LINC02109

Summary

LINC02109 (long intergenic non-protein coding RNA 2109, HGNC:52964) is a long non-coding RNA gene on chromosome 5p13.3.

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:52964
Approved symbol	LINC02109
Name	long intergenic non-protein coding RNA 2109
Location	5p13.3
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000259786
Ensembl biotype	lncRNA
Entrez	101929660
RNAcentral	URS00008121D8 — lncRNA, 2073 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 30 — 30 lncRNA

ENST00000565798, ENST00000602470, ENST00000602740, ENST00000602801, ENST00000623067, ENST00000629527, ENST00000656794, ENST00000656922, ENST00000658190, ENST00000661619, ENST00000664117, ENST00000666790, ENST00000669295, ENST00000671215, ENST00000837513, ENST00000837514, ENST00000837515, ENST00000837516, ENST00000837517, ENST00000837518, ENST00000837519, ENST00000837520, ENST00000837521, ENST00000837522, ENST00000837523, ENST00000837524, ENST00000837525, ENST00000849544, ENST00000849545, ENST00000849546

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000565798 — 8 exons

Exon	Start	End
ENSE00001920009	29172043	29172358
ENSE00002581855	29164417	29164514
ENSE00002596712	29169560	29169586
ENSE00002599944	29145748	29145874
ENSE00002615712	29162416	29162590
ENSE00003284082	29153459	29153733
ENSE00003348924	29164930	29164984
ENSE00003860924	29143498	29143729

Expression profiles

Bgee: expression breadth ubiquitous, 112 present calls, max score 81.27.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0107 / max 10.3750, expressed in 3 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
55945	0.0107	3

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
left testis	UBERON:0004533	81.27	gold quality
testis	UBERON:0000473	80.72	gold quality
right testis	UBERON:0004534	80.18	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	78.47	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	75.42	gold quality
hindlimb stylopod muscle	UBERON:0004252	73.19	gold quality
placenta	UBERON:0001987	68.23	gold quality
skeletal muscle tissue	UBERON:0001134	63.90	gold quality
colonic epithelium	UBERON:0000397	63.56	silver quality
lymph node	UBERON:0000029	62.26	gold quality
corpus callosum	UBERON:0002336	61.62	gold quality
ventricular zone	UBERON:0003053	61.19	gold quality
calcaneal tendon	UBERON:0003701	60.74	gold quality
islet of Langerhans	UBERON:0000006	58.94	gold quality
ganglionic eminence	UBERON:0004023	58.77	gold quality
mucosa of transverse colon	UBERON:0004991	58.23	gold quality
liver	UBERON:0002107	58.07	gold quality
monocyte	CL:0000576	57.72	gold quality
prefrontal cortex	UBERON:0000451	57.04	gold quality
muscle of leg	UBERON:0001383	56.22	gold quality
blood	UBERON:0000178	56.04	gold quality
pancreas	UBERON:0001264	54.81	gold quality
gall bladder	UBERON:0002110	54.17	gold quality
gastrocnemius	UBERON:0001388	53.92	gold quality
descending thoracic aorta	UBERON:0002345	53.43	gold quality
right lobe of liver	UBERON:0001114	53.26	gold quality
tonsil	UBERON:0002372	53.16	gold quality
rectum	UBERON:0001052	53.10	gold quality
endocervix	UBERON:0000458	52.36	gold quality
vermiform appendix	UBERON:0001154	51.26	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.49

Regulation

Is transcription factor: no

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.