LINC01096

Summary

LINC01096 (long intergenic non-protein coding RNA 1096, HGNC:27739) is a long non-coding RNA gene on chromosome 4p15.33.

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:27739
Approved symbol	LINC01096
Name	long intergenic non-protein coding RNA 1096
Location	4p15.33
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000246095
Ensembl biotype	lncRNA
Entrez	285548
RNAcentral	URS000075C993 — lncRNA, 1749 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 4 — 4 lncRNA

ENST00000501050, ENST00000503938, ENST00000834473, ENST00000834474

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000501050 — 2 exons

Exon	Start	End
ENSE00001973095	13547582	13547801
ENSE00001986664	13546076	13547118

Expression profiles

Bgee: expression breadth ubiquitous, 103 present calls, max score 89.34.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.3205 / max 53.2280, expressed in 126 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
51414	0.1772	73
51415	0.0906	41
51417	0.0349	3
51416	0.0178	6

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
left testis	UBERON:0004533	89.34	gold quality
right testis	UBERON:0004534	88.64	gold quality
testis	UBERON:0000473	87.08	gold quality
sperm	CL:0000019	83.71	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	79.93	gold quality
adult organism	UBERON:0007023	79.61	gold quality
muscle layer of sigmoid colon	UBERON:0035805	66.35	gold quality
tibialis anterior	UBERON:0001385	64.17	silver quality
pancreatic ductal cell	CL:0002079	63.68	silver quality
calcaneal tendon	UBERON:0003701	59.21	gold quality
hindlimb stylopod muscle	UBERON:0004252	58.72	gold quality
parotid gland	UBERON:0001831	58.58	gold quality
monocyte	CL:0000576	58.05	gold quality
tibia	UBERON:0000979	57.90	silver quality
colon	UBERON:0001155	57.82	gold quality
transverse colon	UBERON:0001157	57.17	gold quality
large intestine	UBERON:0000059	57.01	gold quality
intestine	UBERON:0000160	55.97	gold quality
epithelial cell of pancreas	CL:0000083	55.10	gold quality
cardiac muscle of right atrium	UBERON:0003379	54.34	gold quality
left ventricle myocardium	UBERON:0006566	54.23	gold quality
right lobe of liver	UBERON:0001114	54.02	gold quality
kidney epithelium	UBERON:0004819	53.93	gold quality
upper arm skin	UBERON:0004263	53.52	gold quality
deltoid	UBERON:0001476	53.09	gold quality
body of stomach	UBERON:0001161	52.75	gold quality
buccal mucosa cell	CL:0002336	52.70	silver quality
gastrocnemius	UBERON:0001388	52.54	gold quality
smooth muscle tissue	UBERON:0001135	51.80	gold quality
omental fat pad	UBERON:0010414	51.53	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.82

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• LINC01096 knockdown inhibits progression of triple-negative breast cancer by increasing miR-3130-3p. (PMID:31539132)

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.