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    Atg4b autophagy related 4B, cysteine peptidase [ Mus musculus (house mouse) ]

    Gene ID: 66615, updated on 27-Nov-2024

    Summary

    Official Symbol
    Atg4bprovided by MGI
    Official Full Name
    autophagy related 4B, cysteine peptidaseprovided by MGI
    Primary source
    MGI:MGI:1913865
    See related
    Ensembl:ENSMUSG00000026280 AllianceGenome:MGI:1913865
    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
    Apg4b; Autl1; Atg4bl; MmAPG4B; 2510009N07Rik
    Summary
    Enables cysteine-type peptidase activity. Involved in several processes, including autophagosome assembly; otolith mineralization completed early in development; and protein delipidation. Located in cytoplasm. Is expressed in central nervous system; genitourinary system; gut; lymph node; and sensory organ. Orthologous to human ATG4B (autophagy related 4B cysteine peptidase). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E14 (RPKM 14.9), whole brain E14.5 (RPKM 14.0) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Atg4b in Genome Data Viewer
    Location:
    1 D; 1 47.32 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (93682627..93717328)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (93754905..93789606)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene BCL2-related ovarian killer Neighboring gene THAP domain containing 4 Neighboring gene STARR-seq mESC enhancer starr_01735 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:95698432-95698719 Neighboring gene STARR-positive B cell enhancer ABC_E4338 Neighboring gene deoxythymidylate kinase Neighboring gene predicted gene, 22089 Neighboring gene inhibitor of growth family, member 5

    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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (4) 
    • Gene trapped (2) 
    • Targeted (3) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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 endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables cysteine-type peptidase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables cysteine-type peptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables cysteine-type peptidase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables peptidase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-phosphatidylethanolamide deconjugating activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein-phosphatidylethanolamide deconjugating activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein-phosphatidylethanolamide deconjugating activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables scaffold protein binding ISO
    Inferred from Sequence Orthology
    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 IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in autophagosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in autophagy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in autophagy ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in autophagy ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to starvation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in microautophagy ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in microautophagy ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in mitophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mitophagy ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mitophagy ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in otolith mineralization completed early in development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in piecemeal microautophagy of the nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein delipidation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein delipidation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein localization to phagophore assembly site ISO
    Inferred from Sequence Orthology
    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
    located_in autophagosome IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in autophagosome membrane ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasmic vesicle IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    cysteine protease ATG4B
    Names
    APG4 (ATG4) autophagy-related homolog B
    AUT-like 1, cysteine endopeptidase
    autophagin 1
    autophagy-related 4B
    autophagy-related cysteine endopeptidase 1
    autophagy-related protein 4 homolog B
    cysteine protease involved in autophagy APG4-B
    NP_001355195.1
    NP_777363.1
    XP_006529856.1
    XP_036008779.1
    XP_036008782.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001368266.1NP_001355195.1  cysteine protease ATG4B isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AC162891, CJ155817
      UniProtKB/Swiss-Prot
      Q6ZQ22, Q8BGE6, Q8R098
    2. NM_174874.4NP_777363.1  cysteine protease ATG4B isoform 1

      See identical proteins and their annotated locations for NP_777363.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC162891, AK031570
      Consensus CDS
      CCDS15195.1
      UniProtKB/Swiss-Prot
      Q6ZQ22, Q8BGE6, Q8R098
      UniProtKB/TrEMBL
      A0A0R4J065
      Related
      ENSMUSP00000027502.9, ENSMUST00000027502.16
      Conserved Domains (1) summary
      pfam03416
      Location:40335
      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_000067.7 Reference GRCm39 C57BL/6J

      Range
      93682627..93717328
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036152886.1XP_036008779.1  cysteine protease ATG4B isoform X2

      Conserved Domains (1) summary
      pfam03416
      Location:1166
      Peptidase_C54; Peptidase family C54
    2. XM_036152889.1XP_036008782.1  cysteine protease ATG4B isoform X2

      Conserved Domains (1) summary
      pfam03416
      Location:1166
      Peptidase_C54; Peptidase family C54
    3. XM_006529793.4XP_006529856.1  cysteine protease ATG4B isoform X1

      UniProtKB/Swiss-Prot
      Q6ZQ22, Q8BGE6, Q8R098
      Conserved Domains (1) summary
      pfam03416
      Location:1261
      Peptidase_C54; Peptidase family C54

    RNA

    1. XR_004934055.1 RNA Sequence