U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 77040, updated on 18-Apr-2024

Summary

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 positive regulation of autophagy. Acts upstream of or within macroautophagy and negative stranded viral RNA replication. Located in autophagosome membrane and axoneme. 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, Apr 2022]
Expression
Ubiquitous expression in CNS E18 (RPKM 18.9), CNS E14 (RPKM 16.2) and 28 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

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

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables GTPase binding ISO
Inferred from Sequence Orthology
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 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 
acts_upstream_of_or_within autophagy IEA
Inferred from Electronic Annotation
more info
 
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 
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
 
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 
acts_upstream_of_or_within 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
 
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 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
 
located_in endosome IEA
Inferred from Electronic Annotation
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 
located_in lysosome IEA
Inferred from Electronic Annotation
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
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
 

General protein information

Preferred Names
autophagy-related protein 16-1
Names
APG16-like 1
Atg16L1 gamma
autophagy-related 16-like 1 gamma

NCBI Reference Sequences (RefSeq)

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_001205391.1NP_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:332589
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:333621
    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:31206
    ATG16; Autophagy protein 16 (ATG16)
    sd00039
    Location:343380
    7WD40; WD40 repeat [structural motif]
    cl23720
    Location:84190
    RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)
  2. NM_001205392.1NP_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:297554
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:298586
    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:126296
    XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    pfam08614
    Location:31206
    ATG16; Autophagy protein 16 (ATG16)
    sd00039
    Location:308345
    7WD40; WD40 repeat [structural motif]
  3. NM_029846.4NP_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:316573
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:317605
    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:31206
    ATG16; Autophagy protein 16 (ATG16)
    sd00039
    Location:327364
    7WD40; WD40 repeat [structural motif]
    cl23720
    Location:84190
    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_036154331.1XP_036010224.1  autophagy-related protein 16-1 isoform X1

    Conserved Domains (1) summary
    pfam08614
    Location:31206
    ATG16; Autophagy protein 16 (ATG16)