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Atg16l1 autophagy related 16 like 1 [ Mus musculus (house mouse) ]

Gene ID: 77040, updated on 3-May-2025
Official Symbol
Atg16l1provided by MGI
Official Full Name
autophagy related 16 like 1provided by MGI
Primary source
MGI:MGI:1924290
See related
Ensembl:ENSMUSG00000026289 AllianceGenome:MGI:1924290
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
WDR30; Apg16l; Atg16l; 1500009K01Rik
Summary
Enables identical protein binding activity. Involved in several processes, including autophagosome assembly; axonal transport; and defense response to virus. Acts upstream of or within macroautophagy; negative stranded viral RNA replication; and telencephalon development. Located in several cellular components, including autophagosome membrane; phagophore assembly site membrane; and sperm midpiece. Part of Atg12-Atg5-Atg16 complex. Is active in glutamatergic synapse. Is expressed in central nervous system and retina. Used to study inflammatory bowel disease 10. Human ortholog(s) of this gene implicated in inflammatory bowel disease 10. Orthologous to human ATG16L1 (autophagy related 16 like 1). [provided by Alliance of Genome Resources, May 2025]
Expression
Ubiquitous expression in CNS E18 (RPKM 18.9), CNS E14 (RPKM 16.2) and 28 other tissues See more
Orthologs
human all
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See Atg16l1 in Genome Data Viewer
Location:
1 D; 1 44.44 cM
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (87683730..87720150)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (87756007..87792428)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene inositol polyphosphate-5-phosphatase D Neighboring gene predicted gene, 33470 Neighboring gene STARR-seq mESC enhancer starr_01622 Neighboring gene predicted gene, 33517 Neighboring gene STARR-positive B cell enhancer ABC_E1554 Neighboring gene predicted gene, 25395 Neighboring gene predicted gene, 53572 Neighboring gene small Cajal body-specific RNA 6 Neighboring gene STARR-seq mESC enhancer starr_01624 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:89724892-89725168 Neighboring gene S-antigen, retina and pineal gland (arrestin) Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:89743594-89743830 Neighboring gene STARR-positive B cell enhancer ABC_E10019 Neighboring gene predicted gene, 19582 Neighboring gene diacylglycerol kinase, delta

Go to nucleotide: Graphics FASTA GenBank

  • 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

Related articles in PubMed

  1. Deletion of the WD40 domain of ATG16L1 exacerbates acute pancreatitis, abolishes LAP-like non-canonical autophagy and slows trypsin degradation. Chvanov M, et al. Autophagy, 2025 Jan. PMID 39216469, Free PMC Article
  2. The ATG5-binding and coiled coil domains of ATG16L1 maintain autophagy and tissue homeostasis in mice independently of the WD domain required for LC3-associated phagocytosis. Rai S, et al. Autophagy, 2019 Apr. PMID 30403914, Free PMC Article
  3. ATG16L1 functions in cell homeostasis beyond autophagy. Hamaoui D, et al. FEBS J, 2022 Apr. PMID 33752267
  4. Atg16L1 as a Novel Biomarker and Autophagy Gene for Diabetic Retinopathy. Gao X, et al. J Diabetes Res, 2021. PMID 33791389, Free PMC Article
  5. Listeria phospholipases subvert host autophagic defenses by stalling pre-autophagosomal structures. Tattoli I, et al. EMBO J, 2013 Nov 27. PMID 24162724, Free PMC Article

See all (185) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Macrophage ATG16L1 expression suppresses metabolic dysfunction-associated steatohepatitis progression by promoting lipophagy.
    Title: Macrophage ATG16L1 expression suppresses metabolic dysfunction-associated steatohepatitis progression by promoting lipophagy.
  2. DAP1 regulates osteoblast autophagy via the ATG16L1-LC3 axis in Graves' disease-induced osteoporosis.
    Title: DAP1 regulates osteoblast autophagy via the ATG16L1-LC3 axis in Graves' disease-induced osteoporosis.
  3. ATG16L1 protects from interferon-gamma-induced cell death in the small intestinal crypt.
    Title: ATG16L1 protects from interferon-γ-induced cell death in the small intestinal crypt.
  4. Autophagic reprogramming of bone marrow-derived macrophages.
    Title: Autophagic reprogramming of bone marrow-derived macrophages.
  5. The Crohn Disease-associated ATG16L1(T300A) polymorphism regulates inflammatory responses by modulating TLR- and NLR-mediated signaling.
    Title: The Crohn Disease-associated ATG16L1(T300A) polymorphism regulates inflammatory responses by modulating TLR- and NLR-mediated signaling.
  6. ATG16L1 functions in cell homeostasis beyond autophagy.
    Title: ATG16L1 functions in cell homeostasis beyond autophagy.
  7. ATG16L1 regulated IL-22 induced IFN level in Pseudomonas aeruginosa Lung Infection via cGAS signal passage.
    Title: ATG16L1 regulated IL-22 induced IFN level in Pseudomonas aeruginosa Lung Infection via cGAS signal passage.
  8. SPATA33 is an autophagy mediator for cargo selectivity in germline mitophagy.
    Title: SPATA33 is an autophagy mediator for cargo selectivity in germline mitophagy.
  9. Atg16L1 as a Novel Biomarker and Autophagy Gene for Diabetic Retinopathy.
    Title: Atg16L1 as a Novel Biomarker and Autophagy Gene for Diabetic Retinopathy.
  10. Atg16l1 in dendritic cells is required for antibacterial defense and autophagy in murine colitis.
    Title: Atg16l1 in dendritic cells is required for antibacterial defense and autophagy in murine colitis.
Submit: New GeneRIF Correction See all GeneRIFs (61)

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables GTPase binding IEA
Inferred from Electronic Annotation
more info
  
enables GTPase binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein-membrane adaptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein-membrane adaptor activity IEA
Inferred from Electronic Annotation
more info
  
enables protein-membrane adaptor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in C-terminal protein lipidation ISO
Inferred from Sequence Orthology
more info
  
involved_in autophagosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in autophagosome assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in autophagosome assembly ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within autophagosome assembly TAS
Traceable Author Statement
more info
 PubMed 
involved_in axonal transport IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in axonal transport IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in axonal transport IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within corpus callosum development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in defense response to virus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in dendrite arborization IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within hippocampus development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in macroautophagy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in macroautophagy ISO
Inferred from Sequence Orthology
more info
  
involved_in microautophagy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in microautophagy ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of dendrite extension IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within negative stranded viral RNA replication IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of autophagy IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within protein lipidation involved in autophagosome assembly IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within protein localization to phagophore assembly site IPI
Inferred from Physical Interaction
more info
 PubMed 
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within xenophagy IPI
Inferred from Physical Interaction
more info
 PubMed 
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 IDA
Inferred from Direct Assay
more info
 PubMed 
part_of Atg12-Atg5-Atg16 complex ISO
Inferred from Sequence Orthology
more info
  
part_of Atg12-Atg5-Atg16 complex ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in autophagosome IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in autophagosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in autophagosome membrane IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in autophagosome membrane ISO
Inferred from Sequence Orthology
more info
  
located_in axon IEA
Inferred from Electronic Annotation
more info
  
located_in axoneme IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
  
is_active_in endolysosome membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in endolysosome membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in glutamatergic synapse IEP
Inferred from Expression Pattern
more info
 PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 
is_active_in phagophore assembly site membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in phagophore assembly site membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in sperm midpiece IDA
Inferred from Direct Assay
more info
 PubMed 
located_in vacuole-isolation membrane contact site ISO
Inferred from Sequence Orthology
more info
  
located_in vacuole-isolation membrane contact site ISS
Inferred from Sequence or Structural Similarity
more info
  
Preferred Names
autophagy-related protein 16-1
Names
APG16-like 1
Atg16L1 gamma
autophagy-related 16-like 1 gamma

NEW Try the new Transcript table

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_001205391.1 → NP_001192320.1  autophagy-related protein 16-1 isoform 1

    See identical proteins and their annotated locations for NP_001192320.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1, also known as Apg16Lgamma) represents the longest transcript and encodes the longest isoform (1, also known as Apg16Lgamma).
    Source sequence(s)
    AC102630, AC159967, BC049122, BE988512
    Consensus CDS
    CCDS56637.1
    UniProtKB/TrEMBL
    G9M4M6
    Related
    ENSMUSP00000108815.3, ENSMUST00000113190.3
    Conserved Domains (5) summary
    COG2319
    Location:332 → 589
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:333 → 621
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam08614
    Location:31 → 206
    ATG16; Autophagy protein 16 (ATG16)
    sd00039
    Location:343 → 380
    7WD40; WD40 repeat [structural motif]
    cl23720
    Location:84 → 190
    RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

  2. NM_001205392.1 → NP_001192321.1  autophagy-related protein 16-1 isoform 3

    See identical proteins and their annotated locations for NP_001192321.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3, also known as Apg16Lalpha) lacks two consecutive exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (3, also known as Apg16Lalpha) is shorter than isoform 1.
    Source sequence(s)
    AC102630, AC159967
    Consensus CDS
    CCDS56638.1
    UniProtKB/TrEMBL
    Q3TDQ5
    Related
    ENSMUSP00000108811.2, ENSMUST00000113186.8
    Conserved Domains (5) summary
    COG2319
    Location:297 → 554
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:298 → 586
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam06632
    Location:126 → 296
    XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    pfam08614
    Location:31 → 206
    ATG16; Autophagy protein 16 (ATG16)
    sd00039
    Location:308 → 345
    7WD40; WD40 repeat [structural motif]

  3. NM_029846.4 → NP_084122.2  autophagy-related protein 16-1 isoform 2

    See identical proteins and their annotated locations for NP_084122.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2, also known as Apg16Lbeta) lacks an exon in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2, also known as Apg16Lbeta) is shorter than isoform 1.
    Source sequence(s)
    AC159967, AK030983, BE988512
    Consensus CDS
    CCDS15136.1
    UniProtKB/Swiss-Prot
    Q6KAT7, Q80U97, Q80U98, Q80U99, Q80Y53, Q8C0J2, Q9DB63
    Related
    ENSMUSP00000027512.7, ENSMUST00000027512.13
    Conserved Domains (5) summary
    COG2319
    Location:316 → 573
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:317 → 605
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam08614
    Location:31 → 206
    ATG16; Autophagy protein 16 (ATG16)
    sd00039
    Location:327 → 364
    7WD40; WD40 repeat [structural motif]
    cl23720
    Location:84 → 190
    RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

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_000067.7 Reference GRCm39 C57BL/6J

    Range
    87683730..87720150
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036154331.1 → XP_036010224.1  autophagy-related protein 16-1 isoform X1

    Conserved Domains (1) summary
    pfam08614
    Location:31 → 206
    ATG16; Autophagy protein 16 (ATG16)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8C0J2.1 GenPept UniProtKB/Swiss-Prot:Q8C0J2

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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