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Ubxn4 UBX domain protein 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 304766, updated on 2-Nov-2024

Summary

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Official Symbol
Ubxn4provided by RGD
Official Full Name
UBX domain protein 4provided by RGD
Primary source
RGD:1307451
See related
EnsemblRapid:ENSRNOG00000003625 AllianceGenome:RGD:1307451
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
Ubxd2
Summary
Predicted to be involved in ERAD pathway. Predicted to be located in cytosol. Predicted to be active in endoplasmic reticulum. Orthologous to human UBXN4 (UBX domain protein 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Liver (RPKM 244.8), Kidney (RPKM 222.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ubxn4 in Genome Data Viewer
Location:
13q13
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (42292346..42324928)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (39740064..39772493)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (44956963..44989653)

Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene R3H domain containing 1 Neighboring gene U2 spliceosomal RNA Neighboring gene microRNA 128-1 Neighboring gene 60S ribosomal protein L37 pseudogene Neighboring gene transfer RNA proline (anticodon AGG) 78 Neighboring gene lactase Neighboring gene transfer RNA serine (anticodon AGA) 41 Neighboring gene minichromosome maintenance complex component 6

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 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. Actin -related protein 3 (Arp3) is mutated in proteinuric BUF/Mna rats. Akiyama K, et al. Mamm Genome, 2008 Jan. PMID 18064521
  2. Ubiquilin and p97/VCP bind erasin, forming a complex involved in ERAD. Lim PJ, et al. J Cell Biol, 2009 Oct 19. PMID 19822669, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. 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

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in ERAD pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ERAD pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in ERAD pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in ERAD pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in response to unfolded protein IEA
Inferred from Electronic Annotation
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 endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear envelope IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
UBX domain-containing protein 4
Names
UBX domain containing 2
UBX domain-containing protein 2
erasin

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_001012025.2 → NP_001012025.1  UBX domain-containing protein 4

    See identical proteins and their annotated locations for NP_001012025.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000013
    UniProtKB/Swiss-Prot
    Q5HZY0
    UniProtKB/TrEMBL
    A6IBW9, A6IBX0
    Related
    ENSRNOP00000078558.2, ENSRNOT00000098224.2
    Conserved Domains (2) summary
    smart00166
    Location:318 → 393
    UBX; Domain present in ubiquitin-regulatory proteins
    cl00388
    Location:4 → 113
    Thioredoxin_like; Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold

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_086031.1 Reference GRCr8

    Range
    42292346..42324928
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006249699.4 → XP_006249761.1  UBX domain-containing protein 4 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZL25, A6IBX0
    Related
    ENSRNOP00000004878.6, ENSRNOT00000004878.9
    Conserved Domains (2) summary
    smart00166
    Location:319 → 394
    UBX; Domain present in ubiquitin-regulatory proteins
    cl00388
    Location:4 → 113
    Thioredoxin_like; Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold

  2. XM_039090690.2 → XP_038946618.1  UBX domain-containing protein 4 isoform X2

    UniProtKB/TrEMBL
    A6IBX0
    Conserved Domains (2) summary
    cl00388
    Location:4 → 113
    Thioredoxin_like; Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold
    cl28922
    Location:318 → 355
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold

  3. XM_063272285.1 → XP_063128355.1  UBX domain-containing protein 4 isoform X3

    UniProtKB/TrEMBL
    A0A8I5ZNR5
    Related
    ENSRNOP00000079987.1, ENSRNOT00000107083.2
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5HZY0.1 GenPept UniProtKB/Swiss-Prot:Q5HZY0

Gene LinkOut

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

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