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USP21 ubiquitin specific peptidase 21 [ Homo sapiens (human) ]

Gene ID: 27005, updated on 3-Nov-2024

Summary

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Official Symbol
USP21provided by HGNC
Official Full Name
ubiquitin specific peptidase 21provided by HGNC
Primary source
HGNC:HGNC:12620
See related
Ensembl:ENSG00000143258 MIM:604729; AllianceGenome:HGNC:12620
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
USP16; USP23
Summary
This gene encodes a member of the C19 peptidase family, also known as family 2 of ubiquitin carboxy-terminal hydrolases. The encoded protein cleaves ubiquitin from ubiquitinated proteins for recycling in intracellular protein degradation. The encoded protein is also able to release NEDD8, a ubiquitin-like protein, from NEDD8-conjugated proteins. This gene has been referred to as USP16 and USP23 but is now known as USP21. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2016]
Expression
Ubiquitous expression in ovary (RPKM 11.4), testis (RPKM 9.2) and 25 other tissues See more
Orthologs
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Genomic context

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See USP21 in Genome Data Viewer
Location:
1q23.3
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (161159500..161165723)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (160296946..160303180)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (161129290..161135513)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA ACA64 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:161120104-161120964 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:161123368-161124567 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1470 Neighboring gene ubiquitin-fold modifier conjugating enzyme 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:161137271-161137934 Neighboring gene protoporphyrinogen oxidase Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1471 Neighboring gene beta-1,4-galactosyltransferase 3 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:161146985-161147484 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:161148623-161149124 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1981 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1982 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1983 Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:161162728-161163541 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1474 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1984 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:161166678-161167583 Neighboring gene NADH:ubiquinone oxidoreductase core subunit S2

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Inhibition of USP21 leads to ovarian carcinoma cell death by suppressing MAPK signaling.
    Title: Inhibition of USP21 leads to ovarian carcinoma cell death by suppressing MAPK signaling.
  2. c-JUN-induced upregulation of LINC00174 contributes to colorectal cancer proliferation and invasion through accelerating USP21 expression.
    Title: c-JUN-induced upregulation of LINC00174 contributes to colorectal cancer proliferation and invasion through accelerating USP21 expression.
  3. Salt-like transcription factor 4 promotes laryngeal cancer progression through transcriptional activation of ubiquitin-specific protease 21 to stabilize Yin Yang 1.
    Title: Salt-like transcription factor 4 promotes laryngeal cancer progression through transcriptional activation of ubiquitin-specific protease 21 to stabilize Yin Yang 1.
  4. USP21 accelerates the proliferation and glycolysis of esophageal cancer cells by regulating the STAT3/FOXO1 pathway.
    Title: USP21 accelerates the proliferation and glycolysis of esophageal cancer cells by regulating the STAT3/FOXO1 pathway.
  5. USP21 promotes self-renewal and tumorigenicity of mesenchymal glioblastoma stem cells by deubiquitinating and stabilizing FOXD1.
    Title: USP21 promotes self-renewal and tumorigenicity of mesenchymal glioblastoma stem cells by deubiquitinating and stabilizing FOXD1.
  6. Ablation of USP21 in skeletal muscle promotes oxidative fibre phenotype, inhibiting obesity and type 2 diabetes.
    Title: Ablation of USP21 in skeletal muscle promotes oxidative fibre phenotype, inhibiting obesity and type 2 diabetes.
  7. USP21 regulates Hippo signaling to promote radioresistance by deubiquitinating FOXM1 in cervical cancer.
    Title: USP21 regulates Hippo signaling to promote radioresistance by deubiquitinating FOXM1 in cervical cancer.
  8. USP21 upregulation in cholangiocarcinoma promotes cell proliferation and migration in a deubiquitinase-dependent manner.
    Title: USP21 upregulation in cholangiocarcinoma promotes cell proliferation and migration in a deubiquitinase-dependent manner.
  9. USP21 promotes cell proliferation by maintaining the EZH2 level in diffuse large B-cell lymphoma.
    Title: USP21 promotes cell proliferation by maintaining the EZH2 level in diffuse large B-cell lymphoma.
  10. Deubiquitinating Enzyme USP21 Inhibits HIV-1 Replication by Downregulating Tat Expression.
    Title: Deubiquitinating Enzyme USP21 Inhibits HIV-1 Replication by Downregulating Tat Expression.
Submit: New GeneRIF Correction See all GeneRIFs (29)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

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

Clone Names

  • MGC3394

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables cysteine-type deubiquitinase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables cysteine-type deubiquitinase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables cysteine-type deubiquitinase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables cysteine-type deubiquitinase activity TAS
Traceable Author Statement
more info
  
enables cysteine-type peptidase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables cysteine-type peptidase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables deNEDDylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription coactivator activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in positive regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in protein deubiquitination IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein deubiquitination TAS
Traceable Author Statement
more info
  
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
  
involved_in transcription initiation-coupled chromatin remodeling ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
ubiquitin carboxyl-terminal hydrolase 21
Names
NEDD8-specific protease
deubiquitinating enzyme 21
ubiquitin specific protease 21
ubiquitin thioesterase 21
ubiquitin thiolesterase 21
ubiquitin-specific processing protease 21
ubiquitin-specific protease 16
NP_001014443.1
NP_001306776.1
NP_001306777.1
NP_036607.3
XP_016856525.1
XP_016856526.1
XP_016856527.1
XP_016856528.1
XP_047273935.1
XP_047273936.1
XP_047273937.1
XP_047273938.1
XP_047273939.1
XP_054191967.1
XP_054191968.1
XP_054191969.1
XP_054191970.1
XP_054191971.1
XP_054191972.1
XP_054191973.1
XP_054191974.1

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_001014443.3 → NP_001014443.1  ubiquitin carboxyl-terminal hydrolase 21 isoform c

    See identical proteins and their annotated locations for NP_001014443.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 4. The resulting isoform (c) is shorter at the N-terminus compared to isoform a. Variants 1 and 3 both encode the same isoform (c).
    Source sequence(s)
    AF177758, AI038040, BC090946, BI755746
    Consensus CDS
    CCDS30920.1
    UniProtKB/Swiss-Prot
    Q59H60, Q5BKT5, Q5VTW9, Q5VTX0, Q9BTV1, Q9HBS2, Q9NYN4, Q9UK80
    Related
    ENSP00000356981.3, ENST00000368002.8
    Conserved Domains (2) summary
    cd02674
    Location:213 → 556
    Peptidase_C19R; 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 ...
    pfam00443
    Location:212 → 555
    UCH; Ubiquitin carboxyl-terminal hydrolase

  2. NM_001319847.2 → NP_001306776.1  ubiquitin carboxyl-terminal hydrolase 21 isoform a

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) encodes the longest isoform (a).
    Source sequence(s)
    AI038040, AK310326, DA000829
    Conserved Domains (2) summary
    cd02674
    Location:242 → 585
    Peptidase_C19R; 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 ...
    pfam00443
    Location:241 → 584
    UCH; Ubiquitin carboxyl-terminal hydrolase

  3. NM_001319848.2 → NP_001306777.1  ubiquitin carboxyl-terminal hydrolase 21 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence and uses an alternate in-frame splice junction in the 3' end compared to variant 4. The resulting isoform (b) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform a.
    Source sequence(s)
    AF217979, AF233442, AI038040, DA000829
    Consensus CDS
    CCDS81392.1
    UniProtKB/Swiss-Prot
    Q9UK80
    Related
    ENSP00000356980.1, ENST00000368001.1
    Conserved Domains (3) summary
    cd02674
    Location:213 → 542
    Peptidase_C19R; 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 ...
    cl02553
    Location:212 → 346
    Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...
    pfam00443
    Location:212 → 541
    UCH; Ubiquitin carboxyl-terminal hydrolase

  4. NM_012475.5 → NP_036607.3  ubiquitin carboxyl-terminal hydrolase 21 isoform c

    See identical proteins and their annotated locations for NP_036607.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR and coding sequence compared to variant 4. The resulting isoform (c) is shorter at the N-terminus compared to isoform a. Variants 1 and 3 both encode the same isoform (c).
    Source sequence(s)
    AF177758, AI038040, BI755746
    Consensus CDS
    CCDS30920.1
    UniProtKB/Swiss-Prot
    Q59H60, Q5BKT5, Q5VTW9, Q5VTX0, Q9BTV1, Q9HBS2, Q9NYN4, Q9UK80
    Related
    ENSP00000289865.8, ENST00000289865.12
    Conserved Domains (2) summary
    cd02674
    Location:213 → 556
    Peptidase_C19R; 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 ...
    pfam00443
    Location:212 → 555
    UCH; Ubiquitin carboxyl-terminal hydrolase

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    161159500..161165723
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047417980.1 → XP_047273936.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  2. XM_047417981.1 → XP_047273937.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X2

  3. XM_017001038.3 → XP_016856527.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  4. XM_017001037.3 → XP_016856526.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  5. XM_017001039.3 → XP_016856528.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  6. XM_047417982.1 → XP_047273938.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X3

  7. XM_017001036.2 → XP_016856525.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X5

  8. XM_047417979.1 → XP_047273935.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  9. XM_047417983.1 → XP_047273939.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X4

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    160296946..160303180
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054335996.1 → XP_054191971.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X2

  2. XM_054335997.1 → XP_054191972.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X3

  3. XM_054335995.1 → XP_054191970.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  4. XM_054335994.1 → XP_054191969.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  5. XM_054335993.1 → XP_054191968.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  6. XM_054335999.1 → XP_054191974.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X5

  7. XM_054335992.1 → XP_054191967.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X1

  8. XM_054335998.1 → XP_054191973.1  ubiquitin carboxyl-terminal hydrolase 21 isoform X4

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_016572.3: Suppressed sequence

    Description
    NM_016572.3: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9UK80.1 GenPept UniProtKB/Swiss-Prot:Q9UK80

Gene LinkOut

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