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Rubcn RUN domain and cysteine-rich domain containing, Beclin 1-interacting protein [ Mus musculus (house mouse) ]

Gene ID: 100502698, updated on 9-May-2024

Summary

Official Symbol
Rubcnprovided by MGI
Official Full Name
RUN domain and cysteine-rich domain containing, Beclin 1-interacting proteinprovided by MGI
Primary source
MGI:MGI:1915160
See related
Ensembl:ENSMUSG00000035629 AllianceGenome:MGI:1915160
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
Rubicon; mKIAA0226; 5330403K09; 1700021K19Rik
Summary
Predicted to enable phosphatidylinositol phosphate binding activity. Predicted to be involved in negative regulation of autophagosome maturation; negative regulation of endocytosis; and negative regulation of phosphatidylinositol 3-kinase activity. Predicted to act upstream of or within autophagy; endocytosis; and immune system process. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in early endosome and late endosome. Is expressed in central nervous system and retina. Used to study systemic lupus erythematosus. 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
Ubiquitous expression in spleen adult (RPKM 22.1), testis adult (RPKM 17.2) and 28 other tissues See more
Orthologs
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Genomic context

See Rubcn in Genome Data Viewer
Location:
16 B3; 16 23.38 cM
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (32642072..32698121, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (32821702..32877729, complement)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene mucin 4 Neighboring gene STARR-seq mESC enhancer starr_40675 Neighboring gene mucin 20 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:32813070-32813253 Neighboring gene STARR-seq mESC enhancer starr_40677 Neighboring gene STARR-seq mESC enhancer starr_40678 Neighboring gene somatomedin B domain containing 1 Neighboring gene VISTA enhancer mm1352 Neighboring gene STARR-positive B cell enhancer mm9_chr16:32877901-32878201 Neighboring gene forty-two-three domain containing 1 Neighboring gene STARR-positive B cell enhancer ABC_E9930 Neighboring gene STARR-positive B cell enhancer ABC_E8627 Neighboring gene STARR-positive B cell enhancer ABC_E4167 Neighboring gene leucine-rich repeats and calponin homology (CH) domain containing 3 Neighboring gene predicted gene 6611 Neighboring gene nuclear encoded rRNA 5S 33

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 
  • Targeted (3)  1 citation

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • KIAA0226, MGC76451, MGC79154

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables phosphatidylinositol 3-kinase inhibitor activity ISO
Inferred from Sequence Orthology
more info
 
enables phosphatidylinositol phosphate binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
is_active_in early endosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in early endosome ISO
Inferred from Sequence Orthology
more info
 
located_in endosome IEA
Inferred from Electronic Annotation
more info
 
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
is_active_in late endosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in late endosome ISO
Inferred from Sequence Orthology
more info
 
located_in lysosome IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
run domain Beclin-1-interacting and cysteine-rich domain-containing protein
Names
run domain Beclin-1 interacting and cystein-rich containing protein
run domain Beclin-1 interacting and cysteine-rich 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_001200038.1NP_001186967.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform a

    See identical proteins and their annotated locations for NP_001186967.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AC139244, BC060601, BC067390, BP758360
    Consensus CDS
    CCDS49832.1
    UniProtKB/Swiss-Prot
    Q3TAX3, Q3TD96, Q3TDF7, Q3TDU2, Q6NWW8, Q6P9T7, Q6PG18, Q80U62, Q8BMP7, Q8BY22
    Related
    ENSMUSP00000087114.4, ENSMUST00000089684.10
    Conserved Domains (2) summary
    smart00593
    Location:123183
    RUN; domain involved in Ras-like GTPase signaling
    pfam13901
    Location:721921
    zf-RING_9; Putative zinc-RING and/or ribbon
  2. NM_001374776.1NP_001361705.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform c

    Status: VALIDATED

    Source sequence(s)
    AC139244
    Consensus CDS
    CCDS88917.1
    UniProtKB/TrEMBL
    D3Z7B1
    Related
    ENSMUSP00000113087.2, ENSMUST00000119810.2
    Conserved Domains (3) summary
    smart00593
    Location:62122
    RUN; domain involved in Ras-like GTPase signaling
    pfam13901
    Location:646842
    zf-RING_9; Putative zinc-RING and/or ribbon
    pfam15728
    Location:120243
    DUF4679; Domain of unknown function (DUF4679)
  3. NM_172615.4NP_766203.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform b

    See identical proteins and their annotated locations for NP_766203.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the coding region, compared to variant 1. This results in a shorter protein (isoform b), compared to isoform a.
    Source sequence(s)
    AC139244, AK030368, BC067390, BP758360
    Consensus CDS
    CCDS28124.1
    UniProtKB/Swiss-Prot
    Q80U62
    Related
    ENSMUSP00000048811.9, ENSMUST00000040986.15
    Conserved Domains (2) summary
    smart00593
    Location:123183
    RUN; domain involved in Ras-like GTPase signaling
    pfam13901
    Location:706906
    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_000082.7 Reference GRCm39 C57BL/6J

    Range
    32642072..32698121 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030248897.2XP_030104757.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X8

    Conserved Domains (3) summary
    smart00593
    Location:62122
    RUN; domain involved in Ras-like GTPase signaling
    pfam13901
    Location:661857
    zf-RING_9; Putative zinc-RING and/or ribbon
    pfam15728
    Location:120243
    DUF4679; Domain of unknown function (DUF4679)
  2. XM_036159704.1XP_036015597.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X7

    Conserved Domains (3) summary
    smart00593
    Location:62122
    RUN; domain involved in Ras-like GTPase signaling
    pfam05109
    Location:137347
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam13901
    Location:671867
    zf-RING_9; Putative zinc-RING and/or ribbon
  3. XM_006521655.5XP_006521718.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X6

    Conserved Domains (3) summary
    smart00593
    Location:62122
    RUN; domain involved in Ras-like GTPase signaling
    pfam13901
    Location:686882
    zf-RING_9; Putative zinc-RING and/or ribbon
    pfam15728
    Location:120243
    DUF4679; Domain of unknown function (DUF4679)
  4. XM_006521653.5XP_006521716.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X2

    Conserved Domains (3) summary
    smart00593
    Location:123183
    RUN; domain involved in Ras-like GTPase signaling
    pfam13901
    Location:732928
    zf-RING_9; Putative zinc-RING and/or ribbon
    pfam15728
    Location:181304
    DUF4679; Domain of unknown function (DUF4679)
  5. XM_006521652.5XP_006521715.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X1

    Conserved Domains (4) summary
    smart00593
    Location:123183
    RUN; domain involved in Ras-like GTPase signaling
    pfam05956
    Location:204426
    APC_basic; APC basic domain
    pfam13901
    Location:747943
    zf-RING_9; Putative zinc-RING and/or ribbon
    pfam15728
    Location:181304
    DUF4679; Domain of unknown function (DUF4679)
  6. XM_036159702.1XP_036015595.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X3

    Conserved Domains (3) summary
    smart00593
    Location:106166
    RUN; domain involved in Ras-like GTPase signaling
    pfam05109
    Location:181391
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam13901
    Location:730926
    zf-RING_9; Putative zinc-RING and/or ribbon
  7. XM_036159703.1XP_036015596.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X4

    Conserved Domains (3) summary
    smart00593
    Location:106166
    RUN; domain involved in Ras-like GTPase signaling
    pfam05109
    Location:181391
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam13901
    Location:715911
    zf-RING_9; Putative zinc-RING and/or ribbon
  8. XM_030248896.2XP_030104756.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X5

    Conserved Domains (3) summary
    smart00593
    Location:106166
    RUN; domain involved in Ras-like GTPase signaling
    pfam13901
    Location:690886
    zf-RING_9; Putative zinc-RING and/or ribbon
    pfam15728
    Location:164287
    DUF4679; Domain of unknown function (DUF4679)
  9. XM_036159705.1XP_036015598.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X9

    Conserved Domains (1) summary
    pfam13901
    Location:274470
    zf-RING_9; Putative zinc-RING and/or ribbon
  10. XM_036159706.1XP_036015599.1  run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X10

    Conserved Domains (2) summary
    smart00593
    Location:123183
    RUN; domain involved in Ras-like GTPase signaling
    pfam05109
    Location:198408
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

RNA

  1. XR_004939139.1 RNA Sequence