RMST Gene (RNA Gene)

Rhabdomyosarcoma 2 Associated Transcript

GC12P097431
GIFtS:
21
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. [provided by RefSeq, Dec 2017] See more...

Aliases for RMST Gene

Subcategory (RNA class) for RMST Gene

misc_RNA

Number of RNA Genes sources:

3 / 17

Aliases for RMST Gene

  • Rhabdomyosarcoma 2 Associated Transcript 2 3 5
  • RMST 2 5 165
  • Rhabdomyosarcoma 2 Associated Transcript (Non-Protein Coding) 2 3
  • Long Intergenic Non-Protein Coding RNA 54 2 3
  • NCRNA00054 2 3
  • LINC00054 2 3
  • NCRMS 2 3
  • Rhabdomyosarcoma 2 Associated Transcript (Non-Coding RNA) 3
  • Non-Coding RNA In Rhabdomyosarcoma (RMS) 3
  • Non-Protein Coding RNA 54 2
  • NONHSAG012015.2 91
  • HSALNG0093342 164
  • HSALNG0093345 164

External Ids for RMST Gene

Previous GeneCards Identifiers for RMST Gene

  • GC12P096362
  • GC12U900573
  • GC12P097858

Summaries for RMST Gene

Entrez Gene Summary for RMST Gene

  • 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. [provided by RefSeq, Dec 2017]

GeneCards Summary for RMST Gene

RMST (Rhabdomyosarcoma 2 Associated Transcript) is an RNA Gene, and is affiliated with the misc_RNA class. Diseases associated with RMST include Rhabdomyosarcoma and Melanoma.

Gene Wiki entry for RMST Gene

Rfam classification for RMST Gene

  • Rhabdomyosarcoma 2 associated transcript conserved region 1
  • Rhabdomyosarcoma 2 associated transcript conserved region 6
  • Rhabdomyosarcoma 2 associated transcript conserved region 8
  • Rhabdomyosarcoma 2 associated transcript conserved region 2
  • Rhabdomyosarcoma 2 associated transcript conserved region 3
  • Rhabdomyosarcoma 2 associated transcript conserved region 4
  • Rhabdomyosarcoma 2 associated transcript conserved region 5
  • Rhabdomyosarcoma 2 associated transcript conserved region 9
  • Rhabdomyosarcoma 2 associated transcript conserved region 10
  • Rhabdomyosarcoma 2 associated transcript conserved region 7
  • mir-135 microRNA precursor family

Additional gene information for RMST Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , PharmGKB "VIP" Summary and piRNA Summary for RMST Gene

Genomics for RMST Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for RMST Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH12J097428 Enhancer 0.3 Ensembl 600.7 -1.6 -1632 1.2 NFE2 RMST piR-34974-005 NEDD1
GH12J097565 Enhancer 1.3 Ensembl ENCODE dbSUPER 15.2 +139.2 139179 7.8 CEBPG CREB1 GATAD2A ATF7 REST TFE3 SOX13 NFKBIZ RCOR2 TARDBP RMST MIR1251 ENSG00000277081 piR-38562-020 NEDD1 TMPO
GH12J097464 Promoter/Enhancer 1.3 Ensembl ENCODE CraniofacialAtlas 11.6 +34.7 34668 5.4 POLR2A RAD21 SIN3A CHD1 SMARCA4 TAF1 NANOG GTF2F1 TBP EZH2 MIR1251 RMST lnc-NEDD1-8 NEDD1
GH12J097554 Enhancer 1.6 UCNEbase FANTOM5 Ensembl ENCODE dbSUPER 4.9 +129.4 129364 11.3 CREB1 GATAD2A ZHX2 FOXA1 RXRB IRF2 GABPA SOX13 TCF7 ESR1 ENSG00000278802 ENSG00000276398 PAFAH1B2P2 RMST ENSG00000277081 ENSG00000279798 MIR135A2 ENSG00000251844 NEDD1 TMPO
GH12J097534 Enhancer 0.5 Ensembl dbSUPER 15.3 +103.5 103468 2.2 ZNF316 MAFK ENSG00000274819 RMST MIR135A2 MIR1251 ENSG00000251844 NEDD1 TMPO
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RMST on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the RMST gene promoter:
  • FOXO4
  • GR
  • GR-alpha
  • HEN1
  • ITF-2
  • POU3F1
  • POU6F1 (c2)
  • STAT5B
  • Tal-1beta
  • TBP

Genomic Locations for RMST Gene

Genomic Locations for RMST Gene
chr12:97,430,633-97,598,415
(GRCh38/hg38)
Size:
167,783 bases
Orientation:
Plus strand
chr12:97,825,431-97,958,813
(GRCh37/hg19)
Size:
133,383 bases
Orientation:
Plus strand

Genomic View for RMST Gene

Genes around RMST on UCSC Golden Path with GeneCards custom track
RMST in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
RMST Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RMST Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for RMST Gene

Proteins for RMST Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

No data available for DME Specific Peptides for RMST Gene

Domains & Families for RMST Gene

Gene Families for RMST Gene

HGNC:
genes like me logo Genes that share domains with RMST: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for RMST Gene

Function for RMST Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Phenotypes From GWAS Catalog for RMST Gene

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RMST Gene

Localization for RMST Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RMST gene
Compartment Confidence
nucleus 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
cytosol 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for RMST Gene

Pathways & Interactions for RMST Gene

PathCards logo

SuperPathways for RMST Gene

No Data Available

Gene Ontology (GO) - Biological Process for RMST Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for RMST Gene

Drugs & Compounds for RMST Gene

Products:

  1. Drug

(2) Drugs for RMST Gene - From: ClinicalTrials

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Benzocaine Approved, Investigational Pharma 3109
tannic acid Approved Pharma Channel blocker 3109
genes like me logo Genes that share compounds with RMST: view

Transcripts for RMST Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

Non-coding RNA (ncRNA) Transcripts from RNAcentral for RMST Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS00008BC97C_9606 lncRNA 2099 4

Ensembl: ENST00000541282 (view in UCSC) ,

LncBook: HSALNT0193654,

LNCipedia: RMST:5,

NONCODE: NONHSAT030091.2,

URS00008C1FB6_9606 lncRNA 2598 3

Ensembl: ENST00000538559 (view in UCSC) ,

LNCipedia: RMST:1,

NONCODE: NONHSAT030089.2,

URS0000A81C12_9606 lncRNA 3269 2

Ensembl: ENST00000639542 (view in UCSC) ,

LNCipedia: RMST:37,

URS0000A7BDFD_9606 lncRNA 2844 2

Ensembl: ENST00000640149 (view in UCSC) ,

LNCipedia: RMST:36,

URS0000CCE0AF_9606 lncRNA 2100 2

HGNC: 29893,

RefSeq: NR_024037,

RMST in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for RMST Gene

4 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for RMST Gene

No ASD Table

Relevant External Links for RMST Gene

GeneLoc Exon Structure for
RMST

Expression for RMST Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RMST Gene

mRNA expression in normal human tissues for RMST Gene
mRNA expression by GTEx for RMST Gene

mRNA differential expression in normal tissues according to GTEx for RMST Gene

This gene is overexpressed in Thyroid (x24.7) and Pituitary (x8.2).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RMST

SOURCE GeneReport for Unigene cluster for RMST Gene:

Hs.652568
genes like me logo Genes that share expression patterns with RMST: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for RMST Gene

Orthologs for RMST Gene

Evolution for RMST Gene

ENSEMBL:
Gene Tree for RMST (if available)
TreeFam:
Gene Tree for RMST (if available)

No data available for Orthologs for RMST Gene

Paralogs for RMST Gene

No data available for Paralogs for RMST Gene

Variants for RMST Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for RMST Gene

Structural Variations from Database of Genomic Variants (DGV) for RMST Gene

Variant ID Type Subtype PubMed ID
dgv499e212 CNV loss 25503493
esv2665672 CNV deletion 23128226
esv3630475 CNV loss 21293372
esv3630476 CNV loss 21293372
esv3630477 CNV loss 21293372
nsv1129163 CNV insertion 24896259
nsv438229 CNV loss 16468122
nsv7234 OTHER inversion 18451855
nsv832495 CNV gain 17160897
nsv840 CNV insertion 18451855

Additional Variant Information for RMST Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RMST

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for RMST Gene

Disorders for RMST Gene

MalaCards: The human disease database

(7) MalaCards diseases for RMST Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
rhabdomyosarcoma
melanoma
  • malignant melanoma
breast cancer
  • breast lobular carcinoma
rhabdomyosarcoma 2
  • rms2
rocky mountain spotted fever
  • brazillian spotted
- elite association - COSMIC cancer census association via MalaCards
Search RMST in MalaCards View complete list of genes associated with diseases

Additional Disease Information for RMST

Genetic Association Database
(GAD)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with RMST: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RMST Gene

Publications for RMST Gene

  1. The long noncoding RNA RMST interacts with SOX2 to regulate neurogenesis. (PMID: 23932716) Ng SY … Stanton LW (Molecular cell 2013) 2 3
  2. Rmst is a novel marker for the mouse ventral mesencephalic floor plate and the anterior dorsal midline cells. (PMID: 20062813) Uhde CW … Li M (PloS one 2010) 2 3
  3. Identification of a novel gene NCRMS on chromosome 12q21 with differential expression between rhabdomyosarcoma subtypes. (PMID: 12082533) Chan AS … Zielenska M (Oncogene 2002) 2 3
  4. Long non-coding RNA (LncRNA) RMST in triple-negative breast cancer (TNBC): Expression analysis and biological roles research. (PMID: 29215701) Wang L … Liu Z (Journal of cellular physiology 2018) 3
  5. Long non-coding RNA RMST silencing protects against middle cerebral artery occlusion (MCAO)-induced ischemic stroke. (PMID: 29258823) Hou XX … Cheng H (Biochemical and biophysical research communications 2018) 3

ExternalLinks

View latest publications for RMST gene in Mastermind

Products for RMST Gene

Sources for RMST Gene