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

Summary

Symbol: Ube3aprovided by RGD
Full Name: ubiquitin protein ligase E3Aprovided by RGD
Primary source: RGD:1306361
See related: EnsemblRapid: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 nucleus. Predicted to be part of proteasome complex. Predicted to be active in glutamatergic synapse; postsynaptic cytosol; and synaptic vesicle. Used to study Angelman syndrome. Biomarker of fetal alcohol spectrum disorder. Human ortholog(s) of this gene implicated in Angelman syndrome. Orthologous to human UBE3A (ubiquitin protein ligase E3A). [provided by Alliance of Genome Resources, Nov 2024]
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

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_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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.
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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D21S1734E (e-PCR)
- UniSTS:150787

RH137614 (e-PCR)
- UniSTS:219701

Ube3a (e-PCR), detects polymorphism
- UniSTS:275877

Ube3a (e-PCR), detects polymorphism
- UniSTS:275878

D21S1716E (e-PCR)
- UniSTS:150773

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
is_active_in postsynaptic cytosol	ISO Inferred from Sequence Orthology more info
part_of proteasome complex	IEA Inferred from Electronic Annotation more info
is_active_in synaptic vesicle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: ubiquitin-protein ligase E3A

NP_001178766.1

EC 6.3.2.19

XP_006229372.1

EC 6.3.2.19

XP_006229375.1

EC 6.3.2.19

XP_008757621.1

EC 6.3.2.19

XP_008757622.1

EC 6.3.2.19

XP_008757623.1

EC 6.3.2.19

XP_017444857.1

EC 6.3.2.19

XP_017444858.1

EC 6.3.2.19

XP_038938214.1

EC 6.3.2.19

XP_063122907.1

EC 6.3.2.19

XP_063122910.1

EC 6.3.2.19

XP_063122911.1

EC 6.3.2.19

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_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

Related

ENSRNOP00000101274.1, ENSRNOT00000160726.1

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

NC_086019.1 Reference GRCr8

Range

119204244..119297097

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

A0A0G2JTH7

Related

ENSRNOP00000068717.3, ENSRNOT00000083587.3

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
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
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
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

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

UniProtKB/TrEMBL

F1M7B8
XM_063266837.1 → XP_063122907.1 ubiquitin-protein ligase E3A isoform X1

UniProtKB/TrEMBL

F1M7B8

Related

ENSRNOP00000021366.7, ENSRNOT00000021366.9
XM_063266840.1 → XP_063122910.1 ubiquitin-protein ligase E3A isoform X1

UniProtKB/TrEMBL

F1M7B8
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
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
XM_008759399.4 → XP_008757621.1 ubiquitin-protein ligase E3A isoform X2

UniProtKB/TrEMBL

A0A0G2JTH7, A0A8I5ZM14

Related

ENSRNOP00000079079.1, ENSRNOT00000108441.2

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