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THSD4-AS1 THSD4 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 101929196, updated on 10-Oct-2023

Summary

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Official Symbol
THSD4-AS1provided by HGNC
Official Full Name
THSD4 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:51420
See related
Ensembl:ENSG00000259964 AllianceGenome:HGNC:51420
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
Restricted expression toward brain (RPKM 1.8) See more
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Genomic context

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Location:
15q23
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (71166812..71189059, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (68990093..69012348, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (71459151..71481398, complement)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6610 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:71407710-71407887 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6613 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:71412420-71412936 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:71446356-71447555 Neighboring gene thrombospondin type 1 domain containing 4 Neighboring gene cancer/testis associated 62 Neighboring gene Sharpr-MPRA regulatory region 1499 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:71491544-71492044 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:71492045-71492545 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr15:71494990-71495834 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr15:71495835-71496677 Neighboring gene high mobility group box 1 pseudogene 6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:71515768-71516268 Neighboring gene uncharacterized LOC105370884 Neighboring gene uncharacterized LOC124903521 Neighboring gene uncharacterized LOC124903520

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. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, 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

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_120348.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    DA243226, DA296094

  2. NR_120349.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two alternate internal exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    DA243226, DA296094, DA798087

  3. NR_120350.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site at an internal exon, and lacks an internal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    DA243226, DA296094, DA302156

  4. NR_120351.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an alternate internal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    DA243226, DA296094, DN992601
    Related
    ENST00000668533.1

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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    71166812..71189059 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    68990093..69012348 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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