This gene produces a long non-coding RNA that regulates the reprogramming of pluripotent stem cells. This RNA suppresses induction of tumor protein p53 after DNA damage. It is thought to act as a sponge for microRNAs that regulate stem cell factors POU class 5 homeobox 1, Nanog, and SRY-box 2. This RNA may also have a extracellular role in modulating response to hypoxia in hepa... See more...

Aliases for LINC-ROR Gene

Subcategory (RNA class) for LINC-ROR Gene

lncRNA

Number of RNA Genes sources:

4 / 17

Aliases for LINC-ROR Gene

  • Long Intergenic Non-Protein Coding RNA, Regulator Of Reprogramming 2 3 5
  • LINC-ROR 2 5 165
  • LincRNA-ST8SIA3 2 3
  • LincRNA-RoR 2 3
  • ROR 2 3
  • NONHSAG023930.2 91
  • HSALNG0121746 164

External Ids for LINC-ROR Gene

Previous GeneCards Identifiers for LINC-ROR Gene

  • GC18M054722

Summaries for LINC-ROR Gene

Entrez Gene Summary for LINC-ROR Gene

  • This gene produces a long non-coding RNA that regulates the reprogramming of pluripotent stem cells. This RNA suppresses induction of tumor protein p53 after DNA damage. It is thought to act as a sponge for microRNAs that regulate stem cell factors POU class 5 homeobox 1, Nanog, and SRY-box 2. This RNA may also have a extracellular role in modulating response to hypoxia in hepatocellular cancer cells. Expression of this transcript is associated with tumor progression and epithelial to mesenchymal transition and metastasis. [provided by RefSeq, Dec 2017]

GeneCards Summary for LINC-ROR Gene

LINC-ROR (Long Intergenic Non-Protein Coding RNA, Regulator Of Reprogramming) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with LINC-ROR include Triple-Receptor Negative Breast Cancer and Gallbladder Cancer. Among its related pathways are LncRNA-mediated mechanisms of therapeutic resistance.

Additional gene information for LINC-ROR Gene

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

Genomics for LINC-ROR Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC-ROR 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
GH18J057069 Promoter 0.8 EPDnew Ensembl 600.7 +1.4 1418 3.4 ZBTB10 LINC-ROR piR-32559-195 piR-37656-105 LC027889 BOD1L2 TXNL1
GH18J057062 Enhancer 0.5 Ensembl 0.4 +7.9 7918 2.8 ESR1 POLR2A PRDM4 SMARCA4 NR3C1 piR-32559-194 LC027889 LINC-ROR BOD1L2 TXNL1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC-ROR on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC-ROR Gene

Genomic Locations for LINC-ROR Gene
chr18:57,054,558-57,072,119
(GRCh38/hg38)
Size:
17,562 bases
Orientation:
Minus strand
chr18:54,721,813-54,739,350
(GRCh37/hg19)
Size:
17,538 bases
Orientation:
Minus strand

Genomic View for LINC-ROR Gene

Genes around LINC-ROR on UCSC Golden Path with GeneCards custom track
LINC-ROR in the GeneCards ncRNA compendium hub on the UCSC Golden Path

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

RefSeq DNA sequence for LINC-ROR Gene

Proteins for LINC-ROR Gene

Post-translational modifications for LINC-ROR Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC-ROR Gene

Domains & Families for LINC-ROR Gene

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

Function for LINC-ROR Gene

Phenotypes From GWAS Catalog for LINC-ROR 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 LINC-ROR Gene

Localization for LINC-ROR 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 LINC-ROR gene
Compartment Confidence
extracellular 3
nucleus 3
plasma membrane 2
cytoskeleton 2
mitochondrion 2
cytosol 2
peroxisome 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 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 LINC-ROR Gene

Pathways & Interactions for LINC-ROR Gene

PathCards logo

SuperPathways for LINC-ROR Gene

genes like me logo Genes that share pathways with LINC-ROR: view

Pathways by source for LINC-ROR Gene

1 BioSystems pathway for LINC-ROR Gene

Gene Ontology (GO) - Biological Process for LINC-ROR Gene

None

No data available for Interacting Proteins and SIGNOR curated interactions for LINC-ROR Gene

Drugs & Compounds for LINC-ROR Gene

No Compound Related Data Available

Transcripts for LINC-ROR Gene

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

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS00007681C7_9606 lncRNA 2603 3

HGNC: 43773,

RefSeq: NR_048536,

LNCipedia: LINC-ROR:4,

URS000083C204_9606 lncRNA 2186 3

Ensembl: ENST00000645956 (view in UCSC) ,

LNCipedia: LINC-ROR:9,

ENA: LC027886.1:1..2186:ncRNA,

URS00008145B3_9606 lncRNA 766 3

Ensembl: ENST00000643706 (view in UCSC) ,

LNCipedia: LINC-ROR:7,

ENA: AB908956.1:1..766:ncRNA,

URS000081DD87_9606 lncRNA 568 3

Ensembl: ENST00000644575 (view in UCSC) ,

LNCipedia: LINC-ROR:10,

ENA: AB932951.1:1..568:ncRNA,

URS0000D62423_9606 lncRNA 2604 2

Ensembl: ENST00000553704 (view in UCSC) ,

LNCipedia: LINC-ROR:6,

LINC-ROR in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC-ROR Gene

8 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC-ROR Gene

No ASD Table

Relevant External Links for LINC-ROR Gene

GeneLoc Exon Structure for
LINC-ROR

Expression for LINC-ROR Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC-ROR Gene

mRNA differential expression in normal tissues according to GTEx for LINC-ROR Gene

This gene is overexpressed in Testis (x10.5).

SOURCE GeneReport for Unigene cluster for LINC-ROR Gene:

Hs.742426

Evidence on tissue expression from TISSUES for LINC-ROR Gene

  • Blood(2.6)
  • Nervous system(2.3)
  • Liver(2.3)
  • Lymph node(2.3)
  • Spleen(2.2)
  • Intestine(2.2)
  • Skin(2.1)
  • Muscle(2.1)
  • Heart(2)
genes like me logo Genes that share expression patterns with LINC-ROR: 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 and Phenotype-based relationships between genes and organs from Gene ORGANizer for LINC-ROR Gene

Orthologs for LINC-ROR Gene

Evolution for LINC-ROR Gene

ENSEMBL:
Gene Tree for LINC-ROR (if available)
TreeFam:
Gene Tree for LINC-ROR (if available)

No data available for Orthologs for LINC-ROR Gene

Paralogs for LINC-ROR Gene

No data available for Paralogs for LINC-ROR Gene

Variants for LINC-ROR Gene

Additional dbSNP identifiers (rs#s) for LINC-ROR Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC-ROR Gene

Variant ID Type Subtype PubMed ID
dgv5954n54 CNV loss 21841781
esv2437519 CNV insertion 19546169
esv3431467 CNV duplication 20981092
esv3448993 CNV duplication 20981092
nsv1056480 CNV gain 25217958
nsv458083 CNV loss 19166990

Additional Variant Information for LINC-ROR Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC-ROR

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 LINC-ROR Gene

Disorders for LINC-ROR Gene

MalaCards: The human disease database

(19) MalaCards diseases for LINC-ROR Gene - From: LncRNADisease, DISEASES, and GeneCards

- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with LINC-ROR: view

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

Publications for LINC-ROR Gene

  1. Modulation of hypoxia-signaling pathways by extracellular linc-RoR. (PMID: 24463816) Takahashi K … Patel T (Journal of cell science 2014) 2 3
  2. Repressing the repressor: a lincRNA as a MicroRNA sponge in embryonic stem cell self-renewal. (PMID: 23597480) Cheng EC … Lin H (Developmental cell 2013) 2 3
  3. Endogenous miRNA sponge lincRNA-RoR regulates Oct4, Nanog, and Sox2 in human embryonic stem cell self-renewal. (PMID: 23541921) Wang Y … Liu H (Developmental cell 2013) 2 3
  4. The human long non-coding RNA-RoR is a p53 repressor in response to DNA damage. (PMID: 23208419) Zhang A … Mo YY (Cell research 2013) 2 3
  5. Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells. (PMID: 21057500) Loewer S … Rinn JL (Nature genetics 2010) 2 3

Products for LINC-ROR Gene

Sources for LINC-ROR Gene