RMST

Summary

RMST (rhabdomyosarcoma 2 associated transcript, HGNC:29893) is a long non-coding RNA gene on chromosome 12q23.1.

This gene produces a long non-coding RNA that functions in neurogenesis by aiding in the association of Sox2 transcription factor to its target promoters.

Source: NCBI Gene 196475 — 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:29893
Approved symbol	RMST
Name	rhabdomyosarcoma 2 associated transcript
Location	12q23.1
Locus type	RNA, long non-coding
Status	Approved
Aliases	NCRMS, NCRNA00054, LINC00054
Ensembl gene	ENSG00000255794
Ensembl biotype	lncRNA
OMIM	607045
Entrez	196475
RNAcentral	URS00026A1B05 — lncRNA, 2428 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 68 — 65 lncRNA, 3 retained_intron

ENST00000538559, ENST00000541282, ENST00000547946, ENST00000547996, ENST00000548886, ENST00000552411, ENST00000639121, ENST00000639542, ENST00000640149, ENST00000652810, ENST00000654331, ENST00000655366, ENST00000656448, ENST00000656458, ENST00000657936, ENST00000658877, ENST00000660138, ENST00000661686, ENST00000662330, ENST00000662502, ENST00000662772, ENST00000663411, ENST00000663509, ENST00000663659, ENST00000664656, ENST00000664685, ENST00000665975, ENST00000666664, ENST00000666798, ENST00000667306, ENST00000667445, ENST00000670160, ENST00000670745, ENST00000687565, ENST00000687746, ENST00000689144, ENST00000690227, ENST00000690936, ENST00000693044, ENST00000701029, ENST00000774530, ENST00000774531, ENST00000774532, ENST00000774533, ENST00000774534, ENST00000774535, ENST00000774536, ENST00000774537, ENST00000774538, ENST00000774539, ENST00000774540, ENST00000774541, ENST00000774542, ENST00000774543, ENST00000774544, ENST00000774545, ENST00000774546, ENST00000774547, ENST00000774548, ENST00000774549, ENST00000774550, ENST00000774551, ENST00000774552, ENST00000774553, ENST00000774554, ENST00000774555, ENST00000774556, ENST00000850890

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000538559 — 14 exons

Exon	Start	End
ENSE00002216996	97494695	97494881
ENSE00002232678	97560797	97561047
ENSE00002257413	97564738	97565015
ENSE00002273955	97564150	97564328
ENSE00002276943	97493875	97494002
ENSE00002283878	97492461	97492606
ENSE00002288440	97530655	97530859
ENSE00002306508	97560537	97560698
ENSE00002337367	97463152	97463289
ENSE00002341905	97431653	97431934
ENSE00002363301	97493177	97493285
ENSE00002363944	97461972	97462146
ENSE00002383061	97460715	97460863
ENSE00002412217	97462664	97462872

Expression profiles

Bgee: expression breadth ubiquitous, 130 present calls, max score 99.21.

FANTOM5 (CAGE): breadth broad, TPM avg 8.5003 / max 444.6707, expressed in 428 samples.

FANTOM5 promoters (22 alternative TSS)

Promoter ID	TPM avg	Samples expressed
127497	3.4712	368
127498	0.9562	227
127510	0.7929	164
127501	0.6890	153
127500	0.5568	144
127502	0.4497	123
127511	0.2509	86
127513	0.1996	99
127499	0.1901	73
127512	0.1624	81

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
right lobe of thyroid gland	UBERON:0001119	99.21	gold quality
left lobe of thyroid gland	UBERON:0001120	99.13	gold quality
thyroid gland	UBERON:0002046	99.05	gold quality
adenohypophysis	UBERON:0002196	97.65	gold quality
right uterine tube	UBERON:0001302	97.12	gold quality
pituitary gland	UBERON:0000007	97.10	gold quality
corpus callosum	UBERON:0002336	95.26	gold quality
hypothalamus	UBERON:0001898	90.00	gold quality
prostate gland	UBERON:0002367	86.25	gold quality
fallopian tube	UBERON:0003889	83.60	gold quality
left uterine tube	UBERON:0001303	82.55	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	80.31	gold quality
anterior cingulate cortex	UBERON:0009835	79.47	gold quality
Brodmann (1909) area 9	UBERON:0013540	78.93	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	78.23	gold quality
right frontal lobe	UBERON:0002810	77.69	gold quality
superior frontal gyrus	UBERON:0002661	76.61	gold quality
kidney	UBERON:0002113	76.17	gold quality
substantia nigra	UBERON:0002038	75.82	gold quality
tonsil	UBERON:0002372	75.78	gold quality
brain	UBERON:0000955	75.51	gold quality
amygdala	UBERON:0001876	75.37	gold quality
caudate nucleus	UBERON:0001873	75.27	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	75.23	gold quality
temporal lobe	UBERON:0001871	75.16	gold quality
cortex of kidney	UBERON:0001225	74.97	gold quality
metanephros cortex	UBERON:0010533	74.28	gold quality
cerebral cortex	UBERON:0000956	74.22	gold quality
bone marrow cell	CL:0002092	72.48	gold quality
frontal cortex	UBERON:0001870	72.40	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-HCAD-25	yes	894.19
E-ANND-3	yes	7.27

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 11)

• NCRMS is located on chromosome 12q21 (PMID:12082533)
• Single nucleotide polymorphisms in RMST gene is associated with obesity. (PMID:23563609)
• RMST is required for the binding of SOX2 to promoter regions of neurogenic transcription factors. These results establish the role of RMST as a transcriptional coregulator of SOX2 and a key player in the regulation of neural stem cell fate. (PMID:23932716)
• disruption of trans-spliced noncoding RNA RMST expression in human embryonic stem cells results in the upregulation of WNT5A, epithelial-to-mesenchymal transition, and lineage-specific genes/markers. (PMID:27090862)
• Knockdown of RMST Impedes Neuronal Apoptosis and Oxidative Stress in OGD/R-Induced Ischemic Stroke Via Depending on the miR-377/SEMA3A Signal Network. (PMID:33409855)
• Long non-coding RNA RMST promotes oxygen-glucose deprivation-induced injury in brain microvascular endothelial cells by regulating miR-204-5p/VCAM1 axis. (PMID:33607153)
• Circular RNA profiling distinguishes medulloblastoma groups and shows aberrant RMST overexpression in WNT medulloblastoma. (PMID:33866410)
• LncRNA RMST Regulates Neuronal Apoptosis and Inflammatory Response via Sponging miR-150-5p in Parkinson’s Disease. (PMID:34515176)
• Abnormal expression of long non-coding RNA rhabdomyosarcoma 2-associated transcript (RMST) participates in the pathological mechanism of atherosclerosis by regulating miR-224-3p. (PMID:35067166)
• Long non-coding RNA RMST serves as a diagnostic biomarker in patients with carotid artery stenosis and predicts the occurrence of cerebral ischemic event: A retrospective study. (PMID:35531613)
• lncRNA RMST suppresses the progression of colorectal cancer by competitively binding to miR-27a-3p/RXRalpha axis and inactivating Wnt signaling pathway. (PMID:37246895)

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.