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    Rubcnl RUN and cysteine rich domain containing beclin 1 interacting protein like [ Mus musculus (house mouse) ]

    Gene ID: 271221, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Rubcnlprovided by MGI
    Official Full Name
    RUN and cysteine rich domain containing beclin 1 interacting protein likeprovided by MGI
    Primary source
    MGI:MGI:2685590
    See related
    Ensembl:ENSMUSG00000034959 AllianceGenome:MGI:2685590
    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
    Gm744; Gm911; Kiaa0226l; 5031414D18Rik
    Summary
    Predicted to enable phosphatidylinositol-3-phosphate binding activity; phosphatidylinositol-4-phosphate binding activity; and phosphatidylinositol-5-phosphate binding activity. Involved in autophagosome maturation; regulation of glycogen metabolic process; and regulation of lipid metabolic process. Predicted to be located in cytoplasmic vesicle and membrane. Predicted to be active in autophagosome membrane. Orthologous to human RUBCNL (rubicon like autophagy enhancer). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in spleen adult (RPKM 8.9), mammary gland adult (RPKM 2.4) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rubcnl in Genome Data Viewer
    Location:
    14 D3; 14 39.53 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (75253467..75289977)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (75015987..75052537)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene leucine-rich repeats and calponin homology (CH) domain containing 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr14:75346402-75346511 Neighboring gene CapStarr-seq enhancer MGSCv37_chr14:75346543-75346730 Neighboring gene STARR-positive B cell enhancer ABC_E5456 Neighboring gene predicted gene 10847 Neighboring gene STARR-seq mESC enhancer starr_37134 Neighboring gene STARR-positive B cell enhancer ABC_E10834 Neighboring gene predicted gene 4278 Neighboring gene STARR-positive B cell enhancer ABC_E757 Neighboring gene predicted gene, 57618 Neighboring gene STARR-positive B cell enhancer mm9_chr14:75456661-75456962 Neighboring gene STARR-positive B cell enhancer mm9_chr14:75460374-75460674 Neighboring gene STARR-seq mESC enhancer starr_37135 Neighboring gene leucine rich repeat containing 63 Neighboring gene predicted gene 15628 Neighboring gene lymphocyte cytosolic protein 1

    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. Pacer Is a Mediator of mTORC1 and GSK3-TIP60 Signaling in Regulation of Autophagosome Maturation and Lipid Metabolism. Cheng X, et al. Mol Cell, 2019 Feb 21. PMID 30704899
    2. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. mTORC1 and GSK3-TIP60 signaling converge to modulate autophagosome maturation and lipid metabolism through Pacer.
      Title: Pacer Is a Mediator of mTORC1 and GSK3-TIP60 Signaling in Regulation of Autophagosome Maturation and Lipid Metabolism.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

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    Homology

    Clone Names

    • MGC60829

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables lipid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphatidylinositol phosphate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylinositol-3-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-4-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-5-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in autophagosome maturation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome maturation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in autophagosome maturation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in autophagosome-endosome fusion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome-endosome fusion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in autophagosome-lysosome fusion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome-lysosome fusion ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within autophagy IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of glycogen metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of lipid metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in autophagosome membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in autophagosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in intracellular membrane-bounded organelle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein associated with UVRAG as autophagy enhancer
    Names
    pacer
    protein RUBCNL-like
    protein Rubicon-like

    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_001374214.1 → NP_001361143.1  protein associated with UVRAG as autophagy enhancer isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC146617
      Conserved Domains (1) summary
      pfam13901
      Location:252 → 447
      zf-RING_9; Putative zinc-RING and/or ribbon

    2. NM_198642.2 → NP_941044.3  protein associated with UVRAG as autophagy enhancer isoform 1

      See identical proteins and their annotated locations for NP_941044.3

      Status: VALIDATED

      Source sequence(s)
      AC146617
      Consensus CDS
      CCDS36977.1
      UniProtKB/TrEMBL
      F8WGX2, Q7TPZ3
      Related
      ENSMUSP00000045566.8, ENSMUST00000036072.8
      Conserved Domains (1) summary
      pfam13901
      Location:464 → 659
      zf-RING_9; Putative zinc-RING and/or ribbon

    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_000080.7 Reference GRCm39 C57BL/6J

      Range
      75253467..75289977
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036158642.1 → XP_036014535.1  protein associated with UVRAG as autophagy enhancer isoform X2

      UniProtKB/TrEMBL
      Q7TPZ3
      Conserved Domains (1) summary
      pfam13901
      Location:435 → 537
      zf-RING_9; Putative zinc-RING and/or ribbon

    2. XM_030247841.2 → XP_030103701.1  protein associated with UVRAG as autophagy enhancer isoform X4

    3. XM_036158643.1 → XP_036014536.1  protein associated with UVRAG as autophagy enhancer isoform X3

    4. XM_036158644.1 → XP_036014537.1  protein associated with UVRAG as autophagy enhancer isoform X5

    5. XM_011245078.4 → XP_011243380.1  protein associated with UVRAG as autophagy enhancer isoform X1

      See identical proteins and their annotated locations for XP_011243380.1

      UniProtKB/TrEMBL
      F8WGX2, Q7TPZ3
      Conserved Domains (1) summary
      pfam13901
      Location:464 → 659
      zf-RING_9; Putative zinc-RING and/or ribbon
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3TD16.2 GenPept UniProtKB/Swiss-Prot:Q3TD16

    Gene LinkOut

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

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