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    Usp6nl USP6 N-terminal like [ Mus musculus (house mouse) ]

    Gene ID: 98910, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Usp6nlprovided by MGI
    Official Full Name
    USP6 N-terminal likeprovided by MGI
    Primary source
    MGI:MGI:2138893
    See related
    Ensembl:ENSMUSG00000039046 AllianceGenome:MGI:2138893
    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
    RNTRE; TRE2NL; mKIAA0019
    Summary
    Predicted to enable GTPase activator activity and small GTPase binding activity. Predicted to be involved in several processes, including plasma membrane to endosome transport; positive regulation of GTPase activity; and retrograde transport, plasma membrane to Golgi. Predicted to be located in plasma membrane. Predicted to be active in cytoplasmic vesicle. Orthologous to human USP6NL (USP6 N-terminal like). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in lung adult (RPKM 3.1), CNS E11.5 (RPKM 2.9) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Usp6nl in Genome Data Viewer
    Location:
    2 A1; 2 3.63 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (6327444..6453107)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (6322757..6448296)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A230108P19 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:6134393-6134502 Neighboring gene enoyl Coenzyme A hydratase domain containing 3 Neighboring gene predicted gene, 54100 Neighboring gene STARR-positive B cell enhancer ABC_E4414 Neighboring gene predicted gene 13383 Neighboring gene predicted gene, 46730 Neighboring gene STARR-positive B cell enhancer mm9_chr2:6297178-6297479 Neighboring gene STARR-seq mESC enhancer starr_03593 Neighboring gene predicted gene 13388 Neighboring gene predicted gene 13391 Neighboring gene predicted gene, 52546 Neighboring gene STARR-seq mESC enhancer starr_03597 Neighboring gene CUGBP, Elav-like family member 2 Neighboring gene STARR-seq mESC enhancer starr_03598 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:6628430-6628675 Neighboring gene STARR-seq mESC enhancer starr_03599 Neighboring gene STARR-seq mESC enhancer starr_03600 Neighboring gene STARR-seq mESC enhancer starr_03601 Neighboring gene RIKEN cDNA 5031426D15 gene

    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. The GTPase-activating protein RN-tre controls focal adhesion turnover and cell migration. Palamidessi A, et al. Curr Biol, 2013 Dec 2. PMID 24239119
    2. Prediction of the coding sequences of mouse homologues of KIAA gene: III. the complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Aug 31. PMID 14621295
    3. Irisin Mediates Effects on Bone and Fat via αV Integrin Receptors. Kim H, et al. Cell, 2018 Dec 13. PMID 30550785, Free PMC Article
    4. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article
    5. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article

    See all (20) 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 (5) 
    • Targeted (2)  1 citation

    Pathways from PubChem

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    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

    Function Evidence Code Pubs
    enables GTPase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables GTPase activator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables GTPase activator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables small GTPase binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables small GTPase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in Golgi organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in Golgi organization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in plasma membrane to endosome transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in plasma membrane to endosome transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in plasma membrane to endosome transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of GTPase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of Golgi organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of Golgi organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in retrograde transport, plasma membrane to Golgi ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in retrograde transport, plasma membrane to Golgi ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in virion assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in virion assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasmic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    USP6 N-terminal-like protein
    Names
    novel TBC domain containing protein

    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_001080548.1 → NP_001074017.1  USP6 N-terminal-like protein isoform b

      See identical proteins and their annotated locations for NP_001074017.1

      Status: VALIDATED

      Source sequence(s)
      AK129037, AL845515, BE949333
      Consensus CDS
      CCDS38043.1
      UniProtKB/Swiss-Prot
      A2AR45, A2AR46, Q3U2W3, Q6ZQK8, Q80XC3
      Related
      ENSMUSP00000110587.2, ENSMUST00000114937.8
      Conserved Domains (2) summary
      PTZ00449
      Location:503 → 715
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:97 → 312
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    2. NM_181399.3 → NP_852064.2  USP6 N-terminal-like protein isoform a

      Status: VALIDATED

      Source sequence(s)
      AL845515, BQ938063, CN455065
      Consensus CDS
      CCDS38044.1
      UniProtKB/Swiss-Prot
      Q80XC3
      Related
      ENSMUSP00000043178.9, ENSMUST00000042503.9
      Conserved Domains (2) summary
      smart00164
      Location:120 → 335
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
      pfam14820
      Location:590 → 642
      SPRR2; Small proline-rich 2

    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
      6327444..6453107
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030252265.2 → XP_030108125.1  USP6 N-terminal-like protein isoform X7

      Conserved Domains (2) summary
      PTZ00449
      Location:424 → 636
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:18 → 233
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    2. XM_030252264.1 → XP_030108124.1  USP6 N-terminal-like protein isoform X6

      Conserved Domains (2) summary
      PTZ00449
      Location:432 → 644
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:26 → 241
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    3. XM_036162740.1 → XP_036018633.1  USP6 N-terminal-like protein isoform X7

      Conserved Domains (2) summary
      PTZ00449
      Location:424 → 636
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:18 → 233
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    4. XM_006497570.4 → XP_006497633.1  USP6 N-terminal-like protein isoform X5

      Conserved Domains (2) summary
      PTZ00449
      Location:454 → 666
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:48 → 263
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    5. XM_036162739.1 → XP_036018632.1  USP6 N-terminal-like protein isoform X4

      Conserved Domains (2) summary
      PTZ00449
      Location:462 → 674
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:56 → 271
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    6. XM_006497569.5 → XP_006497632.1  USP6 N-terminal-like protein isoform X2

      See identical proteins and their annotated locations for XP_006497632.1

      UniProtKB/Swiss-Prot
      A2AR45, A2AR46, Q3U2W3, Q6ZQK8, Q80XC3
      Conserved Domains (2) summary
      PTZ00449
      Location:503 → 715
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:97 → 312
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    7. XM_036162738.1 → XP_036018631.1  USP6 N-terminal-like protein isoform X3

      Conserved Domains (2) summary
      PTZ00449
      Location:479 → 691
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:73 → 288
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    8. XM_006497568.5 → XP_006497631.1  USP6 N-terminal-like protein isoform X1

      Conserved Domains (2) summary
      PTZ00449
      Location:520 → 732
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:114 → 329
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    9. XM_011238993.2 → XP_011237295.1  USP6 N-terminal-like protein isoform X6

      See identical proteins and their annotated locations for XP_011237295.1

      Conserved Domains (2) summary
      PTZ00449
      Location:432 → 644
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00164
      Location:26 → 241
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80XC3.2 GenPept UniProtKB/Swiss-Prot:Q80XC3

    Gene LinkOut

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

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