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    OTX2-AS1 OTX2 antisense RNA 1 (head to head) [ Homo sapiens (human) ]

    Gene ID: 100309464, updated on 17-Jun-2024

    Summary

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    Official Symbol
    OTX2-AS1provided by HGNC
    Official Full Name
    OTX2 antisense RNA 1 (head to head)provided by HGNC
    Primary source
    HGNC:HGNC:43906
    See related
    Ensembl:ENSG00000248550 AllianceGenome:HGNC:43906
    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
    OTX2OS1
    Expression
    Low expression observed in reference dataset See more
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    Try the new Transcript table

    Genomic context

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    See OTX2-AS1 in Genome Data Viewer
    Location:
    14q22.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (56812006..56931308)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (51017800..51137188)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (57278724..57398026)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:57260608-57261532 Neighboring gene uncharacterized LOC124903322 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:57263762-57264356 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:57270522-57271360 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:57272200-57273038 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:57278577-57279469 Neighboring gene orthodenticle homeobox 2 Neighboring gene RNA, U6 small nuclear 1204, pseudogene Neighboring gene RNA, 7SL, cytoplasmic 461, pseudogene Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:57313709-57314674 Neighboring gene VISTA enhancer hs1579 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:57361673-57362238 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:57369890-57370816 Neighboring gene VISTA enhancer hs1150 Neighboring gene uncharacterized LOC124903323 Neighboring gene VISTA enhancer hs1218 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:57457567-57457754 Neighboring gene ribosomal protein L3 pseudogene 3 Neighboring gene VISTA enhancer hs1791 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:57496239-57496890 Neighboring gene uncharacterized LOC124903324 Neighboring gene zinc finger CCHC-type containing 7 pseudogene

    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. Upregulation of OTX2-AS1 is Associated With Immune Infiltration and Predicts Prognosis of Gastric Cancer. Han QL, et al. Technol Cancer Res Treat, 2023 Jan-Dec. PMID 36740995, Free PMC Article
    2. Genetic risk variants for metabolic traits in Arab populations. Hebbar P, et al. Sci Rep, 2017 Jan 20. PMID 28106113, Free PMC Article
    3. Methylation status of NEUROG2 and NID2 improves the diagnosis of stage I NSCLC. Geng J, et al. Oncol Lett, 2012 Apr 1. PMID 22741015, Free PMC Article
    4. Results from a Genome-Wide Association Study (GWAS) in Mastocytosis Reveal New Gene Polymorphisms Associated with WHO Subgroups. Nedoszytko B, et al. Int J Mol Sci, 2020 Jul 31. PMID 32752121, Free PMC Article
    5. Natural antisense transcripts associated with genes involved in eye development. Alfano G, et al. Hum Mol Genet, 2005 Apr 1. PMID 15703187

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The long non-coding RNA OTX2-AS1 promotes tumor growth and predicts response to BCL-2 inhibition in medulloblastoma.
      Title: The long non-coding RNA OTX2-AS1 promotes tumor growth and predicts response to BCL-2 inhibition in medulloblastoma.
    2. Upregulation of OTX2-AS1 is Associated With Immune Infiltration and Predicts Prognosis of Gastric Cancer.
      Title: Upregulation of OTX2-AS1 is Associated With Immune Infiltration and Predicts Prognosis of Gastric Cancer.
    3. Results from a Genome-Wide Association Study (GWAS) in Mastocytosis Reveal New Gene Polymorphisms Associated with WHO Subgroups.
      Title: Results from a Genome-Wide Association Study (GWAS) in Mastocytosis Reveal New Gene Polymorphisms Associated with WHO Subgroups.
    Submit: New GeneRIF Correction

    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

    • OTX2 antisense RNA 1 (non-protein coding)
    • Otx2 opposite strand transcript 1

    NCBI Reference Sequences (RefSeq)

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    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.

    RNA

    1. NR_029385.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) has multiple differences, including a 5' end that extends into an intron, resulting in a longer transcript compared to variant 2.
      Source sequence(s)
      AB593040, AL161757, BC041486
      Related
      ENST00000534909.2

    2. NR_146411.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents the shorter variant.
      Source sequence(s)
      AB593041, AL162831

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      56812006..56931308
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      51017800..51137188
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    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