PCAT29

Summary

PCAT29 (prostate cancer associated transcript 29, HGNC:50895) is a long non-coding RNA gene on chromosome 15q23.

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.

Source: NCBI Gene 104472713 — RefSeq curated summary.

At a glance

• GWAS associations: 1

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:50895
Approved symbol	PCAT29
Name	prostate cancer associated transcript 29
Location	15q23
Locus type	RNA, long non-coding
Status	Approved
OMIM	616273
Entrez	104472713
RNAcentral	URS00007E45D7 — lncRNA, 694 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 0

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

None — 0 exons

Expression profiles

Top tissues by expression

0 total, by Bgee expression score (0-100, higher = more expressed):

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 7)

• IL-6/STAT3/miR-21 pathway mediates tonic suppression of PCAT29 expression and function; Inhibition of this signaling pathway by resveratrol (PMID:28467474)
• Long non-coding RNA PCAT29 regulates the growth, migration and invasion of human triple-negative breast cancer cells. (PMID:32521844)
• LncRNA PCAT29 Up-Regulates the Expression of PTEN by Down-Regulating miR-494 in Non-Small-Cell Lung Cancer to Suppress Tumor Progression. (PMID:34936288)
• miR-21 Targets Long Noncoding RNA PCAT29 to Promote Cell Proliferation in Neuroblastoma. (PMID:36017911)
• SCARA5 as a downstream factor of PCAT29, inhibits proliferation, migration, and invasion of bladder cancer. (PMID:37315873)
• MicroRNA-155 downregulates long noncoding RNA prostate cancer-associated transcript 29 in hepatocellular carcinoma to suppress cancer cell invasion and migration. (PMID:37661808)
• The expression analysis of long noncoding RNAs PCAT-1, PCAT-29, and MER11C in bipolar disorder. (PMID:39044190)

Cross-species orthologs

0 orthologs

Protein

Protein identifiers

Canonical reviewed UniProt: None (reviewed: )

All UniProt accessions (0):

RefSeq proteins (0): (*=MANE)

Domains & families (InterPro)

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 0 (showing top):

GO Biological Process (0):

GO Molecular Function (0):

GO Cellular Component (0):

Protein interactions and networks

STRING

0 interactions, top by confidence (×1000):

IntAct

0 interactions, top by confidence:

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

0 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	0
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

0 predictions. Top by Δscore:

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000013926 (15:69683990 A>G), RS1000047397 (15:69684256 G>A), RS1000049767 (15:69672648 C>T), RS1000075736 (15:69695985 C>T), RS1000104809 (15:69690404 A>C), RS1000106533 (15:69625534 T>C,G), RS1000139232 (15:69650993 G>C), RS1000170593 (15:69650721 TTTTG>T), RS1000189267 (15:69609750 C>T), RS1000228105 (15:69695674 C>T), RS1000231653 (15:69603357 A>T), RS1000249684 (15:69657009 T>A), RS1000277747 (15:69591119 C>G,T), RS1000290091 (15:69652138 C>A), RS1000308365 (15:69695850 C>A)

Disease associations

OMIM: gene MIM:616273 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

1 associations (top):

Study	Trait	p-value
GCST003468_16	Chronic lymphocytic leukemia	4.000000e-18

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 0 entries

CTD chemical–gene interactions

4 total (human), top 4 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
aflatoxin B2	increases methylation	1
Benzo(a)pyrene	decreases expression	1
N-Nitrosopyrrolidine	decreases expression	1
Rotenone	increases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.