Aliases for ATG16L2 Gene

Aliases for ATG16L2 Gene

  • Autophagy Related 16 Like 2 2 3 5
  • WDR80 2 3 4
  • WD Repeat-Containing Protein 80 3 4
  • Autophagy-Related Protein 16-2 3 4
  • Protein Atg16l2 3 4
  • APG16-Like 2 3 4
  • ATG16B 2 3
  • ATG16 Autophagy Related 16-Like 2 (S. Cerevisiae) 2
  • Autophagy Related 16-Like 2 (S. Cerevisiae) 2
  • ATG16 Autophagy Related 16-Like 2 3
  • FLJ00012 2
  • ATG16L2 5

External Ids for ATG16L2 Gene

Previous GeneCards Identifiers for ATG16L2 Gene

  • GC11P072203
  • GC11P072525
  • GC11P068820

Summaries for ATG16L2 Gene

GeneCards Summary for ATG16L2 Gene

ATG16L2 (Autophagy Related 16 Like 2) is a Protein Coding gene. Among its related pathways are Autophagy - animal. An important paralog of this gene is ATG16L1.

UniProtKB/Swiss-Prot Summary for ATG16L2 Gene

  • May play a role in regulating epithelial homeostasis in an ATG16L1-dependent manner.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ATG16L2 Gene

Genomics for ATG16L2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ATG16L2 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ATG16L2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ATG16L2

Top Transcription factor binding sites by QIAGEN in the ATG16L2 gene promoter:
  • AML1a
  • LCR-F1
  • Meis-1
  • Meis-1a
  • Meis-1b
  • Nkx2-5
  • RORalpha2
  • Sp1

Genomic Locations for ATG16L2 Gene

Latest Assembly
30,727 bases
Plus strand

Previous Assembly
(GRCh37/hg19 by Entrez Gene)
15,225 bases
Plus strand

(GRCh37/hg19 by Ensembl)
29,367 bases
Plus strand

Genomic View for ATG16L2 Gene

Genes around ATG16L2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ATG16L2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ATG16L2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ATG16L2 Gene

Proteins for ATG16L2 Gene

  • Protein details for ATG16L2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Atg16l2
    Protein Accession:
    Secondary Accessions:
    • A5PL30
    • B2RPK5
    • Q658V4
    • Q6PID3
    • Q8NBG0

    Protein attributes for ATG16L2 Gene

    619 amino acids
    Molecular mass:
    68998 Da
    Quaternary structure:
    • Homooligomer. Heterooligomer with ATG16L1. Interacts with ATG5. Self-oligomerizes to form a 800-kDa complex composed of ATG12-ATG5 and ATG16L2. Interacts with RAB33B.
    • Although ATG16L2 is structurally similar to ATG16L1 and is likewise able to form a complex with the autophagy proteins ATG5 and ATG12, overexpression and knockdown studies in mouse suggest that ATG16L2 is not essential for canonical autophagy.

    Alternative splice isoforms for ATG16L2 Gene


neXtProt entry for ATG16L2 Gene

Post-translational modifications for ATG16L2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibodies for research

  • Abcam antibodies for ATG16L2
  • Boster Bio Antibodies for ATG16L2

No data available for DME Specific Peptides for ATG16L2 Gene

Domains & Families for ATG16L2 Gene

Gene Families for ATG16L2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transporters

Protein Domains for ATG16L2 Gene

  • G-protein beta WD-40 repeat signature
  • Autophagy protein Apg16

Suggested Antigen Peptide Sequences for ATG16L2 Gene

GenScript: Design optimal peptide antigens:
  • WD repeat-containing protein 80 (A16L2_HUMAN)
  • ATG16L2 protein (Q2VPK0_HUMAN)
  • FLJ00012 protein (Q9H7Q5_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the WD repeat ATG16 family.
  • Belongs to the WD repeat ATG16 family.
genes like me logo Genes that share domains with ATG16L2: view

Function for ATG16L2 Gene

Molecular function for ATG16L2 Gene

UniProtKB/Swiss-Prot Function:
May play a role in regulating epithelial homeostasis in an ATG16L1-dependent manner.

Phenotypes From GWAS Catalog for ATG16L2 Gene

Gene Ontology (GO) - Molecular Function for ATG16L2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA --
genes like me logo Genes that share ontologies with ATG16L2: view
genes like me logo Genes that share phenotypes with ATG16L2: view

miRNA for ATG16L2 Gene

miRTarBase miRNAs that target ATG16L2

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ATG16L2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ATG16L2 Gene

Localization for ATG16L2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ATG16L2 Gene

Cytoplasm, cytosol. Note=Localizes also to discrete punctae along the ciliary axoneme. {ECO:0000250 UniProtKB:Q6KAU8}.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ATG16L2 gene
Compartment Confidence
nucleus 5
cytosol 4
mitochondrion 2
lysosome 2
plasma membrane 1
extracellular 1
cytoskeleton 1
endoplasmic reticulum 1
endosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for ATG16L2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000421 autophagosome membrane IBA 21873635
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0005776 NOT autophagosome ISS --
GO:0005829 cytosol ISS --
genes like me logo Genes that share ontologies with ATG16L2: view

Pathways & Interactions for ATG16L2 Gene

PathCards logo

SuperPathways for ATG16L2 Gene

SuperPathway Contained pathways
1 Autophagy - animal
genes like me logo Genes that share pathways with ATG16L2: view

Pathways by source for ATG16L2 Gene

1 KEGG pathway for ATG16L2 Gene
1 GeneTex pathway for ATG16L2 Gene

Gene Ontology (GO) - Biological Process for ATG16L2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000045 NOT autophagosome assembly IBA,ISS --
GO:0006914 NOT autophagy ISS --
GO:0015031 protein transport IEA --
GO:0039689 negative stranded viral RNA replication IEA,IBA 21873635
genes like me logo Genes that share ontologies with ATG16L2: view

No data available for SIGNOR curated interactions for ATG16L2 Gene

Drugs & Compounds for ATG16L2 Gene

No Compound Related Data Available

Transcripts for ATG16L2 Gene

mRNA/cDNA for ATG16L2 Gene

14 NCBI additional mRNA sequence :
21 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ATG16L2

Alternative Splicing Database (ASD) splice patterns (SP) for ATG16L2 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b ^ 4a · 4b · 4c ^ 5a · 5b ^ 6a · 6b · 6c ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11a · 11b ^ 12 ^
SP1: - - - - - - - - -
SP2: - - - - - - - - - -
SP3: - - - - -
SP4: - - - - -
SP5: - - - -
SP7: - - - - - - - - - - - - - - - - - - - -
SP8: - -
SP9: - -

ExUns: 13 ^ 14 ^ 15a · 15b ^ 16 ^ 17 ^ 18 ^ 19
SP7: - - - -

Relevant External Links for ATG16L2 Gene

GeneLoc Exon Structure for

Expression for ATG16L2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ATG16L2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ATG16L2 Gene

This gene is overexpressed in Whole Blood (x15.7) and Spleen (x5.3).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ATG16L2

SOURCE GeneReport for Unigene cluster for ATG16L2 Gene:


Evidence on tissue expression from TISSUES for ATG16L2 Gene

  • Nervous system(4.6)
  • Spleen(4.5)
  • Stomach(4.3)
  • Liver(4.3)
  • Eye(4)
  • Blood(3)
  • Skin(2.5)
  • Bone marrow(2.4)
  • Intestine(2.3)
  • Lymph node(2.2)
genes like me logo Genes that share expression patterns with ATG16L2: view

Primer products for research

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ATG16L2 Gene

Orthologs for ATG16L2 Gene

This gene was present in the common ancestor of animals.

Orthologs for ATG16L2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ATG16L2 30 31
  • 98.24 (n)
(Bos Taurus)
Mammalia ATG16L2 30 31
  • 88.04 (n)
(Canis familiaris)
Mammalia ATG16L2 30 31
  • 87.11 (n)
(Mus musculus)
Mammalia Atg16l2 30 17 31
  • 85.5 (n)
(Rattus norvegicus)
Mammalia Atg16l2 30
  • 84.9 (n)
(Ornithorhynchus anatinus)
Mammalia ATG16L2 31
  • 70 (a)
(Monodelphis domestica)
Mammalia ATG16L2 31
  • 65 (a)
(Anolis carolinensis)
Reptilia ATG16L2 31
  • 67 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC100485143 30
  • 55.18 (n)
(Danio rerio)
Actinopterygii LOC100007282 30
  • 61.58 (n)
ATG16L2 (2 of 2) 31
  • 59 (a)
atg16l2 31
  • 28 (a)
Fruit Fly
(Drosophila melanogaster)
Insecta CG31033 31
  • 30 (a)
(Caenorhabditis elegans)
Secernentea atg-16.2 31
  • 26 (a)
atg-16.1 31
  • 23 (a)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 42 (a)
Species where no ortholog for ATG16L2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for ATG16L2 Gene

Gene Tree for ATG16L2 (if available)
Gene Tree for ATG16L2 (if available)
Evolutionary constrained regions (ECRs) for ATG16L2: view image

Paralogs for ATG16L2 Gene

Paralogs for ATG16L2 Gene

(5) SIMAP similar genes for ATG16L2 Gene using alignment to 13 proteins:

  • A16L2_HUMAN
  • F5H7B6_HUMAN
  • H0YF72_HUMAN
  • H0YG45_HUMAN
  • H0YG67_HUMAN
genes like me logo Genes that share paralogs with ATG16L2: view

Variants for ATG16L2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ATG16L2 Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
rs114942058 Benign: not provided 72,841,540(+) G/A
NM_014824.3(FCHSD2):c.1970C>T (p.Pro657Leu)
rs77419620 Benign: not provided 72,824,802(+) G/C
NM_033388.2(ATG16L2):c.956G>C (p.Cys319Ser)
rs11235604 - p.Arg220Trp

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for ATG16L2 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for ATG16L2 Gene

Variant ID Type Subtype PubMed ID
nsv473572 CNV novel sequence insertion 20440878
nsv951039 CNV deletion 24416366

Variation tolerance for ATG16L2 Gene

Residual Variation Intolerance Score: 41.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.92; 59.40% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ATG16L2 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ATG16L2 Gene

Disorders for ATG16L2 Gene

Additional Disease Information for ATG16L2

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform

No disorders were found for ATG16L2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ATG16L2 Gene

Publications for ATG16L2 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  2. Characterization of long cDNA clones from human adult spleen. (PMID: 11214971) Hattori A … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 2 3
  3. ATG5 is required for B cell polarization and presentation of particulate antigens. (PMID: 30196744) Arbogast F … Gros F (Autophagy 2019) 3
  4. ATG5 cancer mutations and alternative mRNA splicing reveal a conjugation switch that regulates ATG12-ATG5-ATG16L1 complex assembly and autophagy. (PMID: 31636955) Wible DJ … Bratton SB (Cell discovery 2019) 3
  5. Potentially functional variants of autophagy-related genes are associated with the efficacy and toxicity of radiotherapy in patients with nasopharyngeal carcinoma. (PMID: 31692259) Yang Z … Liu Z (Molecular genetics & genomic medicine 2019) 3

Products for ATG16L2 Gene

Sources for ATG16L2 Gene