Atg16l2 autophagy related 16 like 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Atg16l2provided by MGI
Official Full Name: autophagy related 16 like 2provided by MGI
Primary source: MGI:MGI:1920933
See related: Ensembl:ENSMUSG00000047767 AllianceGenome:MGI:1920933
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: 2410118P20Rik
Summary: Involved in autophagosome assembly. Acts upstream of or within negative stranded viral RNA replication. Located in cytosol and phagophore assembly site membrane. Part of Atg12-Atg5-Atg16 complex. Is expressed in embryo. Orthologous to human ATG16L2 (autophagy related 16 like 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in spleen adult (RPKM 5.6), thymus adult (RPKM 4.5) and 27 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 E2; 7 54.54 cM

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (100935521..100951474, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (101286325..101302267, complement)

Chromosome 7 - NC_000073.7 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: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Atg16l2 augments Nlrc4 inflammasome activation by facilitating NAIPs-NLRC4 association.
Title: Atg16l2 augments Nlrc4 inflammasome activation by facilitating NAIPs-NLRC4 association.
ATG16L2 inhibits NLRP3 inflammasome activation through promoting ATG5-12-16L1 complex assembly and autophagy.
Title: ATG16L2 inhibits NLRP3 inflammasome activation through promoting ATG5-12-16L1 complex assembly and autophagy.
results show that ATG16L1 and ATG16L2 contribute very distinctly to autophagy and cellular ontogeny in myeloid, lymphoid, and epithelial lineages. Dysregulation of any of these lineages could contribute to complex diseases like Crohn disease and systemic lupus erythematosus.
Title: Distinct Tissue-Specific Roles for the Disease-Associated Autophagy Genes ATG16L2 and ATG16L1.
IKKalpha, which may control autophagic protein degradation through its interaction with ATG16L2, plays a critical role in maintaining pancreatic acinar cell homeostasis, whose dysregulation promotes pancreatitis through p62 aggregate accumulation
Title: Loss of acinar cell IKKα triggers spontaneous pancreatitis in mice.
Despite forming the Atg12-Atg5-Atg16L2 complex, Atg16L2 is not recruited to phagophores and is mostly present in the cytosol.
Title: Atg16L2, a novel isoform of mammalian Atg16L that is not essential for canonical autophagy despite forming an Atg12–5-16L2 complex.

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Variation

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Alleles

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

Chemically induced (ENU) (1)
Endonuclease-mediated (3)
Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
NOT involved_in autophagosome assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in autophagosome assembly	IMP Inferred from Mutant Phenotype more info	PubMed
NOT involved_in autophagy	IDA Inferred from Direct Assay more info	PubMed
involved_in macroautophagy	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative stranded viral RNA replication	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
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
NOT located_in autophagosome	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in phagophore assembly site membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: protein Atg16l2

Names: APG16-like 2; Atg16L2 alpha; Atg16L2 beta; autophagy-related 16-like 2 alpha; autophagy-related 16-like 2 beta; autophagy-related protein 16-2; mFLJ00012 protein

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_001111111.1 → NP_001104581.1 protein Atg16l2

See identical proteins and their annotated locations for NP_001104581.1

Status: VALIDATED

Source sequence(s)

AK010773, BC060054, BP767155

Consensus CDS

CCDS52329.1

UniProtKB/Swiss-Prot

D3Z653, G9M4M8, Q6KAU8, Q6PAU0

Related

ENSMUSP00000112500.2, ENSMUST00000120267.9

Conserved Domains (6) summary

COG2319
Location:327 → 622

WD40; WD40 repeat [General function prediction only]

cd00200
Location:335 → 622

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:20 → 207

ATG16; Autophagy protein 16 (ATG16)

pfam16034
Location:21 → 198

JAKMIP_CC3; JAKMIP CC3 domain

sd00039
Location:345 → 382

7WD40; WD40 repeat [structural motif]

cl02193
Location:109 → 196

VirB5_like; VirB5 protein family

RNA

NR_152152.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses alternate splice sites in several internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC107638

Related

ENSMUST00000139609.8

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

NC_000073.7 Reference GRCm39 C57BL/6J

Range

100935521..100951474 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006508225.5 → XP_006508288.1 protein Atg16l2 isoform X1

Conserved Domains (3) summary

cd00200
Location:338 → 539

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 ...

sd00039
Location:348 → 385

7WD40; WD40 repeat [structural motif]

pfam08614
Location:59 → 231

ATG16; Autophagy protein 16 (ATG16)
XM_006508231.5 → XP_006508294.1 protein Atg16l2 isoform X8

Conserved Domains (3) summary

cd00200
Location:359 → 560

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 ...

sd00039
Location:369 → 406

7WD40; WD40 repeat [structural motif]

pfam08614
Location:59 → 231

ATG16; Autophagy protein 16 (ATG16)
XM_006508226.5 → XP_006508289.1 protein Atg16l2 isoform X3

See identical proteins and their annotated locations for XP_006508289.1

Related

ENSMUSP00000113320.2, ENSMUST00000122116.8

Conserved Domains (3) summary

cd00200
Location:338 → 625

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 ...

sd00039
Location:348 → 385

7WD40; WD40 repeat [structural motif]

pfam08614
Location:59 → 231

ATG16; Autophagy protein 16 (ATG16)
XM_036153476.1 → XP_036009369.1 protein Atg16l2 isoform X5

Conserved Domains (3) summary

cd00200
Location:316 → 517

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 ...

sd00039
Location:326 → 363

7WD40; WD40 repeat [structural motif]

pfam08614
Location:59 → 231

ATG16; Autophagy protein 16 (ATG16)
XM_036153475.1 → XP_036009368.1 protein Atg16l2 isoform X2

Conserved Domains (3) summary

cd00200
Location:337 → 538

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 ...

sd00039
Location:347 → 384

7WD40; WD40 repeat [structural motif]

pfam08614
Location:59 → 231

ATG16; Autophagy protein 16 (ATG16)
XM_011241916.4 → XP_011240218.1 protein Atg16l2 isoform X6

Conserved Domains (3) summary

cd00200
Location:359 → 560

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 ...

sd00039
Location:369 → 406

7WD40; WD40 repeat [structural motif]

pfam08614
Location:59 → 231

ATG16; Autophagy protein 16 (ATG16)
XM_006508227.5 → XP_006508290.1 protein Atg16l2 isoform X4

Conserved Domains (3) summary

cd00200
Location:359 → 616

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 ...

sd00039
Location:369 → 406

7WD40; WD40 repeat [structural motif]

pfam08614
Location:59 → 231

ATG16; Autophagy protein 16 (ATG16)
XM_036153477.1 → XP_036009370.1 protein Atg16l2 isoform X9

Conserved Domains (3) summary

cd00200
Location:204 → 405

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 ...

sd00039
Location:214 → 251

7WD40; WD40 repeat [structural motif]

pfam08614
Location:1 → 97

ATG16; Autophagy protein 16 (ATG16)
XM_006508228.3 → XP_006508291.1 protein Atg16l2 isoform X7

See identical proteins and their annotated locations for XP_006508291.1

Conserved Domains (4) summary

COG3064
Location:2 → 208

TolA; Membrane protein involved in colicin uptake [Cell wall/membrane/envelope biogenesis]

cd00200
Location:225 → 426

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 ...

sd00039
Location:235 → 272

7WD40; WD40 repeat [structural motif]

pfam08614
Location:1 → 97

ATG16; Autophagy protein 16 (ATG16)
XM_030243023.2 → XP_030098883.1 protein Atg16l2 isoform X9

Conserved Domains (3) summary

cd00200
Location:204 → 405

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 ...

sd00039
Location:214 → 251

7WD40; WD40 repeat [structural motif]

pfam08614
Location:1 → 97

ATG16; Autophagy protein 16 (ATG16)
XM_011241918.3 → XP_011240220.1 protein Atg16l2 isoform X7

See identical proteins and their annotated locations for XP_011240220.1

Conserved Domains (4) summary

COG3064
Location:2 → 208

TolA; Membrane protein involved in colicin uptake [Cell wall/membrane/envelope biogenesis]

cd00200
Location:225 → 426

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 ...

sd00039
Location:235 → 272

7WD40; WD40 repeat [structural motif]

pfam08614
Location:1 → 97

ATG16; Autophagy protein 16 (ATG16)
XM_030243022.2 → XP_030098882.1 protein Atg16l2 isoform X7

Conserved Domains (4) summary

COG3064
Location:2 → 208

TolA; Membrane protein involved in colicin uptake [Cell wall/membrane/envelope biogenesis]

cd00200
Location:225 → 426

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 ...

sd00039
Location:235 → 272

7WD40; WD40 repeat [structural motif]

pfam08614
Location:1 → 97

ATG16; Autophagy protein 16 (ATG16)
XM_006508230.3 → XP_006508293.1 protein Atg16l2 isoform X7

See identical proteins and their annotated locations for XP_006508293.1

Conserved Domains (4) summary

COG3064
Location:2 → 208

TolA; Membrane protein involved in colicin uptake [Cell wall/membrane/envelope biogenesis]

cd00200
Location:225 → 426

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 ...

sd00039
Location:235 → 272

7WD40; WD40 repeat [structural motif]

pfam08614
Location:1 → 97

ATG16; Autophagy protein 16 (ATG16)