LINC00397

Summary

LINC00397 (long intergenic non-protein coding RNA 397, HGNC:42725) is a long non-coding RNA gene on chromosome 13q31.2.

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:42725
Approved symbol	LINC00397
Name	long intergenic non-protein coding RNA 397
Location	13q31.2
Locus type	RNA, long non-coding
Status	Approved
Aliases	TCONS_00021582
Ensembl gene	ENSG00000223404
Ensembl biotype	lncRNA
Entrez	101930749
RNAcentral	URS0000759CEF — lncRNA, 386 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 5 lncRNA

ENST00000422074, ENST00000606785, ENST00000717711, ENST00000717718, ENST00000717719

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000422074 — 3 exons

Exon	Start	End
ENSE00001618737	87803010	87803074
ENSE00001687864	87803774	87803808
ENSE00001736629	87801036	87801279

Expression profiles

Bgee: expression breadth broad, 56 present calls, max score 86.95.

Top tissues by expression

56 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	86.95	gold quality
tonsil	UBERON:0002372	76.55	gold quality
muscle tissue	UBERON:0002385	74.44	gold quality
cortex of kidney	UBERON:0001225	67.31	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	59.77	gold quality
monocyte	CL:0000576	57.16	gold quality
gastrocnemius	UBERON:0001388	57.10	gold quality
minor salivary gland	UBERON:0001830	56.64	gold quality
blood	UBERON:0000178	55.86	gold quality
mucosa of transverse colon	UBERON:0004991	54.30	gold quality
prefrontal cortex	UBERON:0000451	53.28	gold quality
substantia nigra	UBERON:0002038	52.53	gold quality
muscle layer of sigmoid colon	UBERON:0035805	50.50	gold quality
right testis	UBERON:0004534	50.41	gold quality
colon	UBERON:0001155	49.69	gold quality
Brodmann (1909) area 9	UBERON:0013540	49.24	gold quality
left lobe of thyroid gland	UBERON:0001120	48.79	gold quality
transverse colon	UBERON:0001157	48.59	gold quality
multicellular organism	UBERON:0000468	48.43	gold quality
testis	UBERON:0000473	48.43	gold quality
left testis	UBERON:0004533	48.26	gold quality
adrenal tissue	UBERON:0018303	48.00	silver quality
left coronary artery	UBERON:0001626	47.92	gold quality
right lobe of liver	UBERON:0001114	47.84	silver quality
esophagus mucosa	UBERON:0002469	47.08	gold quality
thyroid gland	UBERON:0002046	47.07	gold quality
ascending aorta	UBERON:0001496	47.05	gold quality
lower esophagus muscularis layer	UBERON:0035833	47.01	gold quality
Ammon’s horn	UBERON:0001954	46.78	gold quality
skin of leg	UBERON:0001511	46.71	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.47

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.