HOTAIR Gene (RNA Gene)

HOX Transcript Antisense RNA

GC12M053962
GIFtS:
23
This gene is located within the Homeobox C (HOXC) gene cluster on chromosome 12 and is co-expressed with the HOXC genes. It functions through an RNA product, which binds lysine specific demethylase 1 (LSD1) and Polycomb repressive complex 2 (PRC2), and serves as a scaffold to assemble these regulators at the HOXD gene cluster, thereby promoting epigenetic repression of HOXD. Th... See more...

Aliases for HOTAIR Gene

Subcategory (RNA class) for HOTAIR Gene

lncRNA

Number of RNA Genes sources:

3 / 14

Aliases for HOTAIR Gene

  • HOX Transcript Antisense RNA 2 3 5
  • HOX Transcript Antisense RNA (Non-Protein Coding) 2 3
  • HOXC Cluster Antisense RNA 4 (Non-Protein Coding) 2 3
  • HOTAIR 2 168
  • Hox Transcript Antisense Intergenic RNA 3
  • Non-Protein Coding RNA 72 2
  • NONHSAG011264 92
  • HSALNG0091318 167
  • HOXC11-AS1 3
  • NCRNA00072 3
  • HOXC-AS4 3
  • HOXAS 3

External Ids for HOTAIR Gene

Previous GeneCards Identifiers for HOTAIR Gene

  • GC00U922319
  • GC12U900912
  • GC12M052644
  • GC12M054356
  • GC12M051393

Summaries for HOTAIR Gene

Entrez Gene Summary for HOTAIR Gene

  • This gene is located within the Homeobox C (HOXC) gene cluster on chromosome 12 and is co-expressed with the HOXC genes. It functions through an RNA product, which binds lysine specific demethylase 1 (LSD1) and Polycomb repressive complex 2 (PRC2), and serves as a scaffold to assemble these regulators at the HOXD gene cluster, thereby promoting epigenetic repression of HOXD. This gene is highly expressed in multiple tumors. Alternatively spliced transcript variants have been identified. [provided by RefSeq, Feb 2019]

GeneCards Summary for HOTAIR Gene

HOTAIR (HOX Transcript Antisense RNA) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with HOTAIR include Gastric Cardia Adenocarcinoma and Gastrointestinal System Cancer. Among its related pathways are LncRNA-mediated mechanisms of therapeutic resistance.

Gene Wiki entry for HOTAIR Gene

Rfam classification for HOTAIR Gene

Additional gene information for HOTAIR Gene

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

Genomics for HOTAIR Gene

GeneHancer (GH) Regulatory Elements for HOTAIR Gene

Promoters and enhancers for HOTAIR Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HOTAIR on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HOTAIR gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • FOXO1a

Genomic Locations for HOTAIR Gene

Genomic Locations for HOTAIR Gene
chr12:53,962,307-53,974,957
(GRCh38/hg38)
Size:
12,651 bases
Orientation:
Minus strand
chr12:54,356,092-54,368,740
(GRCh37/hg19)
Size:
12,649 bases
Orientation:
Minus strand

Genomic View for HOTAIR Gene

Genes around HOTAIR on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for HOTAIR Gene

Proteins for HOTAIR Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for HOTAIR Gene

No Post-translational modifications

No data available for DME Specific Peptides for HOTAIR Gene

Domains & Families for HOTAIR Gene

Gene Families for HOTAIR Gene

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

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

Function for HOTAIR Gene

Products:

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

Phenotypes From GWAS Catalog for HOTAIR Gene

Phenotypes for HOTAIR Gene

GenomeRNAi human phenotypes for HOTAIR:
genes like me logo Genes that share phenotypes with HOTAIR: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HOTAIR

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

Localization for HOTAIR 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 HOTAIR gene
Compartment Confidence
nucleus 3
plasma membrane 2
extracellular 2
cytoskeleton 2
mitochondrion 2
cytosol 2
endoplasmic reticulum 1
endosome 1
lysosome 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 HOTAIR Gene

Pathways & Interactions for HOTAIR Gene

genes like me logo Genes that share pathways with HOTAIR: view

Pathways by source for HOTAIR Gene

1 BioSystems pathway for HOTAIR Gene
;

Gene Ontology (GO) - Biological Process for HOTAIR Gene

None

No data available for Interacting Proteins and SIGNOR curated interactions for HOTAIR Gene

Drugs & Compounds for HOTAIR Gene

Products:

  1. Drug

(1) Drugs for HOTAIR Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Platinum compounds Pharma 0
genes like me logo Genes that share compounds with HOTAIR: view

Transcripts for HOTAIR Gene

Products:

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

mRNA/cDNA for HOTAIR Gene

15 RNACentral transcripts :
3 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
5 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
8 NONCODE transcripts :
4 LncBook transcripts :
11 LNCipedia transcripts :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HOTAIR

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

No ASD Table

Relevant External Links for HOTAIR Gene

GeneLoc Exon Structure for
HOTAIR

Expression for HOTAIR Gene

Products:

  1. Primer
  2. Gene Expression Assay

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

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

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

This gene is overexpressed in Artery - Tibial (x18.3), Skin - Sun Exposed (Lower leg) (x6.6), and Testis (x4.7).

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

SOURCE GeneReport for Unigene cluster for HOTAIR Gene:

Hs.197076
genes like me logo Genes that share expression patterns with HOTAIR: 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 HOTAIR Gene

Orthologs for HOTAIR Gene

Evolution for HOTAIR Gene

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

No data available for Orthologs for HOTAIR Gene

Paralogs for HOTAIR Gene

No data available for Paralogs for HOTAIR Gene

Variants for HOTAIR Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for HOTAIR Gene

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

Variant ID Type Subtype PubMed ID
esv2759900 CNV gain+loss 17122850
nsv428282 CNV gain 18775914
nsv826379 CNV gain 20364138

Additional Variant Information for HOTAIR Gene

Human Gene Mutation Database (HGMD)
HOTAIR
SNPedia medical, phenotypic, and genealogical associations of SNPs for
HOTAIR

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 HOTAIR Gene

Disorders for HOTAIR Gene

MalaCards: The human disease database

(69) MalaCards diseases for HOTAIR Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
gastric cardia adenocarcinoma
  • adenocarcinoma of cardia of stomach
gastrointestinal system cancer
  • digestive system cancer
cerebrovascular disease
  • cerebrovascular accident
functionless pituitary adenoma
  • non-functioning neoplasm of the pituitary
triple-receptor negative breast cancer
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for HOTAIR

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

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

Publications for HOTAIR Gene

  1. HOTAIR lifts noncoding RNAs to new levels. (PMID: 17604716) Woo CJ … Kingston RE (Cell 2007) 2 3 54
  2. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. (PMID: 17604720) Rinn JL … Chang HY (Cell 2007) 2 3 54
  3. HOTAIR/miR-326/FUT6 axis facilitates colorectal cancer progression through regulating fucosylation of CD44 via PI3K/AKT/mTOR pathway. (PMID: 30742932) Pan S … Jia L (Biochimica et biophysica acta. Molecular cell research 2019) 3 54
  4. Long non-coding RNA HOTAIR mediates the switching of histone H3 lysine 27 acetylation to methylation to promote epithelial-to-mesenchymal transition in gastric cancer. (PMID: 30431069) Song Y … Zhang Q (International journal of oncology 2019) 3 54
  5. [The mechanism of HOTAIR regulating the proliferation and apoptosis of prostate cancer cells by targeting down-regulation of miR-152 to improve the expression of FOXR2]. (PMID: 31269585) Xu WB … Cao SQ (Zhonghua yi xue za zhi 2019) 3 54

ExternalLinks

View latest publications for HOTAIR gene in Mastermind

Products for HOTAIR Gene

Sources for HOTAIR Gene