LINCMD1 Gene (RNA Gene)

Long Intergenic Non-Protein Coding RNA, Muscle Differentiation 1

GC06M052146
GIFtS:
15
See more...

Aliases for LINCMD1 Gene

Subcategory (RNA class) for LINCMD1 Gene

lncRNA

Number of RNA Genes sources:

3 / 17

Aliases for LINCMD1 Gene

  • Long Intergenic Non-Protein Coding RNA, Muscle Differentiation 1 2 3 5
  • LINCMD1 2 5 165
  • MIR133B Host Gene (Non-Protein Coding) 2 3
  • Long Noncoding RNA, Muscle Differentiation 1 3
  • NONHSAG043927.2 91
  • HSALNG0050599 164
  • MIR133BHG 3
  • LINC-MD1 3

External Ids for LINCMD1 Gene

Previous HGNC Symbols for LINCMD1 Gene

  • MIR133BHG
  • LINC-MD1

Previous GeneCards Identifiers for LINCMD1 Gene

  • GC06U902314

Summaries for LINCMD1 Gene

GeneCards Summary for LINCMD1 Gene

LINCMD1 (Long Intergenic Non-Protein Coding RNA, Muscle Differentiation 1) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with LINCMD1 include Muscular Dystrophy, Duchenne Type.

Additional gene information for LINCMD1 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LINCMD1 Gene

Genomics for LINCMD1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for LINCMD1 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
GH06J052150 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 600.7 -0.2 -195 6 SP1 CREB1 ZNF512 JUND PKNOX1 IKZF2 RCOR1 EP300 SCRT2 RELA LINCMD1 IL17F SLC25A20P1 IL17A PKHD1 MCM3 PAQR8
GH06J052317 Enhancer 1.1 Ensembl ENCODE dbSUPER 9.1 -163.2 -163205 3.6 ZNF629 JUND PRDM1 ZNF143 IKZF2 CEBPA EED CEBPB ARID3A HMBOX1 PAQR8 MCM3 LINCMD1 MIR133B MN298306 piR-48759-264 lnc-MCM3-3
GH06J052263 Enhancer 0.9 Ensembl ENCODE 10.4 -108.9 -108860 0.7 CTCF ZNF143 RXRB REST RAD21 TRIM22 ZNF561 POLR2A BCLAF1 SMC3 LINCMD1 MIR133B PKHD1 IL17A MIR206 lnc-MCM3-1 IL17F piR-43046 MCM3
GH06J052063 Enhancer 0.9 Ensembl ENCODE 10.1 +91.0 91010 2.1 CEBPG CTCF GABPA ZNF143 RAD21 TRIM22 CEBPA CEBPB ELK1 CBX3 PKHD1 MIR133B LINCMD1 IL17F SLC25A20P1 RF01061-144 HSALNG0050595
GH06J052261 Enhancer 0.9 Ensembl ENCODE 10.2 -106.4 -106419 1.2 PRDM10 ZNF629 PRDM1 SMAD5 POLR2A ZNF600 ZNF639 ZNF10 TSHZ1 ZSCAN5C EFHC1 MCM3 PKHD1 IL17A LINCMD1 MIR133B lnc-MCM3-1 IL17F piR-43046
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINCMD1 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINCMD1 Gene

Genomic Locations for LINCMD1 Gene
chr6:52,146,813-52,155,182
(GRCh38/hg38)
Size:
8,370 bases
Orientation:
Minus strand

Genomic View for LINCMD1 Gene

Genes around LINCMD1 on UCSC Golden Path with GeneCards custom track
LINCMD1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LINCMD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINCMD1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for LINCMD1 Gene

Proteins for LINCMD1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for LINCMD1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINCMD1 Gene

Domains & Families for LINCMD1 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINCMD1 Gene

Function for LINCMD1 Gene

Products:

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

Phenotypes From GWAS Catalog for LINCMD1 Gene

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 LINCMD1 Gene

Localization for LINCMD1 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 LINCMD1 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 LINCMD1 Gene

Pathways & Interactions for LINCMD1 Gene

PathCards logo

SuperPathways for LINCMD1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINCMD1 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINCMD1 Gene

Drugs & Compounds for LINCMD1 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for LINCMD1 Gene

Products:

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

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINCMD1 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS00008121C0_9606 lncRNA 366 3

HGNC: 49089,

RefSeq: NR_131248,

LNCipedia: LINCMD1:3,

URS0000447547_9606 lncRNA 462 2

Ensembl: ENST00000418518 (view in UCSC) ,

LNCipedia: LINCMD1:2,

URS00008BFBD8_9606 lncRNA 518 3

LncBook: HSALNT0107173,

LNCipedia: LINCMD1:1,

NONCODE: NONHSAT113098.2,

URS00009C097D_9606 lncRNA 518 2

LncBook: HSALNT0107174,

NONCODE: NONHSAT209204.1,

URS00009B2EEB_9606 lncRNA 502 1

NONCODE: NONHSAT209205.1,

LINCMD1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINCMD1 Gene

1 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINCMD1 Gene

No ASD Table

Relevant External Links for LINCMD1 Gene

GeneLoc Exon Structure for
LINCMD1

Expression for LINCMD1 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINCMD1 Gene

mRNA expression in normal human tissues for LINCMD1 Gene
mRNA expression by GTEx for LINCMD1 Gene

Evidence on tissue expression from TISSUES for LINCMD1 Gene

  • Muscle(2.4)
genes like me logo Genes that share expression patterns with LINCMD1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LINCMD1 Gene

Orthologs for LINCMD1 Gene

Evolution for LINCMD1 Gene

ENSEMBL:
Gene Tree for LINCMD1 (if available)
TreeFam:
Gene Tree for LINCMD1 (if available)

No data available for Orthologs for LINCMD1 Gene

Paralogs for LINCMD1 Gene

No data available for Paralogs for LINCMD1 Gene

Variants for LINCMD1 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for LINCMD1 Gene

Additional Variant Information for LINCMD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINCMD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for LINCMD1 Gene

Disorders for LINCMD1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LINCMD1 Gene - From: LncRNADisease and DISEASES

Disorder Aliases PubMed IDs
muscular dystrophy, duchenne type
  • dmd
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINCMD1

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with LINCMD1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINCMD1 Gene

Publications for LINCMD1 Gene

  1. A feedforward regulatory loop between HuR and the long noncoding RNA linc-MD1 controls early phases of myogenesis. (PMID: 24440503) Legnini I … Bozzoni I (Molecular cell 2014) 2 3
  2. A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. (PMID: 22000014) Cesana M … Bozzoni I (Cell 2011) 2 3
  3. Long noncoding RNA uc.338 promotes cell proliferation through association with BMI1 in hepatocellular carcinoma. (PMID: 27154519) Bo C … An Y (Human cell 2016) 3
  4. Genome-wide profiling of long noncoding ribonucleic acid expression patterns in ovarian endometriosis by microarray. (PMID: 24502888) Sun PR … Lang JH (Fertility and sterility 2014) 3
  5. Genome-wide analysis of long noncoding RNA expression in peripheral blood mononuclear cells of uremia patients. (PMID: 23100179) Sui W … Dai Y (Journal of nephrology 2013) 3

ExternalLinks

View latest publications for LINCMD1 gene in Mastermind

Products for LINCMD1 Gene

Sources for LINCMD1 Gene