U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Atg13 autophagy related 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362164, updated on 2-Nov-2024

    Summary

    Official Symbol
    Atg13provided by RGD
    Official Full Name
    autophagy related 13provided by RGD
    Primary source
    RGD:1310685
    See related
    EnsemblRapid:ENSRNOG00000016984 AllianceGenome:RGD:1310685
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Harbi1; Harbi1l; RGD1310685
    Summary
    Predicted to enable protein kinase binding activity and protein serine/threonine kinase activator activity. Predicted to be involved in several processes, including macroautophagy; positive regulation of protein targeting to mitochondrion; and response to mitochondrial depolarisation. Predicted to act upstream of or within autophagosome assembly. Predicted to be located in mitochondrion. Predicted to be part of Atg1/ULK1 kinase complex. Predicted to be active in autophagosome; cytosol; and phagophore assembly site membrane. Orthologous to human ATG13 (autophagy related 13). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 136.3), Adrenal (RPKM 116.7) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Atg13 in Genome Data Viewer
    Location:
    3q24
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (98102831..98136741, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (77647069..77681028, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (80580549..80614554, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene coagulation factor II, thrombin Neighboring gene zinc finger protein 408 Neighboring gene Rho GTPase activating protein 1 Neighboring gene harbinger transposase derived 1 Neighboring gene autophagy and beclin 1 regulator 1 Neighboring gene uncharacterized LOC134486121

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protein kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein kinase regulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein serine/threonine kinase activator activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within autophagosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in autophagosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in biological_process ND
    No biological Data available
    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 negative regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in piecemeal microautophagy of the nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of autophagy ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein targeting to mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in protein localization to phagophore assembly site IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of protein lipidation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to mitochondrial depolarisation ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of Atg1/ULK1 kinase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of Atg1/ULK1 kinase complex ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in autophagosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in phagophore assembly site IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in phagophore assembly site ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in phagophore assembly site membrane ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    autophagy-related protein 13
    Names
    ATG13 autophagy related 13 homolog
    harbinger transposase derived 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_001271212.1NP_001258141.1  autophagy-related protein 13

      See identical proteins and their annotated locations for NP_001258141.1

      Status: VALIDATED

      Source sequence(s)
      CB774831, FQ217242
      UniProtKB/TrEMBL
      A6HNE1, D3ZA45
      Related
      ENSRNOP00000022841.8, ENSRNOT00000022841.9
      Conserved Domains (1) summary
      pfam10033
      Location:19195
      ATG13; Autophagy-related protein 13

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      98102831..98136741 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)