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HTR2A-AS1 HTR2A antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 100874082, updated on 10-Oct-2023

Summary

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Official Symbol
HTR2A-AS1provided by HGNC
Official Full Name
HTR2A antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:40289
See related
Ensembl:ENSG00000224517 AllianceGenome:HGNC:40289
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Low expression observed in reference dataset See more
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Genomic context

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Location:
13q14.2
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (46852140..46856299)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (46073365..46077525)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (47426275..47430434)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984563 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:47370431-47371032 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7713 Neighboring gene esterase D Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7714 Neighboring gene 5-hydroxytryptamine receptor 2A Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5328 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr13:47508534-47509733 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr13:47521457-47522281 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5329 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7715 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7716 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:47676673-47677872 Neighboring gene uncharacterized LOC105370195 Neighboring gene G protein subunit gamma 5 pseudogene 5

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. Genomic structure and expression of the human serotonin 2A receptor gene (HTR2A) locus: identification of novel HTR2A and antisense (HTR2A-AS1) exons. Ruble CL, et al. BMC Genet, 2016 Jan 6. PMID 26738766, Free PMC Article
  2. Pharmacogenetic analysis of the mGlu2/3 agonist LY2140023 monohydrate in the treatment of schizophrenia. Liu W, et al. Pharmacogenomics J, 2012 Jun. PMID 21173788

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. human HTR2A gene spans ~66 kilobases and consists of 7, rather than 4 exons; Furthermore, the revised human HTR2A-AS1 gene spans ~474 kilobases and consists of 18, rather than 3 exons
    Title: Genomic structure and expression of the human serotonin 2A receptor gene (HTR2A) locus: identification of novel HTR2A and antisense (HTR2A-AS1) exons.
  2. Human HTR2A-AS1 gene spans ~474 kilobases and consists of 18, rather than 3 exons. Three HTR2A exons directly overlap with HTR2A-AS1 exons. A mouse Htr2a-as1 was also identified and the mouse expresses antisense isoforms that overlap sense-encoded exons of Htr2a at similar positions as the human transcripts.
    Title: Genomic structure and expression of the human serotonin 2A receptor gene (HTR2A) locus: identification of novel HTR2A and antisense (HTR2A-AS1) exons.
  3. Antisense gene is expressed in the frontal cortex (as determined by PCR). Some associated SNPS are present within exonic regions of the antisense gene.
    Title: Pharmacogenetic analysis of the mGlu2/3 agonist LY2140023 monohydrate in the treatment of schizophrenia.
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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Other Names

  • HTR2A antisense RNA 1 (non-protein coding)

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_046612.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AL160397
    Related
    ENST00000430913.2

  2. NR_103752.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AL160397
    Related
    ENST00000455126.5

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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    46852140..46856299
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    46073365..46077525
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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