LINC00390

Summary

LINC00390 (long intergenic non-protein coding RNA 390, HGNC:42718) is a long non-coding RNA gene on chromosome 13q14.11.

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:42718
Approved symbol	LINC00390
Name	long intergenic non-protein coding RNA 390
Location	13q14.11
Locus type	RNA, long non-coding
Status	Approved
Aliases	TCONS_00021641
Ensembl gene	ENSG00000226519
Ensembl biotype	lncRNA
Entrez	105370183
RNAcentral	URS00008E39F6 — lncRNA, 819 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 13 — 13 lncRNA

ENST00000400419, ENST00000415082, ENST00000432331, ENST00000654658, ENST00000655583, ENST00000661100, ENST00000662947, ENST00000664794, ENST00000667227, ENST00000686681, ENST00000691095, ENST00000718401, ENST00000718452

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000400419 — 3 exons

Exon	Start	End
ENSE00001542806	44143150	44143922
ENSE00001542808	44160603	44160931
ENSE00004034987	44161145	44161257

Expression profiles

Bgee: expression breadth ubiquitous, 120 present calls, max score 79.53.

FANTOM5 (CAGE): breadth broad, TPM avg 1.2336 / max 38.8104, expressed in 502 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
137030	1.0416	487
137032	0.1017	41
137031	0.0903	36

Top tissues by expression

120 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	79.53	gold quality
skeletal muscle tissue	UBERON:0001134	70.70	gold quality
superior frontal gyrus	UBERON:0002661	69.90	gold quality
hindlimb stylopod muscle	UBERON:0004252	68.32	gold quality
testis	UBERON:0000473	67.03	gold quality
left testis	UBERON:0004533	67.00	gold quality
right testis	UBERON:0004534	66.68	gold quality
muscle of leg	UBERON:0001383	66.16	gold quality
prefrontal cortex	UBERON:0000451	66.11	gold quality
gastrocnemius	UBERON:0001388	66.08	gold quality
frontal cortex	UBERON:0001870	65.45	gold quality
anterior cingulate cortex	UBERON:0009835	64.30	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	64.16	gold quality
right frontal lobe	UBERON:0002810	63.92	gold quality
Brodmann (1909) area 9	UBERON:0013540	63.33	gold quality
cerebral cortex	UBERON:0000956	63.08	gold quality
duodenum	UBERON:0002114	62.58	gold quality
cortical plate	UBERON:0005343	62.21	gold quality
apex of heart	UBERON:0002098	61.53	gold quality
mucosa of transverse colon	UBERON:0004991	61.21	gold quality
small intestine	UBERON:0002108	59.06	gold quality
ganglionic eminence	UBERON:0004023	59.02	gold quality
bone marrow	UBERON:0002371	58.37	gold quality
small intestine Peyer’s patch	UBERON:0003454	58.07	gold quality
temporal lobe	UBERON:0001871	58.03	gold quality
amygdala	UBERON:0001876	57.90	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	57.58	silver quality
heart left ventricle	UBERON:0002084	56.90	gold quality
liver	UBERON:0002107	56.82	gold quality
kidney	UBERON:0002113	56.19	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.30

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.