SMAD9-IT1

Summary

SMAD9-IT1 (SMAD9 intronic transcript 1, HGNC:39963) is a long non-coding RNA gene on chromosome 13q13.3.

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:39963
Approved symbol	SMAD9-IT1
Name	SMAD9 intronic transcript 1
Location	13q13.3
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000236711
Ensembl biotype	lncRNA
Entrez	100874072
RNAcentral	URS00003178B5 — lncRNA, 504 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 lncRNA

ENST00000437983

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000437983 — 2 exons

Exon	Start	End
ENSE00001687825	36849940	36850046
ENSE00001748649	36849366	36849762

Expression profiles

Bgee: expression breadth ubiquitous, 126 present calls, max score 85.38.

Top tissues by expression

126 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	85.38	silver quality
colonic epithelium	UBERON:0000397	80.90	gold quality
endometrium	UBERON:0001295	78.18	gold quality
left lobe of thyroid gland	UBERON:0001120	77.30	gold quality
right lobe of thyroid gland	UBERON:0001119	76.85	gold quality
thyroid gland	UBERON:0002046	76.42	gold quality
popliteal artery	UBERON:0002250	74.66	gold quality
tibial artery	UBERON:0007610	74.63	gold quality
descending thoracic aorta	UBERON:0002345	71.66	gold quality
ascending aorta	UBERON:0001496	71.53	gold quality
thoracic aorta	UBERON:0001515	71.28	gold quality
lower esophagus muscularis layer	UBERON:0035833	71.22	gold quality
lower esophagus	UBERON:0013473	71.05	gold quality
sural nerve	UBERON:0015488	70.66	gold quality
mucosa of stomach	UBERON:0001199	69.82	gold quality
uterine cervix	UBERON:0000002	69.33	gold quality
myometrium	UBERON:0001296	69.12	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	68.95	gold quality
smooth muscle tissue	UBERON:0001135	68.62	gold quality
tibial nerve	UBERON:0001323	68.44	gold quality
right lung	UBERON:0002167	68.40	gold quality
ectocervix	UBERON:0012249	68.27	gold quality
ganglionic eminence	UBERON:0004023	68.18	gold quality
muscle layer of sigmoid colon	UBERON:0035805	68.13	gold quality
endocervix	UBERON:0000458	67.92	gold quality
left coronary artery	UBERON:0001626	67.80	gold quality
ventricular zone	UBERON:0003053	67.65	gold quality
prostate gland	UBERON:0002367	67.40	gold quality
body of uterus	UBERON:0009853	66.85	gold quality
omental fat pad	UBERON:0010414	66.75	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.95

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.