U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

parn poly(A)-specific ribonuclease (deadenylation nuclease) [ Danio rerio (zebrafish) ]

Gene ID: 791461, updated on 8-Dec-2022

Summary

Go to the top of the page Help
Official Symbol
parnprovided by ZNC
Official Full Name
poly(A)-specific ribonuclease (deadenylation nuclease)provided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-880
See related
Ensembl:ENSDARG00000102634 AllianceGenome:ZFIN:ZDB-GENE-040426-880
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:56067
Summary
Predicted to enable RNA binding activity; cation binding activity; and poly(A)-specific ribonuclease activity. Acts upstream of or within hemopoiesis. Predicted to be located in nucleus. Predicted to be active in cytoplasm. 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, Apr 2022]
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See parn in Genome Data Viewer
Location:
chromosome: 1
Exon count:
26
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (59314675..59324540)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (58608230..58618095)
103 previous assembly Zv9 (GCF_000002035.4) 1 NC_007112.5 (60290530..60300397)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene retinol dehydrogenase 8b Neighboring gene thioredoxin domain containing 11 Neighboring gene uncharacterized LOC108190785 Neighboring gene general transcription factor 3C polypeptide 1

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Bone marrow failure and developmental delay caused by mutations in poly(A)-specific ribonuclease (PARN). Dhanraj S, et al. J Med Genet, 2015 Nov. PMID 26342108
  2. Heme regulates exocrine peptidase precursor genes in zebrafish. Wang H, et al. Exp Biol Med (Maywood), 2007 Oct. PMID 17895525
  3. RNA structure replaces the need for U2AF2 in splicing. Lin CL, et al. Genome Res, 2016 Jan. PMID 26566657, Free PMC Article
  4. Online automated in vivo zebrafish phosphoproteomics: from large-scale analysis down to a single embryo. Lemeer S, et al. J Proteome Res, 2008 Apr. PMID 18307296
  5. Analyses of mRNA structure dynamics identify embryonic gene regulatory programs. Beaudoin JD, et al. Nat Struct Mol Biol, 2018 Aug. PMID 30061596, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Clone Names

  • MGC56067

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables cation binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables exonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables poly(A)-specific ribonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
enables poly(A)-specific ribonuclease activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within hemopoiesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within mRNA catabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in nuclear-transcribed mRNA poly(A) tail shortening IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
poly(A)-specific ribonuclease PARN
Names
polyadenylate-specific ribonuclease
NP_001307333.1
NP_957382.2

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001320404.1 → NP_001307333.1  poly(A)-specific ribonuclease PARN isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    CN503632, CU550701, EL650012
    UniProtKB/TrEMBL
    A0A0R4IW61, A0A8M1P8B1
    Related
    ENSDARP00000139131.1, ENSDART00000161872.2
    Conserved Domains (2) summary
    pfam04857
    Location:3 → 388
    CAF1; CAF1 family ribonuclease
    pfam08675
    Location:436 → 510
    RNA_bind; RNA binding domain

  2. NM_201088.2 → NP_957382.2  poly(A)-specific ribonuclease PARN isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    CN503632, CU550701, EL650012
    UniProtKB/TrEMBL
    A0A0R4IHL6, A0A8N7V031
    Related
    ENSDARP00000133177.1, ENSDART00000160658.2
    Conserved Domains (2) summary
    pfam04857
    Location:3 → 388
    CAF1; CAF1 family ribonuclease
    pfam08675
    Location:436 → 510
    RNA_bind; RNA binding domain

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007112.7 Reference GRCz11 Primary Assembly

    Range
    59314675..59324540
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7ZU92.2 GenPept UniProtKB/Swiss-Prot:Q7ZU92

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases
Research Materials
Tools
Miscellaneous