LINC-ROR Gene (RNA Gene)

Long Intergenic Non-Protein Coding RNA, Regulator Of Reprogramming

GC18M057054
GIFtS:
15
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

Quality Score for this RNA gene is

17

Aliases for LINC-ROR Gene

  • Long Intergenic Non-Protein Coding RNA, Regulator Of Reprogramming 2 3 5
  • LincRNA-RoR 3 171
  • LINC-ROR 2 170
  • LincRNA-ST8SIA3 3
  • HSALNG0121746 169
  • NONHSAG023930 94
  • ROR 3

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 Endometrial 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 for LINC-ROR Gene

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 0.4 Ensembl 750.6 +1.4 1418 3.4 ZBTB10 AB844430 LINC-ROR piR-37656-105 piR-32559-195 LC027889
GH18J057062 Enhancer 0.3 Ensembl 0.4 +7.9 7918 2.8 POLR2A PRDM4 piR-32559-194 AB844430 LC027889 LINC-ROR
- 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 UCSC Golden Path with GeneCards custom track

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

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 Structure • Gene Density

RefSeq DNA sequence for LINC-ROR Gene

Proteins for LINC-ROR Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

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

Gene Families for LINC-ROR Gene

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

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

Function for LINC-ROR Gene

Products:

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

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 2
nucleus 2
plasma membrane 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 SIGNOR curated interactions for LINC-ROR Gene

Drugs & Compounds for LINC-ROR Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for LINC-ROR Gene

Products:

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

mRNA/cDNA for LINC-ROR Gene

(2) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(8) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(14) RNACentral transcripts :
(4) LncBook transcripts :
(13) LNCipedia transcripts :
(2) NONCODE transcripts :
(4) ENA transcripts :

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
ECgene alternative splicing isoforms for
LINC-ROR

Expression for LINC-ROR Gene

Products:

  1. Primer
  2. Gene Expression Assay

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

mRNA expression in normal human tissues for LINC-ROR Gene
mRNA expression by GTEx 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)
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

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for LINC-ROR Gene

SNP ID Clin Chr 18 pos Variation AA Info Type
rs1000033497 -- 57,065,711(-) G/A/C intron_variant
rs1000162953 -- 57,064,037(-) C/G intron_variant
rs1000228685 -- 57,070,781(-) T/A/C intron_variant
rs1000569538 -- 57,062,385(-) C/T intron_variant
rs1000632445 -- 57,068,087(-) C/T intron_variant

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 and Variation tolerance for LINC-ROR Gene

Disorders for LINC-ROR Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
triple-receptor negative breast cancer
endometrial cancer
  • endometrial cancer, familial
gallbladder cancer
  • gallbladder ca
nasopharyngeal carcinoma
  • npc
pancreatic cancer
  • pancreatic carcinoma
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINC-ROR

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
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 56
  2. 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 56
  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 56
  4. 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 56
  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 56

ExternalLinks

View latest publications for LINC-ROR gene in Mastermind

Products for LINC-ROR Gene

Sources for LINC-ROR Gene