U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Usp40 ubiquitin specific peptidase 40 [ Mus musculus (house mouse) ]

Gene ID: 227334, updated on 11-Apr-2024

Summary

Official Symbol
Usp40provided by MGI
Official Full Name
ubiquitin specific peptidase 40provided by MGI
Primary source
MGI:MGI:2443184
See related
Ensembl:ENSMUSG00000005501 AllianceGenome:MGI:2443184
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
C730029K03; B230215L03Rik
Summary
Predicted to enable cysteine-type endopeptidase activity and thiol-dependent deubiquitinase. Predicted to be involved in protein deubiquitination and regulation of protein stability. Predicted to be active in cytosol and nucleus. Orthologous to human USP40 (ubiquitin specific peptidase 40). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 6.6), CNS E11.5 (RPKM 4.8) and 28 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Usp40 in Genome Data Viewer
Location:
1 D; 1 44.45 cM
Exon count:
33
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (87872841..87936308, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (87945119..88008582, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_01624 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:89724892-89725168 Neighboring gene S-antigen, retina and pineal gland (arrestin) Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:89743594-89743830 Neighboring gene STARR-positive B cell enhancer ABC_E10019 Neighboring gene STARR-positive B cell enhancer mm9_chr1:89763253-89763553 Neighboring gene predicted gene, 19582 Neighboring gene diacylglycerol kinase, delta Neighboring gene STARR-seq mESC enhancer starr_01625 Neighboring gene UDP glycosyltransferase 1 family, polypeptide A10 pseudogene Neighboring gene karyopherin (importin) alpha 2 pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

Related articles in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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 peptidase activity IEA
Inferred from Electronic Annotation
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 protein deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
ubiquitin carboxyl-terminal hydrolase 40
Names
deubiquitinating enzyme 40
ubiquitin specific protease 40
ubiquitin thioesterase 40
ubiquitin thiolesterase 40
ubiquitin-specific-processing protease 40
NP_001028463.1
NP_001185502.1
XP_006529540.1
XP_036020425.1
XP_036020426.1
XP_036020427.1
XP_036020429.1

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_001033291.3NP_001028463.1  ubiquitin carboxyl-terminal hydrolase 40 isoform 2

    See identical proteins and their annotated locations for NP_001028463.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame segment compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC087801, AC162281
    Consensus CDS
    CCDS15137.1
    UniProtKB/Swiss-Prot
    Q8BWR4
    Related
    ENSMUSP00000038533.5, ENSMUST00000040783.11
    Conserved Domains (2) summary
    cd02659
    Location:39342
    peptidase_C19C; 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:42340
    UCH; Ubiquitin carboxyl-terminal hydrolase
  2. NM_001198573.2NP_001185502.1  ubiquitin carboxyl-terminal hydrolase 40 isoform 1

    See identical proteins and their annotated locations for NP_001185502.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC087801, AC162281
    Consensus CDS
    CCDS78645.1
    UniProtKB/Swiss-Prot
    Q08EB7, Q148V0, Q3TLV1, Q3TMN0, Q3V1R4, Q5EBN6, Q8BWR4
    Related
    ENSMUSP00000140107.2, ENSMUST00000187758.7
    Conserved Domains (2) summary
    cd02659
    Location:39342
    peptidase_C19C; 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:42340
    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

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    87872841..87936308 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006529477.5XP_006529540.1  ubiquitin carboxyl-terminal hydrolase 40 isoform X1

    Conserved Domains (1) summary
    cd02659
    Location:39342
    peptidase_C19C; 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 ...
  2. XM_036164533.1XP_036020426.1  ubiquitin carboxyl-terminal hydrolase 40 isoform X2

    Conserved Domains (1) summary
    cl28922
    Location:3095
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  3. XM_036164532.1XP_036020425.1  ubiquitin carboxyl-terminal hydrolase 40 isoform X2

    Conserved Domains (1) summary
    cl28922
    Location:3095
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  4. XM_036164534.1XP_036020427.1  ubiquitin carboxyl-terminal hydrolase 40 isoform X3

  5. XM_036164536.1XP_036020429.1  ubiquitin carboxyl-terminal hydrolase 40 isoform X4

RNA

  1. XR_001784185.3 RNA Sequence

  2. XR_004942005.1 RNA Sequence

  3. XR_004942007.1 RNA Sequence

  4. XR_004942003.1 RNA Sequence

  5. XR_004942004.1 RNA Sequence

  6. XR_004942001.1 RNA Sequence

  7. XR_001784186.3 RNA Sequence

  8. XR_004942006.1 RNA Sequence

    Related
    ENSMUST00000188332.7