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Mindy3 MINDY lysine 48 deubiquitinase 3 [ Mus musculus (house mouse) ]

Gene ID: 66960, updated on 5-Mar-2024

Summary

Official Symbol
Mindy3provided by MGI
Official Full Name
MINDY lysine 48 deubiquitinase 3provided by MGI
Primary source
MGI:MGI:1914210
See related
Ensembl:ENSMUSG00000026767 AllianceGenome:MGI:1914210
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
Fam188a; 1810041E18Rik; 2310047O13Rik; 5830410F13Rik
Summary
Predicted to enable Lys48-specific deubiquitinase activity and thiol-dependent deubiquitinase. Predicted to act upstream of or within apoptotic process and proteolysis. Predicted to be located in nuclear membrane and nucleoplasm. Is expressed in cranial ganglion; dorsal root ganglion; heart; neural retina; and telencephalon. Orthologous to human MINDY3 (MINDY lysine 48 deubiquitinase 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E18 (RPKM 3.8), CNS E14 (RPKM 3.4) and 28 other tissues See more
Orthologs
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Genomic context

Location:
2 A1; 2 9.27 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (12352074..12424298, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (12347263..12419489, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_03684 Neighboring gene STARR-seq mESC enhancer starr_03685 Neighboring gene karyopherin (importin) alpha 2 pseudogene Neighboring gene STARR-seq mESC enhancer starr_03686 Neighboring gene STARR-seq mESC enhancer starr_03687 Neighboring gene integrin alpha 8 Neighboring gene STARR-seq mESC enhancer starr_03688 Neighboring gene STARR-seq mESC enhancer starr_03689 Neighboring gene RIKEN cDNA E030013I19 gene Neighboring gene STARR-seq mESC enhancer starr_03690 Neighboring gene STARR-positive B cell enhancer ABC_E5886 Neighboring gene STARR-seq mESC enhancer starr_03692 Neighboring gene STARR-seq mESC enhancer starr_03694 Neighboring gene predicted gene 13321 Neighboring gene STARR-seq mESC enhancer starr_03695 Neighboring gene STARR-seq mESC enhancer starr_03696 Neighboring gene STARR-seq mESC enhancer starr_03697 Neighboring gene STARR-positive B cell enhancer ABC_E4415 Neighboring gene phosphotriesterase related Neighboring gene predicted gene, 52597

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables K48-linked deubiquitinase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables K48-linked deubiquitinase activity ISO
Inferred from Sequence Orthology
more info
 
enables cysteine-type deubiquitinase activity ISO
Inferred from Sequence Orthology
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
acts_upstream_of_or_within apoptotic process IEA
Inferred from Electronic Annotation
more info
 
involved_in protein K48-linked deubiquitination IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in nuclear membrane ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
ubiquitin carboxyl-terminal hydrolase MINDY-3
Names
caspase recruitment domain containing protein
deubiquitinating enzyme MINDY-3
family with sequence similarity 188, member A
protein FAM188A
ubiquitin carboxyl-terminal hydrolase FAM188A
NP_001342464.1
NP_001342465.1
NP_001342466.1
NP_001342467.1
NP_001342468.1
NP_077147.2
XP_006497585.1
XP_006497586.1
XP_006497587.1
XP_006497588.1
XP_006497589.1
XP_006497592.1
XP_030107834.1
XP_036018396.1
XP_036018397.1
XP_036018398.1

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_001355535.1NP_001342464.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform b

    Status: VALIDATED

    Source sequence(s)
    AK143250, AL772342
    Related
    ENSMUST00000130225.7
    Conserved Domains (1) summary
    pfam13898
    Location:29314
    DUF4205; Domain of unknown function (DUF4205)
  2. NM_001355536.1NP_001342465.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform c precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3), as well as variant 4, encodes isoform c.
    Source sequence(s)
    AL772342, AL845533
    Conserved Domains (1) summary
    pfam13898
    Location:6142
    DUF4205; Domain of unknown function (DUF4205)
  3. NM_001355537.1NP_001342466.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform c precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4), as well as variant 3, encodes isoform c.
    Source sequence(s)
    AL772342, AL845533
    Conserved Domains (1) summary
    pfam13898
    Location:6142
    DUF4205; Domain of unknown function (DUF4205)
  4. NM_001355538.1NP_001342467.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform d precursor

    Status: VALIDATED

    Source sequence(s)
    AK075792, AL772342, AL845533
    Conserved Domains (1) summary
    pfam13898
    Location:6142
    DUF4205; Domain of unknown function (DUF4205)
  5. NM_001355539.1NP_001342468.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform e

    Status: VALIDATED

    Source sequence(s)
    AL845533, FO708924
    Conserved Domains (1) summary
    pfam13898
    Location:30103
    DUF4205; Domain of unknown function (DUF4205)
  6. NM_024185.4NP_077147.2  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform a

    See identical proteins and their annotated locations for NP_077147.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AK009891, BY297479
    Consensus CDS
    CCDS15690.1
    UniProtKB/Swiss-Prot
    Q3UPS0, Q9CV28, Q9DCC9
    Related
    ENSMUSP00000028105.7, ENSMUST00000028105.13
    Conserved Domains (1) summary
    pfam13898
    Location:29314
    DUF4205; Domain of unknown function (DUF4205)

RNA

  1. NR_149730.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772342, AL845533
    Related
    ENSMUST00000194533.6
  2. NR_149731.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772342, AL845533
  3. NR_149732.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772342, AL845533
    Related
    ENSMUST00000129489.8
  4. NR_149745.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772342, AL845533
    Related
    ENSMUST00000144645.8

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    12352074..12424298 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036162503.1XP_036018396.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X3

    Conserved Domains (1) summary
    pfam13898
    Location:29266
    DUF4205; Domain of unknown function (DUF4205)
  2. XM_006497523.5XP_006497586.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X2

    Conserved Domains (1) summary
    pfam13898
    Location:29266
    DUF4205; Domain of unknown function (DUF4205)
  3. XM_006497522.5XP_006497585.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X1

    Conserved Domains (1) summary
    pfam13898
    Location:29314
    DUF4205; Domain of unknown function (DUF4205)
  4. XM_030251974.2XP_030107834.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X7

    Conserved Domains (1) summary
    pfam13898
    Location:6142
    DUF4205; Domain of unknown function (DUF4205)
  5. XM_036162504.1XP_036018397.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X5

    Conserved Domains (1) summary
    pfam13898
    Location:54190
    DUF4205; Domain of unknown function (DUF4205)
  6. XM_006497524.3XP_006497587.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X4

    Conserved Domains (1) summary
    pfam13898
    Location:29257
    DUF4205; Domain of unknown function (DUF4205)
  7. XM_006497529.3XP_006497592.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X9

    Conserved Domains (1) summary
    pfam13898
    Location:30103
    DUF4205; Domain of unknown function (DUF4205)
  8. XM_006497525.3XP_006497588.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X6

    UniProtKB/TrEMBL
    D6REU0
    Related
    ENSMUSP00000117457.3, ENSMUST00000124603.8
    Conserved Domains (1) summary
    pfam13898
    Location:80150
    DUF4205; Domain of unknown function (DUF4205)
  9. XM_036162505.1XP_036018398.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X8

    Conserved Domains (1) summary
    pfam13898
    Location:6142
    DUF4205; Domain of unknown function (DUF4205)
  10. XM_006497526.5XP_006497589.1  ubiquitin carboxyl-terminal hydrolase MINDY-3 isoform X7

    See identical proteins and their annotated locations for XP_006497589.1

    Conserved Domains (1) summary
    pfam13898
    Location:6142
    DUF4205; Domain of unknown function (DUF4205)

RNA

  1. XR_004940709.1 RNA Sequence

  2. XR_001783166.3 RNA Sequence

  3. XR_003953695.2 RNA Sequence