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    Desi2 desumoylating isopeptidase 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 289277, updated on 20-Apr-2024

    Summary

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    Official Symbol
    Desi2provided by RGD
    Official Full Name
    desumoylating isopeptidase 2provided by RGD
    Primary source
    RGD:1359392
    See related
    Ensembl:ENSRNOG00000004524 AllianceGenome:RGD:1359392
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    DeSI-2; PNAS-4; Pppde1; CGI-146; Fam152a
    Summary
    Predicted to enable Lys48-specific deubiquitinase activity; Lys63-specific deubiquitinase activity; and thiol-dependent deubiquitinase. Predicted to be involved in protein deubiquitination. Predicted to be located in cytoplasm. Orthologous to human DESI2 (desumoylating isopeptidase 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 58.3), Adrenal (RPKM 56.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    13q25
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (92493765..92543307)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (89961767..90011255)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (96111800..96156693)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene adenylosuccinate synthase 2 Neighboring gene catsper channel auxiliary subunit epsilon Neighboring gene uncharacterized LOC120096322 Neighboring gene ribosomal protein S16, pseudogene 3 Neighboring gene chromosome 13 C1orf202 homolog

    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. Upregulation of PPPDE1 contributes to anorectal malformations via the mitochondrial apoptosis pathway during hindgut development in rats. Li SY, et al. Exp Cell Res, 2021 May 15. PMID 33794264
    2. PNAS4 knockout does not induce obviously neurocytes apoptosis and abnormal development in mice brain. Cai P, et al. Mol Biol Rep, 2012 Jan. PMID 21553223
    3. PPPDE1 is a novel deubiquitinase belonging to a cysteine isopeptidase family. Xie X, et al. Biochem Biophys Res Commun, 2017 Jun 24. PMID 28483520
    4. DeSUMOylating isopeptidase: a second class of SUMO protease. Shin EJ, et al. EMBO Rep, 2012 Apr. PMID 22370726, Free PMC Article
    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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Upregulation of PPPDE1 contributes to anorectal malformations via the mitochondrial apoptosis pathway during hindgut development in rats.
      Title: Upregulation of PPPDE1 contributes to anorectal malformations via the mitochondrial apoptosis pathway during hindgut development in rats.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables K48-linked deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables K48-linked deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables K48-linked deubiquitinase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables K63-linked deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables K63-linked deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables K63-linked deubiquitinase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    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 deubiquitinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables long-chain fatty acyl-CoA hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables long-chain fatty acyl-CoA hydrolase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables long-chain fatty acyl-CoA hydrolase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables palmitoyl-(protein) hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in macromolecule depalmitoylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein deubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    deubiquitinase DESI2
    Names
    PPPDE peptidase domain containing 1
    PPPDE peptidase domain-containing protein 1
    S-depalmitoylase DESI2
    family with sequence similarity 152, member A
    palmitoyl protein thioesterase DESI2
    NP_001013895.1
    XP_006250379.1
    XP_017454213.1
    XP_017454214.1
    XP_038946457.1
    XP_038946458.1
    XP_038946460.1
    XP_063128204.1
    XP_063128205.1
    XP_063128206.1
    XP_063128207.1

    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_001013873.1 → NP_001013895.1  deubiquitinase DESI2

      See identical proteins and their annotated locations for NP_001013895.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083584
      UniProtKB/Swiss-Prot
      Q5XIT6
      UniProtKB/TrEMBL
      A0A8I6GJD8
      Related
      ENSRNOP00000005967.5, ENSRNOT00000005967.8
      Conserved Domains (1) summary
      pfam05903
      Location:7 → 149
      Peptidase_C97; PPPDE putative peptidase domain

    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_086031.1 Reference GRCr8

      Range
      92493765..92543307
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039090530.2 → XP_038946458.1  deubiquitinase DESI2 isoform X4

      Conserved Domains (1) summary
      pfam05903
      Location:7 → 112
      Peptidase_C97; PPPDE putative peptidase domain

    2. XM_039090532.2 → XP_038946460.1  deubiquitinase DESI2 isoform X6

      Conserved Domains (1) summary
      pfam05903
      Location:7 → 118
      Peptidase_C97; PPPDE putative peptidase domain

    3. XM_017598724.3 → XP_017454213.1  deubiquitinase DESI2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AF15, A0A8I6GJD8
      Related
      ENSRNOP00000091146.1
      Conserved Domains (1) summary
      pfam05903
      Location:16 → 145
      Peptidase_C97; PPPDE putative peptidase domain

    4. XM_006250317.5 → XP_006250379.1  deubiquitinase DESI2 isoform X2

      See identical proteins and their annotated locations for XP_006250379.1

      UniProtKB/TrEMBL
      A0A8I6AD20, A0A8I6AER3
      Related
      ENSRNOP00000090046.1
      Conserved Domains (1) summary
      pfam05903
      Location:14 → 143
      Peptidase_C97; PPPDE putative peptidase domain

    5. XM_017598725.3 → XP_017454214.1  deubiquitinase DESI2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AF15, A0A8I6GJD8
      Conserved Domains (1) summary
      pfam05903
      Location:16 → 145
      Peptidase_C97; PPPDE putative peptidase domain

    6. XM_039090529.2 → XP_038946457.1  deubiquitinase DESI2 isoform X3

      UniProtKB/TrEMBL
      A0A8I6GJD8
      Conserved Domains (1) summary
      pfam05903
      Location:10 → 139
      Peptidase_C97; PPPDE putative peptidase domain

    7. XM_063272136.1 → XP_063128206.1  deubiquitinase DESI2 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AD20

    8. XM_063272137.1 → XP_063128207.1  deubiquitinase DESI2 isoform X5

    9. XM_063272134.1 → XP_063128204.1  deubiquitinase DESI2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AF15

    10. XM_063272135.1 → XP_063128205.1  deubiquitinase DESI2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AF15
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5XIT6.1 GenPept UniProtKB/Swiss-Prot:Q5XIT6

    Gene LinkOut

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