LINC00543

Summary

LINC00543 (long intergenic non-protein coding RNA 543, HGNC:43678) is a long non-coding RNA gene on chromosome 13q12.2.

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:43678
Approved symbol	LINC00543
Name	long intergenic non-protein coding RNA 543
Location	13q12.2
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000260704
Ensembl biotype	lncRNA
Entrez	100132234
RNAcentral	URS0000A76769 — lncRNA, 1838 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 2 lncRNA

ENST00000567234, ENST00000833697

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000567234 — 1 exons

Exon	Start	End
ENSE00002610074	27953526	27955370

Expression profiles

Bgee: expression breadth broad, 73 present calls, max score 74.21.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0325 / max 9.5634, expressed in 12 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
134548	0.0325	12

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
mucosa of transverse colon	UBERON:0004991	74.21	gold quality
duodenum	UBERON:0002114	71.58	gold quality
right lobe of liver	UBERON:0001114	68.83	gold quality
jejunal mucosa	UBERON:0000399	67.65	silver quality
body of pancreas	UBERON:0001150	67.54	gold quality
transverse colon	UBERON:0001157	67.48	gold quality
islet of Langerhans	UBERON:0000006	66.64	gold quality
pancreas	UBERON:0001264	66.50	gold quality
kidney epithelium	UBERON:0004819	64.45	gold quality
pancreatic ductal cell	CL:0002079	63.84	silver quality
colon	UBERON:0001155	62.25	gold quality
ileal mucosa	UBERON:0000331	61.82	silver quality
large intestine	UBERON:0000059	61.51	gold quality
intestine	UBERON:0000160	61.06	gold quality
small intestine	UBERON:0002108	60.02	gold quality
muscle layer of sigmoid colon	UBERON:0035805	59.20	gold quality
adult mammalian kidney	UBERON:0000082	58.46	gold quality
small intestine Peyer’s patch	UBERON:0003454	58.36	gold quality
liver	UBERON:0002107	58.03	gold quality
rectum	UBERON:0001052	56.09	gold quality
jejunum	UBERON:0002115	55.32	silver quality
epithelial cell of pancreas	CL:0000083	55.12	gold quality
cardiac muscle of right atrium	UBERON:0003379	54.34	gold quality
left ventricle myocardium	UBERON:0006566	54.23	gold quality
metanephros cortex	UBERON:0010533	54.14	gold quality
cortex of kidney	UBERON:0001225	53.55	gold quality
upper arm skin	UBERON:0004263	53.52	gold quality
kidney	UBERON:0002113	53.28	gold quality
body of stomach	UBERON:0001161	53.27	gold quality
gall bladder	UBERON:0002110	52.44	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.67

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• LINC00543 promotes colorectal cancer metastasis by driving EMT and inducing the M2 polarization of tumor associated macrophages. (PMID:36841801)

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.