MIR9-3HG

Summary

MIR9-3HG (MIR9-3 host gene, HGNC:27388) is a long non-coding RNA gene on chromosome 15q26.1.

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:27388
Approved symbol	MIR9-3HG
Name	MIR9-3 host gene
Location	15q26.1
Locus type	RNA, long non-coding
Status	Approved
Aliases	BS-DRL1, lnc-FANCI-2
Ensembl gene	ENSG00000255571
Ensembl biotype	lncRNA
Entrez	254559
RNAcentral	URS0002A147FB — lncRNA, 4779 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 54 — 54 lncRNA

ENST00000536780, ENST00000538734, ENST00000546186, ENST00000558692, ENST00000558754, ENST00000558982, ENST00000559235, ENST00000560596, ENST00000560663, ENST00000561037, ENST00000561327, ENST00000654079, ENST00000654171, ENST00000654184, ENST00000655673, ENST00000655914, ENST00000656907, ENST00000657897, ENST00000658194, ENST00000658764, ENST00000658770, ENST00000659235, ENST00000659850, ENST00000660601, ENST00000660922, ENST00000661036, ENST00000661040, ENST00000662043, ENST00000662136, ENST00000662152, ENST00000662255, ENST00000662942, ENST00000663717, ENST00000664345, ENST00000664499, ENST00000664594, ENST00000664925, ENST00000665086, ENST00000665619, ENST00000665852, ENST00000666816, ENST00000667285, ENST00000667575, ENST00000668524, ENST00000669037, ENST00000669098, ENST00000669499, ENST00000669645, ENST00000670238, ENST00000670485, ENST00000670779, ENST00000671075, ENST00000671447, ENST00000701636

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000536780 — 7 exons

Exon	Start	End
ENSE00002257487	89387817	89387881
ENSE00002258689	89379048	89379269
ENSE00002272360	89395028	89398487
ENSE00002293286	89388504	89388581
ENSE00002309334	89361579	89362269
ENSE00002317839	89378042	89378165
ENSE00002492177	89389345	89389482

Expression profiles

Bgee: expression breadth ubiquitous, 162 present calls, max score 94.56.

FANTOM5 (CAGE): breadth broad, TPM avg 1.1950 / max 96.6072, expressed in 320 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
148352	0.5239	132
148355	0.4689	219
148353	0.1700	91
148356	0.0321	8

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
ventricular zone	UBERON:0003053	94.56	gold quality
ganglionic eminence	UBERON:0004023	93.51	gold quality
right hemisphere of cerebellum	UBERON:0014890	90.89	gold quality
cerebellar hemisphere	UBERON:0002245	90.16	gold quality
cerebellar cortex	UBERON:0002129	90.14	gold quality
cerebellum	UBERON:0002037	88.79	gold quality
right testis	UBERON:0004534	88.15	gold quality
left testis	UBERON:0004533	88.09	gold quality
testis	UBERON:0000473	85.67	gold quality
right frontal lobe	UBERON:0002810	85.24	gold quality
anterior cingulate cortex	UBERON:0009835	83.29	gold quality
Brodmann (1909) area 9	UBERON:0013540	82.81	gold quality
cerebellar vermis	UBERON:0004720	82.18	silver quality
cortical plate	UBERON:0005343	81.58	gold quality
prefrontal cortex	UBERON:0000451	81.36	gold quality
primary visual cortex	UBERON:0002436	81.20	gold quality
neocortex	UBERON:0001950	80.77	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	80.70	gold quality
frontal cortex	UBERON:0001870	79.92	gold quality
putamen	UBERON:0001874	79.66	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	79.25	gold quality
caudate nucleus	UBERON:0001873	79.18	gold quality
amygdala	UBERON:0001876	79.15	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	78.87	gold quality
cerebral cortex	UBERON:0000956	78.84	gold quality
nucleus accumbens	UBERON:0001882	78.72	gold quality
brain	UBERON:0000955	77.77	gold quality
endothelial cell	CL:0000115	77.68	silver quality
occipital lobe	UBERON:0002021	76.94	gold quality
sperm	CL:0000019	76.80	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.57

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• Our study provides evidence that miR-9 can promote the proliferation, migration, and invasion of breast cancer cells via down-regulating FOXO1. (PMID:28397066)

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.