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    PCAT29 prostate cancer associated transcript 29 [ Homo sapiens (human) ]

    Gene ID: 104472713, updated on 10-Dec-2024

    Summary

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    Official Symbol
    PCAT29provided by HGNC
    Official Full Name
    prostate cancer associated transcript 29provided by HGNC
    Primary source
    HGNC:HGNC:50895
    See related
    Ensembl:ENSG00000245750 MIM:616273; AllianceGenome:HGNC:50895
    Gene type
    ncRNA
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    This gene is thought to produce a functional long non-coding RNA. This transcript was identified in prostate cancer cells and may suppress tumor formation. [provided by RefSeq, Feb 2015]
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See PCAT29 in Genome Data Viewer
    Location:
    15q23
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (69592200..69695750)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (67414278..67517876)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (69884539..69988089)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U3 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr15:69754627-69755133 and GRCh37_chr15:69755134-69755641 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9657 Neighboring gene long intergenic non-protein coding RNA 2896 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:69791851-69792352 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9658 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr15:69818533-69819113 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr15:69819114-69819694 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:69850399-69850902 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:69850903-69851404 Neighboring gene uncharacterized LOC124903517 Neighboring gene downregulated RNA in cancer, inhibitor of cell invasion and migration Neighboring gene Sharpr-MPRA regulatory region 11672 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:69938726-69939304 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:69957399-69958014 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:69958631-69959245 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9661 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9662 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_40793 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6601 Neighboring gene uncharacterized LOC107984788 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9663 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:70086634-70087136 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:70090778-70091977 Neighboring gene gem nuclear organelle associated protein 8 pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. LncRNA PCAT29 Up-Regulates the Expression of PTEN by Down-Regulating miR-494 in Non-Small-Cell Lung Cancer to Suppress Tumor Progression. Lu B, et al. Crit Rev Eukaryot Gene Expr, 2021. PMID 34936288
    2. Long non-coding RNA PCAT29 regulates the growth, migration and invasion of human triple-negative breast cancer cells. Lu C, et al. J BUON, 2020 Mar-Apr. PMID 32521844
    3. Tonic suppression of PCAT29 by the IL-6 signaling pathway in prostate cancer: Reversal by resveratrol. Al Aameri RFH, et al. PLoS One, 2017. PMID 28467474, Free PMC Article
    4. The lncRNA PCAT29 inhibits oncogenic phenotypes in prostate cancer. Malik R, et al. Mol Cancer Res, 2014 Aug. PMID 25030374, Free PMC Article
    5. The expression analysis of long noncoding RNAs PCAT-1, PCAT-29, and MER11C in bipolar disorder. Dini N, et al. BMC Psychiatry, 2024 Jul 23. PMID 39044190, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The expression analysis of long noncoding RNAs PCAT-1, PCAT-29, and MER11C in bipolar disorder.
      Title: The expression analysis of long noncoding RNAs PCAT-1, PCAT-29, and MER11C in bipolar disorder.
    2. MicroRNA-155 downregulates long noncoding RNA prostate cancer-associated transcript 29 in hepatocellular carcinoma to suppress cancer cell invasion and migration.
      Title: MicroRNA-155 downregulates long noncoding RNA prostate cancer-associated transcript 29 in hepatocellular carcinoma to suppress cancer cell invasion and migration.
    3. SCARA5 as a downstream factor of PCAT29, inhibits proliferation, migration, and invasion of bladder cancer.
      Title: SCARA5 as a downstream factor of PCAT29, inhibits proliferation, migration, and invasion of bladder cancer.
    4. miR-21 Targets Long Noncoding RNA PCAT29 to Promote Cell Proliferation in Neuroblastoma.
      Title: miR-21 Targets Long Noncoding RNA PCAT29 to Promote Cell Proliferation in Neuroblastoma.
    5. LncRNA PCAT29 Up-Regulates the Expression of PTEN by Down-Regulating miR-494 in Non-Small-Cell Lung Cancer to Suppress Tumor Progression.
      Title: LncRNA PCAT29 Up-Regulates the Expression of PTEN by Down-Regulating miR-494 in Non-Small-Cell Lung Cancer to Suppress Tumor Progression.
    6. Long non-coding RNA PCAT29 regulates the growth, migration and invasion of human triple-negative breast cancer cells.
      Title: Long non-coding RNA PCAT29 regulates the growth, migration and invasion of human triple-negative breast cancer cells.
    7. IL-6/STAT3/miR-21 pathway mediates tonic suppression of PCAT29 expression and function; Inhibition of this signaling pathway by resveratrol
      Title: Tonic suppression of PCAT29 by the IL-6 signaling pathway in prostate cancer: Reversal by resveratrol.
    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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    Other Names

    • prostate cancer associated transcript 29 (non-protein coding)

    Clone Names

    • FLJ40583

    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_126437.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. This variant is based on experimental data in PMID: 25030374.
      Source sequence(s)
      AC009677, AC100826

    2. NR_126438.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks three internal exons, and contains an alternate internal exon, resulting in a shorter transcript than variant 1.
      Source sequence(s)
      AA635443, AC100826, CA312547
      Related
      ENST00000560655.5

    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_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      69592200..69695750
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      67414278..67517876
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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