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    Usp6nl USP6 N-terminal like [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291309, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Usp6nlprovided by RGD
    Official Full Name
    USP6 N-terminal likeprovided by RGD
    Primary source
    RGD:1311786
    See related
    EnsemblRapid:ENSRNOG00000017644 AllianceGenome:RGD:1311786
    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
    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, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 82.8), Spleen (RPKM 71.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Usp6nl in Genome Data Viewer
    Location:
    17q12.3
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (76737870..76865953, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (71828433..71956878, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (75759428..75887108, complement)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134482604 Neighboring gene uncharacterized LOC134482603 Neighboring gene uncharacterized LOC134482605 Neighboring gene U6 spliceosomal RNA Neighboring gene small EDRK-rich factor 2 pseudogene Neighboring gene uncharacterized LOC134482606

    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. Analysis of Rab GTPase-activating proteins indicates that Rab1a/b and Rab43 are important for herpes simplex virus 1 secondary envelopment. Zenner HL, et al. J Virol, 2011 Aug. PMID 21680502, Free PMC Article
    2. Analysis of GTPase-activating proteins: Rab1 and Rab43 are key Rabs required to maintain a functional Golgi complex in human cells. Haas AK, et al. J Cell Sci, 2007 Sep 1. PMID 17684057
    3. Specific Rab GTPase-activating proteins define the Shiga toxin and epidermal growth factor uptake pathways. Fuchs E, et al. J Cell Biol, 2007 Jun 18. PMID 17562788, Free PMC Article
    4. Functional dissection of Rab GTPases involved in primary cilium formation. Yoshimura S, et al. J Cell Biol, 2007 Jul 30. PMID 17646400, Free PMC Article
    5. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 RGD

    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 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 plasma membrane to endosome transport IBA
    Inferred from Biological aspect of Ancestor
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT involved_in regulation of cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in retrograde transport, plasma membrane to Golgi ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in virion assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    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 plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    USP6 N-terminal-like 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_001106120.1 → NP_001099590.1  USP6 N-terminal-like protein

      See identical proteins and their annotated locations for NP_001099590.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473990
      UniProtKB/TrEMBL
      A0A8I6GLZ6, A6JLX0, D3ZL57
      Related
      ENSRNOP00000046740.2, ENSRNOT00000046266.4
      Conserved Domains (1) summary
      smart00164
      Location:97 → 312
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    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_086035.1 Reference GRCr8

      Range
      76737870..76865953 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006254233.4 → XP_006254295.1  USP6 N-terminal-like protein isoform X2

      See identical proteins and their annotated locations for XP_006254295.1

      UniProtKB/TrEMBL
      A0A8I6GLZ6, A6JLX0, D3ZL57
      Conserved Domains (1) summary
      smart00164
      Location:97 → 312
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    2. XM_006254232.5 → XP_006254294.1  USP6 N-terminal-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8I6A486, A0A8I6GLZ6
      Related
      ENSRNOP00000085611.1, ENSRNOT00000105956.2
      Conserved Domains (1) summary
      smart00164
      Location:114 → 329
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

    3. XM_063276241.1 → XP_063132311.1  USP6 N-terminal-like protein isoform X4

      UniProtKB/TrEMBL
      A0A8I6GLZ6

    4. XM_006254236.5 → XP_006254298.1  USP6 N-terminal-like protein isoform X4

      UniProtKB/TrEMBL
      A0A8I6GLZ6
      Conserved Domains (2) summary
      smart00164
      Location:18 → 233
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
      PHA03307
      Location:287 → 642
      PHA03307; transcriptional regulator ICP4; Provisional

    5. XM_039095538.2 → XP_038951466.1  USP6 N-terminal-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8I6GH29, A0A8I6GLZ6
      Related
      ENSRNOP00000096234.2, ENSRNOT00000103406.2
      Conserved Domains (2) summary
      smart00164
      Location:41 → 256
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
      PHA03307
      Location:310 → 665
      PHA03307; transcriptional regulator ICP4; Provisional
    Nucleotide Protein Strain
    Heading Accession and Version

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