LINC01549

Summary

LINC01549 (long intergenic non-protein coding RNA 1549, HGNC:1277) is a long non-coding RNA gene on chromosome 21q21.1.

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:1277
Approved symbol	LINC01549
Name	long intergenic non-protein coding RNA 1549
Location	21q21.1
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000232560
Ensembl biotype	lncRNA
Entrez	100505929
RNAcentral	URS000075A936 — lncRNA, 730 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 8 lncRNA

ENST00000440664, ENST00000613691, ENST00000736547, ENST00000736548, ENST00000736549, ENST00000736550, ENST00000736551, ENST00000736552

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000440664 — 4 exons

Exon	Start	End
ENSE00001679869	17444083	17444200
ENSE00001712270	17441677	17441843
ENSE00004070060	17448865	17450104
ENSE00004070061	17438802	17438997

Expression profiles

Bgee: expression breadth ubiquitous, 173 present calls, max score 93.84.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 1.0614 / max 78.1730, expressed in 174 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter ID	TPM avg	Samples expressed
188572	0.4382	133
188569	0.1842	73
188570	0.1665	81
188573	0.1438	83
188571	0.1287	76

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
buccal mucosa cell	CL:0002336	93.84	gold quality
spinal cord	UBERON:0002240	89.98	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	89.72	gold quality
pons	UBERON:0000988	85.98	gold quality
sural nerve	UBERON:0015488	81.69	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	81.43	gold quality
subthalamic nucleus	UBERON:0001906	77.52	gold quality
medial globus pallidus	UBERON:0002477	76.38	gold quality
substantia nigra pars reticulata	UBERON:0001966	75.67	gold quality
medulla oblongata	UBERON:0001896	75.16	gold quality
substantia nigra	UBERON:0002038	74.88	gold quality
inferior vagus X ganglion	UBERON:0005363	74.04	gold quality
midbrain	UBERON:0001891	73.78	gold quality
globus pallidus	UBERON:0001875	71.44	gold quality
corpus callosum	UBERON:0002336	71.13	gold quality
lower esophagus mucosa	UBERON:0035834	68.32	gold quality
substantia nigra pars compacta	UBERON:0001965	68.15	gold quality
parotid gland	UBERON:0001831	68.04	silver quality
cerebellar hemisphere	UBERON:0002245	67.92	gold quality
right hemisphere of cerebellum	UBERON:0014890	67.50	gold quality
cerebellar cortex	UBERON:0002129	67.49	gold quality
mucosa of transverse colon	UBERON:0004991	67.32	gold quality
monocyte	CL:0000576	65.88	gold quality
cerebellum	UBERON:0002037	65.51	gold quality
gall bladder	UBERON:0002110	65.21	gold quality
muscle of leg	UBERON:0001383	65.00	gold quality
dorsal plus ventral thalamus	UBERON:0001897	64.69	gold quality
right lobe of liver	UBERON:0001114	64.65	gold quality
gastrocnemius	UBERON:0001388	64.17	gold quality
left ovary	UBERON:0002119	64.16	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	3.61

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.