Usp28 ubiquitin specific peptidase 28 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Usp28provided by MGI
Official Full Name: ubiquitin specific peptidase 28provided by MGI
Primary source: MGI:MGI:2442293
See related: Ensembl:ENSMUSG00000032267 AllianceGenome:MGI:2442293
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: mKIAA1515; 9830148O20Rik
Summary: Predicted to enable cysteine-type endopeptidase activity and thiol-dependent deubiquitinase. Predicted to be involved in several processes, including intracellular signal transduction; protein deubiquitination; and response to ionizing radiation. Predicted to act upstream of or within DNA repair. Predicted to be located in nuclear body. Predicted to be part of protein-containing complex. Predicted to be active in cytosol and nucleus. Is expressed in early embryo; foregut; heart; and skeletal musculature. Orthologous to human USP28 (ubiquitin specific peptidase 28). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in heart adult (RPKM 15.4), CNS E11.5 (RPKM 7.7) and 23 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 A5.3; 9 26.56 cM

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (48896577..48953817)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (48985319..49042517)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Inhibition of deubiquitinase USP28 attenuates cyst growth in autosomal dominant polycystic kidney disease.
Title: Inhibition of deubiquitinase USP28 attenuates cyst growth in autosomal dominant polycystic kidney disease.
Centrosome defects cause microcephaly by activating the 53BP1-USP28-TP53 mitotic surveillance pathway.
Title: Centrosome defects cause microcephaly by activating the 53BP1-USP28-TP53 mitotic surveillance pathway.
In mice, an unusually direct antagonism between an E3 ligase and a deubiquitinase, Fbw7 and Usp28, modulate intestinal homeostasis and cancer.
Title: Usp28 counteracts Fbw7 in intestinal homeostasis and cancer.
Dual regulation of Fbw7 activity by Usp28 is a safeguard mechanism for maintaining physiological levels of proto-oncogenic Fbw7 substrates, which is equivalently disrupted by loss or overexpression of Usp28.
Title: Dual regulation of Fbw7 function and oncogenic transformation by Usp28.
identified Usp28 as a c-MYC target gene highly expressed in colorectal cancers, which indicates that USP28 and c-MYC form a positive feedback loop that maintains high c-MYC protein levels in tumors
Title: The deubiquitinase USP28 controls intestinal homeostasis and promotes colorectal cancer.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Gene trapped (3)
Targeted (1) 1 citation
Endonuclease-mediated (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:236120

NoName (e-PCR)
- UniSTS:224734

AU022237 (e-PCR)
- UniSTS:208373

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables cysteine-type deubiquitinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables cysteine-type deubiquitinase activity	ISO Inferred from Sequence Orthology more info
enables cysteine-type peptidase activity	IEA Inferred from Electronic Annotation more info
enables deubiquitinase activity	ISO Inferred from Sequence Orthology more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables peptidase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in DNA damage checkpoint signaling	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
involved_in cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to UV	ISO Inferred from Sequence Orthology more info
involved_in intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator	ISO Inferred from Sequence Orthology more info
involved_in protein deubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein deubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein deubiquitination involved in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within proteolysis	IEA Inferred from Electronic Annotation more info
involved_in regulation of protein stability	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of protein stability	ISO Inferred from Sequence Orthology more info
involved_in response to ionizing radiation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: ubiquitin carboxyl-terminal hydrolase 28

Names: deubiquitinating enzyme 28; ubiquitin specific protease 28; ubiquitin thioesterase 28; ubiquitin thiolesterase 28; ubiquitin-specific-processing protease 28

NP_001346668.1

EC 3.4.19.12

NP_780691.2

EC 3.4.19.12

XP_006510322.1

EC 3.4.19.12

XP_006510323.1

EC 3.4.19.12

XP_006510324.1

EC 3.4.19.12

XP_006510326.1

EC 3.4.19.12

XP_006510327.1

EC 3.4.19.12

XP_030100184.1

EC 3.4.19.12

XP_036010786.1

EC 3.4.19.12

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)

NM_001359739.1 → NP_001346668.1 ubiquitin carboxyl-terminal hydrolase 28 isoform 2

Status: VALIDATED

Source sequence(s)

AC160137

Conserved Domains (3) summary

cd02665
Location:163 → 653

Peptidase_C19I; 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 ...

cd14355
Location:23 → 64

UBA_UBP28; UBA domain found in ubiquitin carboxyl-terminal hydrolase 28 (UBP28) and similar proteins

cl02553
Location:163 → 267

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 ...
NM_175482.3 → NP_780691.2 ubiquitin carboxyl-terminal hydrolase 28 isoform 1

See identical proteins and their annotated locations for NP_780691.2

Status: VALIDATED

Source sequence(s)

AK052442, BB138580, BB659010, BG087938, BY013993, CA556001

Consensus CDS

CCDS40613.1

UniProtKB/Swiss-Prot

Q5I043, Q6NZP3, Q6ZPP1, Q8BWI1

Related

ENSMUSP00000047467.6, ENSMUST00000047349.8

Conserved Domains (4) summary

cd02665
Location:163 → 653

Peptidase_C19I; 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 ...

cd14355
Location:23 → 64

UBA_UBP28; UBA domain found in ubiquitin carboxyl-terminal hydrolase 28 (UBP28) and similar proteins

cl02553
Location:163 → 267

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:161 → 399

UCH; Ubiquitin carboxyl-terminal hydrolase

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000075.7 Reference GRCm39 C57BL/6J

Range

48896577..48953817

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006510259.5 → XP_006510322.1 ubiquitin carboxyl-terminal hydrolase 28 isoform X1

Conserved Domains (4) summary

COG5207
Location:162 → 639

UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]

cd02665
Location:163 → 653

Peptidase_C19I; 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 ...

cd14355
Location:23 → 64

UBA_UBP28; UBA domain found in ubiquitin carboxyl-terminal hydrolase 28 (UBP28) and similar proteins

cd20487
Location:864 → 1143

USP28_C; carboxyl-terminal domain of ubiquitin-specific protease 28 (USP28)
XM_006510261.5 → XP_006510324.1 ubiquitin carboxyl-terminal hydrolase 28 isoform X3

Conserved Domains (4) summary

COG5207
Location:162 → 639

UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]

cd02665
Location:163 → 653

Peptidase_C19I; 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 ...

cd14355
Location:23 → 64

UBA_UBP28; UBA domain found in ubiquitin carboxyl-terminal hydrolase 28 (UBP28) and similar proteins

cd20487
Location:840 → 1119

USP28_C; carboxyl-terminal domain of ubiquitin-specific protease 28 (USP28)
XM_006510260.4 → XP_006510323.1 ubiquitin carboxyl-terminal hydrolase 28 isoform X2

Conserved Domains (4) summary

COG5207
Location:162 → 638

UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]

cd02665
Location:163 → 652

Peptidase_C19I; 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 ...

cd14355
Location:23 → 64

UBA_UBP28; UBA domain found in ubiquitin carboxyl-terminal hydrolase 28 (UBP28) and similar proteins

cd20487
Location:863 → 1142

USP28_C; carboxyl-terminal domain of ubiquitin-specific protease 28 (USP28)
XM_006510263.4 → XP_006510326.1 ubiquitin carboxyl-terminal hydrolase 28 isoform X4

Conserved Domains (4) summary

COG5207
Location:162 → 638

UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]

cd02665
Location:163 → 652

Peptidase_C19I; 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 ...

cd14355
Location:23 → 64

UBA_UBP28; UBA domain found in ubiquitin carboxyl-terminal hydrolase 28 (UBP28) and similar proteins

cd20487
Location:803 → 1082

USP28_C; carboxyl-terminal domain of ubiquitin-specific protease 28 (USP28)
XM_006510264.4 → XP_006510327.1 ubiquitin carboxyl-terminal hydrolase 28 isoform X5

Conserved Domains (4) summary

COG5207
Location:162 → 638

UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]

cd02665
Location:163 → 652

Peptidase_C19I; 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 ...

cd14355
Location:23 → 64

UBA_UBP28; UBA domain found in ubiquitin carboxyl-terminal hydrolase 28 (UBP28) and similar proteins

cd20487
Location:771 → 1050

USP28_C; carboxyl-terminal domain of ubiquitin-specific protease 28 (USP28)
XM_030244324.2 → XP_030100184.1 ubiquitin carboxyl-terminal hydrolase 28 isoform X7

UniProtKB/TrEMBL

A0A1L1SUC4

Related

ENSMUSP00000150707.2, ENSMUST00000215856.2

Conserved Domains (3) summary

COG5207
Location:27 → 351

UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]

cd02665
Location:1 → 365

Peptidase_C19I; 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 ...

cd20487
Location:576 → 855

USP28_C; carboxyl-terminal domain of ubiquitin-specific protease 28 (USP28)
XM_036154893.1 → XP_036010786.1 ubiquitin carboxyl-terminal hydrolase 28 isoform X6

Conserved Domains (3) summary

cd02665
Location:40 → 441

Peptidase_C19I; 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:147 → 208

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 ...

cd20487
Location:652 → 931

USP28_C; carboxyl-terminal domain of ubiquitin-specific protease 28 (USP28)