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    Rubcn rubicon autophagy regulator [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303885, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Rubcnprovided by RGD
    Official Full Name
    rubicon autophagy regulatorprovided by RGD
    Primary source
    RGD:1305422
    See related
    Ensembl:ENSRNOG00000059880 AllianceGenome:RGD:1305422
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1305422
    Summary
    Predicted to be involved in negative regulation of autophagosome maturation; negative regulation of endocytosis; and negative regulation of phosphatidylinositol 3-kinase activity. Predicted to be located in cytosol; endosome; and nucleoplasm. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 15. Orthologous to human RUBCN (rubicon autophagy regulator). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Heart (RPKM 104.5), Adrenal (RPKM 93.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rubcn in Genome Data Viewer
    Location:
    11q22
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (81420261..81469415)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (67907534..67964347)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (71150506..71199254)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene leucine rich repeats and calponin homology domain containing 3 Neighboring gene uncharacterized LOC134481085 Neighboring gene forty-two-three domain containing 1 Neighboring gene uncharacterized LOC103693588 Neighboring gene uncharacterized LOC134481084 Neighboring gene mucin 20, cell surface associated

    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. Rubicon-regulated beta-1 adrenergic receptor recycling protects the heart from pressure overload. Akazawa Y, et al. Sci Rep, 2022 Jan 7. PMID 34996972, Free PMC Article
    2. The RUN domain of rubicon is important for hVps34 binding, lipid kinase inhibition, and autophagy suppression. Sun Q, et al. J Biol Chem, 2011 Jan 7. PMID 21062745, Free PMC Article
    3. Two Beclin 1-binding proteins, Atg14L and Rubicon, reciprocally regulate autophagy at different stages. Matsunaga K, et al. Nat Cell Biol, 2009 Apr. PMID 19270696
    4. Mammalian autophagy: core molecular machinery and signaling regulation. Yang Z, et al. Curr Opin Cell Biol, 2010 Apr. PMID 20034776, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Rubicon-regulated beta-1 adrenergic receptor recycling protects the heart from pressure overload.
      Title: Rubicon-regulated beta-1 adrenergic receptor recycling protects the heart from pressure overload.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables phosphatidylinositol 3-kinase inhibitor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in autophagy IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in negative regulation of autophagosome maturation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of autophagy ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    NOT located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in late endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    run domain Beclin-1-interacting and cysteine-rich domain-containing protein
    Names
    RUN and cysteine rich domain containing beclin 1 interacting protein
    RUN domain and cysteine-rich domain containing, Beclin 1-interacting 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_001427089.1 → NP_001414018.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A8I6GMR7

    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_086029.1 Reference GRCr8

      Range
      81420261..81469415
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039088925.2 → XP_038944853.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X3

      UniProtKB/TrEMBL
      A0A8I6GMR7
      Conserved Domains (2) summary
      smart00593
      Location:122 → 182
      RUN; domain involved in Ras-like GTPase signaling
      pfam13901
      Location:759 → 955
      zf-RING_9; Putative zinc-RING and/or ribbon

    2. XM_039088921.2 → XP_038944849.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X1

      UniProtKB/TrEMBL
      A0A0G2K687, A0A8I6GMR7, A6IRN7
      Related
      ENSRNOP00000073717.2
      Conserved Domains (2) summary
      smart00593
      Location:122 → 182
      RUN; domain involved in Ras-like GTPase signaling
      pfam13901
      Location:728 → 924
      zf-RING_9; Putative zinc-RING and/or ribbon

    3. XM_039088924.2 → XP_038944852.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X2

      Conserved Domains (1) summary
      pfam13901
      Location:313 → 509
      zf-RING_9; Putative zinc-RING and/or ribbon
    Nucleotide Protein Strain
    Heading Accession and Version

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