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    Mindy2 MINDY lysine 48 deubiquitinase 2 [ Mus musculus (house mouse) ]

    Gene ID: 235461, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Mindy2provided by MGI
    Official Full Name
    MINDY lysine 48 deubiquitinase 2provided by MGI
    Primary source
    MGI:MGI:2443086
    See related
    Ensembl:ENSMUSG00000042444 AllianceGenome:MGI:2443086
    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
    Fam63b; mKIAA1164; B230380D07Rik
    Summary
    Predicted to enable peptidase activity and polyubiquitin modification-dependent protein binding activity. Predicted to be involved in proteolysis. Predicted to be located in nucleoplasm. Is expressed in gut; liver lobe; nervous system; nose; and urethra. Orthologous to human MINDY2 (MINDY lysine 48 deubiquitinase 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in cerebellum adult (RPKM 11.8), frontal lobe adult (RPKM 5.9) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Mindy2 in Genome Data Viewer
    Location:
    9 D; 9 39.53 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (70506296..70566429, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (70599014..70657856, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 22229 Neighboring gene SAFB-like, transcription modulator Neighboring gene STARR-positive B cell enhancer ABC_E11748 Neighboring gene STARR-positive B cell enhancer ABC_E2903 Neighboring gene predicted gene 10642 Neighboring gene predicted gene, 31872 Neighboring gene a disintegrin and metallopeptidase domain 10 Neighboring gene cytochrome c, pseudogene 1 Neighboring gene STARR-seq mESC enhancer starr_24559 Neighboring gene STARR-seq mESC enhancer starr_24560 Neighboring gene VISTA enhancer mm190 Neighboring gene lipase, hepatic Neighboring gene ribosomal RNA processing 7 homolog A pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
    2. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
    3. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    4. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA1164

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables K11-linked polyubiquitin modification-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables K11-linked polyubiquitin modification-dependent protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    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 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 K6-linked polyubiquitin modification-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables K6-linked polyubiquitin modification-dependent protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables K63-linked polyubiquitin modification-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables K63-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 IEA
    Inferred from Electronic Annotation
    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
    		  
    Process Evidence Code Pubs
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    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-2
    Names
    deubiquitinating enzyme MINDY-2
    family with sequence similarity 63, member B
    protein FAM63B
    NP_001361615.1
    NP_766360.2
    XP_011241034.1
    XP_011241035.1
    XP_011241036.1
    XP_011241037.1
    XP_011241038.1
    XP_030100197.1
    XP_036010801.1

    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_001374686.1 → NP_001361615.1  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC091263
      Consensus CDS
      CCDS90616.1
      UniProtKB/TrEMBL
      A0A1L1STF0
      Related
      ENSMUSP00000150300.2, ENSMUST00000213380.2
      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    2. NM_172772.2 → NP_766360.2  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform 1

      See identical proteins and their annotated locations for NP_766360.2

      Status: VALIDATED

      Source sequence(s)
      AC091263, AK035930, BC058683
      Consensus CDS
      CCDS40681.1
      UniProtKB/Swiss-Prot
      Q571N1, Q6NSV8, Q6PDI6, Q7TML6, Q8BK25, Q8BL22, Q8BL47, Q8BZC1
      Related
      ENSMUSP00000037035.6, ENSMUST00000049031.6
      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    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_000075.7 Reference GRCm39 C57BL/6J

      Range
      70506296..70566429 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011242736.4 → XP_011241038.1  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform X4

      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    2. XM_011242735.4 → XP_011241037.1  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform X3

      See identical proteins and their annotated locations for XP_011241037.1

      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    3. XM_011242733.4 → XP_011241035.1  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform X1

      See identical proteins and their annotated locations for XP_011241035.1

      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    4. XM_011242732.4 → XP_011241034.1  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform X1

      See identical proteins and their annotated locations for XP_011241034.1

      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    5. XM_011242734.4 → XP_011241036.1  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform X2

      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    6. XM_030244337.2 → XP_030100197.1  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform X2

      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    7. XM_036154908.1 → XP_036010801.1  ubiquitin carboxyl-terminal hydrolase MINDY-2 isoform X1

      Conserved Domains (2) summary
      PRK07764
      Location:14 → 202
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      pfam04424
      Location:257 → 368
      MINDY_DUB; MINDY deubiquitinase

    RNA

    1. XR_004935418.1 RNA Sequence

    2. XR_003947881.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6PDI6.1 GenPept UniProtKB/Swiss-Prot:Q6PDI6

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