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Ubr4 ubiquitin protein ligase E3 component n-recognin 4 [ Mus musculus (house mouse) ]

Gene ID: 69116, updated on 27-Nov-2024

Summary

Official Symbol
Ubr4provided by MGI
Official Full Name
ubiquitin protein ligase E3 component n-recognin 4provided by MGI
Primary source
MGI:MGI:1916366
See related
Ensembl:ENSMUSG00000066036 AllianceGenome:MGI:1916366
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
p600; Zubr1; Gm1032; Gm1666; RBAF600; mKIAA0462; 1810009A16Rik; A930005E13Rik; D930005K06Rik
Summary
Enables calmodulin binding activity and ubiquitin protein ligase activity. Involved in endosome organization; positive regulation of autophagy; and ubiquitin-dependent protein catabolic process via the N-end rule pathway. Acts upstream of or within protein catabolic process and protein stabilization. Located in endosome. Is expressed in several structures, including alimentary system; brain; genitourinary system; respiratory system; and sensory organ. Orthologous to human UBR4 (ubiquitin protein ligase E3 component n-recognin 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in testis adult (RPKM 30.4), thymus adult (RPKM 22.5) and 28 other tissues See more
Orthologs
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Genomic context

See Ubr4 in Genome Data Viewer
Location:
4 D3; 4 70.66 cM
Exon count:
106
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (139107970..139216844)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (139380659..139489533)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_11828 Neighboring gene mRNA turnover 4, ribosome maturation factor Neighboring gene STARR-seq mESC enhancer starr_11829 Neighboring gene STARR-seq mESC enhancer starr_11830 Neighboring gene ER membrane protein complex subunit 1 Neighboring gene nuclear encoded tRNA valine 1 (anticodon AAC) Neighboring gene intermediate filament family orphan 2 Neighboring gene VISTA enhancer mm1506 Neighboring gene STARR-seq mESC enhancer starr_11836 Neighboring gene STARR-positive B cell enhancer ABC_E6246 Neighboring gene STARR-positive B cell enhancer ABC_E4694 Neighboring gene aldehyde dehydrogenase 4 family, member A1 Neighboring gene microRNA 7020

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 (1) 
  • Gene trapped (1) 
  • Targeted (5)  1 citation
  • Transgenic (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Potential readthrough

Included gene: Emc1

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calmodulin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
 
enables ubiquitin protein ligase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in cytoplasm protein quality control ISO
Inferred from Sequence Orthology
more info
 
involved_in cytoplasm protein quality control ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in cytoplasm protein quality control by the ubiquitin-proteasome system ISO
Inferred from Sequence Orthology
more info
 
involved_in cytoplasm protein quality control by the ubiquitin-proteasome system ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in endosome organization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of HRI-mediated signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of fatty acid biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of fatty acid biosynthetic process ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of autophagy IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in protein K11-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in protein K11-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein K27-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in protein K27-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein K48-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in protein K48-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein branched polyubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within protein catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within protein stabilization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in response to oxidative stress IEA
Inferred from Electronic Annotation
more info
 
involved_in ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in ubiquitin-dependent protein catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway IDA
Inferred from Direct Assay
more info
PubMed 
involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in centrosome IEA
Inferred from Electronic Annotation
more info
 
located_in centrosome ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytosol IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in endosome IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
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

Preferred Names
E3 ubiquitin-protein ligase UBR4
Names
N-recognin-4
RING-type E3 ubiquitin transferase UBR4
retinoblastoma-associated factor 600
zinc finger UBR1-type protein 1
zinc finger, UBR1 type 1
NP_001153791.1

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_001160319.1NP_001153791.1  E3 ubiquitin-protein ligase UBR4

    See identical proteins and their annotated locations for NP_001153791.1

    Status: VALIDATED

    Source sequence(s)
    AK080556, AL807833, BC051096, BC057625
    Consensus CDS
    CCDS51340.1
    UniProtKB/Swiss-Prot
    A2AN07, A2AN08, A2AN09, A2AN10, A2AN11, Q52KI4, Q6PB49, Q6PFC7, Q80Y11, Q8BGB9, Q8C3E8, Q8C4W5, Q8C8X7, Q8CGE0, Q8CHF3
    Related
    ENSMUSP00000095433.4, ENSMUST00000097822.10
    Conserved Domains (3) summary
    smart00396
    Location:16591726
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:36573701
    DZR; Double zinc ribbon
    pfam13764
    Location:43645160
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

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_000070.7 Reference GRCm39 C57BL/6J

    Range
    139107970..139216844
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)