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

Gene ID: 73683, updated on 18-Apr-2024

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
Acts upstream of or within negative stranded viral RNA replication. Located in cytosol. Is expressed in embryo. Orthologous to human ATG16L2 (autophagy related 16 like 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in spleen adult (RPKM 5.6), thymus adult (RPKM 4.5) and 27 other tissues See more
Orthologs
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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_000073.7Genomic Context describing neighboring genes Neighboring gene FCH and double SH3 domains 2 Neighboring gene predicted gene, 50587 Neighboring gene predicted gene, 57508 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:108450776-108450959 Neighboring gene STARR-seq mESC enhancer starr_19689 Neighboring gene STARR-positive B cell enhancer ABC_E1349 Neighboring gene StAR related lipid transfer domain containing 10 Neighboring gene predicted gene 20476 Neighboring gene predicted gene, 35219 Neighboring gene ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2)  1 citation
  • Endonuclease-mediated (3) 
  • Chemically induced (ENU) (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

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 
acts_upstream_of_or_within 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 cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
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

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)

  1. NM_001111111.1NP_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:327622
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:335622
    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:20207
    ATG16; Autophagy protein 16 (ATG16)
    pfam16034
    Location:21198
    JAKMIP_CC3; JAKMIP CC3 domain
    sd00039
    Location:345382
    7WD40; WD40 repeat [structural motif]
    cl02193
    Location:109196
    VirB5_like; VirB5 protein family

RNA

  1. 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

  1. NC_000073.7 Reference GRCm39 C57BL/6J

    Range
    100935521..100951474 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006508225.5XP_006508288.1  protein Atg16l2 isoform X1

    Conserved Domains (3) summary
    cd00200
    Location:338539
    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:348385
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:59231
    ATG16; Autophagy protein 16 (ATG16)
  2. XM_006508231.5XP_006508294.1  protein Atg16l2 isoform X8

    Conserved Domains (3) summary
    cd00200
    Location:359560
    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:369406
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:59231
    ATG16; Autophagy protein 16 (ATG16)
  3. XM_006508226.5XP_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:338625
    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:348385
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:59231
    ATG16; Autophagy protein 16 (ATG16)
  4. XM_036153476.1XP_036009369.1  protein Atg16l2 isoform X5

    Conserved Domains (3) summary
    cd00200
    Location:316517
    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:326363
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:59231
    ATG16; Autophagy protein 16 (ATG16)
  5. XM_036153475.1XP_036009368.1  protein Atg16l2 isoform X2

    Conserved Domains (3) summary
    cd00200
    Location:337538
    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:347384
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:59231
    ATG16; Autophagy protein 16 (ATG16)
  6. XM_011241916.4XP_011240218.1  protein Atg16l2 isoform X6

    Conserved Domains (3) summary
    cd00200
    Location:359560
    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:369406
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:59231
    ATG16; Autophagy protein 16 (ATG16)
  7. XM_006508227.5XP_006508290.1  protein Atg16l2 isoform X4

    Conserved Domains (3) summary
    cd00200
    Location:359616
    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:369406
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:59231
    ATG16; Autophagy protein 16 (ATG16)
  8. XM_036153477.1XP_036009370.1  protein Atg16l2 isoform X9

    Conserved Domains (3) summary
    cd00200
    Location:204405
    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:214251
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:197
    ATG16; Autophagy protein 16 (ATG16)
  9. XM_006508228.3XP_006508291.1  protein Atg16l2 isoform X7

    See identical proteins and their annotated locations for XP_006508291.1

    Conserved Domains (4) summary
    COG3064
    Location:2208
    TolA; Membrane protein involved in colicin uptake [Cell wall/membrane/envelope biogenesis]
    cd00200
    Location:225426
    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:235272
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:197
    ATG16; Autophagy protein 16 (ATG16)
  10. XM_030243023.2XP_030098883.1  protein Atg16l2 isoform X9

    Conserved Domains (3) summary
    cd00200
    Location:204405
    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:214251
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:197
    ATG16; Autophagy protein 16 (ATG16)
  11. XM_011241918.3XP_011240220.1  protein Atg16l2 isoform X7

    See identical proteins and their annotated locations for XP_011240220.1

    Conserved Domains (4) summary
    COG3064
    Location:2208
    TolA; Membrane protein involved in colicin uptake [Cell wall/membrane/envelope biogenesis]
    cd00200
    Location:225426
    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:235272
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:197
    ATG16; Autophagy protein 16 (ATG16)
  12. XM_030243022.2XP_030098882.1  protein Atg16l2 isoform X7

    Conserved Domains (4) summary
    COG3064
    Location:2208
    TolA; Membrane protein involved in colicin uptake [Cell wall/membrane/envelope biogenesis]
    cd00200
    Location:225426
    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:235272
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:197
    ATG16; Autophagy protein 16 (ATG16)
  13. XM_006508230.3XP_006508293.1  protein Atg16l2 isoform X7

    See identical proteins and their annotated locations for XP_006508293.1

    Conserved Domains (4) summary
    COG3064
    Location:2208
    TolA; Membrane protein involved in colicin uptake [Cell wall/membrane/envelope biogenesis]
    cd00200
    Location:225426
    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:235272
    7WD40; WD40 repeat [structural motif]
    pfam08614
    Location:197
    ATG16; Autophagy protein 16 (ATG16)

RNA

  1. XR_003946569.2 RNA Sequence

  2. XR_003946571.2 RNA Sequence

  3. XR_004934191.1 RNA Sequence

  4. XR_378274.5 RNA Sequence

  5. XR_004934190.1 RNA Sequence

  6. XR_001778004.3 RNA Sequence

  7. XR_004934192.1 RNA Sequence

  8. XR_003946570.2 RNA Sequence