LINC01080

Summary

LINC01080 (long intergenic non-protein coding RNA 1080, HGNC:49123) is a long non-coding RNA gene on chromosome 13q31.1.

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:49123
Approved symbol	LINC01080
Name	long intergenic non-protein coding RNA 1080
Location	13q31.1
Locus type	RNA, long non-coding
Status	Approved
Aliases	TCONS_00021856
Ensembl gene	ENSG00000281721
Ensembl biotype	lncRNA
OMIM	615230
Entrez	101515984
RNAcentral	URS0000759E07 — lncRNA, 622 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 6 — 6 lncRNA

ENST00000627044, ENST00000776551, ENST00000776552, ENST00000776553, ENST00000776554, ENST00000776555

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000627044 — 2 exons

Exon	Start	End
ENSE00003760658	80011077	80011253
ENSE00003769471	80026219	80028283

Expression profiles

Bgee: expression breadth broad, 48 present calls, max score 69.50.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.2068 / max 14.5664, expressed in 80 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
135559	0.2068	80

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
C1 segment of cervical spinal cord	UBERON:0006469	69.50	gold quality
substantia nigra	UBERON:0002038	62.78	gold quality
ventricular zone	UBERON:0003053	59.03	silver quality
hypothalamus	UBERON:0001898	56.73	gold quality
amygdala	UBERON:0001876	56.67	gold quality
blood	UBERON:0000178	55.17	gold quality
prefrontal cortex	UBERON:0000451	55.05	gold quality
Ammon’s horn	UBERON:0001954	54.93	gold quality
ganglionic eminence	UBERON:0004023	54.91	silver quality
corpus callosum	UBERON:0002336	54.74	gold quality
nucleus accumbens	UBERON:0001882	53.76	gold quality
sural nerve	UBERON:0015488	53.47	silver quality
primary visual cortex	UBERON:0002436	52.80	gold quality
putamen	UBERON:0001874	52.77	gold quality
anterior cingulate cortex	UBERON:0009835	52.71	gold quality
brain	UBERON:0000955	52.57	gold quality
caudate nucleus	UBERON:0001873	52.09	gold quality
frontal cortex	UBERON:0001870	51.81	gold quality
cerebral cortex	UBERON:0000956	51.72	gold quality
monocyte	CL:0000576	50.73	silver quality
dorsolateral prefrontal cortex	UBERON:0009834	49.37	gold quality
islet of Langerhans	UBERON:0000006	49.29	silver quality
right frontal lobe	UBERON:0002810	48.23	gold quality
Brodmann (1909) area 9	UBERON:0013540	47.52	gold quality
cerebellar cortex	UBERON:0002129	47.13	gold quality
vermiform appendix	UBERON:0001154	46.99	gold quality
cerebellar hemisphere	UBERON:0002245	46.95	gold quality
right hemisphere of cerebellum	UBERON:0014890	46.70	gold quality
lymph node	UBERON:0000029	46.43	silver quality
superior frontal gyrus	UBERON:0002661	46.27	silver quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.79

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 2)

• This study showed that Lack of association of a genetic variant in the long intergenic noncoding RNA (linc01080) with Alzheimer’s disease and amnestic mild cognitive impairment in Han Chinese. (PMID:25019275)
• Its oncogenic activity is partially due to its repression of p21. and it may be a potential target for HCC therapy. (PMID:27154519)

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.