LINC00393

Summary

LINC00393 (long intergenic non-protein coding RNA 393, HGNC:42721) is a long non-coding RNA gene on chromosome 13q22.1.

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:42721
Approved symbol	LINC00393
Name	long intergenic non-protein coding RNA 393
Location	13q22.1
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000224853
Ensembl biotype	lncRNA
Entrez	100874156
RNAcentral	URS00026A1F16 — lncRNA, 958 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 21 — 21 lncRNA

ENST00000443621, ENST00000452852, ENST00000647940, ENST00000648624, ENST00000648903, ENST00000649189, ENST00000649254, ENST00000649507, ENST00000649860, ENST00000650209, ENST00000792750, ENST00000792751, ENST00000792752, ENST00000792753, ENST00000792754, ENST00000792755, ENST00000792756, ENST00000792757, ENST00000792758, ENST00000792759, ENST00000792760

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000443621 — 4 exons

Exon	Start	End
ENSE00001675683	73546724	73546841
ENSE00004174972	73661818	73661896
ENSE00004174973	73412982	73413636
ENSE00004174992	73648576	73648631

Expression profiles

Bgee: expression breadth broad, 87 present calls, max score 77.86.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.1330 / max 132.9515, expressed in 17 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
137592	0.1070	14
137591	0.0223	5
207060	0.0038	1

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	77.86	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	77.29	gold quality
cortical plate	UBERON:0005343	68.51	gold quality
ganglionic eminence	UBERON:0004023	68.31	gold quality
superior frontal gyrus	UBERON:0002661	64.59	gold quality
skeletal muscle tissue	UBERON:0001134	61.82	silver quality
skin of abdomen	UBERON:0001416	59.52	gold quality
zone of skin	UBERON:0000014	59.28	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	59.26	gold quality
monocyte	CL:0000576	59.19	gold quality
skin of leg	UBERON:0001511	58.92	gold quality
prefrontal cortex	UBERON:0000451	56.53	gold quality
tonsil	UBERON:0002372	56.50	gold quality
blood	UBERON:0000178	56.03	gold quality
hindlimb stylopod muscle	UBERON:0004252	55.22	silver quality
Brodmann (1909) area 9	UBERON:0013540	53.94	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	52.72	gold quality
body of pancreas	UBERON:0001150	52.58	gold quality
left testis	UBERON:0004533	52.56	gold quality
multicellular organism	UBERON:0000468	52.30	gold quality
lymph node	UBERON:0000029	52.24	gold quality
testis	UBERON:0000473	52.23	gold quality
adult mammalian kidney	UBERON:0000082	51.93	gold quality
muscle of leg	UBERON:0001383	51.34	gold quality
urinary bladder	UBERON:0001255	51.08	gold quality
heart left ventricle	UBERON:0002084	51.03	gold quality
corpus callosum	UBERON:0002336	50.79	gold quality
right ovary	UBERON:0002118	50.73	gold quality
islet of Langerhans	UBERON:0000006	50.68	gold quality
right testis	UBERON:0004534	50.53	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	5.72

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.