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    atg16l1 autophagy related 16 like 1 [ Xenopus tropicalis (tropical clawed frog) ]

    Gene ID: 550097, updated on 20-Jun-2018

    Summary

    Symbol
    atg16l1provided by Xenbase
    Full Name
    autophagy related 16 like 1provided by Xenbase
    Primary source
    Xenbase:XB-GENE-1011170
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Xenopus tropicalis
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
    Also known as
    atg16; atg16l
    Annotation information
    Annotation category: partial on reference assembly
    Orthologs

    Genomic context

    See atg16l1 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    103 current Xenopus_tropicalis_v9.1 (GCF_000004195.3) 5 NC_030681.1 (123148688..123176210)
    102 previous assembly Xtropicalis_v7 (GCF_000004195.2) Unplaced Scaffold NW_004668244.1 (34123649..34151171)

    Chromosome 5 - NC_030681.1Genomic Context describing neighboring genes Neighboring gene secondary ossification center associated regulator of chondrocyte maturation Neighboring gene neuronal guanine nucleotide exchange factor Neighboring gene inositol polyphosphate-5-phosphatase D Neighboring gene S-antigen; retina and pineal gland (arrestin) Neighboring gene pleckstrin homology domain containing B2

    Genomic regions, transcripts, and products

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    • Autophagy - animal, organism-specific biosystem (from KEGG)
      Autophagy - animal, organism-specific biosystemAutophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily cons...
    • Autophagy - animal, conserved biosystem (from KEGG)
      Autophagy - animal, conserved biosystemAutophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily cons...
    • Autophagy - other, organism-specific biosystem (from KEGG)
      Autophagy - other, organism-specific biosystemAutophagy is a degradative pathway for the removal of cytoplasmic materials in eukaryotic cells, and is characterized by the formation of a double-membrane structure called the autophagosome, either ...
    • Autophagy - other, conserved biosystem (from KEGG)
      Autophagy - other, conserved biosystemAutophagy is a degradative pathway for the removal of cytoplasmic materials in eukaryotic cells, and is characterized by the formation of a double-membrane structure called the autophagosome, either ...
    • NOD-like receptor signaling pathway, organism-specific biosystem (from KEGG)
      NOD-like receptor signaling pathway, organism-specific biosystemSpecific families of pattern recognition receptors are responsible for detecting various pathogens and generating innate immune responses. The intracellular NOD-like receptor (NLR) family contains mo...
    • NOD-like receptor signaling pathway, conserved biosystem (from KEGG)
      NOD-like receptor signaling pathway, conserved biosystemSpecific families of pattern recognition receptors are responsible for detecting various pathogens and generating innate immune responses. The intracellular NOD-like receptor (NLR) family contains mo...

    General gene information

    Homology

    General protein information

    Preferred Names
    autophagy-related protein 16
    Names
    APG16-like 1
    ATG16 autophagy related 16-like 1

    NCBI Reference Sequences (RefSeq)

    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_001017343.2NP_001017343.1  autophagy-related protein 16

      See identical proteins and their annotated locations for NP_001017343.1

      Status: PROVISIONAL

      Source sequence(s)
      CR855526
      UniProtKB/Swiss-Prot
      Q5I0B9
      Conserved Domains (6) summary
      COG2319
      Location:336621
      WD40; WD40 repeat [General function prediction only]
      cd00200
      Location:333620
      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:16206
      ATG16; Autophagy protein 16 (ATG16)
      pfam09403
      Location:82170
      FadA; Adhesion protein FadA
      sd00039
      Location:341379
      7WD40; WD40 repeat [structural motif]
      cl02488
      Location:80259
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

    RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 103 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference Xenopus_tropicalis_v9.1 Primary Assembly

    Genomic

    1. NC_030681.1 Reference Xenopus_tropicalis_v9.1 Primary Assembly

      Range
      123148688..123176210
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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