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PAN3 poly(A) specific ribonuclease subunit PAN3 [ Homo sapiens (human) ]

Gene ID: 255967, updated on 14-Nov-2024

Summary

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Official Symbol
PAN3provided by HGNC
Official Full Name
poly(A) specific ribonuclease subunit PAN3provided by HGNC
Primary source
HGNC:HGNC:29991
See related
Ensembl:ENSG00000152520 MIM:617448; AllianceGenome:HGNC:29991
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Contributes 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. Part of PAN complex. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in bone marrow (RPKM 8.7), spleen (RPKM 8.4) and 25 other tissues See more
Orthologs
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Genomic context

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See PAN3 in Genome Data Viewer
Location:
13q12.2
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (28138193..28295335)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (27361098..27517568)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (28712682..28869472)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene fms related receptor tyrosine kinase 3 Neighboring gene katanin regulatory subunit B1 like 1 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5206 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5207 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7510 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 2 pseudogene 8 Neighboring gene Sharpr-MPRA regulatory region 11800 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5210 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5209 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5208 Neighboring gene Sharpr-MPRA regulatory region 9463 Neighboring gene PAN3 antisense RNA 1 Neighboring gene NANOG hESC enhancer GRCh37_chr13:28812056-28812711 Neighboring gene eukaryotic translation elongation factor 1 alpha 1 pseudogene 3 Neighboring gene RNA, U6 small nuclear 82, pseudogene Neighboring gene uncharacterized LOC124903140 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:28863191-28863692 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:28863693-28864192 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:28870451-28870609 Neighboring gene uncharacterized LOC124903141 Neighboring gene Sharpr-MPRA regulatory region 10890 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:28896366-28897565 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:28902230-28902730 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5211 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7511 Neighboring gene fms related receptor tyrosine kinase 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7512 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7513 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7514 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:29004443-29005102 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:29010702-29011644 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:29012644-29013428 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:29014214-29014998 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32819 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:29041404-29041635 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5212 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5213 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5214 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:29078159-29078659 Neighboring gene Sharpr-MPRA regulatory region 5274 Neighboring gene Sharpr-MPRA regulatory region 7947 Neighboring gene uncharacterized LOC124903142 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5215 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5216 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7515 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7516

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Antagonistic actions of two human Pan3 isoforms on global mRNA turnover. Chen CA, et al. RNA, 2017 Sep. PMID 28559491, Free PMC Article
  2. CircPAN3 contributes to drug resistance in acute myeloid leukemia through regulation of autophagy. Shang J, et al. Leuk Res, 2019 Oct. PMID 31401408
  3. An asymmetric PAN3 dimer recruits a single PAN2 exonuclease to mediate mRNA deadenylation and decay. Jonas S, et al. Nat Struct Mol Biol, 2014 Jul. PMID 24880343
  4. Arsenite inhibits mRNA deadenylation through proteolytic degradation of Tob and Pan3. Yamagishi R, et al. Biochem Biophys Res Commun, 2014 Dec 12. PMID 25446091
  5. Poly(A) nuclease interacts with the C-terminal domain of polyadenylate-binding protein domain from poly(A)-binding protein. Siddiqui N, et al. J Biol Chem, 2007 Aug 24. PMID 17595167

See all (46) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. the present study revealed that circPAN3 is most likely a key modulator for acquired drug resistance of AML, which may facilitate drug resistance in AML cells by regulating autophagy as an autophagy inducer via the AMPK/mTOR pathway.
    Title: CircPAN3 contributes to drug resistance in acute myeloid leukemia through regulation of autophagy.
  2. These results reveal a new fundamental step governing mammalian mRNA metabolism. We propose that the first phase of deadenylation, coordinated through the interplay among the two Pan3 isoforms, Pan2, and PABP, represents a cytoplasmic mRNA maturation step important for proper mRNA turnover.
    Title: Antagonistic actions of two human Pan3 isoforms on global mRNA turnover.
  3. arsenite-induced oxidative stress inhibits deadenylation of mRNA primarily through downregulation of Tob and Pan3, both of which mediate the recruitment of deadenylases to mRNA
    Title: Arsenite inhibits mRNA deadenylation through proteolytic degradation of Tob and Pan3.
  4. hPan2 and hPan3 have roles in mRNA decay and exhibit cytoplasmic co-localization
    Title: Identification of a human cytoplasmic poly(A) nuclease complex stimulated by poly(A)-binding protein.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study identifies multiple susceptibility loci for pancreatic cancer.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

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 IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein kinase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA IEA
Inferred from Electronic Annotation
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
  
involved_in positive regulation of cytoplasmic mRNA processing body assembly IEA
Inferred from Electronic Annotation
more info
  
involved_in protein targeting IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of PAN complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of PAN complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
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 3
PAB-dependent poly(A)-specific ribonuclease subunit PAN3
PAB1P-dependent poly(A)-nuclease
PAB1P-dependent poly(A)-specific ribonuclease
PABP-dependent poly(A) nuclease 3
PABP1-dependent poly A-specific ribonuclease subunit PAN3
PAN deadenylation complex subunit 3
PAN3 poly(A) specific ribonuclease subunit homolog
poly(A)-nuclease deadenylation complex subunit 3
NP_787050.6
XP_005266389.1
XP_005266390.1
XP_011533334.1
XP_011533335.1
XP_011533336.1
XP_016876017.1
XP_016876019.1
XP_047286205.1
XP_047286206.1
XP_047286207.1
XP_047286208.1
XP_047286209.1
XP_054230376.1
XP_054230377.1
XP_054230378.1
XP_054230379.1
XP_054230380.1
XP_054230381.1
XP_054230382.1
XP_054230383.1
XP_054230384.1
XP_054230385.1
XP_054230386.1

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_175854.8 → NP_787050.6  PAN2-PAN3 deadenylation complex subunit PAN3

    See identical proteins and their annotated locations for NP_787050.6

    Status: VALIDATED

    Source sequence(s)
    AB109552, AK296435, AL138712, BE671612
    Consensus CDS
    CCDS9329.2
    UniProtKB/Swiss-Prot
    A0N0X1, A1A4Y8, A1A4Y9, B1ALF1, B7Z3W7, Q0D2P2, Q58A45, Q5HYG6, Q5T515, Q5T516, Q5TBA0, Q76E13, Q8NBA6
    Related
    ENSP00000370345.3, ENST00000380958.8
    Conserved Domains (2) summary
    pfam00642
    Location:49 → 68
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl21453
    Location:493 → 661
    PKc_like; Protein Kinases, catalytic domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    28138193..28295335
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011535034.4 → XP_011533336.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X12

    UniProtKB/TrEMBL
    A0A0C4DFZ9
    Conserved Domains (1) summary
    cl21453
    Location:347 → 515
    PKc_like; Protein Kinases, catalytic domain

  2. XM_011535032.4 → XP_011533334.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X4

    Conserved Domains (2) summary
    pfam00642
    Location:49 → 68
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl21453
    Location:493 → 661
    PKc_like; Protein Kinases, catalytic domain

  3. XM_005266332.4 → XP_005266389.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X1

    Conserved Domains (2) summary
    pfam00642
    Location:49 → 68
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl21453
    Location:492 → 660
    PKc_like; Protein Kinases, catalytic domain

  4. XM_005266333.4 → XP_005266390.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X2

    UniProtKB/TrEMBL
    A0A0C4DFZ9
    Related
    ENSP00000382522.1, ENST00000399613.1
    Conserved Domains (2) summary
    pfam00642
    Location:49 → 68
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl21453
    Location:439 → 607
    PKc_like; Protein Kinases, catalytic domain

  5. XM_047430250.1 → XP_047286206.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X6

  6. XM_047430249.1 → XP_047286205.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X3

  7. XM_011535033.3 → XP_011533335.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X5

    Conserved Domains (2) summary
    pfam00642
    Location:49 → 68
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl21453
    Location:493 → 661
    PKc_like; Protein Kinases, catalytic domain

  8. XM_017020528.2 → XP_016876017.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X7

  9. XM_017020530.3 → XP_016876019.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X9

    Related
    ENST00000503791.5

  10. XM_047430253.1 → XP_047286209.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X11

  11. XM_047430251.1 → XP_047286207.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X8

  12. XM_047430252.1 → XP_047286208.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X10

RNA

  1. XR_941549.3 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    27361098..27517568
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054374404.1 → XP_054230379.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X4

  2. XM_054374401.1 → XP_054230376.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X1

  3. XM_054374402.1 → XP_054230377.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X2

  4. XM_054374406.1 → XP_054230381.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X6

  5. XM_054374403.1 → XP_054230378.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X3

  6. XM_054374405.1 → XP_054230380.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X5

  7. XM_054374407.1 → XP_054230382.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X7

  8. XM_054374409.1 → XP_054230384.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X9

  9. XM_054374411.1 → XP_054230386.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X11

  10. XM_054374408.1 → XP_054230383.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X8

  11. XM_054374410.1 → XP_054230385.1  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X10

RNA

  1. XR_008488751.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q58A45.3 GenPept UniProtKB/Swiss-Prot:Q58A45

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