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    THAP9-AS1 THAP9 antisense RNA 1 [ Homo sapiens (human) ]

    Gene ID: 100499177, updated on 10-Dec-2024

    Summary

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    Official Symbol
    THAP9-AS1provided by HGNC
    Official Full Name
    THAP9 antisense RNA 1provided by HGNC
    Primary source
    HGNC:HGNC:44172
    See related
    Ensembl:ENSG00000251022 AllianceGenome:HGNC:44172
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    Predicted to act upstream of or within response to wounding. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in bone marrow (RPKM 18.2), thyroid (RPKM 14.2) and 25 other tissues See more
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    Genomic context

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    See THAP9-AS1 in Genome Data Viewer
    Location:
    4q21.22
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (82893452..82900916, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (86222673..86230135, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (83814605..83822069, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene stearoyl-CoA desaturase 5 Neighboring gene uncharacterized LOC124900727 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15533 Neighboring gene microRNA 575 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr4:83718175-83718696 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15534 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:83719673-83720390 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:83720391-83721107 Neighboring gene SEC31 homolog A, COPII coat complex component Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:83821333-83821852 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:83821853-83822372 Neighboring gene small nucleolar RNA, C/D box 143 Neighboring gene small nucleolar RNA, C/D box 144 Neighboring gene THAP domain containing 9 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:83887737-83887940 Neighboring gene lin-54 DREAM MuvB core complex component Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21666 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21667 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21668 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15537 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:83933797-83934682 Neighboring gene RNA, U6 small nuclear 615, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21670 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21671 Neighboring gene Sharpr-MPRA regulatory region 7954 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21673 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21674 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:83956719-83957224 Neighboring gene COP9 signalosome subunit 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
    • 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. LncRNA THAP9-AS1 highly expressed in tissues of hepatocellular carcinoma and accelerates tumor cell proliferation. Su Y, et al. Clin Res Hepatol Gastroenterol, 2022 Dec. PMID 36170961
    2. The role of long noncoding RNA THAP9-AS1 in the osteogenic differentiation of dental pulp stem cells via the miR-652-3p/VEGFA axis. Wang J, et al. Eur J Oral Sci, 2021 Aug. PMID 34288157
    3. Regional localization of 10 mariner transposon-like ESTs by means of FISH--evidence for a correlation with fragile sites. Liehr T, et al. Mamm Genome, 2001 Apr. PMID 11309667
    4. Long Noncoding RNA THAP9-AS1 and TSPOAP1-AS1 Provide Potential Diagnostic Signatures for Pediatric Septic Shock. Wu Y, et al. Biomed Res Int, 2020. PMID 33344646, Free PMC Article
    5. Molecular evolution of the second ancient human mariner transposon, Hsmar2, illustrates patterns of neutral evolution in the human genome lineage. Robertson HM, et al. Gene, 1997 Dec 31. PMID 9461396

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. THAP9-AS1 promotes nasopharyngeal carcinoma progression through targeted regulation of the miR-185-5p/SOX13 axis.
      Title: THAP9-AS1 promotes nasopharyngeal carcinoma progression through targeted regulation of the miR-185-5p/SOX13 axis.
    2. LncRNA THAP9-AS1 highly expressed in tissues of hepatocellular carcinoma and accelerates tumor cell proliferation.
      Title: LncRNA THAP9-AS1 highly expressed in tissues of hepatocellular carcinoma and accelerates tumor cell proliferation.
    3. The role of long noncoding RNA THAP9-AS1 in the osteogenic differentiation of dental pulp stem cells via the miR-652-3p/VEGFA axis.
      Title: The role of long noncoding RNA THAP9-AS1 in the osteogenic differentiation of dental pulp stem cells via the miR-652-3p/VEGFA axis.
    4. Long Noncoding RNA THAP9-AS1 and TSPOAP1-AS1 Provide Potential Diagnostic Signatures for Pediatric Septic Shock.
      Title: Long Noncoding RNA THAP9-AS1 and TSPOAP1-AS1 Provide Potential Diagnostic Signatures for Pediatric Septic Shock.
    5. lncRNA THAP9-AS1 Promotes Pancreatic Ductal Adenocarcinoma Growth and Leads to a Poor Clinical Outcome via Sponging miR-484 and Interacting with YAP.
      Title: lncRNA THAP9-AS1 Promotes Pancreatic Ductal Adenocarcinoma Growth and Leads to a Poor Clinical Outcome via Sponging miR-484 and Interacting with YAP.
    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)

    General gene information

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    Markers

    Readthrough SEC31A

    Readthrough gene: SEC31A

    Other Names

    • THAP9 antisense RNA 1 (non-protein coding)

    Clone Names

    • FLJ46167, FLJ46752

    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_034075.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) is the longest transcript.
      Source sequence(s)
      AC021105, BM742750, DA084883, DA923162

    2. NR_034076.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal small exon, as compared to variant 1.
      Source sequence(s)
      AC021105, BI831787, BM742750
      Related
      ENST00000504520.6

    3. NR_034077.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two consecutive internal exons, as compared to variant 1.
      Source sequence(s)
      AC021105, BM742750, DA084883, DA361777

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      82893452..82900916 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      86222673..86230135 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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    Research Materials