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    APPAT atherosclerotic plaque pathogenesis associated transcript [ Homo sapiens (human) ]

    Gene ID: 100506123, updated on 28-Oct-2024

    Summary

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    Official Symbol
    APPATprovided by HGNC
    Official Full Name
    atherosclerotic plaque pathogenesis associated transcriptprovided by HGNC
    Primary source
    HGNC:HGNC:56009
    See related
    AllianceGenome:HGNC:56009
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    LINC02969
    Expression
    Broad expression in testis (RPKM 17.4), bone marrow (RPKM 7.1) and 21 other tissues See more
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    Genomic context

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    See APPAT in Genome Data Viewer
    Location:
    2q11.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (97416165..97424027, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (97923384..97931229, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (97949672..97957534)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene immunoglobulin kappa variable 2/OR2-10 (pseudogene) Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97987861-97988361 Neighboring gene immunoglobulin kappa variable 1/OR2-11 (pseudogene) Neighboring gene uncharacterized LOC107985920 Neighboring gene ankyrin repeat domain 36B Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:98206492-98206992 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:98222123-98222979 Neighboring gene uncharacterized LOC105373499

    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. Expression status and clinical significance of lncRNA APPAT in the progression of atherosclerosis. Meng F, et al. PeerJ, 2018. PMID 29372117, Free PMC Article
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    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)

    Genotypes

    General gene information

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    Markers

    Other Names

    • long intergenic non-protein coding RNA 2969

    Clone Names

    • AC092683.1, AC159540.1

    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.

    RNA

    1. NR_130704.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      BC032409, BM979402

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      97416165..97424027 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_025791765.1 Reference GRCh38.p14 PATCHES

      Range
      390959..398808 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      97923384..97931229 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NR_040097.2: Suppressed sequence

      Description
      NR_040097.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
    Nucleotide Protein
    Heading Accession and Version

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