LINC01088

Summary

LINC01088 (long intergenic non-protein coding RNA 1088, HGNC:49148) is a long non-coding RNA gene on chromosome 4q21.21.

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:49148
Approved symbol	LINC01088
Name	long intergenic non-protein coding RNA 1088
Location	4q21.21
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000249307
Ensembl biotype	lncRNA
Entrez	100505875
RNAcentral	URS000075B361 — lncRNA, 1011 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 40 — 40 lncRNA

ENST00000437737, ENST00000505149, ENST00000507476, ENST00000507761, ENST00000509088, ENST00000510667, ENST00000511241, ENST00000511895, ENST00000512130, ENST00000513153, ENST00000515597, ENST00000651041, ENST00000653314, ENST00000658852, ENST00000669293, ENST00000670100, ENST00000671503, ENST00000692734, ENST00000833402, ENST00000833403, ENST00000833404, ENST00000833405, ENST00000833406, ENST00000833407, ENST00000833408, ENST00000833409, ENST00000833410, ENST00000833411, ENST00000833412, ENST00000833413, ENST00000833414, ENST00000833415, ENST00000833416, ENST00000833417, ENST00000833418, ENST00000833419, ENST00000833420, ENST00000833421, ENST00000833422, ENST00000833423

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000437737 — 2 exons

Exon	Start	End
ENSE00002053778	79244684	79245532
ENSE00002081197	79211681	79211804

Expression profiles

Bgee: expression breadth ubiquitous, 200 present calls, max score 96.49.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 6.1669 / max 804.4681, expressed in 944 samples.

FANTOM5 promoters (18 alternative TSS)

Promoter ID	TPM avg	Samples expressed
48493	0.9417	31
48480	0.9177	367
48481	0.7131	375
48485	0.6220	114
48483	0.5223	117
48484	0.5154	133
48489	0.4761	111
48496	0.4341	75
48488	0.2960	90
48482	0.2411	98

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
popliteal artery	UBERON:0002250	96.49	gold quality
tibial artery	UBERON:0007610	96.47	gold quality
tibial nerve	UBERON:0001323	93.24	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	92.95	gold quality
substantia nigra	UBERON:0002038	92.52	gold quality
spinal cord	UBERON:0002240	92.34	gold quality
hypothalamus	UBERON:0001898	92.13	gold quality
aorta	UBERON:0000947	91.09	gold quality
midbrain	UBERON:0001891	90.53	gold quality
mucosa of stomach	UBERON:0001199	88.87	gold quality
left coronary artery	UBERON:0001626	88.68	gold quality
substantia nigra pars reticulata	UBERON:0001966	88.25	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	88.03	gold quality
right coronary artery	UBERON:0001625	87.99	gold quality
sural nerve	UBERON:0015488	87.35	gold quality
coronary artery	UBERON:0001621	87.29	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	86.96	gold quality
lower esophagus muscularis layer	UBERON:0035833	86.90	gold quality
lower esophagus	UBERON:0013473	86.80	gold quality
left uterine tube	UBERON:0001303	86.39	gold quality
medial globus pallidus	UBERON:0002477	85.86	gold quality
calcaneal tendon	UBERON:0003701	85.83	gold quality
descending thoracic aorta	UBERON:0002345	85.77	gold quality
thoracic aorta	UBERON:0001515	84.48	gold quality
endocervix	UBERON:0000458	84.12	gold quality
ascending aorta	UBERON:0001496	84.05	gold quality
globus pallidus	UBERON:0001875	83.64	gold quality
prostate gland	UBERON:0002367	82.98	gold quality
ventral tegmental area	UBERON:0002691	82.55	gold quality
body of uterus	UBERON:0009853	82.50	gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 3.

Experiment	Marker?	Max mean expression
E-GEOD-180759	yes	2733.43
E-HCAD-25	yes	1419.45
E-ANND-3	yes	29.75

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 4)

• LINC01088 might function as a tumor suppressor, inhibiting the tumorigenesis of ovarian epithelial cells through LINC01088/ miR-24-1-5p/ PAK4 axis (PMID:29440672)
• Low LINC01088 expression was associated with the progression of epithelial ovarian cancer. (PMID:30280763)
• Upregulated LINC01088 facilitates malignant phenotypes and immune escape of colorectal cancer by regulating microRNAs/G3BP1/PD-L1 axis. (PMID:35357586)
• Long noncoding RNA LINC01088 inhibits esophageal squamous cell carcinoma progression by targeting the NPM1-HDM2-p53 axis. (PMID:36942988)

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.