LINC01338

Summary

LINC01338 (long intergenic non-protein coding RNA 1338, HGNC:50547) is a long non-coding RNA gene on chromosome 5q14.2.

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:50547
Approved symbol	LINC01338
Name	long intergenic non-protein coding RNA 1338
Location	5q14.2
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000281327
Ensembl biotype	lncRNA
Entrez	102546175
RNAcentral	URS000075A721 — lncRNA, 632 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 16 — 16 lncRNA

ENST00000627179, ENST00000654717, ENST00000687140, ENST00000689277, ENST00000693444, ENST00000701729, ENST00000745103, ENST00000745104, ENST00000745105, ENST00000745106, ENST00000745107, ENST00000745108, ENST00000745109, ENST00000745110, ENST00000745111, ENST00000745112

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000627179 — 4 exons

Exon	Start	End
ENSE00003764142	82854765	82854912
ENSE00003773362	82852011	82852098
ENSE00004084718	82859744	82859969
ENSE00004084723	82849009	82851166

Expression profiles

Bgee: expression breadth broad, 84 present calls, max score 69.24.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.6330 / max 65.2084, expressed in 107 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter ID	TPM avg	Samples expressed
62348	0.3413	83
62349	0.1138	54
62347	0.0829	42
62345	0.0559	29
62346	0.0390	26

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
substantia nigra	UBERON:0002038	69.24	gold quality
hypothalamus	UBERON:0001898	67.88	gold quality
Ammon’s horn	UBERON:0001954	64.92	gold quality
ventricular zone	UBERON:0003053	64.86	gold quality
amygdala	UBERON:0001876	63.93	gold quality
caudate nucleus	UBERON:0001873	63.23	gold quality
nucleus accumbens	UBERON:0001882	62.16	gold quality
ganglionic eminence	UBERON:0004023	60.95	gold quality
putamen	UBERON:0001874	60.80	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	59.91	gold quality
brain	UBERON:0000955	58.65	gold quality
prefrontal cortex	UBERON:0000451	57.77	gold quality
cortical plate	UBERON:0005343	57.01	silver quality
cerebral cortex	UBERON:0000956	55.80	gold quality
corpus callosum	UBERON:0002336	55.68	gold quality
anterior cingulate cortex	UBERON:0009835	54.58	gold quality
frontal cortex	UBERON:0001870	54.23	gold quality
Brodmann (1909) area 9	UBERON:0013540	54.15	gold quality
primary visual cortex	UBERON:0002436	53.72	gold quality
myometrium	UBERON:0001296	52.74	silver quality
dorsolateral prefrontal cortex	UBERON:0009834	52.72	gold quality
multicellular organism	UBERON:0000468	52.44	gold quality
placenta	UBERON:0001987	52.06	gold quality
right lung	UBERON:0002167	52.02	gold quality
right frontal lobe	UBERON:0002810	51.48	gold quality
blood	UBERON:0000178	50.65	gold quality
pancreas	UBERON:0001264	50.01	gold quality
islet of Langerhans	UBERON:0000006	49.93	gold quality
ascending aorta	UBERON:0001496	49.08	gold quality
thoracic aorta	UBERON:0001515	48.79	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.12

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.