LINC02509

Summary

LINC02509 (long intergenic non-protein coding RNA 2509, HGNC:53498) is a long non-coding RNA gene on chromosome 4q34.3.

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:53498
Approved symbol	LINC02509
Name	long intergenic non-protein coding RNA 2509
Location	4q34.3
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000250263
Ensembl biotype	lncRNA
Entrez	105377556
RNAcentral	URS0000BC4457 — lncRNA, 686 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 8 lncRNA

ENST00000508790, ENST00000661162, ENST00000667277, ENST00000670563, ENST00000769123, ENST00000769124, ENST00000769125, ENST00000769126

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000508790 — 2 exons

Exon	Start	End
ENSE00002036187	176875702	176875853
ENSE00002061850	176880067	176880605

Expression profiles

Bgee: expression breadth broad, 40 present calls, max score 90.77.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0116 / max 7.1226, expressed in 4 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
50710	0.0116	4

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	90.77	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	65.61	gold quality
prefrontal cortex	UBERON:0000451	58.26	gold quality
right testis	UBERON:0004534	54.25	gold quality
left testis	UBERON:0004533	54.20	gold quality
testis	UBERON:0000473	54.15	gold quality
blood	UBERON:0000178	51.85	silver quality
islet of Langerhans	UBERON:0000006	51.04	gold quality
gastrocnemius	UBERON:0001388	50.92	gold quality
multicellular organism	UBERON:0000468	49.80	gold quality
putamen	UBERON:0001874	49.57	gold quality
monocyte	CL:0000576	46.36	silver quality
right coronary artery	UBERON:0001625	44.62	gold quality
adult mammalian kidney	UBERON:0000082	43.54	gold quality
muscle layer of sigmoid colon	UBERON:0035805	43.25	gold quality
tibial artery	UBERON:0007610	43.20	silver quality
omental fat pad	UBERON:0010414	43.17	gold quality
left adrenal gland	UBERON:0001234	42.92	silver quality
subcutaneous adipose tissue	UBERON:0002190	42.51	silver quality
ascending aorta	UBERON:0001496	42.34	silver quality
heart	UBERON:0000948	41.63	silver quality
vagina	UBERON:0000996	41.33	gold quality
thoracic mammary gland	UBERON:0005200	40.29	silver quality
nucleus accumbens	UBERON:0001882	40.10	silver quality
esophagogastric junction muscularis propria	UBERON:0035841	39.41	silver quality
right frontal lobe	UBERON:0002810	39.23	silver quality
caudate nucleus	UBERON:0001873	39.08	silver quality
Ammon’s horn	UBERON:0001954	38.52	silver quality
body of stomach	UBERON:0001161	38.48	silver quality
right atrium auricular region	UBERON:0006631	38.28	silver quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.63

Regulation

Is transcription factor: no

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.