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Pan3 poly(A) specific ribonuclease subunit PAN3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 360760, updated on 2-Nov-2024

Summary

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Official Symbol
Pan3provided by RGD
Official Full Name
poly(A) specific ribonuclease subunit PAN3provided by RGD
Primary source
RGD:1590880
See related
EnsemblRapid:ENSRNOG00000000942 AllianceGenome:RGD:1590880
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
Predicted to enable poly(A) binding activity. Predicted to contribute to poly(A)-specific ribonuclease activity. Predicted to be involved in nuclear-transcribed mRNA poly(A) tail shortening. Predicted to act upstream of or within deadenylation-dependent decapping of nuclear-transcribed mRNA; positive regulation of cytoplasmic mRNA processing body assembly; and protein targeting. Predicted to be part of PAN complex. Predicted to be active in P-body. Orthologous to human PAN3 (poly(A) specific ribonuclease subunit PAN3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 481.5), Spleen (RPKM 206.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Pan3 in Genome Data Viewer
Location:
12p11
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (12512835..12637066, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (7476707..7595384, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (9214116..9331901, complement)

Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene Fms related receptor tyrosine kinase 1 Neighboring gene uncharacterized LOC102547586 Neighboring gene uncharacterized LOC120095883 Neighboring gene uncharacterized LOC134481261 Neighboring gene uncharacterized LOC134481260 Neighboring gene ribosomal protein L18A, pseudogene 2 Neighboring gene Fms related receptor tyrosine kinase 3

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 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. Identification of a human cytoplasmic poly(A) nuclease complex stimulated by poly(A)-binding protein. Uchida N, et al. J Biol Chem, 2004 Jan 9. PMID 14583602
  2. RNA decay machines: deadenylation by the Ccr4-not and Pan2-Pan3 complexes. Wahle E, et al. Biochim Biophys Acta, 2013 Jun-Jul. PMID 23337855
  3. Deadenylation is prerequisite for P-body formation and mRNA decay in mammalian cells. Zheng D, et al. J Cell Biol, 2008 Jul 14. PMID 18625844, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables poly(A) binding IBA
Inferred from Biological aspect of Ancestor
more info
  
contributes_to poly(A)-specific ribonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables protein kinase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
acts_upstream_of_or_within deadenylation-dependent decapping of nuclear-transcribed mRNA ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA processing 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
  
acts_upstream_of_or_within positive regulation of cytoplasmic mRNA processing body assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in protein phosphorylation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within protein targeting ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in P-body ISO
Inferred from Sequence Orthology
more info
  
part_of PAN complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of PAN complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
PAN2-PAN3 deadenylation complex subunit PAN3
Names
PAB-dependent poly(A)-specific ribonuclease subunit PAN3
PAN3 poly(A) specific ribonuclease subunit
PAN3 polyA specific ribonuclease subunit homolog
NP_001406717.1
XP_006248904.1
XP_038945852.1
XP_038945853.1
XP_038945854.1
XP_038945855.1
XP_038945856.1
XP_038945857.1
XP_038945858.1
XP_063127509.1
XP_063127511.1
XP_346915.4

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_001419788.1 → NP_001406717.1  PAN2-PAN3 deadenylation complex subunit PAN3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000012
    Related
    ENSRNOP00000040388.7, ENSRNOT00000044134.8

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_086030.1 Reference GRCr8

    Range
    12512835..12637066 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063271439.1 → XP_063127509.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X5

  2. XM_346914.10 → XP_346915.4  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X4

    UniProtKB/TrEMBL
    A0A8I5Y6J5
    Conserved Domains (2) summary
    pfam00642
    Location:51 → 70
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl21453
    Location:435 → 603
    PKc_like; Protein Kinases, catalytic domain

  3. XM_039089924.2 → XP_038945852.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X2

    Conserved Domains (4) summary
    PRK11901
    Location:315 → 389
    PRK11901; hypothetical protein; Reviewed
    pfam00642
    Location:51 → 70
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    pfam18101
    Location:737 → 874
    Pan3_PK; Pan3 Pseudokinase domain
    cl21453
    Location:488 → 656
    PKc_like; Protein Kinases, catalytic domain

  4. XM_006248842.5 → XP_006248904.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X1

    UniProtKB/TrEMBL
    D4ADM2
    Related
    ENSRNOP00000106896.1, ENSRNOT00000125544.1
    Conserved Domains (2) summary
    pfam00642
    Location:51 → 70
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl21453
    Location:489 → 657
    PKc_like; Protein Kinases, catalytic domain

  5. XM_039089925.2 → XP_038945853.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X3

    Conserved Domains (4) summary
    PRK11901
    Location:315 → 389
    PRK11901; hypothetical protein; Reviewed
    pfam00642
    Location:51 → 70
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    pfam18101
    Location:738 → 875
    Pan3_PK; Pan3 Pseudokinase domain
    cl21453
    Location:489 → 657
    PKc_like; Protein Kinases, catalytic domain

  6. XM_039089926.2 → XP_038945854.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X6

    Conserved Domains (3) summary
    pfam05109
    Location:110 → 304
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam18101
    Location:607 → 744
    Pan3_PK; Pan3 Pseudokinase domain
    cl21453
    Location:358 → 526
    PKc_like; Protein Kinases, catalytic domain

  7. XM_039089927.2 → XP_038945855.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X7

    Conserved Domains (3) summary
    pfam05109
    Location:99 → 293
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam18101
    Location:596 → 733
    Pan3_PK; Pan3 Pseudokinase domain
    cl21453
    Location:347 → 515
    PKc_like; Protein Kinases, catalytic domain

  8. XM_039089930.2 → XP_038945858.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X9

    Conserved Domains (2) summary
    pfam18101
    Location:408 → 545
    Pan3_PK; Pan3 Pseudokinase domain
    cl21453
    Location:159 → 327
    PKc_like; Protein Kinases, catalytic domain

  9. XM_039089928.2 → XP_038945856.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X8

    Conserved Domains (3) summary
    PRK11901
    Location:2 → 62
    PRK11901; hypothetical protein; Reviewed
    pfam18101
    Location:411 → 548
    Pan3_PK; Pan3 Pseudokinase domain
    cl21453
    Location:162 → 330
    PKc_like; Protein Kinases, catalytic domain

  10. XM_063271441.1 → XP_063127511.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X9

  11. XM_039089929.2 → XP_038945857.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X9

    Conserved Domains (2) summary
    pfam18101
    Location:408 → 545
    Pan3_PK; Pan3 Pseudokinase domain
    cl21453
    Location:159 → 327
    PKc_like; Protein Kinases, catalytic domain

RNA

  1. XR_010056399.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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