LINC00506

Summary

LINC00506 (long intergenic non-protein coding RNA 506, HGNC:43557) is a long non-coding RNA gene on chromosome 3p12.1.

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:43557
Approved symbol	LINC00506
Name	long intergenic non-protein coding RNA 506
Location	3p12.1
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000281392
Ensembl biotype	lncRNA
Entrez	100846978
RNAcentral	URS000075D758 — lncRNA, 4300 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 25 — 25 lncRNA

ENST00000628435, ENST00000629052, ENST00000629295, ENST00000630120, ENST00000656042, ENST00000702100, ENST00000774840, ENST00000774841, ENST00000774842, ENST00000774843, ENST00000774844, ENST00000774845, ENST00000774846, ENST00000774847, ENST00000774848, ENST00000774849, ENST00000774850, ENST00000774851, ENST00000774852, ENST00000774853, ENST00000774854, ENST00000774855, ENST00000774856, ENST00000774857, ENST00000774858

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000628435 — 3 exons

Exon	Start	End
ENSE00003761889	87089303	87089607
ENSE00003768893	87136185	87136324
ENSE00003773326	87140273	87140352

Expression profiles

Bgee: expression breadth ubiquitous, 131 present calls, max score 86.93.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.3260 / max 36.6681, expressed in 134 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
37440	0.3260	134

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	86.93	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	74.71	gold quality
calcaneal tendon	UBERON:0003701	71.02	gold quality
bone marrow cell	CL:0002092	70.32	silver quality
cortical plate	UBERON:0005343	68.68	gold quality
colonic epithelium	UBERON:0000397	67.84	silver quality
body of uterus	UBERON:0009853	67.73	gold quality
descending thoracic aorta	UBERON:0002345	66.85	gold quality
thoracic aorta	UBERON:0001515	66.70	gold quality
ascending aorta	UBERON:0001496	66.64	gold quality
myometrium	UBERON:0001296	66.12	gold quality
right coronary artery	UBERON:0001625	65.74	gold quality
superior frontal gyrus	UBERON:0002661	65.57	gold quality
nucleus accumbens	UBERON:0001882	65.24	gold quality
ovary	UBERON:0000992	64.92	gold quality
left ovary	UBERON:0002119	64.84	gold quality
popliteal artery	UBERON:0002250	64.55	gold quality
tibial artery	UBERON:0007610	64.52	gold quality
tibial nerve	UBERON:0001323	64.36	gold quality
endometrium	UBERON:0001295	64.20	gold quality
right ovary	UBERON:0002118	63.96	gold quality
prefrontal cortex	UBERON:0000451	63.94	gold quality
ganglionic eminence	UBERON:0004023	63.63	gold quality
Brodmann (1909) area 9	UBERON:0013540	63.23	gold quality
frontal cortex	UBERON:0001870	63.17	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	62.99	gold quality
cerebral cortex	UBERON:0000956	62.98	gold quality
Ammon’s horn	UBERON:0001954	62.98	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	62.91	gold quality
caudate nucleus	UBERON:0001873	62.81	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.00

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.