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    Atg4c autophagy related 4C, cysteine peptidase [ Mus musculus (house mouse) ]

    Gene ID: 242557, updated on 27-Jul-2017
    Official Symbol
    Atg4cprovided by MGI
    Official Full Name
    autophagy related 4C, cysteine peptidaseprovided by MGI
    Primary source
    MGI:MGI:2651854
    See related
    Ensembl:ENSMUSG00000028550 Vega:OTTMUSG00000007980
    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
    Apg4c; Autl1; Apg4-C; Atg4cl
    Orthologs
    Location:
    4; 4 C6
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 4 NC_000070.6 (99189158..99297258)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (98860625..98926478)

    Chromosome 4 - NC_000070.6Genomic Context describing neighboring genes Neighboring gene dedicator of cytokinesis 7 Neighboring gene angiopoietin-like 3 Neighboring gene ribosomal protein S4, X-linked pseudogene Neighboring gene predicted gene, 35379 Neighboring gene predicted gene, 35537

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

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

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    cysteine-type endopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    cysteine-type endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    cysteine-type endopeptidase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    cysteine-type peptidase activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    peptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    C-terminal protein lipidation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    autophagosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    autophagosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    autophagy ISO
    Inferred from Sequence Orthology
    more info
     
    autophagy ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    autophagy of mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    autophagy of nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    protein delipidation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    protein targeting to membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    proteolysis ISO
    Inferred from Sequence Orthology
    more info
     
    transport IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    extracellular region ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    cysteine protease ATG4C
    Names
    APG4 (ATG4) autophagy-related homolog C
    AUT-like 1, cysteine endopeptidase
    AUT-like 3 cysteine endopeptidase
    autophagin 3
    autophagy-related 4C
    autophagy-related cysteine endopeptidase 3
    autophagy-related protein 4 homolog C
    cysteine protease involved in autophagy
    NP_001139439.1
    NP_778194.3
    XP_006503134.1
    XP_006503135.1
    XP_006503136.1

    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_001145967.1NP_001139439.1  cysteine protease ATG4C

      See identical proteins and their annotated locations for NP_001139439.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants encode the same protein.
      Source sequence(s)
      AK134838, BB851037, BC058981
      Consensus CDS
      CCDS18382.1
      UniProtKB/Swiss-Prot
      Q811C2
      UniProtKB/TrEMBL
      Q3UYA5
      Related
      ENSMUSP00000137035.1, ENSMUST00000180278.1
      Conserved Domains (1) summary
      pfam03416
      Location:77395
      Peptidase_C54; Peptidase family C54
    2. NM_175029.3NP_778194.3  cysteine protease ATG4C

      See identical proteins and their annotated locations for NP_778194.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Both variants encode the same protein.
      Source sequence(s)
      AK134838, BC058981
      Consensus CDS
      CCDS18382.1
      UniProtKB/Swiss-Prot
      Q811C2
      UniProtKB/TrEMBL
      Q3UYA5
      Related
      ENSMUSP00000030279.8, OTTMUSP00000008308, ENSMUST00000030279.14, OTTMUST00000018086
      Conserved Domains (1) summary
      pfam03416
      Location:77395
      Peptidase_C54; Peptidase family C54

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000070.6 Reference GRCm38.p4 C57BL/6J

      Range
      99189158..99297258
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503072.3XP_006503135.1  cysteine protease ATG4C isoform X2

      Conserved Domains (1) summary
      pfam03416
      Location:77343
      Peptidase_C54; Peptidase family C54
    2. XM_006503073.3XP_006503136.1  cysteine protease ATG4C isoform X3

      Conserved Domains (1) summary
      pfam03416
      Location:77311
      Peptidase_C54; Peptidase family C54
    3. XM_006503071.3XP_006503134.1  cysteine protease ATG4C isoform X1

      Conserved Domains (1) summary
      pfam03416
      Location:57375
      Peptidase_C54; Peptidase family C54

    RNA

    1. XR_376316.3 RNA Sequence

    2. XR_867860.2 RNA Sequence

    3. XR_867862.2 RNA Sequence

    4. XR_867864.2 RNA Sequence

    5. XR_867865.2 RNA Sequence

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