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

Gene ID: 100309464, updated on 12-Dec-2023

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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Genomic context

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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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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

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Chemical Information
Molecular Biology Databases