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Pnldc1 poly(A)-specific ribonuclease (PARN)-like domain containing 1 [ Mus musculus (house mouse) ]

Gene ID: 240023, updated on 5-Mar-2024

Summary

Official Symbol
Pnldc1provided by MGI
Official Full Name
poly(A)-specific ribonuclease (PARN)-like domain containing 1provided by MGI
Primary source
MGI:MGI:2685159
See related
Ensembl:ENSMUSG00000073460 AllianceGenome:MGI:2685159
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gm313
Summary
Enables poly(A)-specific ribonuclease activity. Involved in nuclear-transcribed mRNA poly(A) tail shortening. Acts upstream of or within blastocyst formation. Located in endoplasmic reticulum. Is expressed in several structures, including early conceptus; gonad; and skin. Human ortholog(s) of this gene implicated in spermatogenic failure. Orthologous to human PNLDC1 (PARN like ribonuclease domain containing exonuclease 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis adult (RPKM 2.5), subcutaneous fat pad adult (RPKM 1.5) and 24 other tissues See more
Orthologs
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Genomic context

See Pnldc1 in Genome Data Viewer
Location:
17 A1; 17 8.71 cM
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (13107610..13129489, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (12888723..12910580, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene MAS1 oncogene Neighboring gene predicted gene, 53988 Neighboring gene MAS-related GPR, member H Neighboring gene STARR-positive B cell enhancer ABC_E2471 Neighboring gene mitochondrial ribosomal protein L18 Neighboring gene predicted gene, 26130 Neighboring gene t-complex protein 1

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 Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

Markers

Clone Names

  • FLJ35820

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables RNA binding IEA
Inferred from Electronic Annotation
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
 
enables poly(A)-specific ribonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
enables poly(A)-specific ribonuclease activity ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
poly(A)-specific ribonuclease PNLDC1
Names
PARN-like domain-containing protein 1
poly(A)-specific ribonuclease PARN-like domain-containing protein 1
poly(A)-specific ribonuclease domain-containing protein 1
NP_001030038.1
XP_006523388.1
XP_006523389.1
XP_011244512.1
XP_017172953.1

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_001034866.1NP_001030038.1  poly(A)-specific ribonuclease PNLDC1

    See identical proteins and their annotated locations for NP_001030038.1

    Status: PROVISIONAL

    Source sequence(s)
    BC158033
    Consensus CDS
    CCDS49948.1
    UniProtKB/Swiss-Prot
    B2RXZ1
    Related
    ENSMUSP00000129377.2, ENSMUST00000163394.3
    Conserved Domains (1) summary
    pfam04857
    Location:3373
    CAF1; CAF1 family ribonuclease

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    13107610..13129489 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006523325.4XP_006523388.1  poly(A)-specific ribonuclease PNLDC1 isoform X1

    Conserved Domains (1) summary
    pfam04857
    Location:3368
    CAF1; CAF1 family ribonuclease
  2. XM_017317464.3XP_017172953.1  poly(A)-specific ribonuclease PNLDC1 isoform X4

    Conserved Domains (1) summary
    pfam04857
    Location:113241
    CAF1; CAF1 family ribonuclease
  3. XM_006523326.3XP_006523389.1  poly(A)-specific ribonuclease PNLDC1 isoform X2

    Conserved Domains (1) summary
    pfam04857
    Location:199327
    CAF1; CAF1 family ribonuclease
  4. XM_011246210.1XP_011244512.1  poly(A)-specific ribonuclease PNLDC1 isoform X3

    Conserved Domains (1) summary
    pfam04857
    Location:199327
    CAF1; CAF1 family ribonuclease