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    PCNP PEST proteolytic signal containing nuclear protein [ Homo sapiens (human) ]

    Gene ID: 57092, updated on 17-Jun-2024

    Summary

    Official Symbol
    PCNPprovided by HGNC
    Official Full Name
    PEST proteolytic signal containing nuclear proteinprovided by HGNC
    Primary source
    HGNC:HGNC:30023
    See related
    Ensembl:ENSG00000081154 MIM:615210; AllianceGenome:HGNC:30023
    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
    Involved in proteasome-mediated ubiquitin-dependent protein catabolic process and protein ubiquitination. Located in nuclear body. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in ovary (RPKM 78.0), thyroid (RPKM 65.5) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See PCNP in Genome Data Viewer
    Location:
    3q12.3
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (101574094..101594465)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (104286707..104307080)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (101292938..101313309)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ARB2 family member B, pseudogene Neighboring gene CRISPRi-validated cis-regulatory element chr3.3097 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:101274853-101275465 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20165 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20166 Neighboring gene tRNA methyltransferase 10C, mitochondrial RNase P subunit Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:101292235-101293180 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20169 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20170 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20171 Neighboring gene ribosomal protein S18 pseudogene 5 Neighboring gene ribosomal protein L32 pseudogene 7 Neighboring gene RNA, U6 small nuclear 1256, 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 Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • DKFZp781I24156

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nuclear body IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    PEST proteolytic signal-containing nuclear protein
    Names
    PEST-containing nuclear protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001320395.1NP_001307324.1  PEST proteolytic signal-containing nuclear protein isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate coding exon compared to variant 1, that causes a frameshift. The resulting isoform (b) has a shorter and distinct C-terminus compared to isoform a.
      Source sequence(s)
      AB037675, BC013916, BU608892, DA304502
      UniProtKB/Swiss-Prot
      Q8WW12
      Conserved Domains (1) summary
      pfam15473
      Location:23118
      PCNP; PEST, proteolytic signal-containing nuclear protein family
    2. NM_001320397.1NP_001307326.1  PEST proteolytic signal-containing nuclear protein isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame segment compared to variant 1. The resulting isoform (c) has the same N- and C-termini but is shorter compared to isoform a.
      Source sequence(s)
      AB037675, BU608892, DA304502, DB060329
      UniProtKB/Swiss-Prot
      Q8WW12
      Conserved Domains (1) summary
      pfam15473
      Location:24138
      PCNP; PEST, proteolytic signal-containing nuclear protein family
    3. NM_001320398.1NP_001307327.1  PEST proteolytic signal-containing nuclear protein isoform d

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (d) has the same N- and C-termini but is 1 aa shorter compared to isoform a.
      Source sequence(s)
      AB037675, BF541732, BU608892, CD696085, DA304502
      UniProtKB/Swiss-Prot
      Q8WW12
      Conserved Domains (1) summary
      pfam15473
      Location:24170
      PCNP; PEST, proteolytic signal-containing nuclear protein family
    4. NM_001320399.1NP_001307328.1  PEST proteolytic signal-containing nuclear protein isoform e

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) contains an alternate 5' exon and uses an alternate splice junction compared to variant 1. The resulting isoform (e) has a shorter and distinct N-terminus compared to isoform a.
      Source sequence(s)
      AB037675, AC073861, BI596913, BU608892, DA304502
      UniProtKB/Swiss-Prot
      Q8WW12
      Conserved Domains (1) summary
      pfam15473
      Location:20151
      PCNP; PEST, proteolytic signal-containing nuclear protein family
    5. NM_001320400.1NP_001307329.1  PEST proteolytic signal-containing nuclear protein isoform f

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) lacks two alternate coding exons compared to variant 1, that causes a frameshift. The resulting isoform (f) has a shorter and distinct C-terminus compared to isoform a.
      Source sequence(s)
      AB037675, AC073861, BF244508, BU608892, DA304502
      UniProtKB/Swiss-Prot
      Q8WW12
      Conserved Domains (1) summary
      pfam15473
      Location:2494
      PCNP; PEST, proteolytic signal-containing nuclear protein family
    6. NM_001320401.1NP_001307330.1  PEST proteolytic signal-containing nuclear protein isoform g

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (g) has the same N- and C-termini but is shorter compared to isoform a.
      Source sequence(s)
      AB037675, BU608892, DA304502, DA710370
      UniProtKB/Swiss-Prot
      Q8WW12
      Conserved Domains (1) summary
      pfam15473
      Location:24146
      PCNP; PEST, proteolytic signal-containing nuclear protein family
    7. NM_020357.3NP_065090.1  PEST proteolytic signal-containing nuclear protein isoform a

      See identical proteins and their annotated locations for NP_065090.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AC073861
      Consensus CDS
      CCDS2942.1
      UniProtKB/Swiss-Prot
      B2RBE7, D3DN52, Q53GF3, Q6AI44, Q8WW12, Q96CU3, Q9NS81
      Related
      ENSP00000265260.3, ENST00000265260.8
      Conserved Domains (1) summary
      pfam15473
      Location:24171
      PCNP; PEST, proteolytic signal-containing nuclear protein family

    RNA

    1. NR_135223.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) uses an alternate splice junction compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB037675, BU608892, DA304502
      Related
      ENST00000460231.5
    2. NR_135224.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) uses an alternate splice junction compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
      Source sequence(s)
      AB037675, BU608892, DA304502, DB032930
      Related
      ENST00000469941.5
    3. NR_135225.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (10) uses two alternate splice junctions compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB037675, AC073861, BU608892, DA304502, DA817951
    4. NR_135226.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (11) uses an alternate splice junction and lacks two alternate exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB037675, BU608892, DA304502, DA821754
    5. NR_135227.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (12) uses an alternate splice junction compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB037675, AC073861, BI547939, BU608892, DA304502
    6. NR_135228.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (13) uses an alternate splice junction and lacks an alternate exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB037675, BU608892, DA041324, DA304502
    7. NR_135229.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (14) lacks an alternate exon and contains another alternate exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB037675, AC073861, BI913146, BU608892, DA304502
    8. NR_135230.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (15) uses an alternate splice junction and lacks an alternate exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB037675, BU608892, DA304502, DB481581
    9. NR_135231.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (16) lacks two alternate exons compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
      Source sequence(s)
      AB037675, BU608892, DA304502, HY051831
    10. NR_135232.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (17) contains an alternate exon and uses an alternate splice junction compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB037675, AC073861, BU608892, CN482876, DA304502

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      101574094..101594465
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      104286707..104307080
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054347352.1XP_054203327.1  PEST proteolytic signal-containing nuclear protein isoform X1