    See related
    EnsemblRapid:ENSRNOG00000002912 AllianceGenome:RGD:1565449
    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
    Also known as
    RGD1565449
    Summary
    Predicted to enable several functions, including poly(A)-specific ribonuclease activity; protein kinase binding activity; and telomerase RNA binding activity. Predicted to be involved in RNA metabolic process; regulation of nucleobase-containing compound metabolic process; and regulation of telomerase RNA localization to Cajal body. Is active in glutamatergic synapse and postsynapse. Human ortholog(s) of this gene implicated in autosomal recessive dyskeratosis congenita 6. Orthologous to human PARN (poly(A)-specific ribonuclease). [provided by Alliance of Genome Resources, Dec 2024]
    Annotation information
    Note: This gene aligns across a gap in the Rnor_6.0 reference genome assembly, and therefore, annotation of this gene is split across NW_007905911.1 and NW_007905912.1 in NCBI's Rattus norvegicus Annotation Release 105. [18 Jun 2015]
    Expression
    Biased expression in Spleen (RPKM 83.1), Thymus (RPKM 78.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Parn in Genome Data Viewer
    Location:
    10q11
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (1917830..2055749, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (1410636..1548573, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (1309724..1461123, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102547286 Neighboring gene uncharacterized LOC134480737 Neighboring gene uncharacterized LOC120095007 Neighboring gene dynein light chain LC8-type 1 like Neighboring gene bifunctional apoptosis regulator Neighboring gene phospholipase A2, group X

    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. Coordination of divalent metal ions in the active site of poly(A)-specific ribonuclease. Ren YG, et al. J Biol Chem, 2004 Nov 19. PMID 15358788
    2. Poly(A)-specific ribonuclease (PARN) mediates 3'-end maturation of the telomerase RNA component. Moon DH, et al. Nat Genet, 2015 Dec. PMID 26482878, Free PMC Article
    3. Maturation of mammalian H/ACA box snoRNAs: PAPD5-dependent adenylation and PARN-dependent trimming. Berndt H, et al. RNA, 2012 May. PMID 22442037, Free PMC Article
    4. The BTG2 protein is a general activator of mRNA deadenylation. Mauxion F, et al. EMBO J, 2008 Apr 9. PMID 18337750, Free PMC Article
    5. PAPD5-mediated 3' adenylation and subsequent degradation of miR-21 is disrupted in proliferative disease. Boele J, et al. Proc Natl Acad Sci U S A, 2014 Aug 5. PMID 25049417, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 3'-5'-RNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cation binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables poly(A)-specific ribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein kinase 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 box H/ACA sno(s)RNA 3'-end processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lncRNA processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in miRNA catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nuclear-transcribed mRNA poly(A) tail shortening IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within nuclear-transcribed mRNA poly(A) tail shortening ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in poly(A)-dependent snoRNA 3'-end processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of telomere maintenance via telomerase ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in priRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of telomerase RNA localization to Cajal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in siRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in telomerase RNA stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    poly(A)-specific ribonuclease PARN
    Names
    poly(A)-specific ribonuclease (deadenylation nuclease)
    NP_001257344.1
    XP_038942176.1
    XP_038942177.1
    XP_038942178.1
    XP_038942179.1
    XP_038942181.1
    XP_038942182.1
    XP_038942183.1
    XP_038942184.1
    XP_063125341.1
    XP_063125342.1
    XP_063125343.1
    XP_063125344.1
    XP_063125345.1
    XP_063125347.1
    XP_063125348.1

    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_001270415.3 → NP_001257344.1  poly(A)-specific ribonuclease PARN

      See identical proteins and their annotated locations for NP_001257344.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A0G2QC45, A6K4E3
      Related
      ENSRNOP00000073884.4, ENSRNOT00000078421.4
      Conserved Domains (2) summary
      pfam04857
      Location:3 → 383
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:431 → 505
      RNA_bind; RNA binding domain

    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_086028.1 Reference GRCr8

      Range
      1917830..2055749 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039086248.2 → XP_038942176.1  poly(A)-specific ribonuclease PARN isoform X1

      UniProtKB/TrEMBL
      A6K4E3
      Conserved Domains (2) summary
      pfam04857
      Location:5 → 383
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:431 → 505
      RNA_bind; RNA binding domain

    2. XM_039086249.2 → XP_038942177.1  poly(A)-specific ribonuclease PARN isoform X2

      UniProtKB/TrEMBL
      A6K4E3
      Conserved Domains (2) summary
      pfam04857
      Location:5 → 382
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:430 → 504
      RNA_bind; RNA binding domain

    3. XM_039086251.2 → XP_038942179.1  poly(A)-specific ribonuclease PARN isoform X4

      UniProtKB/TrEMBL
      A6K4E3
      Conserved Domains (2) summary
      pfam04857
      Location:5 → 357
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:405 → 479
      RNA_bind; RNA binding domain

    4. XM_039086250.2 → XP_038942178.1  poly(A)-specific ribonuclease PARN isoform X3

      UniProtKB/TrEMBL
      A6K4E3
      Conserved Domains (2) summary
      pfam04857
      Location:5 → 383
      CAF1; CAF1 family ribonuclease
      cl17169
      Location:431 → 480
      RRM_SF; RNA recognition motif (RRM) superfamily

    5. XM_063269275.1 → XP_063125345.1  poly(A)-specific ribonuclease PARN isoform X9

      UniProtKB/TrEMBL
      A6K4E3

    6. XM_063269274.1 → XP_063125344.1  poly(A)-specific ribonuclease PARN isoform X8

      UniProtKB/TrEMBL
      A6K4E3

    7. XM_063269272.1 → XP_063125342.1  poly(A)-specific ribonuclease PARN isoform X6

      UniProtKB/TrEMBL
      A6K4E3
      Related
      ENSRNOP00000100699.1, ENSRNOT00000163464.1

    8. XM_063269271.1 → XP_063125341.1  poly(A)-specific ribonuclease PARN isoform X5

      UniProtKB/TrEMBL
      A6K4E3

    9. XM_063269273.1 → XP_063125343.1  poly(A)-specific ribonuclease PARN isoform X7

      UniProtKB/TrEMBL
      A6K4E3
      Related
      ENSRNOP00000100067.1, ENSRNOT00000140097.1

    10. XM_063269278.1 → XP_063125348.1  poly(A)-specific ribonuclease PARN isoform X12

    11. XM_039086254.2 → XP_038942182.1  poly(A)-specific ribonuclease PARN isoform X12

      Conserved Domains (2) summary
      pfam04857
      Location:1 → 102
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:150 → 224
      RNA_bind; RNA binding domain

    12. XM_039086255.2 → XP_038942183.1  poly(A)-specific ribonuclease PARN isoform X13

      Conserved Domains (2) summary
      pfam04857
      Location:1 → 77
      CAF1; CAF1 family ribonuclease
      pfam08675
      Location:125 → 199
      RNA_bind; RNA binding domain

    13. XM_063269277.1 → XP_063125347.1  poly(A)-specific ribonuclease PARN isoform X10

      UniProtKB/TrEMBL
      A0A0G2K386, A0A0G2K6N8, A6K4E3
      Related
      ENSRNOP00000070962.4, ENSRNOT00000083125.4

    14. XM_039086253.2 → XP_038942181.1  poly(A)-specific ribonuclease PARN isoform X11

      Conserved Domains (2) summary
      pfam04857
      Location:5 → 383
      CAF1; CAF1 family ribonuclease
      cl17169
      Location:431 → 463
      RRM_SF; RNA recognition motif (RRM) superfamily

    15. XM_039086256.2 → XP_038942184.1  poly(A)-specific ribonuclease PARN isoform X14

      Conserved Domains (1) summary
      pfam04857
      Location:5 → 353
      CAF1; CAF1 family ribonuclease

    RNA

    1. XR_005489883.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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