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    Atg4a autophagy related 4A, cysteine peptidase [ Mus musculus (house mouse) ]

    Gene ID: 666468, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Atg4aprovided by MGI
    Official Full Name
    autophagy related 4A, cysteine peptidaseprovided by MGI
    Primary source
    MGI:MGI:2147903
    See related
    Ensembl:ENSMUSG00000079418 AllianceGenome:MGI:2147903
    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
    Apg4a; Autl2; Atg4al
    Summary
    Predicted to enable cysteine-type endopeptidase activity and protein-phosphatidylethanolamide deconjugating activity. Predicted to be involved in macroautophagy; protein delipidation; and protein processing. Predicted to be active in cytoplasm. Is expressed in embryo. Orthologous to human ATG4A (autophagy related 4A cysteine peptidase). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in genital fat pad adult (RPKM 11.0), placenta adult (RPKM 5.0) and 20 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Atg4a in Genome Data Viewer
    Location:
    X F1; X 61.67 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (139854594..139947190)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (140953845..141164194)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene ribosomal protein S7 pseudogene Neighboring gene STARR-seq mESC enhancer starr_48010 Neighboring gene STARR-positive B cell enhancer ABC_E3263 Neighboring gene V-set and immunoglobulin domain containing 1 Neighboring gene STARR-seq mESC enhancer starr_48011 Neighboring gene proteasome (prosome, macropain) 26S subunit, non-ATPase, 10 Neighboring gene STARR-positive B cell enhancer mm9_chrX:137591358-137591658 Neighboring gene collagen, type IV, alpha 6 Neighboring gene predicted gene, 39539 Neighboring gene prohibitin pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. Unraveling the roles of Atg4 proteases from autophagy modulation to targeted cancer therapy. Zhang L, et al. Cancer Lett, 2016 Apr 1. PMID 26805760
    2. The functional and pathologic relevance of autophagy proteases. Fernández ÁF, et al. J Clin Invest, 2015 Jan. PMID 25654548, Free PMC Article
    3. [miR-144 regulates BCG- and rapamycin-induced autophagy by targeting Atg4a in RAW264.7 cells]. Zhou L, et al. Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi, 2015 Feb. PMID 25652854
    4. Measurement of the Activity of the Atg4 Cysteine Proteases. Li M, et al. Methods Enzymol, 2017. PMID 28253956, Free PMC Article
    5. Destabilization of TP53 by USP10 is essential for neonatal autophagy and survival. Li H, et al. Cell Rep, 2022 Oct 4. PMID 36198274

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. MiR-144 inhibits the autophagy-related gene Atg4a expression in Mycobacterium tuberculosis infection.
      Title: [miR-144 regulates BCG- and rapamycin-induced autophagy by targeting Atg4a in RAW264.7 cells].
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC107179

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables cysteine-type endopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cysteine-type peptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cysteine-type peptidase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein-phosphatidylethanolamide deconjugating activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein-phosphatidylethanolamide deconjugating activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein-phosphatidylethanolamide deconjugating activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in aggrephagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in autophagy ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in autophagy ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mitophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in piecemeal microautophagy of the nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein delipidation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein delipidation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in proteolysis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    cysteine protease ATG4A
    Names
    APG4 (ATG4) autophagy-related homolog A
    AUT-like 2, cysteine endopeptidase
    autophagin 2
    autophagy 4 homolog A
    autophagy-related 4A
    autophagy-related cysteine endopeptidase 2
    autophagy-related protein 4 homolog A
    cysteine protease APG4A
    NP_001366610.1
    NP_001366611.1
    NP_001366612.1
    NP_001366613.1
    NP_777364.3
    XP_017174089.1
    XP_017174090.1
    XP_017174091.1

    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_001379681.1 → NP_001366610.1  cysteine protease ATG4A isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL672306, AL691493, CR478060, CT025930
      UniProtKB/TrEMBL
      A0A0G2JFS9
      Conserved Domains (1) summary
      pfam03416
      Location:109 → 399
      Peptidase_C54; Peptidase family C54

    2. NM_001379682.1 → NP_001366611.1  cysteine protease ATG4A isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL672306, AL691493, CR478060, CT025930
      UniProtKB/TrEMBL
      A0A0G2JFS9
      Conserved Domains (1) summary
      pfam03416
      Location:42 → 331
      Peptidase_C54; Peptidase family C54

    3. NM_001379683.1 → NP_001366612.1  cysteine protease ATG4A isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL672306, AL691493, CR478060, CT025930
      UniProtKB/TrEMBL
      A0A0G2JFS9, A0A7N9VS64
      Related
      ENSMUSP00000159430.2, ENSMUST00000239541.1
      Conserved Domains (1) summary
      pfam03416
      Location:41 → 308
      Peptidase_C54; Peptidase family C54

    4. NM_001379684.1 → NP_001366613.1  cysteine protease ATG4A isoform 5

      Status: VALIDATED

      Source sequence(s)
      AL672306, AL691493, CR478060, CT025930
      UniProtKB/TrEMBL
      A0A0G2JFS9
      Conserved Domains (1) summary
      pfam03416
      Location:1 → 255
      Peptidase_C54; Peptidase family C54

    5. NM_174875.5 → NP_777364.3  cysteine protease ATG4A isoform 1

      See identical proteins and their annotated locations for NP_777364.3

      Status: VALIDATED

      Source sequence(s)
      AK041379, BB638045, BY287162, CJ057919, CO425906
      Consensus CDS
      CCDS85810.1
      UniProtKB/Swiss-Prot
      Q811B8, Q8C9S8
      UniProtKB/TrEMBL
      A0A0G2JFS9, Q5EBK1
      Related
      ENSMUSP00000108595.2, ENSMUST00000112971.2
      Conserved Domains (1) summary
      pfam03416
      Location:43 → 332
      Peptidase_C54; Peptidase family C54

    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_000086.8 Reference GRCm39 C57BL/6J

      Range
      139854594..139947190
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017318600.2 → XP_017174089.1  cysteine protease ATG4A isoform X1

      UniProtKB/TrEMBL
      A0A0G2JFS9
      Conserved Domains (1) summary
      pfam03416
      Location:108 → 375
      Peptidase_C54; Peptidase family C54

    2. XM_017318602.3 → XP_017174091.1  cysteine protease ATG4A isoform X2

      UniProtKB/TrEMBL
      A0A0G2JFS9
      Conserved Domains (1) summary
      pfam03416
      Location:38 → 328
      Peptidase_C54; Peptidase family C54

    3. XM_017318601.3 → XP_017174090.1  cysteine protease ATG4A isoform X2

      UniProtKB/TrEMBL
      A0A0G2JFS9
      Conserved Domains (1) summary
      pfam03416
      Location:38 → 328
      Peptidase_C54; Peptidase family C54

    RNA

    1. XR_004940359.1 RNA Sequence

      Related
      ENSMUST00000239544.1
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C9S8.2 GenPept UniProtKB/Swiss-Prot:Q8C9S8

    Gene LinkOut

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