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    Ubxn6 UBX domain protein 6 [ Mus musculus (house mouse) ]

    Gene ID: 66530, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Ubxn6provided by MGI
    Official Full Name
    UBX domain protein 6provided by MGI
    Primary source
    MGI:MGI:1913780
    See related
    Ensembl:ENSMUSG00000019578 AllianceGenome:MGI:1913780
    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
    Ubxd1; Ubxdc2; 1200008L11Rik; 2210415J11Rik
    Summary
    Predicted to be involved in ERAD pathway; endosome to lysosome transport via multivesicular body sorting pathway; and macroautophagy. Predicted to be located in bounding membrane of organelle and cytosol. Predicted to be part of protein-containing complex. Predicted to be active in cytoplasm. Orthologous to human UBXN6 (UBX domain protein 6). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis adult (RPKM 158.6), adrenal adult (RPKM 23.7) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ubxn6 in Genome Data Viewer
    Location:
    17 D; 17 29.14 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (56374045..56386333, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (56067045..56079333, complement)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene MPN domain containing Neighboring gene bolA-like 3 pseudogene Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:56160654-56160880 Neighboring gene SH3-domain GRB2-like 1 Neighboring gene STARR-positive B cell enhancer ABC_E3206 Neighboring gene STARR-positive B cell enhancer ABC_E9960 Neighboring gene chromatin assembly factor 1, subunit A Neighboring gene STARR-positive B cell enhancer ABC_E100 Neighboring gene HDGF like 2 Neighboring gene nuclear encoded tRNA glutamic acid 4 (anticodon CTC) Neighboring gene perilipin 4

    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 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. Identification and characterization of UBXD1, a novel UBX domain-containing gene on human chromosome 19p13, and its mouse ortholog. Carim-Todd L, et al. Biochim Biophys Acta, 2001 Jan 26. PMID 11342112
    2. VCP cooperates with UBXD1 to degrade mitochondrial outer membrane protein MCL1 in model of Huntington's disease. Guo X, et al. Biochim Biophys Acta Mol Basis Dis, 2017 Feb. PMID 27913212, Free PMC Article
    3. ANKRD13a controls early cell-death checkpoint by interacting with RIP1 independent of NF-κB. Won M, et al. Cell Death Differ, 2022 Jun. PMID 34839354, Free PMC Article
    4. Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDnas identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Apr 30. PMID 15449545
    5. PTP4A2 promotes lysophagy by dephosphorylation of VCP/p97 at Tyr805. Bai Y, et al. Autophagy, 2023 May. PMID 36300783, Free PMC Article

    See all (28) 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 (3) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in ERAD pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ERAD pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in endosome to lysosome transport via multivesicular body sorting pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endosome to lysosome transport via multivesicular body sorting pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in macroautophagy ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in macroautophagy ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in early endosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in early endosome membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in late endosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in late endosome membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in lysosomal membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in lysosomal membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of protein-containing complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    UBX domain-containing protein 6
    Names
    UBX domain-containing protein 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_001379361.1 → NP_001366290.1  UBX domain-containing protein 6 isoform 1

      Status: VALIDATED

      Source sequence(s)
      CT009719
      UniProtKB/Swiss-Prot
      B8JJA5, Q3TTP1, Q3UG19, Q8C4D6, Q91W79, Q99PL6, Q9D7L9
      Related
      ENSMUSP00000019722.6, ENSMUST00000019722.12
      Conserved Domains (2) summary
      cd10460
      Location:158 → 261
      PUB_UBXD1; PNGase/UBA or UBX (PUB) domain of UBXD1
      cd16119
      Location:336 → 409
      UBX_UBXN6; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 6 (UBXN6) and similar proteins

    2. NM_001379362.1 → NP_001366291.1  UBX domain-containing protein 6 isoform 2

      Status: VALIDATED

      Source sequence(s)
      CT009719
      Conserved Domains (2) summary
      cd10460
      Location:105 → 208
      PUB_UBXD1; PNGase/UBA or UBX (PUB) domain of UBXD1
      cd16119
      Location:283 → 356
      UBX_UBXN6; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 6 (UBXN6) and similar proteins

    3. NM_024432.3 → NP_077752.1  UBX domain-containing protein 6 isoform 1

      See identical proteins and their annotated locations for NP_077752.1

      Status: VALIDATED

      Source sequence(s)
      AI846693, AK161273, CT009719
      Consensus CDS
      CCDS28893.1
      UniProtKB/Swiss-Prot
      B8JJA5, Q3TTP1, Q3UG19, Q8C4D6, Q91W79, Q99PL6, Q9D7L9
      Conserved Domains (2) summary
      cd10460
      Location:158 → 261
      PUB_UBXD1; PNGase/UBA or UBX (PUB) domain of UBXD1
      cd16119
      Location:336 → 409
      UBX_UBXN6; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 6 (UBXN6) and similar proteins

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      56374045..56386333 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99PL6.1 GenPept UniProtKB/Swiss-Prot:Q99PL6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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