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    GABARAPL3 GABA type A receptor associated protein like 3 (pseudogene) [ Homo sapiens (human) ]

    Gene ID: 23766, updated on 28-Oct-2024

    Summary

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    Official Symbol
    GABARAPL3provided by HGNC
    Official Full Name
    GABA type A receptor associated protein like 3 (pseudogene)provided by HGNC
    Primary source
    HGNC:HGNC:4069
    See related
    AllianceGenome:HGNC:4069
    Gene type
    pseudo
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ATG8D
    Summary
    Predicted to enable GABA receptor binding activity; phosphatidylethanolamine binding activity; and ubiquitin protein ligase binding activity. Predicted to be involved in autophagy of mitochondrion; cellular response to nitrogen starvation; and macroautophagy. Predicted to be located in cytoplasmic vesicle; membrane; and microtubule. Predicted to be active in autophagosome membrane. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See GABARAPL3 in Genome Data Viewer
    Location:
    15q26.1
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (90346527..90349447, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (88102539..88105459, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (90889759..90892679, complement)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr15:90830396-90830960 Neighboring gene NIFK pseudogene 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:90836448-90836948 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:90836949-90837449 Neighboring gene RNA, 7SL, cytoplasmic 736, pseudogene Neighboring gene GOLGA2 pseudogene 8 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:90843353-90843545 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:90843890-90844650 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10074 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10075 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10076 Neighboring gene zinc finger protein 774 Neighboring gene Sharpr-MPRA regulatory region 12979 Neighboring gene NADH:ubiquinone oxidoreductase subunit A3 pseudogene 4

    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 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. Cloning, expression patterns, and chromosome localization of three human and two mouse homologues of GABA(A) receptor-associated protein. Xin Y, et al. Genomics, 2001 Jun 15. PMID 11414770
    2. Meta-analysis identifies nine new loci associated with rheumatoid arthritis in the Japanese population. Okada Y, et al. Nat Genet, 2012 Mar 25. PMID 22446963
    3. Systematic identification of NF90 target RNAs by iCLIP analysis. Lodde V, et al. Sci Rep, 2022 Jan 10. PMID 35013429, Free PMC Article
    4. Oncogenic functions of protein kinase D2 and D3 in regulating multiple cancer-related pathways in breast cancer. Liu Y, et al. Cancer Med, 2019 Feb. PMID 30652415, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Meta-analysis identifies nine new loci associated with rheumatoid arthritis in the Japanese population.
    EBI GWAS Catalog

    Variation

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    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Other Names

    • GABA(A) receptors associated protein like 3, pseudogene

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables GABA receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylethanolamine binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in autophagosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome maturation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cellular response to nitrogen starvation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mitophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in autophagosome membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in microtubule IEA
    Inferred from Electronic Annotation
    more info
    		  

    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.

    RNA

    1. NR_028287.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC018946

    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_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      90346527..90349447 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      88102539..88105459 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NG_005645.2: Suppressed sequence

      Description
      NG_005645.2: This RefSeq was permanently suppressed because it is now thought that this pseudogene is transcribed.

    2. NM_032568.1: Suppressed sequence

      Description
      NM_032568.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BY60.1 GenPept UniProtKB/Swiss-Prot:Q9BY60

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials