Atg3 autophagy related 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Atg3provided by RGD
Official Full Name: autophagy related 3provided by RGD
Primary source: RGD:708464
See related: EnsemblRapid:ENSRNOG00000002094 AllianceGenome:RGD:708464
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: Pig1; Apg3l; PIG-1
Summary: Enables Atg8-family conjugating enzyme activity. Involved in autophagy. Predicted to be part of Atg12-Atg5-Atg16 complex. Predicted to be active in cytosol and phagophore assembly site. Orthologous to human ATG3 (autophagy related 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 213.0), Spleen (RPKM 182.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 11q21

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (69130948..69159280, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (55624914..55653249, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (60585192..60613706, complement)

Chromosome 11 - NC_086029.1 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 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?

A thiol-dependent process is being reported that may account for impaired autophagy during aging. This is through direct oxidation of key autophagy-related (Atg) proteins Atg3 and Atg7.
Title: Oxidation of Atg3 and Atg7 mediates inhibition of autophagy.
ATG3 contributes to autophagy induced by the detachment of intestinal epithelial cells from the extracellular matrix, but promotes autophagy-independent apoptosis of the attached cells
Title: Upregulation of ATG3 contributes to autophagy induced by the detachment of intestinal epithelial cells from the extracellular matrix, but promotes autophagy-independent apoptosis of the attached cells.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables Atg12 transferase activity	IEA Inferred from Electronic Annotation more info
enables Atg12 transferase activity	ISO Inferred from Sequence Orthology more info
enables Atg12 transferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables Atg8-family conjugating enzyme activity	IBA Inferred from Biological aspect of Ancestor more info
enables Atg8-family conjugating enzyme activity	IEA Inferred from Electronic Annotation more info
enables Atg8-family conjugating enzyme activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables Atg8-family conjugating enzyme activity	ISO Inferred from Sequence Orthology more info
enables Atg8-family conjugating enzyme activity	ISS Inferred from Sequence or Structural Similarity more info
enables Atg8-family ligase activity	IEA Inferred from Electronic Annotation more info
enables Atg8-family ligase activity	ISO Inferred from Sequence Orthology more info
enables Atg8-family ligase activity	ISS Inferred from Sequence or Structural Similarity more info
enables enzyme binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin-like protein transferase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in autophagosome assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagosome assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in autophagosome assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in autophagy	IEP Inferred from Expression Pattern more info	PubMed
involved_in autophagy	ISO Inferred from Sequence Orthology more info
involved_in autophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in autophagy of mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
involved_in glycophagy	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within macroautophagy	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial fragmentation involved in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in mitochondrial fragmentation involved in apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial fragmentation involved in apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of phagocytosis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of phagocytosis	ISO Inferred from Sequence Orthology more info
involved_in nucleophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in protein ubiquitination	IEA Inferred from Electronic Annotation more info
involved_in protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of cilium assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of cilium assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of Atg12-Atg5-Atg16 complex	IEA Inferred from Electronic Annotation more info
part_of Atg12-Atg5-Atg16 complex	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation 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
is_active_in phagophore assembly site	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: ubiquitin-like-conjugating enzyme ATG3

Names: APG3 autophagy 3-like; ATG3 autophagy related 3 homolog; autophagy-related protein 3; preconditioning-inducible gene 1 protein

NP_599221.2

EC 2.3.2.-

XP_038943876.1

EC 2.3.2.-

XP_063126333.1

EC 2.3.2.-

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_134394.3 → NP_599221.2 ubiquitin-like-conjugating enzyme ATG3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000011

UniProtKB/Swiss-Prot

Q6AZ50, Q9ESH2

UniProtKB/TrEMBL

A0A8I6GAZ4, A6IQZ2

Related

ENSRNOP00000002906.3, ENSRNOT00000002906.8

Conserved Domains (2) summary

pfam03986
Location:8 → 135

Autophagy_N; Autophagocytosis associated protein (Atg3), N-terminal domain

pfam03987
Location:38 → 308

Autophagy_act_C; Autophagocytosis associated protein, active-site domain

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_086029.1 Reference GRCr8

Range

69130948..69159280 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039087948.2 → XP_038943876.1 ubiquitin-like-conjugating enzyme ATG3 isoform X1

Conserved Domains (2) summary

pfam03986
Location:2 → 48

Autophagy_N; Autophagocytosis associated protein (Atg3), N-terminal domain

pfam03987
Location:79 → 221

Autophagy_act_C; Autophagocytosis associated protein, active-site domain
XM_063270263.1 → XP_063126333.1 ubiquitin-like-conjugating enzyme ATG3 isoform X2

UniProtKB/TrEMBL

A6IQZ3