LINC00052

Summary

LINC00052 (long intergenic non-protein coding RNA 52, HGNC:26455) is a long non-coding RNA gene on chromosome 15q25.3.

Predicted to be located in membrane.

Source: NCBI Gene 145978 — RefSeq curated summary.

At a glance

• Gene type: non-coding (lncRNA) — no protein product; not a drug target. Variant/disease associations are omitted (they would be positional, from an overlapping protein-coding gene).

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:26455
Approved symbol	LINC00052
Name	long intergenic non-protein coding RNA 52
Location	15q25.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	FLJ31461
Ensembl gene	ENSG00000259527
Ensembl biotype	lncRNA
Entrez	145978
RNAcentral	URS000004E371 — lncRNA, 1786 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 2 lncRNA

ENST00000560153, ENST00000785746

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000560153 — 3 exons

Exon	Start	End
ENSE00002542019	87577710	87577764
ENSE00004161849	87578075	87579866
ENSE00004161850	87576927	87577047

Expression profiles

Bgee: expression breadth broad, 21 present calls, max score 79.28.

FANTOM5 (CAGE): breadth broad, TPM avg 6.9623 / max 258.7318, expressed in 306 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
148268	6.9123	306
148267	0.0500	34

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	79.28	gold quality
ventricular zone	UBERON:0003053	57.89	silver quality
mucosa of paranasal sinus	UBERON:0005030	54.72	gold quality
hindlimb stylopod muscle	UBERON:0004252	53.95	silver quality
adenohypophysis	UBERON:0002196	51.91	gold quality
buccal mucosa cell	CL:0002336	51.85	silver quality
skin of hip	UBERON:0001554	49.77	silver quality
muscle of leg	UBERON:0001383	49.61	gold quality
pituitary gland	UBERON:0000007	48.48	gold quality
adrenal gland	UBERON:0002369	47.64	gold quality
gastrocnemius	UBERON:0001388	47.18	gold quality
tibial nerve	UBERON:0001323	45.29	gold quality
adult mammalian kidney	UBERON:0000082	44.51	silver quality
upper lobe of lung	UBERON:0008948	44.16	silver quality
cortex of kidney	UBERON:0001225	43.74	silver quality
lower lobe of lung	UBERON:0008949	43.59	silver quality
skeletal muscle tissue of rectus abdominis	UBERON:0004511	43.37	gold quality
omental fat pad	UBERON:0010414	42.78	gold quality
vagina	UBERON:0000996	42.71	silver quality
secondary oocyte	CL:0000655	42.57	gold quality
ovary	UBERON:0000992	42.53	silver quality
peritoneum	UBERON:0002358	42.11	gold quality
blood	UBERON:0000178	42.09	gold quality
forebrain	UBERON:0001890	41.45	gold quality
vastus lateralis	UBERON:0001379	41.41	gold quality
quadriceps femoris	UBERON:0001377	41.37	gold quality
prefrontal cortex	UBERON:0000451	41.35	gold quality
superficial temporal artery	UBERON:0001614	41.33	gold quality
lung	UBERON:0002048	41.31	gold quality
brain	UBERON:0000955	41.22	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	2.95

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 9)

• LINC00052 could regulate NTRK3 expression by forming complementary base pairing with miR-128 and miR-485-3p to reduce the luciferase activity of NTRK3 3’UTR. (PMID:27351280)
• High LINC00052 levels predict activation of HER3-mediated signaling, promoting breast cancer growth. (PMID:28036286)
• Study found a positive relationship between LINC00052 and miR-101-3p, and a negative relationship between miR-101-3p and SOX9 in hepatocellular carcinoma (HCC) tissues. Besides, miR-101-3p was involved in LINC00052 inhibiting HCC cells proliferation and metastasis. At the molecular level, LINC00052 downgulated SOX9 to inhibit HCC cells proliferation and metastasis by interacting with miR-101-3p. (PMID:30098428)
• our data indicated that the LINC00052 also remarkably suppressed pancreatic tumor growth via modulating miR-330-3p in vivo (PMID:30712321)
• Long noncoding RNA LINC00052 suppressed the proliferation, migration and invasion of glioma cells by upregulating KLF6. (PMID:31210314)
• tumor spheroids can induce changes in the transcriptome of cultured cells, including deregulation of linc00052 in breast cancer (PMID:31301772)
• LINC00052 ameliorates acute kidney injury by sponging miR-532-3p and activating the Wnt signaling pathway. (PMID:33231561)
• Long Non-Coding RNA LINC00052 Targets miR-548p/Notch2/Pyk2 to Modulate Tumor Budding and Metastasis of Human Breast Cancer. (PMID:35918619)
• Decoding LINC00052 role in breast cancer by bioinformatic and experimental analyses. (PMID:38832821)

Cross-species orthologs

0 orthologs

Protein

Non-coding RNA — no protein product; not a drug target.

Function

No curated pathway, Gene-Ontology, or interaction data.

Disease & clinical

No curated disease, variant, or cancer-driver associations.

Drugs & pharmacology

No drug or pharmacology data — not an established drug target.