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CCDST cervical cancer associated DHX9 suppressive transcript [ Homo sapiens (human) ]

Gene ID: 339400, updated on 13-Jan-2024

Summary

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Official Symbol
CCDSTprovided by HGNC
Official Full Name
cervical cancer associated DHX9 suppressive transcriptprovided by HGNC
Primary source
HGNC:HGNC:55988
See related
Ensembl:ENSG00000237975
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
FLG-AS1; LINC02962; lnc-CCDST
Expression
Restricted expression toward skin (RPKM 478.1) See more
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Genomic context

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See CCDST in Genome Data Viewer
Location:
1q21.3
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (152189303..152366692)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (151312870..151503240)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (152285935..152339168)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene pseudouridine 5'-phosphatase pseudogene 2 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:152140032-152141231 Neighboring gene repetin Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:152168785-152169285 Neighboring gene hornerin Neighboring gene filaggrin Neighboring gene ReSE screen-validated silencer GRCh37_chr1:152350237-152350407 Neighboring gene filaggrin 2 Neighboring gene high mobility group nucleosomal binding domain 3 pseudogene 1 Neighboring gene cornulin

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 FLG-AS1 Mitigates Diabetic Retinopathy by Regulating Retinal Epithelial Cell Inflammation, Oxidative Stress, and Apoptosis via miR-380-3p/SOCS6 Axis. Luo R, et al. Inflammation, 2022 Oct. PMID 35461393
  2. Identification of a Novel Six-Long Noncoding RNA Signature for Molecular Diagnosis of Dilated Cardiomyopathy. Zhang H, et al. DNA Cell Biol, 2020 Nov 3. PMID 33146560
  3. Genome-wide association study identifies two new susceptibility loci for atopic dermatitis in the Chinese Han population. Sun LD, et al. Nat Genet, 2011 Jun 12. PMID 21666691
  4. A DHX9-lncRNA-MDM2 interaction regulates cell invasion and angiogenesis of cervical cancer. Ding X, et al. Cell Death Differ, 2019 Sep. PMID 30518908, Free PMC Article
  5. A genome-wide association study of Cloninger's temperament scales: implications for the evolutionary genetics of personality. Verweij KJ, et al. Biol Psychol, 2010 Oct. PMID 20691247, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncRNA FLG-AS1 Mitigates Diabetic Retinopathy by Regulating Retinal Epithelial Cell Inflammation, Oxidative Stress, and Apoptosis via miR-380-3p/SOCS6 Axis.
    Title: LncRNA FLG-AS1 Mitigates Diabetic Retinopathy by Regulating Retinal Epithelial Cell Inflammation, Oxidative Stress, and Apoptosis via miR-380-3p/SOCS6 Axis.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide association study of Cloninger's temperament scales: implications for the evolutionary genetics of personality.
EBI GWAS Catalog
Genetic variants associated with disordered eating.
EBI GWAS Catalog
Genome-wide association study identifies two new susceptibility loci for atopic dermatitis in the Chinese Han population.
EBI GWAS Catalog

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

  • FLG antisense RNA 1 (non-protein coding)
  • cervical cancer DExH-box helicase 9 (DHX9) suppressive transcript
  • long intergenic non-protein coding RNA 2962

Clone Names

  • AL589986.2

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_103778.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AL135842, AL356504

  2. NR_103779.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks multiple 5' exons and contains an alternate 5' exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AL135842, AL356504
    Related
    ENST00000445097.2

  3. NR_186761.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL356504, AL589986, AL627110
    Related
    ENST00000655109.1

  4. NR_186762.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL356504, AL589986
    Related
    ENST00000630125.3

  5. NR_186763.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL356504, AL589986
    Related
    ENST00000669062.1

  6. NR_186764.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL356504, AL589986, AL627110
    Related
    ENST00000664213.1

  7. NR_186765.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL356504, AL589986, AL627110
    Related
    ENST00000659844.1

  8. NR_186766.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL589986

  9. NR_186767.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL589986

  10. NR_186768.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL589986

  11. NR_186769.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL589986

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    152189303..152366692
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    151312870..151503240
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases
Research Materials