LINC02500

Summary

LINC02500 (long intergenic non-protein coding RNA 2500, HGNC:53488) 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:53488
Approved symbol	LINC02500
Name	long intergenic non-protein coding RNA 2500
Location	4q34.3
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000249460
Ensembl biotype	lncRNA
Entrez	101928679
RNAcentral	URS0000BC45A4 — lncRNA, 638 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 3 — 3 lncRNA

ENST00000512547, ENST00000668509, ENST00000743815

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000512547 — 2 exons

Exon	Start	End
ENSE00002027864	181261161	181261568
ENSE00002081932	181264945	181265029

Expression profiles

Bgee: expression breadth broad, 70 present calls, max score 70.99.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0282 / max 13.4790, expressed in 13 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
55071	0.0282	13

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
adrenal tissue	UBERON:0018303	70.99	gold quality
apex of heart	UBERON:0002098	70.38	gold quality
heart left ventricle	UBERON:0002084	69.62	gold quality
heart	UBERON:0000948	65.98	gold quality
nucleus accumbens	UBERON:0001882	61.55	gold quality
caudate nucleus	UBERON:0001873	59.93	gold quality
prefrontal cortex	UBERON:0000451	57.33	gold quality
adrenal gland	UBERON:0002369	56.54	gold quality
putamen	UBERON:0001874	55.43	gold quality
brain	UBERON:0000955	53.13	gold quality
Ammon’s horn	UBERON:0001954	52.99	gold quality
blood	UBERON:0000178	52.72	gold quality
monocyte	CL:0000576	52.70	gold quality
gall bladder	UBERON:0002110	52.40	gold quality
frontal cortex	UBERON:0001870	52.29	gold quality
multicellular organism	UBERON:0000468	52.03	gold quality
corpus callosum	UBERON:0002336	51.82	gold quality
primary visual cortex	UBERON:0002436	51.75	gold quality
cerebral cortex	UBERON:0000956	51.60	gold quality
Brodmann (1909) area 9	UBERON:0013540	50.99	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	50.74	gold quality
anterior cingulate cortex	UBERON:0009835	50.72	gold quality
right atrium auricular region	UBERON:0006631	50.65	gold quality
superior frontal gyrus	UBERON:0002661	50.46	gold quality
kidney	UBERON:0002113	49.80	silver quality
pancreas	UBERON:0001264	49.00	silver quality
prostate gland	UBERON:0002367	48.68	gold quality
hypothalamus	UBERON:0001898	48.34	gold quality
gastrocnemius	UBERON:0001388	48.08	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	47.89	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.14

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.