CNN3-DT

Summary

CNN3-DT (CNN3 divergent transcript, HGNC:54176) is a long non-coding RNA gene on chromosome 1p21.3.

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:54176
Approved symbol	CNN3-DT
Name	CNN3 divergent transcript
Location	1p21.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	RP4-639F20.1
Ensembl gene	ENSG00000235501
Ensembl biotype	lncRNA
Entrez	729970
RNAcentral	URS000075AB07 — lncRNA, 954 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 48 — 48 lncRNA

ENST00000438509, ENST00000452846, ENST00000456582, ENST00000657603, ENST00000659935, ENST00000659966, ENST00000664573, ENST00000664672, ENST00000666627, ENST00000687058, ENST00000715651, ENST00000715652, ENST00000736279, ENST00000736280, ENST00000736281, ENST00000736282, ENST00000736283, ENST00000736284, ENST00000736285, ENST00000736286, ENST00000736287, ENST00000736288, ENST00000736289, ENST00000736290, ENST00000736291, ENST00000736292, ENST00000736293, ENST00000736294, ENST00000736295, ENST00000736296, ENST00000736297, ENST00000736298, ENST00000736299, ENST00000736300, ENST00000736301, ENST00000736302, ENST00000736303, ENST00000736304, ENST00000736305, ENST00000736306, ENST00000736307, ENST00000736308, ENST00000736309, ENST00000736310, ENST00000736311, ENST00000736312, ENST00000736313, ENST00000736314

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000438509 — 4 exons

Exon	Start	End
ENSE00001631407	94931872	94931985
ENSE00001670918	94962925	94963271
ENSE00001744967	94961317	94961433
ENSE00003859391	94927366	94928402

Expression profiles

Bgee: expression breadth ubiquitous, 189 present calls, max score 90.80.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 13.5175 / max 346.4086, expressed in 1290 samples.

FANTOM5 promoters (7 alternative TSS)

Promoter ID	TPM avg	Samples expressed
4117	10.7659	1187
4114	0.9956	547
4116	0.8113	501
4112	0.3620	182
4115	0.3068	173
4113	0.1695	66
201587	0.1064	30

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
right adrenal gland	UBERON:0001233	90.80	gold quality
left adrenal gland cortex	UBERON:0035825	90.80	gold quality
right adrenal gland cortex	UBERON:0035827	90.61	gold quality
left adrenal gland	UBERON:0001234	90.26	gold quality
popliteal artery	UBERON:0002250	89.10	gold quality
tibial artery	UBERON:0007610	89.10	gold quality
adrenal cortex	UBERON:0001235	88.95	gold quality
aorta	UBERON:0000947	88.83	gold quality
ascending aorta	UBERON:0001496	88.76	gold quality
thoracic aorta	UBERON:0001515	88.74	gold quality
right coronary artery	UBERON:0001625	88.74	gold quality
descending thoracic aorta	UBERON:0002345	88.00	gold quality
left coronary artery	UBERON:0001626	87.94	gold quality
adrenal gland	UBERON:0002369	87.86	gold quality
calcaneal tendon	UBERON:0003701	87.65	gold quality
coronary artery	UBERON:0001621	86.94	gold quality
lower esophagus muscularis layer	UBERON:0035833	86.56	gold quality
lower esophagus	UBERON:0013473	86.52	gold quality
muscle layer of sigmoid colon	UBERON:0035805	86.09	gold quality
sperm	CL:0000019	85.83	gold quality
buccal mucosa cell	CL:0002336	85.77	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	85.71	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	85.04	gold quality
tendon	UBERON:0000043	84.72	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	84.58	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	84.41	gold quality
right lung	UBERON:0002167	83.74	gold quality
mucosa of stomach	UBERON:0001199	83.69	gold quality
right atrium auricular region	UBERON:0006631	83.61	gold quality
right lobe of liver	UBERON:0001114	83.33	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.11

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.