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    Mindy1 MINDY lysine 48 deubiquitinase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 310665, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Mindy1provided by RGD
    Official Full Name
    MINDY lysine 48 deubiquitinase 1provided by RGD
    Primary source
    RGD:1559660
    See related
    Ensembl:ENSRNOG00000021131 AllianceGenome:RGD:1559660
    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
    Fam63a
    Summary
    Predicted to enable K48-linked polyubiquitin modification-dependent protein binding activity; Lys48-specific deubiquitinase activity; and cysteine-type carboxypeptidase activity. Predicted to be involved in protein K48-linked deubiquitination. Predicted to be located in nuclear body. Orthologous to human MINDY1 (MINDY lysine 48 deubiquitinase 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Adrenal (RPKM 167.3), Kidney (RPKM 109.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Mindy1 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (185550026..185561987)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (182859977..182873000)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (196458229..196470133)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene BCL2 interacting protein like Neighboring gene prune exopolyphosphatase 1 Neighboring gene annexin A9 Neighboring gene ceramide synthase 2 Neighboring gene SET domain bifurcated histone lysine methyltransferase 1

    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. MINDY-1 Is a Member of an Evolutionarily Conserved and Structurally Distinct New Family of Deubiquitinating Enzymes. Abdul Rehman SA, et al. Mol Cell, 2016 Jul 7. PMID 27292798, Free PMC Article
    2. A single MIU motif of MINDY-1 recognizes K48-linked polyubiquitin chains. Kristariyanto YA, et al. EMBO Rep, 2017 Mar. PMID 28082312, Free PMC Article
    3. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC109471

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables K48-linked deubiquitinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 polyubiquitin modification-dependent protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables K48-linked polyubiquitin modification-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables K48-linked polyubiquitin modification-dependent protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables cysteine-type carboxypeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cysteine-type carboxypeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cysteine-type deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein K48-linked 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 nuclear body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    ubiquitin carboxyl-terminal hydrolase MINDY-1
    Names
    deubiquitinating enzyme MINDY-1
    family with sequence similarity 63, member A
    protein FAM63A
    NP_001020289.1
    XP_017446390.1
    XP_038958280.1
    XP_038958281.1

    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_001025118.1 → NP_001020289.1  ubiquitin carboxyl-terminal hydrolase MINDY-1

      See identical proteins and their annotated locations for NP_001020289.1

      Status: PROVISIONAL

      Source sequence(s)
      BC091386
      UniProtKB/Swiss-Prot
      Q5BJQ2
      Conserved Domains (1) summary
      pfam04424
      Location:158 → 275
      MINDY_DUB; MINDY deubiquitinase

    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_086020.1 Reference GRCr8

      Range
      185550026..185561987
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017590901.3 → XP_017446390.1  ubiquitin carboxyl-terminal hydrolase MINDY-1 isoform X1

      UniProtKB/Swiss-Prot
      Q5BJQ2
      Related
      ENSRNOP00000053218.2
      Conserved Domains (1) summary
      pfam04424
      Location:158 → 275
      MINDY_DUB; MINDY deubiquitinase

    2. XM_039102353.2 → XP_038958281.1  ubiquitin carboxyl-terminal hydrolase MINDY-1 isoform X2

      Conserved Domains (1) summary
      pfam04424
      Location:158 → 275
      MINDY_DUB; MINDY deubiquitinase

    3. XM_039102352.2 → XP_038958280.1  ubiquitin carboxyl-terminal hydrolase MINDY-1 isoform X1

      UniProtKB/Swiss-Prot
      Q5BJQ2
      Conserved Domains (1) summary
      pfam04424
      Location:158 → 275
      MINDY_DUB; MINDY deubiquitinase
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5BJQ2.1 GenPept UniProtKB/Swiss-Prot:Q5BJQ2

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