TSPAN9-IT1

Summary

TSPAN9-IT1 (TSPAN9 intronic transcript 1, HGNC:41462) is a long non-coding RNA gene on chromosome 12p13.33.

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:41462
Approved symbol	TSPAN9-IT1
Name	TSPAN9 intronic transcript 1
Location	12p13.33
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000256197
Ensembl biotype	lncRNA
Entrez	100874356
RNAcentral	URS0000284C94 — lncRNA, 562 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 lncRNA

ENST00000539784

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000539784 — 2 exons

Exon	Start	End
ENSE00002300907	3149797	3149866
ENSE00002315197	3150985	3151476

Expression profiles

Bgee: expression breadth broad, 85 present calls, max score 95.09.

Top tissues by expression

85 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	95.09	gold quality
colonic epithelium	UBERON:0000397	69.19	silver quality
skeletal muscle tissue	UBERON:0001134	67.20	silver quality
uterine cervix	UBERON:0000002	64.67	gold quality
liver	UBERON:0002107	64.39	gold quality
tonsil	UBERON:0002372	61.27	silver quality
calcaneal tendon	UBERON:0003701	60.15	gold quality
urinary bladder	UBERON:0001255	60.10	gold quality
kidney	UBERON:0002113	59.63	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	58.59	gold quality
sural nerve	UBERON:0015488	57.99	silver quality
adult mammalian kidney	UBERON:0000082	56.20	gold quality
adrenal gland	UBERON:0002369	52.33	gold quality
lung	UBERON:0002048	52.11	gold quality
pancreas	UBERON:0001264	51.63	silver quality
cortex of kidney	UBERON:0001225	51.48	gold quality
thoracic mammary gland	UBERON:0005200	51.29	silver quality
right lobe of liver	UBERON:0001114	50.16	gold quality
prefrontal cortex	UBERON:0000451	50.03	gold quality
myometrium	UBERON:0001296	49.55	silver quality
prostate gland	UBERON:0002367	48.73	gold quality
blood	UBERON:0000178	48.10	silver quality
thyroid gland	UBERON:0002046	48.01	silver quality
muscle of leg	UBERON:0001383	47.82	gold quality
gastrocnemius	UBERON:0001388	47.32	gold quality
small intestine	UBERON:0002108	47.02	silver quality
stomach	UBERON:0000945	46.85	silver quality
ovary	UBERON:0000992	46.68	silver quality
left adrenal gland cortex	UBERON:0035825	46.59	gold quality
multicellular organism	UBERON:0000468	45.15	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.82

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.