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Usp54 ubiquitin specific peptidase 54 [ Rattus norvegicus (Norway rat) ]

Gene ID: 408223, updated on 27-Nov-2024

Summary

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Official Symbol
Usp54provided by RGD
Official Full Name
ubiquitin specific peptidase 54provided by RGD
Primary source
RGD:1303206
See related
EnsemblRapid:ENSRNOG00000027012 AllianceGenome:RGD:1303206
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable cysteine-type deubiquitinase activity. Predicted to be involved in protein deubiquitination and proteolysis. Orthologous to human USP54 (ubiquitin specific peptidase 54). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Brain (RPKM 148.6), Lung (RPKM 113.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Usp54 in Genome Data Viewer
Location:
15p16
Exon count:
33
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (3706013..3806935)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (3659345..3757703)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (4091834..4190408)

Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene synaptopodin 2-like Neighboring gene myozenin 1 Neighboring gene transfer RNA threonine (anticodon AGU) 29 Neighboring gene nucleolin, pseudogene 1 Neighboring gene small nucleolar RNA SNORA68 Neighboring gene uncharacterized LOC103693236 Neighboring gene protein phosphatase 3 catalytic subunit beta Neighboring gene 60S ribosomal protein L15-like Neighboring gene MSS51 mitochondrial translational activator

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. Quesada V, et al. Biochem Biophys Res Commun, 2004 Jan 30. PMID 14715245
  2. A genomic analysis of rat proteases and protease inhibitors. Puente XS, et al. Genome Res, 2004 Apr. PMID 15060002, Free PMC Article
  3. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Gibbs RA, et al. Nature, 2004 Apr 1. PMID 15057822
  4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables cysteine-type deubiquitinase activity IEA
Inferred from Electronic Annotation
more info
  
enables cysteine-type deubiquitinase activity ISO
Inferred from Sequence Orthology
more info
  
enables cysteine-type deubiquitinase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in protein deubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
ubiquitin carboxyl-terminal hydrolase 54; inactive ubiquitin carboxyl-terminal hydrolase 54
Names
inactive ubiquitin-specific peptidase 54
ubiquitin specific protease 54
NP_001008863.2
XP_017455259.1
XP_038949501.1
XP_038949504.1
XP_038949505.1
XP_063130585.1
XP_063130586.1
XP_063130587.1
XP_063130588.1
XP_063130589.1
XP_063130591.1
XP_063130592.1
XP_063130593.1
XP_063130594.1
XP_063130595.1
XP_063130597.1
XP_063130598.1
XP_063130599.1
XP_063130600.1
XP_063130601.1
XP_063130602.1
XP_063130603.1
XP_063130604.1
XP_063130605.1
XP_063130606.1
XP_063130607.1
XP_063130608.1
XP_063130609.1
XP_063130610.1
XP_063130611.1

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_001008863.3 → NP_001008863.2  ubiquitin carboxyl-terminal hydrolase 54

    See identical proteins and their annotated locations for NP_001008863.2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000015
    UniProtKB/Swiss-Prot
    Q4QQU8, Q6IE24
    Related
    ENSRNOP00000038767.4, ENSRNOT00000029615.6
    Conserved Domains (2) summary
    PRK06669
    Location:681 → 773
    fliH; flagellar assembly protein H; Validated
    pfam00443
    Location:32 → 349
    UCH; Ubiquitin carboxyl-terminal hydrolase

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086033.1 Reference GRCr8

    Range
    3706013..3806935
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063274518.1 → XP_063130588.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  2. XM_063274535.1 → XP_063130605.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X4

    UniProtKB/Swiss-Prot
    Q4QQU8, Q6IE24

  3. XM_063274515.1 → XP_063130585.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  4. XM_063274534.1 → XP_063130604.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X4

    UniProtKB/Swiss-Prot
    Q4QQU8, Q6IE24

  5. XM_063274516.1 → XP_063130586.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  6. XM_063274536.1 → XP_063130606.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X4

    UniProtKB/Swiss-Prot
    Q4QQU8, Q6IE24

  7. XM_063274538.1 → XP_063130608.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X5

  8. XM_063274525.1 → XP_063130595.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  9. XM_063274524.1 → XP_063130594.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  10. XM_063274522.1 → XP_063130592.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  11. XM_063274527.1 → XP_063130597.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  12. XM_063274537.1 → XP_063130607.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X4

    UniProtKB/Swiss-Prot
    Q4QQU8, Q6IE24

  13. XM_063274523.1 → XP_063130593.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  14. XM_063274528.1 → XP_063130598.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  15. XM_063274517.1 → XP_063130587.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  16. XM_063274519.1 → XP_063130589.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  17. XM_063274521.1 → XP_063130591.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  18. XM_063274530.1 → XP_063130600.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3
    Related
    ENSRNOP00000068778.1, ENSRNOT00000083467.3

  19. XM_017599770.3 → XP_017455259.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3
    Conserved Domains (2) summary
    cd02257
    Location:32 → 349
    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:32 → 349
    UCH; Ubiquitin carboxyl-terminal hydrolase

  20. XM_063274539.1 → XP_063130609.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X6

  21. XM_039093573.2 → XP_038949501.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X4

    UniProtKB/Swiss-Prot
    Q4QQU8, Q6IE24
    Conserved Domains (2) summary
    PRK06669
    Location:681 → 773
    fliH; flagellar assembly protein H; Validated
    pfam00443
    Location:32 → 349
    UCH; Ubiquitin carboxyl-terminal hydrolase

  22. XM_063274540.1 → XP_063130610.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X7

  23. XM_063274533.1 → XP_063130603.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X3

  24. XM_063274532.1 → XP_063130602.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X2

  25. XM_039093577.2 → XP_038949505.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X10

    UniProtKB/TrEMBL
    A6KKP1
    Conserved Domains (1) summary
    pfam00443
    Location:32 → 349
    UCH; Ubiquitin carboxyl-terminal hydrolase

  26. XM_039093576.2 → XP_038949504.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X9

    Conserved Domains (2) summary
    PRK06669
    Location:738 → 826
    fliH; flagellar assembly protein H; Validated
    pfam00443
    Location:32 → 349
    UCH; Ubiquitin carboxyl-terminal hydrolase

  27. XM_063274531.1 → XP_063130601.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  28. XM_063274529.1 → XP_063130599.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTN3

  29. XM_063274541.1 → XP_063130611.1  inactive ubiquitin carboxyl-terminal hydrolase 54 isoform X8

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6IE24.2 GenPept UniProtKB/Swiss-Prot:Q6IE24

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