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

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/protein kinase B signal transduction. 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, Nov 2024]
Expression: Ubiquitous expression in spleen adult (RPKM 22.1), testis adult (RPKM 17.2) and 28 other tissues See more
Orthologs: human all
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Genomic context

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_000082.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

All-trans retinoic acid induces lipophagy by reducing Rubicon in Hepa1c1c7 cells.
Title: All-trans retinoic acid induces lipophagy by reducing Rubicon in Hepa1c1c7 cells.
CX3CL1 represses autophagy via CX3CR1/ CaMKIIdelta/HDAC4/Rubicon axis and exacerbates chronic intermittent hypoxia induced Kupffer cell apoptosis.
Title: CX3CL1 represses autophagy via CX3CR1/ CaMKIIδ/HDAC4/Rubicon axis and exacerbates chronic intermittent hypoxia induced Kupffer cell apoptosis.
HECTD1-Mediated Ubiquitination and Degradation of Rubicon Regulates Autophagy and Osteoarthritis Pathogenesis.
Title: HECTD1-Mediated Ubiquitination and Degradation of Rubicon Regulates Autophagy and Osteoarthritis Pathogenesis.
Loss of RUBCN/rubicon in adipocytes mediates the upregulation of autophagy to promote the fasting response.
Title: Loss of RUBCN/rubicon in adipocytes mediates the upregulation of autophagy to promote the fasting response.
Rubicon promotes the M2 polarization of Kupffer cells via LC3-associated phagocytosis-mediated clearance to improve liver transplantation.
Title: Rubicon promotes the M2 polarization of Kupffer cells via LC3-associated phagocytosis-mediated clearance to improve liver transplantation.
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.
Rubicon prevents autophagic degradation of GATA4 to promote Sertoli cell function.
Title: Rubicon prevents autophagic degradation of GATA4 to promote Sertoli cell function.
Rubicon in pancreatic beta cells plays a limited role in maintaining glucose homeostasis following increased insulin resistance.
Title: Rubicon in pancreatic beta cells plays a limited role in maintaining glucose homeostasis following increased insulin resistance.
Metabolic effects of RUBCN/Rubicon deficiency in kidney proximal tubular epithelial cells.
Title: Metabolic effects of RUBCN/Rubicon deficiency in kidney proximal tubular epithelial cells.
Rubicon regulates A2E-induced autophagy impairment in the retinal pigment epithelium implicated in the pathology of age-related macular degeneration.
Title: Rubicon regulates A2E-induced autophagy impairment in the retinal pigment epithelium implicated in the pathology of age-related macular degeneration.

Submit: New GeneRIF Correction See all GeneRIFs (19)

Variation

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Alleles

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

Endonuclease-mediated (3)
Targeted (3) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables phosphatidylinositol 3-kinase inhibitor activity	IEA Inferred from Electronic Annotation 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

Process	Evidence Code	Pubs
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in endocytosis	IEA Inferred from Electronic Annotation more info
involved_in immune system process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of autophagosome maturation	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of autophagosome maturation	IEA Inferred from Electronic Annotation 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	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of endocytosis	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation 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
located_in cytosol	IEA Inferred from Electronic Annotation more info
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	IEA Inferred from Electronic Annotation 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
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in late endosome	IEA Inferred from Electronic Annotation 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	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 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)

NM_001200038.1 → NP_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:123 → 183

RUN; domain involved in Ras-like GTPase signaling

pfam13901
Location:721 → 921

zf-RING_9; Putative zinc-RING and/or ribbon
NM_001374776.1 → NP_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:62 → 122

RUN; domain involved in Ras-like GTPase signaling

pfam13901
Location:646 → 842

zf-RING_9; Putative zinc-RING and/or ribbon

pfam15728
Location:120 → 243

DUF4679; Domain of unknown function (DUF4679)
NM_172615.4 → NP_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:123 → 183

RUN; domain involved in Ras-like GTPase signaling

pfam13901
Location:706 → 906

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

NC_000082.7 Reference GRCm39 C57BL/6J

Range

32642072..32698121 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Conserved Domains (3) summary

smart00593
Location:62 → 122

RUN; domain involved in Ras-like GTPase signaling

pfam13901
Location:661 → 857

zf-RING_9; Putative zinc-RING and/or ribbon

pfam15728
Location:120 → 243

DUF4679; Domain of unknown function (DUF4679)
XM_036159704.1 → XP_036015597.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X7

Conserved Domains (3) summary

smart00593
Location:62 → 122

RUN; domain involved in Ras-like GTPase signaling

pfam05109
Location:137 → 347

Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

pfam13901
Location:671 → 867

zf-RING_9; Putative zinc-RING and/or ribbon
XM_006521655.5 → XP_006521718.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X6

Conserved Domains (3) summary

smart00593
Location:62 → 122

RUN; domain involved in Ras-like GTPase signaling

pfam13901
Location:686 → 882

zf-RING_9; Putative zinc-RING and/or ribbon

pfam15728
Location:120 → 243

DUF4679; Domain of unknown function (DUF4679)
XM_006521653.5 → XP_006521716.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X2

Conserved Domains (3) summary

smart00593
Location:123 → 183

RUN; domain involved in Ras-like GTPase signaling

pfam13901
Location:732 → 928

zf-RING_9; Putative zinc-RING and/or ribbon

pfam15728
Location:181 → 304

DUF4679; Domain of unknown function (DUF4679)
XM_006521652.5 → XP_006521715.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X1

Conserved Domains (4) summary

smart00593
Location:123 → 183

RUN; domain involved in Ras-like GTPase signaling

pfam05956
Location:204 → 426

APC_basic; APC basic domain

pfam13901
Location:747 → 943

zf-RING_9; Putative zinc-RING and/or ribbon

pfam15728
Location:181 → 304

DUF4679; Domain of unknown function (DUF4679)
XM_036159702.1 → XP_036015595.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X3

Conserved Domains (3) summary

smart00593
Location:106 → 166

RUN; domain involved in Ras-like GTPase signaling

pfam05109
Location:181 → 391

Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

pfam13901
Location:730 → 926

zf-RING_9; Putative zinc-RING and/or ribbon
XM_036159703.1 → XP_036015596.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X4

Conserved Domains (3) summary

smart00593
Location:106 → 166

RUN; domain involved in Ras-like GTPase signaling

pfam05109
Location:181 → 391

Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

pfam13901
Location:715 → 911

zf-RING_9; Putative zinc-RING and/or ribbon
XM_030248896.2 → XP_030104756.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X5

Conserved Domains (3) summary

smart00593
Location:106 → 166

RUN; domain involved in Ras-like GTPase signaling

pfam13901
Location:690 → 886

zf-RING_9; Putative zinc-RING and/or ribbon

pfam15728
Location:164 → 287

DUF4679; Domain of unknown function (DUF4679)
XM_036159705.1 → XP_036015598.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X9

Conserved Domains (1) summary

pfam13901
Location:274 → 470

zf-RING_9; Putative zinc-RING and/or ribbon
XM_036159706.1 → XP_036015599.1 run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X10

Conserved Domains (2) summary

smart00593
Location:123 → 183

RUN; domain involved in Ras-like GTPase signaling

pfam05109
Location:198 → 408

Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)