LINC02542

Summary

LINC02542 (long intergenic non-protein coding RNA 2542, HGNC:53576) is a long non-coding RNA gene on chromosome 6q14.1.

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:53576
Approved symbol	LINC02542
Name	long intergenic non-protein coding RNA 2542
Location	6q14.1
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000226453
Ensembl biotype	lncRNA
Entrez	102724168
RNAcentral	URS0000BC4554 — lncRNA, 2275 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 26 — 26 lncRNA

ENST00000418567, ENST00000658218, ENST00000660534, ENST00000660637, ENST00000663543, ENST00000665153, ENST00000666226, ENST00000667666, ENST00000668266, ENST00000668303, ENST00000684960, ENST00000702318, ENST00000821209, ENST00000821210, ENST00000821211, ENST00000821212, ENST00000821213, ENST00000821214, ENST00000821215, ENST00000821216, ENST00000821217, ENST00000821218, ENST00000821219, ENST00000821220, ENST00000821221, ENST00000821222

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000418567 — 3 exons

Exon	Start	End
ENSE00001647264	81928857	81928901
ENSE00001682318	81933429	81933578
ENSE00001802829	81844604	81845909

Expression profiles

Bgee: expression breadth ubiquitous, 112 present calls, max score 70.34.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.3523 / max 120.8076, expressed in 78 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter ID	TPM avg	Samples expressed
74534	0.1609	44
74535	0.1189	33
74536	0.0400	12
74537	0.0263	8
204085	0.0062	1

Top tissues by expression

112 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	70.34	gold quality
saliva-secreting gland	UBERON:0001044	70.05	gold quality
tonsil	UBERON:0002372	69.37	gold quality
minor salivary gland	UBERON:0001830	68.41	gold quality
gall bladder	UBERON:0002110	67.88	gold quality
liver	UBERON:0002107	65.92	gold quality
right atrium auricular region	UBERON:0006631	63.42	gold quality
islet of Langerhans	UBERON:0000006	62.64	gold quality
right lobe of liver	UBERON:0001114	62.47	gold quality
heart left ventricle	UBERON:0002084	61.23	gold quality
heart	UBERON:0000948	61.09	gold quality
right coronary artery	UBERON:0001625	58.71	gold quality
urinary bladder	UBERON:0001255	57.85	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	57.69	gold quality
calcaneal tendon	UBERON:0003701	57.48	gold quality
stromal cell of endometrium	CL:0002255	57.00	gold quality
placenta	UBERON:0001987	56.81	gold quality
pancreas	UBERON:0001264	55.79	gold quality
duodenum	UBERON:0002114	55.61	gold quality
esophagus mucosa	UBERON:0002469	55.58	gold quality
small intestine	UBERON:0002108	54.47	gold quality
rectum	UBERON:0001052	54.09	gold quality
left coronary artery	UBERON:0001626	53.87	gold quality
small intestine Peyer’s patch	UBERON:0003454	53.72	gold quality
apex of heart	UBERON:0002098	52.63	gold quality
adrenal tissue	UBERON:0018303	52.60	gold quality
right lung	UBERON:0002167	52.56	gold quality
tibial artery	UBERON:0007610	52.27	gold quality
popliteal artery	UBERON:0002250	52.26	gold quality
monocyte	CL:0000576	51.83	silver quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	3.76

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.