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

Gene ID: 104472713, updated on 25-Dec-2023

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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Location:
15q23
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (69592200..69695750)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (67414278..67517876)
105.20220307 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: 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 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. miR-21 Targets Long Noncoding RNA PCAT29 to Promote Cell Proliferation in Neuroblastoma. Jiang Z, et al. Crit Rev Eukaryot Gene Expr, 2022. PMID 36017911

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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.
  3. 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.
  4. 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.
  5. 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.
  6. 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)

Genotypes

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_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
    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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