LINC00499

Summary

LINC00499 (long intergenic non-protein coding RNA 499, HGNC:43436) is a long non-coding RNA gene on chromosome 4q28.3.

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:43436
Approved symbol	LINC00499
Name	long intergenic non-protein coding RNA 499
Location	4q28.3
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000251372
Ensembl biotype	lncRNA
Entrez	100874047
RNAcentral	URS000075B859 — lncRNA, 541 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 59 — 59 lncRNA

ENST00000502757, ENST00000507145, ENST00000510736, ENST00000515282, ENST00000515860, ENST00000653577, ENST00000653944, ENST00000655654, ENST00000656561, ENST00000658827, ENST00000658842, ENST00000659710, ENST00000660826, ENST00000661748, ENST00000662169, ENST00000662372, ENST00000662404, ENST00000662941, ENST00000663030, ENST00000663528, ENST00000664556, ENST00000665940, ENST00000667838, ENST00000669857, ENST00000671213, ENST00000700960, ENST00000701329, ENST00000701560, ENST00000701767, ENST00000701935, ENST00000715556, ENST00000715557, ENST00000750961, ENST00000750962, ENST00000750963, ENST00000750964, ENST00000750965, ENST00000750966, ENST00000750967, ENST00000750968, ENST00000750969, ENST00000750970, ENST00000750971, ENST00000750972, ENST00000750973, ENST00000750974, ENST00000750975, ENST00000750976, ENST00000750977, ENST00000750978, ENST00000750979, ENST00000750980, ENST00000750981, ENST00000750982, ENST00000750983, ENST00000750984, ENST00000750985, ENST00000750986, ENST00000815123

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000502757 — 2 exons

Exon	Start	End
ENSE00002042625	138309711	138309847
ENSE00002052866	138313291	138313720

Expression profiles

Bgee: expression breadth ubiquitous, 129 present calls, max score 83.17.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.2281 / max 57.4145, expressed in 59 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
49707	0.1549	51
49708	0.0732	40

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
amygdala	UBERON:0001876	83.17	gold quality
temporal lobe	UBERON:0001871	82.88	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	82.62	gold quality
putamen	UBERON:0001874	80.75	gold quality
caudate nucleus	UBERON:0001873	79.67	gold quality
anterior cingulate cortex	UBERON:0009835	79.16	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	79.00	gold quality
right frontal lobe	UBERON:0002810	77.02	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	76.95	gold quality
nucleus accumbens	UBERON:0001882	75.30	gold quality
cerebral cortex	UBERON:0000956	75.26	gold quality
Ammon’s horn	UBERON:0001954	75.25	gold quality
Brodmann (1909) area 9	UBERON:0013540	75.25	gold quality
substantia nigra	UBERON:0002038	74.15	gold quality
corpus callosum	UBERON:0002336	74.01	gold quality
frontal cortex	UBERON:0001870	73.24	gold quality
superior frontal gyrus	UBERON:0002661	71.83	gold quality
brain	UBERON:0000955	71.20	gold quality
prefrontal cortex	UBERON:0000451	70.91	gold quality
primary visual cortex	UBERON:0002436	67.10	gold quality
hypothalamus	UBERON:0001898	66.98	gold quality
adrenal tissue	UBERON:0018303	64.84	gold quality
skeletal muscle tissue	UBERON:0001134	64.43	gold quality
sural nerve	UBERON:0015488	63.99	gold quality
calcaneal tendon	UBERON:0003701	63.45	gold quality
colonic epithelium	UBERON:0000397	62.98	silver quality
C1 segment of cervical spinal cord	UBERON:0006469	62.31	gold quality
cortical plate	UBERON:0005343	61.62	gold quality
ganglionic eminence	UBERON:0004023	60.02	gold quality
testis	UBERON:0000473	59.90	gold quality

Single-cell (SCXA)

Detected in 4 experiment(s), a significant marker in 4.

Experiment	Marker?	Max mean expression
E-GEOD-180759	yes	1652.87
E-HCAD-35	yes	69.49
E-HCAD-25	yes	20.43
E-ANND-3	yes	2.76

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.