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    PAN2 poly(A) specific ribonuclease subunit PAN2 [ Homo sapiens (human) ]

    Gene ID: 9924, updated on 9-Sep-2018

    Summary

    Official Symbol
    PAN2provided by HGNC
    Official Full Name
    poly(A) specific ribonuclease subunit PAN2provided by HGNC
    Primary source
    HGNC:HGNC:20074
    See related
    Ensembl:ENSG00000135473 MIM:617447; Vega:OTTHUMG00000170412
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    USP52
    Summary
    This gene encodes a deadenylase that functions as the catalytic subunit of the polyadenylate binding protein dependent poly(A) nuclease complex. The encoded protein is a magnesium dependent 3' to 5' exoribonuclease that is involved in the degradation of cytoplasmic mRNAs. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Oct 2009]
    Expression
    Ubiquitous expression in testis (RPKM 19.6), thyroid (RPKM 18.6) and 25 other tissues See more
    Orthologs

    Genomic context

    See PAN2 in Genome Data Viewer
    Location:
    12q13.3
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 12 NC_000012.12 (56316223..56334053, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (56710007..56727837, complement)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene citrate synthase Neighboring gene uncharacterized LOC112268098 Neighboring gene canopy FGF signaling regulator 2 Neighboring gene interleukin 23 subunit alpha Neighboring gene signal transducer and activator of transcription 2 Neighboring gene RNA, U7 small nuclear 40 pseudogene

    Genomic regions, transcripts, and products

    Expression

    • 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 Jun 15 11:32:44 2016

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Phenotypes

    NHGRI GWAS Catalog

    Description
    Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci.
    NHGRI GWA Catalog
    Nine loci for ocular axial length identified through genome-wide association studies, including shared loci with refractive error.
    NHGRI GWA Catalog

    Pathways from BioSystems

    • Deadenylation of mRNA, organism-specific biosystem (from REACTOME)
      Deadenylation of mRNA, organism-specific biosystemDeadenylation of mRNA proceeds in two steps. According to current models, in the first step the poly(A) tail is shortened from about 200 adenosine residues to about 80 residues by the PAN2-PAN3 compl...
    • Deadenylation-dependent mRNA decay, organism-specific biosystem (from REACTOME)
      Deadenylation-dependent mRNA decay, organism-specific biosystemAfter undergoing rounds of translation, mRNA is normally destroyed by the deadenylation-dependent pathway. Though the trigger is unclear, deadenylation likely proceeds in two steps: one catalyzed by...
    • Ectoderm Differentiation, organism-specific biosystem (from WikiPathways)
      Ectoderm Differentiation, organism-specific biosystemModel depicting ectoderm specification based on the literature and highly enriched gene expression profiles via comparison across dozens of independent induced and embryonic pluripotent stem cell lin...
    • Gene Expression, organism-specific biosystem (from REACTOME)
      Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
    • RNA degradation, organism-specific biosystem (from KEGG)
      RNA degradation, organism-specific biosystemThe correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay e...
    • RNA degradation, conserved biosystem (from KEGG)
      RNA degradation, conserved biosystemThe correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay e...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • FLJ39360, KIAA0710

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    3'-5'-exoribonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    contributes_to poly(A)-specific ribonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    poly(A)-specific ribonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    poly(A)-specific ribonuclease activity TAS
    Traceable Author Statement
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    RNA phosphodiester bond hydrolysis, exonucleolytic IEA
    Inferred from Electronic Annotation
    more info
     
    mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    nuclear-transcribed mRNA poly(A) tail shortening IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear-transcribed mRNA poly(A) tail shortening TAS
    Traceable Author Statement
    more info
     
    positive regulation of cytoplasmic mRNA processing body assembly IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    PAN complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    PAN complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytosol TAS
    Traceable Author Statement
    more info
     
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    PAN2-PAN3 deadenylation complex catalytic subunit PAN2
    Names
    PAB-dependent poly(A)-specific ribonuclease subunit 2
    PAB-dependent poly(A)-specific ribonuclease subunit PAN2
    PAB1P-dependent poly(A)-nuclease
    PAB1P-dependent poly(A)-specific ribonuclease
    PABP-dependent poly(A) nuclease 2
    PAN deadenylation complex catalytic subunit 2
    PAN deadenylation complex subunit 2
    PAN2 poly(A) specific ribonuclease subunit homolog
    PAN2 polyA specific ribonuclease subunit
    inactive ubiquitin carboxyl-terminal hydrolase 52
    poly(A)-nuclease deadenylation complex subunit 2
    ubiquitin specific peptidase 52
    ubiquitin specific protease 52
    NP_001120932.1
    NP_001159751.1
    NP_055686.3

    NCBI Reference Sequences (RefSeq)

    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_001127460.2NP_001120932.1  PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC073896, BC094885, DB458902
      Consensus CDS
      CCDS44922.1
      UniProtKB/Swiss-Prot
      Q504Q3
      Related
      ENSP00000401721.2, ENST00000425394.6
      Conserved Domains (3) summary
      cd06143
      Location:9751148
      PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2
      cd02672
      Location:502921
      Peptidase_C19P; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
      cl25539
      Location:204357
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    2. NM_001166279.1NP_001159751.1  PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform 2

      See identical proteins and their annotated locations for NP_001159751.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AB014610, AC025574, AC073896
      Consensus CDS
      CCDS53802.1
      UniProtKB/Swiss-Prot
      Q504Q3
      Related
      ENSP00000257931.5, OTTHUMP00000243751, ENST00000257931.9, OTTHUMT00000409023
      Conserved Domains (3) summary
      cd06143
      Location:9741147
      PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2
      cd02672
      Location:502920
      Peptidase_C19P; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
      cl25539
      Location:204357
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    3. NM_014871.4NP_055686.3  PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform 3

      See identical proteins and their annotated locations for NP_055686.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the coding region, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AC025574, AC073896, BC024043
      Consensus CDS
      CCDS8915.1
      UniProtKB/Swiss-Prot
      Q504Q3
      Related
      ENSP00000388231.3, OTTHUMP00000243750, ENST00000440411.7, OTTHUMT00000409022
      Conserved Domains (3) summary
      cd06143
      Location:9711144
      PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2
      cd02672
      Location:502917
      Peptidase_C19P; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
      cl25539
      Location:204357
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p12 Primary Assembly

      Range
      56316223..56334053 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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