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Ube3a ubiquitin protein ligase E3A [ Rattus norvegicus (Norway rat) ]

Gene ID: 361585, updated on 3-Apr-2024

Summary

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Symbol
Ube3aprovided by RGD
Full Name
ubiquitin protein ligase E3Aprovided by RGD
Primary source
RGD:1306361
See related
Ensembl:ENSRNOG00000015734 AllianceGenome:RGD:1306361
Gene type
protein coding
RefSeq status
INFERRED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable transcription coactivator activity and ubiquitin protein ligase activity. Involved in several processes, including cellular response to brain-derived neurotrophic factor stimulus; locomotory exploration behavior; and motor learning. Predicted to be located in cytosol and nucleus. Predicted to be part of proteasome complex. Used to study Angelman syndrome. Human ortholog(s) of this gene implicated in Angelman syndrome. Orthologous to human UBE3A (ubiquitin protein ligase E3A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 282.3), Heart (RPKM 271.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
1q22
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (119204244..119297097)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (110070260..110161675)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (116586901..116678161)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene ornithine decarboxylase 1, pseudogene 8 Neighboring gene protein BEX1-like Neighboring gene uncharacterized LOC134483384 Neighboring gene uncharacterized LOC120097268 Neighboring gene small nucleolar RNA SNORD115 Neighboring gene small nucleolar RNA SNORD115

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
  • 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. Excessive Laughter-like Vocalizations, Microcephaly, and Translational Outcomes in the Ube3a Deletion Rat Model of Angelman Syndrome. Berg EL, et al. J Neurosci, 2021 Oct 20. PMID 34475199, Free PMC Article
  2. Translational outcomes in a full gene deletion of ubiquitin protein ligase E3A rat model of Angelman syndrome. Berg EL, et al. Transl Psychiatry, 2020 Jan 27. PMID 32066685, Free PMC Article
  3. Generation of a Novel Rat Model of Angelman Syndrome with a Complete Ube3a Gene Deletion. Dodge A, et al. Autism Res, 2020 Mar. PMID 31961493, Free PMC Article
  4. Imprinting effects of UBE3A loss on synaptic gene networks and Wnt signaling pathways. Lopez SJ, et al. Hum Mol Genet, 2019 Nov 15. PMID 31625566, Free PMC Article
  5. Ube3a reinstatement identifies distinct developmental windows in a murine Angelman syndrome model. Silva-Santos S, et al. J Clin Invest, 2015 May. PMID 25866966, Free PMC Article

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Effects of UBE3A on the insulin resistance in polycystic ovary syndrome through the ubiquitination of AMPK.
    Title: Effects of UBE3A on the insulin resistance in polycystic ovary syndrome through the ubiquitination of AMPK.
  2. Excessive Laughter-like Vocalizations, Microcephaly, and Translational Outcomes in the Ube3a Deletion Rat Model of Angelman Syndrome.
    Title: Excessive Laughter-like Vocalizations, Microcephaly, and Translational Outcomes in the Ube3a Deletion Rat Model of Angelman Syndrome.
  3. Generation of a Novel Rat Model of Angelman Syndrome with a Complete Ube3a Gene Deletion.
    Title: Generation of a Novel Rat Model of Angelman Syndrome with a Complete Ube3a Gene Deletion.
  4. Results provide a holistic examination of the molecular impacts of UBE3A loss in brain, supporting the existence of interactive epigenetic networks between maternal and paternal transcripts at the Ube3a locus.
    Title: Imprinting effects of UBE3A loss on synaptic gene networks and Wnt signaling pathways.
  5. Ube3a1 RNA function was independent of its coding sequence but instead required a unique 3' untranslated region and an intact microRNA pathway. Ube3a1 RNA acts as a dendritic competing endogenous RNA.
    Title: A coding-independent function of an alternative Ube3a transcript during neuronal development.
Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin-protein transferase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within androgen receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to brain-derived neurotrophic factor stimulus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in locomotory exploration behavior IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in modulation of chemical synaptic transmission ISO
Inferred from Sequence Orthology
more info
  
involved_in motor learning IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of TORC1 signaling ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of dendritic spine morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within ovarian follicle development ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of Golgi lumen acidification IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of Golgi lumen acidification ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of protein ubiquitination ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in progesterone receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within prostate gland growth ISO
Inferred from Sequence Orthology
more info
  
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in protein K48-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein autoubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein polyubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within protein ubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of circadian rhythm ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of synaptic plasticity ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in response to cocaine IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to hydrogen peroxide IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to progesterone ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within sperm entry ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of proteasome complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
ubiquitin-protein ligase E3A
NP_001178766.1
XP_006229372.1
XP_006229375.1
XP_008757621.1
XP_008757622.1
XP_008757623.1
XP_017444857.1
XP_017444858.1
XP_038938214.1
XP_063122907.1
XP_063122910.1
XP_063122911.1

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_001191837.5 → NP_001178766.1  ubiquitin-protein ligase E3A

    See identical proteins and their annotated locations for NP_001178766.1

    Status: INFERRED

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/TrEMBL
    A0A0G2JTH7, F1M7B8
    Conserved Domains (2) summary
    cd00078
    Location:516 → 866
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:27 → 81
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

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_086019.1 Reference GRCr8

    Range
    119204244..119297097
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039082286.2 → XP_038938214.1  ubiquitin-protein ligase E3A isoform X4

    UniProtKB/TrEMBL
    A0A0G2JTH7
    Conserved Domains (2) summary
    cd00078
    Location:516 → 830
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:27 → 81
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

  2. XM_008759400.4 → XP_008757622.1  ubiquitin-protein ligase E3A isoform X3

    See identical proteins and their annotated locations for XP_008757622.1

    UniProtKB/TrEMBL
    A0A0G2JTH7
    Conserved Domains (3) summary
    smart00119
    Location:522 → 844
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:495 → 845
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:6 → 60
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

  3. XM_008759401.4 → XP_008757623.1  ubiquitin-protein ligase E3A isoform X3

    See identical proteins and their annotated locations for XP_008757623.1

    UniProtKB/TrEMBL
    A0A0G2JTH7
    Conserved Domains (3) summary
    smart00119
    Location:522 → 844
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:495 → 845
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:6 → 60
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

  4. XM_006229310.5 → XP_006229372.1  ubiquitin-protein ligase E3A isoform X1

    See identical proteins and their annotated locations for XP_006229372.1

    UniProtKB/TrEMBL
    A0A0G2JTH7, F1M7B8
    Related
    ENSRNOP00000021366.6
    Conserved Domains (2) summary
    cd00078
    Location:516 → 866
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:27 → 81
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

  5. XM_006229313.5 → XP_006229375.1  ubiquitin-protein ligase E3A isoform X3

    See identical proteins and their annotated locations for XP_006229375.1

    UniProtKB/TrEMBL
    A0A0G2JTH7
    Conserved Domains (3) summary
    smart00119
    Location:522 → 844
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:495 → 845
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:6 → 60
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

  6. XM_063266841.1 → XP_063122911.1  ubiquitin-protein ligase E3A isoform X1

    UniProtKB/TrEMBL
    F1M7B8

  7. XM_063266837.1 → XP_063122907.1  ubiquitin-protein ligase E3A isoform X1

    UniProtKB/TrEMBL
    F1M7B8

  8. XM_063266840.1 → XP_063122910.1  ubiquitin-protein ligase E3A isoform X1

    UniProtKB/TrEMBL
    F1M7B8

  9. XM_017589368.3 → XP_017444857.1  ubiquitin-protein ligase E3A isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTH7, F1M7B8
    Conserved Domains (2) summary
    cd00078
    Location:516 → 866
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:27 → 81
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

  10. XM_017589369.3 → XP_017444858.1  ubiquitin-protein ligase E3A isoform X1

    UniProtKB/TrEMBL
    A0A0G2JTH7, F1M7B8
    Conserved Domains (2) summary
    cd00078
    Location:516 → 866
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:27 → 81
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

  11. XM_008759399.4 → XP_008757621.1  ubiquitin-protein ligase E3A isoform X2

    UniProtKB/TrEMBL
    A0A0G2JTH7, A0A8I5ZM14
    Related
    ENSRNOP00000079079.1
    Conserved Domains (3) summary
    smart00119
    Location:542 → 864
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:515 → 865
    HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
    pfam16558
    Location:29 → 80
    AZUL; Amino-terminal Zinc-binding domain of ubiquitin ligase E3A

RNA

  1. XR_005487990.2 RNA Sequence

  2. XR_005488019.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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