LINC01541

Summary

LINC01541 (long intergenic non-protein coding RNA 1541, HGNC:51309) is a long non-coding RNA gene on chromosome 18q22.3.

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:51309
Approved symbol	LINC01541
Name	long intergenic non-protein coding RNA 1541
Location	18q22.3
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000260676
Ensembl biotype	lncRNA
Entrez	100505776
RNAcentral	URS000075EF78 — lncRNA, 3123 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 4 — 4 lncRNA

ENST00000566582, ENST00000568095, ENST00000756952, ENST00000756953

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000566582 — 5 exons

Exon	Start	End
ENSE00002582660	71548599	71548696
ENSE00002613801	71520249	71521082
ENSE00002616080	71578807	71578937
ENSE00002616670	71534214	71534296
ENSE00002628208	71521989	71523256

Expression profiles

Bgee: expression breadth broad, 37 present calls, max score 95.97.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0601 / max 64.7425, expressed in 8 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
172373	0.0278	6
172372	0.0151	3
172371	0.0124	2
208590	0.0048	2

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
endometrium	UBERON:0001295	95.97	gold quality
uterus	UBERON:0000995	82.49	gold quality
endocervix	UBERON:0000458	79.31	gold quality
female reproductive system	UBERON:0000474	69.64	gold quality
decidua	UBERON:0002450	67.35	gold quality
right uterine tube	UBERON:0001302	64.40	gold quality
anterior cingulate cortex	UBERON:0009835	63.76	gold quality
uterine cervix	UBERON:0000002	62.00	gold quality
smooth muscle tissue	UBERON:0001135	61.78	gold quality
body of uterus	UBERON:0009853	60.99	gold quality
oviduct epithelium	UBERON:0004804	60.95	gold quality
adrenal tissue	UBERON:0018303	58.55	gold quality
myometrium	UBERON:0001296	56.78	gold quality
fallopian tube	UBERON:0003889	55.07	gold quality
ganglionic eminence	UBERON:0004023	54.57	silver quality
gall bladder	UBERON:0002110	50.94	gold quality
upper lobe of lung	UBERON:0008948	50.82	silver quality
lower lobe of lung	UBERON:0008949	50.49	silver quality
tibial artery	UBERON:0007610	49.91	gold quality
metanephros cortex	UBERON:0010533	49.75	gold quality
superficial temporal artery	UBERON:0001614	48.58	gold quality
cerebellar vermis	UBERON:0004720	48.32	gold quality
buccal mucosa cell	CL:0002336	48.13	gold quality
placenta	UBERON:0001987	48.05	gold quality
aorta	UBERON:0000947	47.84	gold quality
metanephros	UBERON:0000081	46.90	gold quality
testis	UBERON:0000473	46.77	gold quality
cortex of kidney	UBERON:0001225	46.08	gold quality
anatomical system	UBERON:0000467	45.12	gold quality
multicellular organism	UBERON:0000468	44.74	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 2.

Experiment	Marker?	Max mean expression
E-MTAB-10287	yes	51.71
E-ANND-3	no	0.00

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 2)

• silencing attenuated apoptosis and promoted the epithelial-mesenchymal transition of endometrial stromal cells (PMID:30608887)
• LINC01541 Functions as a ceRNA to Modulate the Wnt/beta-Catenin Pathway by Decoying miR-506-5p in Endometriosis. (PMID:32833189)

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.