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    ATG4D autophagy related 4D cysteine peptidase [ Sus scrofa (pig) ]

    Gene ID: 100141400, updated on 17-Aug-2024

    Summary

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    Official Symbol
    ATG4Dprovided by VGNC
    Official Full Name
    autophagy related 4D cysteine peptidaseprovided by VGNC
    Primary source
    VGNC:VGNC:85624
    See related
    Ensembl:ENSSSCG00000013645
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Also known as
    APG4D
    Expression
    Ubiquitous expression in heart (RPKM 30.5), psoas major muscle (RPKM 14.5) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See ATG4D in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 2 NC_010444.4 (69320313..69328522)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 2 NC_010444.3 (69706013..69714211)

    Chromosome 2 - NC_010444.4Genomic Context describing neighboring genes Neighboring gene kelch like ECH associated protein 1 Neighboring gene sphingosine-1-phosphate receptor 5 Neighboring gene KRI1 homolog Neighboring gene cyclin dependent kinase inhibitor 2D Neighboring gene adaptor related protein complex 1 subunit mu 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    Related articles in PubMed

    1. Molecular characterization of the porcine TYK2 gene on SSC 2q1.3-->q2.1. Leeb T, et al. Cytogenet Genome Res, 2004. PMID 15305063
    2. Molecular cloning, genomic positioning, promoter identification, and characterization of the novel cyclic amp-specific phosphodiesterase PDE4A10. Rena G, et al. Mol Pharmacol, 2001 May. PMID 11306681
    3. Identification and characterization of the human homologue of the short PDE4A cAMP-specific phosphodiesterase RD1 (PDE4A1) by analysis of the human HSPDE4A gene locus located at chromosome 19p13.2. Sullivan M, et al. Biochem J, 1998 Aug 1. PMID 9677330, Free PMC Article
    4. PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res, 2007 Jan. PMID 17145712, Free PMC Article
    5. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ12949

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables protein-phosphatidylethanolamide deconjugating activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    cysteine protease ATG4D
    Names
    ATG4 autophagy related 4 homolog D
    AUT-like 4, cysteine endopeptidase
    autophagin-4
    autophagy-related protein 4 homolog D
    NP_001116551.1
    XP_005654869.1
    XP_005654870.1
    XP_005654871.1
    XP_013842853.1
    XP_020932361.1

    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_001123079.1 → NP_001116551.1  cysteine protease ATG4D

      See identical proteins and their annotated locations for NP_001116551.1

      Status: PROVISIONAL

      Source sequence(s)
      AJ632303
      UniProtKB/Swiss-Prot
      Q684M2
      UniProtKB/TrEMBL
      A0A8D2BHX7, F1S3M2
      Related
      ENSSSCP00000014504.2, ENSSSCT00000014905.4
      Conserved Domains (1) summary
      pfam03416
      Location:109 → 406
      Peptidase_C54; Peptidase family C54

    RefSeqs of Annotated Genomes: Sus scrofa 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 Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010444.4 Reference Sscrofa11.1 Primary Assembly

      Range
      69320313..69328522
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005654814.3 → XP_005654871.1  cysteine protease ATG4D isoform X4

      See identical proteins and their annotated locations for XP_005654871.1

      UniProtKB/TrEMBL
      A0A481C7G6
      Conserved Domains (1) summary
      pfam03416
      Location:109 → 362
      Peptidase_C54; Peptidase family C54

    2. XM_013987399.2 → XP_013842853.1  cysteine protease ATG4D isoform X4

      UniProtKB/TrEMBL
      A0A481C7G6
      Conserved Domains (1) summary
      pfam03416
      Location:109 → 362
      Peptidase_C54; Peptidase family C54

    3. XM_005654813.3 → XP_005654870.1  cysteine protease ATG4D isoform X2

      UniProtKB/TrEMBL
      A0A8D0W741, A0A8D1LMA5, A0A8D1S2M5
      Conserved Domains (1) summary
      pfam03416
      Location:109 → 414
      Peptidase_C54; Peptidase family C54

    4. XM_005654812.3 → XP_005654869.1  cysteine protease ATG4D isoform X1

      UniProtKB/TrEMBL
      A0A8D0W741, A0A8D1LMA5, A0A8D2ADC4
      Conserved Domains (1) summary
      pfam03416
      Location:109 → 451
      Peptidase_C54; Peptidase family C54

    5. XM_021076702.1 → XP_020932361.1  cysteine protease ATG4D isoform X3

      UniProtKB/TrEMBL
      A0A286ZQ66, A0A8D0TJ99, A0A8D0W8P3, A0A8D1LML6
      Conserved Domains (1) summary
      pfam03416
      Location:109 → 369
      Peptidase_C54; Peptidase family C54
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q684M2.1 GenPept UniProtKB/Swiss-Prot:Q684M2

    Gene LinkOut

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