MIR9-2HG

Summary

MIR9-2HG (MIR9-2 host gene, HGNC:42810) is a long non-coding RNA gene on chromosome 5q14.3.

This is an evolutionarily conserved gene that produces alternatively spliced long non-coding RNAs that may be expressed predominantly in the brain and visual cortex. These transcripts may be involved in tumorigenesis, as depletion by siRNA suppressed glioma cell division. Transcripts may also bind to and regulate the activity of miR-411-5p and argonaut 2, thereby altering the expression of genes involved in tumor growth.

Source: NCBI Gene 645323 — RefSeq curated summary.

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:42810
Approved symbol	MIR9-2HG
Name	MIR9-2 host gene
Location	5q14.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	uc.166, EyeLinc1, Visc, LOC645323, ECONEXIN, NDIME
Ensembl gene	ENSG00000245526
Ensembl biotype	lncRNA
OMIM	616611
Entrez	645323
RNAcentral	URS0000CCE15A — lncRNA, 3590 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 97 — 97 lncRNA

ENST00000500197, ENST00000502301, ENST00000504034, ENST00000504246, ENST00000505030, ENST00000506014, ENST00000506041, ENST00000506664, ENST00000506978, ENST00000508885, ENST00000509265, ENST00000509405, ENST00000509783, ENST00000511014, ENST00000513026, ENST00000513805, ENST00000513893, ENST00000515885, ENST00000606189, ENST00000652822, ENST00000655936, ENST00000656755, ENST00000658935, ENST00000659156, ENST00000661688, ENST00000662060, ENST00000662146, ENST00000662192, ENST00000663276, ENST00000663994, ENST00000664240, ENST00000665062, ENST00000665865, ENST00000666195, ENST00000666297, ENST00000666342, ENST00000668089, ENST00000669424, ENST00000670494, ENST00000671230, ENST00000687262, ENST00000689967, ENST00000692551, ENST00000692902, ENST00000700760, ENST00000701425, ENST00000701556, ENST00000702076, ENST00000715786, ENST00000787068, ENST00000787069, ENST00000787070, ENST00000787071, ENST00000787072, ENST00000787073, ENST00000787074, ENST00000787075, ENST00000787076, ENST00000787077, ENST00000787078, ENST00000787079, ENST00000787080, ENST00000787081, ENST00000787082, ENST00000787083, ENST00000787084, ENST00000787085, ENST00000787086, ENST00000787087, ENST00000787088, ENST00000787089, ENST00000787090, ENST00000787091, ENST00000787092, ENST00000787093, ENST00000787094, ENST00000787095, ENST00000787096, ENST00000787097, ENST00000787098, ENST00000787099, ENST00000787100, ENST00000787101, ENST00000787102, ENST00000787103, ENST00000787104, ENST00000787106, ENST00000787108, ENST00000787110, ENST00000787111, ENST00000787113, ENST00000787114, ENST00000787115, ENST00000787116, ENST00000787117, ENST00000787118, ENST00000787119

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000500197 — 4 exons

Exon	Start	End
ENSE00001981570	88664445	88667591
ENSE00002030127	88671036	88671085
ENSE00002041077	88672965	88673090
ENSE00004164367	88673282	88673339

Expression profiles

Bgee: expression breadth ubiquitous, 174 present calls, max score 98.81.

FANTOM5 (CAGE): breadth broad, TPM avg 8.0889 / max 715.7376, expressed in 357 samples.

FANTOM5 promoters (21 alternative TSS)

Promoter ID	TPM avg	Samples expressed
62449	2.7056	282
62455	1.3245	187
62463	0.8491	177
62448	0.7796	206
62461	0.5977	96
62468	0.3181	61
62460	0.2454	79
62462	0.1681	62
62469	0.1439	57
62450	0.1364	84

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
cortical plate	UBERON:0005343	98.81	gold quality
ventricular zone	UBERON:0003053	98.60	gold quality
ganglionic eminence	UBERON:0004023	98.55	gold quality
nucleus accumbens	UBERON:0001882	91.44	gold quality
caudate nucleus	UBERON:0001873	91.26	gold quality
amygdala	UBERON:0001876	90.94	gold quality
Brodmann (1909) area 46	UBERON:0006483	90.84	gold quality
putamen	UBERON:0001874	90.59	gold quality
corpus callosum	UBERON:0002336	90.04	gold quality
cerebellum	UBERON:0002037	89.98	gold quality
cerebellar cortex	UBERON:0002129	89.95	gold quality
cerebellar hemisphere	UBERON:0002245	89.90	gold quality
right hemisphere of cerebellum	UBERON:0014890	89.78	gold quality
lateral globus pallidus	UBERON:0002476	89.70	gold quality
anterior cingulate cortex	UBERON:0009835	89.62	gold quality
Brodmann (1909) area 23	UBERON:0013554	89.55	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	89.46	gold quality
temporal lobe	UBERON:0001871	89.35	gold quality
primary visual cortex	UBERON:0002436	89.01	gold quality
endothelial cell	CL:0000115	89.00	gold quality
cerebral cortex	UBERON:0000956	89.00	gold quality
right frontal lobe	UBERON:0002810	88.89	gold quality
neocortex	UBERON:0001950	88.78	gold quality
Ammon’s horn	UBERON:0001954	88.69	gold quality
cerebellar vermis	UBERON:0004720	88.66	gold quality
occipital lobe	UBERON:0002021	88.65	gold quality
Brodmann (1909) area 9	UBERON:0013540	88.37	gold quality
frontal cortex	UBERON:0001870	88.09	gold quality
prefrontal cortex	UBERON:0000451	87.94	gold quality
hypothalamus	UBERON:0001898	87.45	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	5.22
E-MTAB-9543	no	1.22

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 11)

• these data demonstrated that ECONEXIN is a potential oncogene that regulates TOP2A by sponging miR-411-5p in glioma. (PMID:28368417)
• LINC00461, a sponge for miR-15a/16, is highly expressed in MSC-derived exosomes, and enhances Multiple myeloma cell proliferation, which may become an excellent candidate for therapeutic applications. (PMID:30409700)
• Mechanical investigations revealed that LINC00461 positively modulated integrin beta3 (ITGB3) expression as miR-30a-5p sponge in breast cancer cells. (PMID:30623482)
• LRIG2 was identified as the downstream target of miR-149-5p and its expression was regulated by LINC00461/miR-149-5p axis. (PMID:30879766)
• Study speculated that LINC00461 may be a prognostic factor for renal cell carcinoma (RCC) that may regulate miR942. Therefore, the interaction between miR-942 and LINC00461 may serve a key role in RCC tumorigenesis, metastasis and drug resistance. (PMID:31545458)
• Knockdown of LINC00461 inhibits cell proliferation and induces apoptosis in gastric cancer by targeting LSD1. (PMID:31858544)
• LINC00461/miR-4478/E2F1 feedback loop promotes non-small cell lung cancer cell proliferation and migration. (PMID:31934717)
• Silencing of LINC00461 enhances radiosensitivity of lung adenocarcinoma cells by down-regulating HOXA10 via microRNA-195. (PMID:31967713)
• Long noncoding RNA LINC00461 mediates cisplatin resistance of rectal cancer via miR-593-5p/CCND1 axis. (PMID:31972361)
• Long-noncoding RNA LINC00461 promotes proliferation and invasion of nonsmall cell lung cancer cells via targeting miR-518a-3p/WDR1 pathway. (PMID:33233986)
• LncRNA LINC00461 exacerbates myocardial ischemia-reperfusion injury via microRNA-185-3p/Myd88. (PMID:35272621)

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.