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

    Gene ID: 255967, updated on 27-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
    mouse all
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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
    • 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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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    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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