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Atg5 autophagy related 5 [ Rattus norvegicus (Norway rat) ]

Gene ID: 365601, updated on 27-Nov-2024

Summary

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Official Symbol: Atg5provided by RGD
Official Full Name: autophagy related 5provided by RGD
Primary source: RGD:1359580
See related: EnsemblRapid:ENSRNOG00000000322 AllianceGenome:RGD:1359580
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
Summary: Predicted to contribute to Atg8-family ligase activity. Involved in several processes, including chaperone-mediated autophagy; positive regulation of stress granule assembly; and response to iron(II) ion. Located in axon. Part of protein-containing complex. Is active in glutamatergic synapse. Biomarker of ischemia. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 25. Orthologous to human ATG5 (autophagy related 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 103.7), Liver (RPKM 79.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

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See Atg5 in Genome Data Viewer

Location:: 20q13

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (49380835..49471826)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (47798217..47889216)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (49301783..49393147)

Chromosome 20 - NC_086038.1 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?

MiR-30a-5p Promotes Vein Graft Restenosis by Inhibiting Cell Autophagy through Targeting ATG5.
Title: MiR-30a-5p Promotes Vein Graft Restenosis by Inhibiting Cell Autophagy through Targeting ATG5.
Bortezomib alleviates antibody-mediated rejection in kidney transplantation by facilitating Atg5 expression.
Title: Bortezomib alleviates antibody-mediated rejection in kidney transplantation by facilitating Atg5 expression.
Involvement of autophagy in the maintenance of rat intervertebral disc homeostasis: an in-vitro and in-vivo RNA interference study of Atg5.
Title: Involvement of autophagy in the maintenance of rat intervertebral disc homeostasis: an in-vitro and in-vivo RNA interference study of Atg5.
Induction of PDCD4 by albumin in proximal tubule epithelial cells potentiates proteinuria-induced dysfunctional autophagy by negatively targeting Atg5.
Title: Induction of PDCD4 by albumin in proximal tubule epithelial cells potentiates proteinuria-induced dysfunctional autophagy by negatively targeting Atg5.
overexpressing ATG5 in injured motoneurons led to neuroprotection and attenuation of cytoskeletal and trafficking-related abnormalities.
Title: ATG5 overexpression is neuroprotective and attenuates cytoskeletal and vesicle-trafficking alterations in axotomized motoneurons.
following the inhibition of miR103a3p, Atg5 promotes autophagy and apoptosis in cardiomyocytes by directly targeting Atg5.
Title: Effects of miR‑103a‑3p on the autophagy and apoptosis of cardiomyocytes by regulating Atg5.
The PDCD4-mediated regulation of autophagy was modulated by ATG5.
Title: MiR-208a-3p aggravates autophagy through the PDCD4-ATG5 pathway in Ang II-induced H9c2 cardiomyoblasts.
Atg5 loss of function as well as targeting an Atg5-binding peptide derived from Bassoon inhibited presynaptic autophagy in boutons lacking Piccolo and Bassoon
Title: Bassoon Controls Presynaptic Autophagy through Atg5.
These findings suggest that ATG5-AKT signaling plays an essential role in EPC migration and psudotube formation.
Title: Autophagy protein 5 enhances the function of rat EPCs and promotes EPCs homing and thrombus recanalization via activating AKT.
Suppression of Atg5 expression by ethanol is restored by globular adiponectin in primary rat hepatocytes.
Title: Modulation of Atg5 expression by globular adiponectin contributes to autophagy flux and suppression of ethanol-induced cell death in liver cells.

Submit: New GeneRIF Correction See all GeneRIFs (13)

General gene information

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Markers

AW528235 (e-PCR)
- UniSTS:246598

AA859872 (e-PCR)
- UniSTS:261499

C88337 (e-PCR)
- UniSTS:208512

AU049869 (e-PCR)
- UniSTS:146314

AI178683 (e-PCR)
- UniSTS:250534

RH127825 (e-PCR)
- UniSTS:211135

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to Atg8-family ligase activity	IBA Inferred from Biological aspect of Ancestor 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 protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in aggrephagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in aggrephagy	IEA Inferred from Electronic Annotation more info
involved_in aggrephagy	ISO Inferred from Sequence Orthology more info
involved_in antigen processing and presentation of endogenous antigen	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within antigen processing and presentation of endogenous antigen	ISO Inferred from Sequence Orthology more info
acts_upstream_of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in autophagosome assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagosome assembly	IEA Inferred from Electronic Annotation more info
involved_in autophagosome assembly	IMP Inferred from Mutant Phenotype more info	PubMed
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 autophagy	IMP Inferred from Mutant Phenotype 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 axonal transport	IEA Inferred from Electronic Annotation more info
involved_in axonal transport	ISO Inferred from Sequence Orthology more info
involved_in blood vessel remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within blood vessel remodeling	ISO Inferred from Sequence Orthology more info
involved_in cardiac muscle cell apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of cardiac muscle cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nitrogen starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to nitrosative stress	IEA Inferred from Electronic Annotation more info
involved_in cellular response to nitrosative stress	ISO Inferred from Sequence Orthology more info
involved_in cellular response to starvation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to starvation	ISO Inferred from Sequence Orthology more info
involved_in chaperone-mediated autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chromatin organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_positive_effect chromatin organization	ISO Inferred from Sequence Orthology more info
involved_in defense response to virus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within defense response to virus	ISO Inferred from Sequence Orthology more info
acts_upstream_of establishment of localization in cell	ISO Inferred from Sequence Orthology more info
involved_in heart contraction	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within heart contraction	ISO Inferred from Sequence Orthology more info
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within innate immune response	ISO Inferred from Sequence Orthology more info
involved_in macroautophagy	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within macroautophagy	ISO Inferred from Sequence Orthology more info
involved_in macroautophagy	ISO Inferred from Sequence Orthology more info
involved_in mitophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in mitophagy	IEA Inferred from Electronic Annotation more info
involved_in mucus secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of mucus secretion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of autophagic cell death	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of autophagic cell death	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cardiac muscle cell apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of cardiac muscle cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of defense response to virus	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of defense response to virus	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of innate immune response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of innate immune response	ISO Inferred from Sequence Orthology 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 negative regulation of protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of reactive oxygen species metabolic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of type I interferon production	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of type I interferon production	ISO Inferred from Sequence Orthology more info
involved_in negative stranded viral RNA replication	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative stranded viral RNA replication	ISO Inferred from Sequence Orthology more info
involved_in negative thymic T cell selection	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative thymic T cell selection	ISO Inferred from Sequence Orthology more info
involved_in otolith development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within otolith development	ISO Inferred from Sequence Orthology more info
involved_in piecemeal microautophagy of the nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of mucus secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of mucus secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of stress granule assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of viral translation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of viral translation	ISO Inferred from Sequence Orthology more info
involved_in post-translational protein modification	ISO Inferred from Sequence Orthology more info
involved_in postsynaptic modulation of chemical synaptic transmission	IEA Inferred from Electronic Annotation more info
involved_in postsynaptic modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein lipidation involved in autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of autophagosome maturation	IEA Inferred from Electronic Annotation more info
involved_in regulation of autophagosome maturation	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
involved_in regulation of cilium assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cytokine production involved in immune response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cytokine production involved in immune response	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynaptic membrane neurotransmitter receptor levels	IEA Inferred from Electronic Annotation more info
involved_in regulation of postsynaptic membrane neurotransmitter receptor levels	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of reactive oxygen species metabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of release of sequestered calcium ion into cytosol	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of release of sequestered calcium ion into cytosol	ISO Inferred from Sequence Orthology more info
involved_in response to fluoride	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to fungus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to fungus	ISO Inferred from Sequence Orthology more info
involved_in response to iron(II) ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to xenobiotic stimulus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info
involved_in vasodilation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vasodilation	ISO Inferred from Sequence Orthology more info
involved_in ventricular cardiac muscle cell development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within ventricular cardiac muscle cell development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of Atg12-Atg5-Atg16 complex	IBA Inferred from Biological aspect of Ancestor more info
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 Schaffer collateral - CA1 synapse	IEA Inferred from Electronic Annotation more info
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
is_active_in autophagosome	IBA Inferred from Biological aspect of Ancestor more info
located_in autophagosome	IEA Inferred from Electronic Annotation more info
located_in autophagosome	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon	IEA Inferred from Electronic Annotation more info
located_in axoneme	IEA Inferred from Electronic Annotation more info
located_in axoneme	ISO Inferred from Sequence Orthology more info
located_in axoneme	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in mitochondria-associated endoplasmic reticulum membrane contact site	IEA Inferred from Electronic Annotation more info
located_in mitochondria-associated endoplasmic reticulum membrane contact site	ISO Inferred from Sequence Orthology more info
is_active_in phagophore	IBA Inferred from Biological aspect of Ancestor more info
is_active_in phagophore assembly site membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in phagophore assembly site membrane	IEA Inferred from Electronic Annotation more info
located_in phagophore assembly site membrane	ISO Inferred from Sequence Orthology more info
located_in postsynapse	IEA Inferred from Electronic Annotation more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
is_active_in synapse	IDA Inferred from Direct Assay more info	PubMed
part_of transferase complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: autophagy protein 5

Names: ATG5 autophagy related 5 homolog

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_001014250.2 → NP_001014272.1 autophagy protein 5 isoform 1

See identical proteins and their annotated locations for NP_001014272.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/TrEMBL

Q5XIS0

Related

ENSRNOP00000086278.1, ENSRNOT00000101057.2

Conserved Domains (1) summary

pfam04106
Location:79 → 164

APG5; Autophagy protein Apg5
NM_001399019.1 → NP_001385948.1 autophagy protein 5 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

Related

ENSRNOP00000107876.1, ENSRNOT00000133750.1

Conserved Domains (1) summary

pfam04106
Location:2 → 166

APG5; Autophagy protein Apg5
NM_001399020.1 → NP_001385949.1 autophagy protein 5 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/Swiss-Prot

Q3MQ06

UniProtKB/TrEMBL

A6K6V9

Conserved Domains (1) summary

pfam04106
Location:79 → 270

APG5; Autophagy protein Apg5
NM_001399021.1 → NP_001385950.1 autophagy protein 5 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/Swiss-Prot

Q3MQ06

UniProtKB/TrEMBL

A6K6V9

Related

ENSRNOP00000075339.2, ENSRNOT00000080283.3

Conserved Domains (1) summary

pfam04106
Location:79 → 270

APG5; Autophagy protein Apg5