LINC02820

Summary

LINC02820 (long intergenic non-protein coding RNA 2820, HGNC:54351) is a long non-coding RNA gene on chromosome 12q21.31.

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:54351
Approved symbol	LINC02820
Name	long intergenic non-protein coding RNA 2820
Location	12q21.31
Locus type	RNA, long non-coding
Status	Approved
Aliases	lnc-ALX1-2
Ensembl gene	ENSG00000258815
Ensembl biotype	lncRNA
Entrez	105369876
RNAcentral	URS00026A2768 — lncRNA, 5152 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 30 — 30 lncRNA

ENST00000555596, ENST00000795857, ENST00000795858, ENST00000795859, ENST00000795860, ENST00000795861, ENST00000795862, ENST00000795863, ENST00000795864, ENST00000795865, ENST00000795866, ENST00000795867, ENST00000795868, ENST00000795869, ENST00000795870, ENST00000795871, ENST00000795872, ENST00000795873, ENST00000795874, ENST00000795875, ENST00000795876, ENST00000795877, ENST00000795878, ENST00000795879, ENST00000795880, ENST00000795881, ENST00000795882, ENST00000795883, ENST00000795884, ENST00000795885

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000555596 — 3 exons

Exon	Start	End
ENSE00002501543	85318060	85318115
ENSE00002504116	85318958	85318979
ENSE00002504266	85342472	85342912

Expression profiles

Bgee: expression breadth broad, 81 present calls, max score 81.12.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0444 / max 71.7422, expressed in 3 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
127186	0.0287	3
127187	0.0071	1
127188	0.0052	1
127189	0.0033	1

Top tissues by expression

81 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	81.12	gold quality
placenta	UBERON:0001987	71.06	gold quality
uterine cervix	UBERON:0000002	68.01	silver quality
amygdala	UBERON:0001876	66.61	gold quality
anterior cingulate cortex	UBERON:0009835	66.21	gold quality
urinary bladder	UBERON:0001255	58.87	gold quality
monocyte	CL:0000576	58.31	gold quality
duodenum	UBERON:0002114	57.67	gold quality
islet of Langerhans	UBERON:0000006	57.56	gold quality
lymph node	UBERON:0000029	56.57	gold quality
right lobe of liver	UBERON:0001114	56.09	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	55.56	gold quality
tonsil	UBERON:0002372	55.54	gold quality
pancreas	UBERON:0001264	55.41	gold quality
cortex of kidney	UBERON:0001225	55.23	gold quality
tibial artery	UBERON:0007610	54.69	gold quality
blood	UBERON:0000178	53.76	gold quality
vermiform appendix	UBERON:0001154	53.61	gold quality
cerebral cortex	UBERON:0000956	53.38	gold quality
muscle of leg	UBERON:0001383	52.84	gold quality
kidney	UBERON:0002113	52.26	gold quality
right hemisphere of cerebellum	UBERON:0014890	52.23	gold quality
Ammon’s horn	UBERON:0001954	52.14	gold quality
vagina	UBERON:0000996	51.63	gold quality
prostate gland	UBERON:0002367	51.33	gold quality
gastrocnemius	UBERON:0001388	51.23	gold quality
transverse colon	UBERON:0001157	49.53	gold quality
left ovary	UBERON:0002119	49.28	gold quality
mucosa of transverse colon	UBERON:0004991	49.22	gold quality
esophagus mucosa	UBERON:0002469	48.86	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.30

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• Novel long noncoding RNA LINC02820 augments TNF signaling pathway to remodel cytoskeleton and potentiate metastasis in esophageal squamous cell carcinoma. (PMID:36357564)

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.