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    ATG10 autophagy related 10 [ Homo sapiens (human) ]

    Gene ID: 83734, updated on 27-Nov-2024

    Summary

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    Official Symbol
    ATG10provided by HGNC
    Official Full Name
    autophagy related 10provided by HGNC
    Primary source
    HGNC:HGNC:20315
    See related
    Ensembl:ENSG00000152348 MIM:610800; AllianceGenome:HGNC:20315
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    APG10; APG10L; pp12616
    Summary
    Autophagy is a process for the bulk degradation of cytosolic compartments by lysosomes. ATG10 is an E2-like enzyme involved in 2 ubiquitin-like modifications essential for autophagosome formation: ATG12 (MIM 609608)-ATG5 (MIM 604261) conjugation and modification of a soluble form of MAP-LC3 (MAP1LC3A; MIM 601242), a homolog of yeast Apg8, to a membrane-bound form (Nemoto et al., 2003 [PubMed 12890687]).[supplied by OMIM, Mar 2008]
    Expression
    Ubiquitous expression in testis (RPKM 1.1), thyroid (RPKM 0.8) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See ATG10 in Genome Data Viewer
    Location:
    5q14.1-q14.2
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (81972023..82256133)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (82456197..82741920)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (81267842..81551952)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107986385 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22733 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr5:81147710-81148560 Neighboring gene uncharacterized LOC124901018 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22734 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:81196818-81197416 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:81197417-81198014 Neighboring gene SEM1 pseudogene 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:81267375-81267932 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:81267933-81268488 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:81275893-81276450 Neighboring gene Sharpr-MPRA regulatory region 409 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr5:81278121-81278678 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr5:81278679-81279234 Neighboring gene VISTA enhancer hs1432 Neighboring gene peptidylprolyl isomerase A pseudogene 11 Neighboring gene RNA, 7SL, cytoplasmic 378, pseudogene Neighboring gene Sharpr-MPRA regulatory region 9633 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22735 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:81569855-81570549 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:81570550-81571243 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22736 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:81589318-81590120 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:81590121-81590923 Neighboring gene ATPase H+ transporting accessory protein 1 like (pseudogene) Neighboring gene ribosomal protein S23

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Increased expression of ATG10 in colorectal cancer is associated with lymphovascular invasion and lymph node metastasis. Jo YK, et al. PLoS One, 2012. PMID 23285162, Free PMC Article
    2. Beta-adrenergic-receptor-mediated suppression of interleukin 2 receptors in human lymphocytes. Feldman RD, et al. J Immunol, 1987 Nov 15. PMID 2890687
    3. Potentially functional polymorphisms in ATG10 are associated with risk of breast cancer in a Chinese population. Qin Z, et al. Gene, 2013 Sep 25. PMID 23850577
    4. Role of ATG10 expression quantitative trait loci in non-small cell lung cancer survival. Xie K, et al. Int J Cancer, 2016 Oct 1. PMID 27225307
    5. Differential Effects of Autophagy-Related 10 Protein on HCV Replication and Autophagy Flux Are Mediated by Its Cysteine(44) and Cysteine(135). Zhang MQ, et al. Front Immunol, 2018. PMID 30319633, Free PMC Article

    See all (45) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. METTL3 mediates m6A modification of lncRNA CRNDE to promote ATG10 expression and improve brain ischemia/reperfusion injury through YTHDC1.
      Title: METTL3 mediates m6A modification of lncRNA CRNDE to promote ATG10 expression and improve brain ischemia/reperfusion injury through YTHDC1.
    2. Association of ATG10 rs1864183, ATG16L1 rs2241880 and miR-126 with esophageal cancer.
      Title: Association of ATG10 rs1864183, ATG16L1 rs2241880 and miR-126 with esophageal cancer.
    3. Long noncoding RNA SNHG1 alleviates high glucose-induced vascular smooth muscle cells calcification/senescence by post-transcriptionally regulating Bhlhe40 and autophagy via Atg10.
      Title: Long noncoding RNA SNHG1 alleviates high glucose-induced vascular smooth muscle cells calcification/senescence by post-transcriptionally regulating Bhlhe40 and autophagy via Atg10.
    4. The prognostic value of autophagy related genes with potential protective function in Ewing sarcoma.
      Title: The prognostic value of autophagy related genes with potential protective function in Ewing sarcoma.
    5. Analysis of rs1864182 and rs1864183 variants in ATG10 gene and antineutrophil cytoplasmic autoantibody-associated vasculitis in Chinese Guangxi population.
      Title: Analysis of rs1864182 and rs1864183 variants in ATG10 gene and antineutrophil cytoplasmic autoantibody-associated vasculitis in Chinese Guangxi population.
    6. A study on the potential role of autophagy-related protein 10 as a biomarker for ulcerative colitis.
      Title: A study on the potential role of autophagy-related protein 10 as a biomarker for ulcerative colitis.
    7. A new transcription factor ATG10S activates IFNL2 transcription by binding at an IRF1 site in HepG2 cells.
      Title: A new transcription factor ATG10S activates IFNL2 transcription by binding at an IRF1 site in HepG2 cells.
    8. Results found ATG10 rs10514231 was significantly associated with the occurrence of grade 3-4 oral mucositis and myelosuppression in nasopharyngeal carcinoma (NPC) patients treated with radiotherapy.
      Title: Potentially functional variants of autophagy-related genes are associated with the efficacy and toxicity of radiotherapy in patients with nasopharyngeal carcinoma.
    9. findings provide important information for understanding the differential roles on HCV replication and autophagy flux between ATG10 and ATG10S, and how the structure-function relationship of ATG10 transformed by a single -SH group loss on Cys(44) and Cys(135) in ATG10 protein, which may be a new target against HCV replication.
      Title: Differential Effects of Autophagy-Related 10 Protein on HCV Replication and Autophagy Flux Are Mediated by Its Cysteine(44) and Cysteine(135).
    10. ATG10, a canonical long isoform in autophagy process, can facilitate hepatitis C virus-subgenomic replicon amplification by promoting autophagosome formation and by combining with and detaining autophagosomes in cellular periphery, causing impaired autophagy flux.
      Title: Dual Roles of Two Isoforms of Autophagy-related Gene ATG10 in HCV-Subgenomic replicon Mediated Autophagy Flux and Innate Immunity.
    Submit: New GeneRIF Correction See all GeneRIFs (17)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ13954, DKFZp586I0418

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables Atg12 conjugating enzyme activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables Atg12 conjugating enzyme activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables Atg12 transferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in ER overload response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in autophagosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in autophagy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mitophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of protein modification process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein lipidation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein modification by small protein conjugation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein modification by small protein conjugation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    ubiquitin-like-conjugating enzyme ATG10
    Names
    APG10 autophagy 10-like
    ATG10 autophagy related 10 homolog
    autophagy-related protein 10

    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_001131028.2 → NP_001124500.1  ubiquitin-like-conjugating enzyme ATG10

      See identical proteins and their annotated locations for NP_001124500.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) is the longer transcript. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC010598, AC114969, AI436652, AK225969, AL136912
      Consensus CDS
      CCDS4057.1
      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842
      UniProtKB/TrEMBL
      D6RDX3
      Related
      ENSP00000404938.3, ENST00000458350.7
      Conserved Domains (1) summary
      pfam03987
      Location:100 → 167
      Autophagy_act_C; Autophagocytosis associated protein, active-site domain

    2. NM_031482.5 → NP_113670.1  ubiquitin-like-conjugating enzyme ATG10

      See identical proteins and their annotated locations for NP_113670.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 5' UTR, as compared to variant 1.
      Source sequence(s)
      AC010598, AC114969, AI436652, AK225969, BC029268
      Consensus CDS
      CCDS4057.1
      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842
      UniProtKB/TrEMBL
      D6RDX3
      Related
      ENSP00000282185.3, ENST00000282185.8
      Conserved Domains (1) summary
      pfam03987
      Location:100 → 167
      Autophagy_act_C; Autophagocytosis associated protein, active-site domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      81972023..82256133
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047417800.1 → XP_047273756.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842

    2. XM_047417803.1 → XP_047273759.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

    3. XM_017009944.2 → XP_016865433.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

      UniProtKB/TrEMBL
      D6RDX3
      Conserved Domains (1) summary
      pfam03987
      Location:64 → 131
      Autophagy_act_C; Autophagocytosis associated protein, active-site domain

    4. XM_005248612.4 → XP_005248669.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

      UniProtKB/TrEMBL
      D6RDX3
      Conserved Domains (1) summary
      pfam03987
      Location:64 → 131
      Autophagy_act_C; Autophagocytosis associated protein, active-site domain

    5. XM_047417798.1 → XP_047273754.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842

    6. XM_047417802.1 → XP_047273758.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

    7. XM_005248611.6 → XP_005248668.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      See identical proteins and their annotated locations for XP_005248668.1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842
      UniProtKB/TrEMBL
      D6RDX3
      Conserved Domains (1) summary
      pfam03987
      Location:100 → 167
      Autophagy_act_C; Autophagocytosis associated protein, active-site domain

    8. XM_047417799.1 → XP_047273755.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842
      Related
      ENSP00000425225.1, ENST00000513634.1

    9. XM_005248610.6 → XP_005248667.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      See identical proteins and their annotated locations for XP_005248667.1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842
      UniProtKB/TrEMBL
      D6RDX3
      Conserved Domains (1) summary
      pfam03987
      Location:100 → 167
      Autophagy_act_C; Autophagocytosis associated protein, active-site domain

    10. XM_047417801.1 → XP_047273757.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

    11. XM_011543660.3 → XP_011541962.1  ubiquitin-like-conjugating enzyme ATG10 isoform X3

      Conserved Domains (1) summary
      pfam03987
      Location:58 → 125
      Autophagy_act_C; Autophagocytosis associated protein, active-site domain

    12. XM_011543661.3 → XP_011541963.1  ubiquitin-like-conjugating enzyme ATG10 isoform X4

      Conserved Domains (1) summary
      pfam03987
      Location:30 → 97
      Autophagy_act_C; Autophagocytosis associated protein, active-site domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      82456197..82741920
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054353610.1 → XP_054209585.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842

    2. XM_054353615.1 → XP_054209590.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

    3. XM_054353612.1 → XP_054209587.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

    4. XM_054353611.1 → XP_054209586.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

    5. XM_054353606.1 → XP_054209581.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842

    6. XM_054353614.1 → XP_054209589.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

    7. XM_054353608.1 → XP_054209583.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842

    8. XM_054353609.1 → XP_054209584.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842

    9. XM_054353607.1 → XP_054209582.1  ubiquitin-like-conjugating enzyme ATG10 isoform X1

      UniProtKB/Swiss-Prot
      B2RE09, Q6PIX1, Q9H0Y0, Q9H842

    10. XM_054353613.1 → XP_054209588.1  ubiquitin-like-conjugating enzyme ATG10 isoform X2

    11. XM_054353616.1 → XP_054209591.1  ubiquitin-like-conjugating enzyme ATG10 isoform X3

    12. XM_054353617.1 → XP_054209592.1  ubiquitin-like-conjugating enzyme ATG10 isoform X4

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9H0Y0.1 GenPept UniProtKB/Swiss-Prot:Q9H0Y0

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