LINC02609

Summary

LINC02609 (long intergenic non-protein coding RNA 2609, HGNC:27140) is a long non-coding RNA gene on chromosome 1p22.2.

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:27140
Approved symbol	LINC02609
Name	long intergenic non-protein coding RNA 2609
Location	1p22.2
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000233593
Ensembl biotype	lncRNA
Entrez	105378853
RNAcentral	URS0000A77474 — lncRNA, 686 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 44 — 41 lncRNA, 3 retained_intron

ENST00000435649, ENST00000443802, ENST00000455680, ENST00000606660, ENST00000634619, ENST00000635581, ENST00000635959, ENST00000636917, ENST00000637260, ENST00000652632, ENST00000653770, ENST00000655784, ENST00000657053, ENST00000658618, ENST00000659034, ENST00000664159, ENST00000664774, ENST00000666920, ENST00000668679, ENST00000669273, ENST00000670028, ENST00000670363, ENST00000670437, ENST00000671059, ENST00000671243, ENST00000687288, ENST00000702374, ENST00000702398, ENST00000759741, ENST00000759742, ENST00000759743, ENST00000759744, ENST00000759745, ENST00000759746, ENST00000759747, ENST00000759748, ENST00000759749, ENST00000759750, ENST00000759751, ENST00000759752, ENST00000759753, ENST00000759754, ENST00000759755, ENST00000759756

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000435649 — 3 exons

Exon	Start	End
ENSE00003695671	90789398	90789487
ENSE00003788313	90782984	90783423
ENSE00003870732	90831930	90832201

Expression profiles

Bgee: expression breadth ubiquitous, 162 present calls, max score 90.74.

FANTOM5 (CAGE): breadth broad, TPM avg 3.7448 / max 80.8344, expressed in 810 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
13217	3.6999	810
13215	0.0310	4
13216	0.0139	3

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
cerebellar hemisphere	UBERON:0002245	90.74	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	90.61	gold quality
cerebellar cortex	UBERON:0002129	90.52	gold quality
right hemisphere of cerebellum	UBERON:0014890	90.42	gold quality
amygdala	UBERON:0001876	88.31	gold quality
right frontal lobe	UBERON:0002810	87.99	gold quality
left testis	UBERON:0004533	87.78	gold quality
cerebellum	UBERON:0002037	87.15	gold quality
Brodmann (1909) area 9	UBERON:0013540	87.00	gold quality
right lobe of liver	UBERON:0001114	86.34	gold quality
anterior cingulate cortex	UBERON:0009835	86.30	gold quality
spinal cord	UBERON:0002240	86.02	gold quality
right testis	UBERON:0004534	86.02	gold quality
prefrontal cortex	UBERON:0000451	85.19	gold quality
hypothalamus	UBERON:0001898	85.03	gold quality
hindlimb stylopod muscle	UBERON:0004252	84.02	gold quality
testis	UBERON:0000473	83.60	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	82.15	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	81.45	gold quality
body of pancreas	UBERON:0001150	81.04	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	80.97	gold quality
left ovary	UBERON:0002119	79.99	gold quality
right ovary	UBERON:0002118	78.80	gold quality
right adrenal gland cortex	UBERON:0035827	78.69	gold quality
endocervix	UBERON:0000458	78.68	gold quality
neocortex	UBERON:0001950	78.51	gold quality
muscle of leg	UBERON:0001383	78.50	gold quality
left adrenal gland cortex	UBERON:0035825	78.42	gold quality
right adrenal gland	UBERON:0001233	78.33	gold quality
gastrocnemius	UBERON:0001388	78.15	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.27

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• HIF-2alpha/LINC02609/APOL1-mediated lipid storage promotes endoplasmic reticulum homeostasis and regulates tumor progression in clear-cell renal cell carcinoma. (PMID:38263248)

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.