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Atg13 autophagy related 13 [ Mus musculus (house mouse) ]

Gene ID: 51897, updated on 21-Apr-2024

Summary

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Official Symbol
Atg13provided by MGI
Official Full Name
autophagy related 13provided by MGI
Primary source
MGI:MGI:1196429
See related
Ensembl:ENSMUSG00000027244 AllianceGenome:MGI:1196429
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Harbi1; D2Ertd391e; 1110053A20Rik
Summary
Predicted to enable protein kinase binding activity. Involved in autophagosome assembly; mitophagy; and response to mitochondrial depolarisation. Located in cytosol and phagophore assembly site. Part of Atg1/ULK1 kinase complex. Is expressed in several structures, including alimentary system; brain; cardiovascular system; genitourinary system; and respiratory system. Orthologous to human ATG13 (autophagy related 13). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in cerebellum adult (RPKM 21.0), adrenal adult (RPKM 19.8) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
2 E1; 2 50.63 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (91504957..91540947, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (91674612..91710597, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:91486007-91486292 Neighboring gene STARR-positive B cell enhancer ABC_E1007 Neighboring gene zinc finger protein 408 Neighboring gene Rho GTPase activating protein 1 Neighboring gene STARR-seq mESC enhancer starr_05121 Neighboring gene STARR-seq mESC enhancer starr_05122 Neighboring gene harbinger transposase derived 1 Neighboring gene dyskeratosis congenita 1, dyskerin homolog pseudogene Neighboring gene autophagy/beclin 1 regulator 1 Neighboring gene STARR-seq mESC enhancer starr_05123

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Systematic analysis of ATG13 domain requirements for autophagy induction. Wallot-Hieke N, et al. Autophagy, 2018. PMID 29173006, Free PMC Article
  2. Nutrient-regulated Phosphorylation of ATG13 Inhibits Starvation-induced Autophagy. Puente C, et al. J Biol Chem, 2016 Mar 11. PMID 26801615, Free PMC Article
  3. Atg13 Is Essential for Autophagy and Cardiac Development in Mice. Kaizuka T, et al. Mol Cell Biol, 2016 Feb 15. PMID 26644405, Free PMC Article
  4. Beclin1- and Atg13-dependent autophagy activation and morroniside have synergistic effect on osteoblastogenesis. Li X, et al. Exp Biol Med (Maywood), 2022 Oct. PMID 35957534, Free PMC Article
  5. Suppression of autophagy impedes glioblastoma development and induces senescence. Gammoh N, et al. Autophagy, 2016 Sep. PMID 27304681, Free PMC Article

See all (46) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Beclin1- and Atg13-dependent autophagy activation and morroniside have synergistic effect on osteoblastogenesis.
    Title: Beclin1- and Atg13-dependent autophagy activation and morroniside have synergistic effect on osteoblastogenesis.
  2. acting through histamine 1 receptor, histamine increased miR-206 and miR-216b, which worked in concert to target to Atg13, resulting in the reduction of autophagy activation under hypoxia and acute myocardial infarction condition.
    Title: Histamine deficiency aggravates cardiac injury through miR-206/216b-Atg13 axis-mediated autophagic-dependant apoptosis.
  3. these data establish the interaction between ATG13 and ATG101 as a promising target in disease-settings where the inhibition of autophagy is desired.
    Title: Systematic analysis of ATG13 domain requirements for autophagy induction.
  4. ATG7, but not ATG13 or ULK1 has a role in functional autophagy in glioblastoma development
    Title: Suppression of autophagy impedes glioblastoma development and induces senescence.
  5. ATG13 phosphorylation plays a crucial role in autophagy regulation.
    Title: Nutrient-regulated Phosphorylation of ATG13 Inhibits Starvation-induced Autophagy.
  6. autophagy can be executed by mechanisms that are dependent or independent of the ULK1/2-ATG13 interaction.
    Title: Expression of a ULK1/2 binding-deficient ATG13 variant can partially restore autophagic activity in ATG13-deficient cells.
  7. Atg13-deficient embryos show growth retardation and myocardial growth defects.
    Title: Atg13 Is Essential for Autophagy and Cardiac Development in Mice.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (2) 
  • Endonuclease-mediated (1)  1 citation

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 MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein kinase binding ISO
Inferred from Sequence Orthology
more info
  
enables protein kinase regulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein serine/threonine kinase activator activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in autophagosome assembly IDA
Inferred from Direct Assay
more info
 PubMed 
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
  
acts_upstream_of_or_within autophagy IEA
Inferred from Electronic Annotation
more info
  
involved_in autophagy IEA
Inferred from Electronic Annotation
more info
  
involved_in mitophagy IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in mitophagy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of cell population proliferation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of cell population proliferation 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 IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of autophagy ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization to phagophore assembly site IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of protein lipidation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of protein lipidation ISO
Inferred from Sequence Orthology
more info
  
involved_in response to mitochondrial depolarisation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of Atg1/ULK1 kinase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of Atg1/ULK1 kinase complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of Atg1/ULK1 kinase complex IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of Atg1/ULK1 kinase complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in autophagosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  
is_active_in phagophore assembly site IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in phagophore assembly site IDA
Inferred from Direct Assay
more info
 PubMed 
located_in phagophore assembly site ISO
Inferred from Sequence Orthology
more info
  
is_active_in phagophore assembly site membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
autophagy-related protein 13
Names
ATG13 autophagy related 13 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)

  1. NM_001355416.1 → NP_001342345.1  autophagy-related protein 13 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AL714023
    Conserved Domains (1) summary
    pfam10033
    Location:19 → 195
    ATG13; Autophagy-related protein 13

  2. NM_001355417.1 → NP_001342346.1  autophagy-related protein 13 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AL714023
    Conserved Domains (1) summary
    pfam10033
    Location:19 → 195
    ATG13; Autophagy-related protein 13

  3. NM_001355418.1 → NP_001342347.1  autophagy-related protein 13 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 3' end compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AL714023
    Conserved Domains (1) summary
    pfam10033
    Location:19 → 195
    ATG13; Autophagy-related protein 13

  4. NM_001355419.1 → NP_001342348.1  autophagy-related protein 13 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AL714023
    Consensus CDS
    CCDS89517.1
    UniProtKB/Swiss-Prot
    A2AH18, Q80TU9, Q91YI1
    Related
    ENSMUSP00000028678.9, ENSMUST00000028678.9
    Conserved Domains (1) summary
    pfam10033
    Location:19 → 195
    ATG13; Autophagy-related protein 13

  5. NM_001355420.1 → NP_001342349.1  autophagy-related protein 13 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an alternate in-frame exon and uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (5) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AL714023
    Conserved Domains (1) summary
    pfam10033
    Location:19 → 195
    ATG13; Autophagy-related protein 13

  6. NM_001355421.1 → NP_001342350.1  autophagy-related protein 13 isoform 6

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks two alternate in-frame exons compared to variant 1. The resulting isoform (6) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AL714023
    Conserved Domains (1) summary
    pfam10033
    Location:19 → 195
    ATG13; Autophagy-related protein 13

  7. NM_145528.3 → NP_663503.1  autophagy-related protein 13 isoform 7

    See identical proteins and their annotated locations for NP_663503.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) lacks two alternate in-frame exons compared to variant 1. The resulting isoform (7) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AI574380, AK149672, AK171440, AL714023
    Consensus CDS
    CCDS16438.1
    UniProtKB/Swiss-Prot
    Q91YI1
    Related
    ENSMUSP00000076081.6, ENSMUST00000076803.12
    Conserved Domains (1) summary
    pfam10033
    Location:19 → 195
    ATG13; Autophagy-related protein 13

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    91504957..91540947 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006499892.3 → XP_006499955.1  autophagy-related protein 13 isoform X1

    Conserved Domains (1) summary
    pfam10033
    Location:19 → 195
    ATG13; Autophagy-related protein 13
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q91YI1.2 GenPept UniProtKB/Swiss-Prot:Q91YI1

Gene LinkOut

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