LINC02539

Summary

LINC02539 (long intergenic non-protein coding RNA 2539, HGNC:53572) is a long non-coding RNA gene on chromosome 6q23.3.

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:53572
Approved symbol	LINC02539
Name	long intergenic non-protein coding RNA 2539
Location	6q23.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	RP11-356I2.2
Ensembl gene	ENSG00000234956
Ensembl biotype	lncRNA
Entrez	100507406
RNAcentral	URS000075BD5C — lncRNA, 804 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 11 — 11 lncRNA

ENST00000411615, ENST00000419220, ENST00000645996, ENST00000668179, ENST00000821781, ENST00000821782, ENST00000821783, ENST00000821784, ENST00000821785, ENST00000821786, ENST00000821787

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000411615 — 3 exons

Exon	Start	End
ENSE00001621111	137731212	137731245
ENSE00001659269	137738709	137738983
ENSE00001748402	137730170	137730597

Expression profiles

Bgee: expression breadth broad, 92 present calls, max score 94.86.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0759 / max 37.7400, expressed in 31 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
204220	0.0469	27
75845	0.0134	2
75847	0.0110	4
75846	0.0046	2

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
adrenal tissue	UBERON:0018303	94.86	gold quality
bone marrow cell	CL:0002092	72.74	gold quality
calcaneal tendon	UBERON:0003701	61.35	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	58.60	gold quality
adrenal gland	UBERON:0002369	58.33	gold quality
left adrenal gland cortex	UBERON:0035825	56.59	gold quality
skeletal muscle tissue	UBERON:0001134	55.22	gold quality
left adrenal gland	UBERON:0001234	54.91	gold quality
urinary bladder	UBERON:0001255	54.41	gold quality
monocyte	CL:0000576	54.15	gold quality
spleen	UBERON:0002106	54.13	gold quality
right adrenal gland cortex	UBERON:0035827	54.09	gold quality
blood	UBERON:0000178	53.70	gold quality
lymph node	UBERON:0000029	53.53	gold quality
pituitary gland	UBERON:0000007	52.60	gold quality
right testis	UBERON:0004534	52.50	gold quality
duodenum	UBERON:0002114	52.20	gold quality
gall bladder	UBERON:0002110	52.02	gold quality
prefrontal cortex	UBERON:0000451	51.88	gold quality
vermiform appendix	UBERON:0001154	51.72	gold quality
testis	UBERON:0000473	51.54	gold quality
left testis	UBERON:0004533	51.37	gold quality
placenta	UBERON:0001987	51.31	gold quality
islet of Langerhans	UBERON:0000006	51.20	gold quality
adenohypophysis	UBERON:0002196	50.40	gold quality
right adrenal gland	UBERON:0001233	50.19	gold quality
muscle of leg	UBERON:0001383	49.52	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	49.40	silver quality
liver	UBERON:0002107	48.81	silver quality
gastrocnemius	UBERON:0001388	48.16	silver quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.42

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.