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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 / 17
Aliases for HOTAIR Gene
External Ids for HOTAIR Gene
- HGNC: 33510
- Entrez Gene: 100124700
- Ensembl: ENSG00000228630
- OMIM: 611400
Previous GeneCards Identifiers for HOTAIR Gene
- GC00U922319
- GC12U900912
- GC12M052644
- GC12M054356
- GC12M051393
Summaries 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.
Rfam classification for HOTAIR Gene
Additional gene information for HOTAIR Gene
- HGNC(33510)
- Entrez Gene(100124700)
- Ensembl(ENSG00000228630)
- OMIM(611400)
- Open Targets Platform(ENSG00000228630)
- Search for HOTAIR at DataMed
- Search for HOTAIR at HumanCyc
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 Pubs
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 the GeneHancer Hub at the UCSC Golden Path
- 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
HOTAIR in the GeneCards ncRNA compendium hub on the UCSC Golden Path
- Cytogenetic band:
-
- 12q13.13 by HGNC
- 12q13.13 by Entrez Gene
- 12q13.13 by Ensembl
HOTAIR Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for HOTAIR Gene
Proteins for HOTAIR Gene
Post-translational modifications for HOTAIR Gene
No Post-translational modifications
Antibody Products
Protein Products
- Search Origene for Purified Proteins, MassSpec and Protein Over-expression Lysates for HOTAIR
- Origene Custom Protein Services for HOTAIR
No data available for DME Specific Peptides for HOTAIR Gene
Domains & Families for HOTAIR Gene
Gene Families for HOTAIR Gene
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
Phenotypes From GWAS Catalog for HOTAIR Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0005515 | protein binding | IEA | -- |
Phenotypes for HOTAIR Gene
- GenomeRNAi human phenotypes for HOTAIR:
Animal Model Products
- Taconic Biosciences: Generate A Custom CRISPR Mouse Model For Your Study
CRISPR Products
- Applied Biological Materials (abm): CRISPR Clones for HOTAIR - Select products 50% OFF >
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-
OriGene CRISPR knockouts for HOTAIR
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miRNA for HOTAIR Gene
- miRTarBase miRNAs that target HOTAIR
miRNA Products
Inhibitory RNA Products
- Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HOTAIR
Clone Products
- Applied Biological Materials (abm): Clones for HOTAIR - Select products 50% OFF >
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- Addgene plasmids for HOTAIR
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No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HOTAIR Gene
Localization 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
| SuperPathway | Contained pathways | ||
|---|---|---|---|
| 1 | LncRNA-mediated mechanisms of therapeutic resistance | ||
Pathways by source for HOTAIR Gene
1 BioSystems pathway for HOTAIR Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0006342 | chromatin silencing | IEA | -- |
No data available for Interacting Proteins and SIGNOR curated interactions for HOTAIR Gene
Drugs & Compounds for HOTAIR Gene
| Name | Status | Disease Links | Group | Role | Mechanism of Action | Clinical Trials |
|---|---|---|---|---|---|---|
| Platinum compounds | Pharma | 0 |
Transcripts for HOTAIR Gene
Non-coding RNA (ncRNA) Transcripts from RNAcentral for HOTAIR Gene
| RNAcentral Transcript ID | Subcategory | Length (nts) | # of Sources | Source Identifiers and Annotations |
|---|---|---|---|---|
| URS0000301B08_9606 | lncRNA | 2421 | 3 |
Ensembl: ENST00000424518 (view in UCSC) , LNCipedia: HOTAIR:1, NONCODE: NONHSAT028510.2, |
| URS000075EF05_9606 | lncRNA | 2337 | 3 |
RefSeq: NR_047518, LNCipedia: HOTAIR:5, NONCODE: NONHSAT028509.2, |
| URS00001A335C_9606 | lncRNA | 918 | 3 |
Ensembl: ENST00000455246 (view in UCSC) , LncBook: HSALNT0189447, LNCipedia: HOTAIR:3, |
| URS000019A694_9606 | lncRNA | 572 | 3 |
Ensembl: ENST00000425595 (view in UCSC) , LNCipedia: HOTAIR:10, NONCODE: NONHSAT028513.2, |
| URS000011D1F0_9606 | lncRNA | 562 | 3 |
Ensembl: ENST00000453875 (view in UCSC) , LNCipedia: HOTAIR:9, NONCODE: NONHSAT028514.2, |
HOTAIR in the GeneCards ncRNA compendium hub on the UCSC Golden Path
Additional transcripts not in RNAcentral for HOTAIR Gene
- 9 NCBI additional mRNA sequence :
CRISPR Products
- Applied Biological Materials (abm): CRISPR Clones for HOTAIR - Select products 50% OFF >
- * HOTAIR CRISPR as ready-to-use vector or virus: ORF | Lenti- | Adeno- | AAV- | Protein Vector - Browse All
- * Gene synthesis, site-directed mutagenesis, subcloning, and more services - Browse All
-
OriGene CRISPR knockouts for HOTAIR
- Search GeneCopoeia for CRISPR/Cas9 clones, lentivirus and AAV products for HOTAIR
miRNA Products
Inhibitory RNA Products
- Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HOTAIR
Clone Products
- Applied Biological Materials (abm): Clones for HOTAIR - Select products 50% OFF >
- * HOTAIR as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
- * Gene synthesis, site-directed mutagenesis, subcloning, and more services - Browse All
- Addgene plasmids for HOTAIR
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for HOTAIR
Relevant External Links for HOTAIR Gene
- GeneLoc Exon Structure for
- HOTAIR
Expression 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.197076Evidence on tissue expression from TISSUES for HOTAIR Gene
- Lymph node(2.4)
- Skin(2.3)
- Blood(2.3)
- Intestine(2.3)
- Liver(2.3)
- Nervous system(2.1)
Primer Products
-
OriGene qPCR primer pairs for HOTAIR
Gene Expression Assay Products
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 HOTAIR Gene
Orthologs for HOTAIR Gene
No data available for Orthologs for HOTAIR Gene
Paralogs for HOTAIR Gene
No data available for Paralogs for HOTAIR Gene
Variants for HOTAIR Gene
Additional Variant Information for HOTAIR Gene
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 HOTAIR Gene
Disorders for HOTAIR Gene
| Disorder | Aliases | PubMed IDs |
|---|---|---|
| gastric cardia adenocarcinoma |
|
|
| gastrointestinal system cancer |
|
|
| cerebrovascular disease |
|
|
| triple-receptor negative breast cancer |
|
|
| functionless pituitary adenoma |
|
Search HOTAIR in MalaCards
View complete list of genes associated with diseases
Additional Disease Information for HOTAIR
No data available for UniProtKB/Swiss-Prot and Genatlas for HOTAIR Gene
Publications for HOTAIR Gene
- 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
- HOTAIR lifts noncoding RNAs to new levels. (PMID: 17604716) Woo CJ … Kingston RE (Cell 2007) 2 3
- Long non-coding RNA HOTAIR modulates the progression of preeclampsia through inhibiting miR-106 in an EZH2-dependent manner. (PMID: 32320706) Zhao YH … Li P (Life sciences 2020) 3
- LncRNA HOTAIR promotes the invasion and metastasis of oral squamous cell carcinoma through metastasis-associated gene 2. (PMID: 31995261) Tao D … Jiang H (Molecular carcinogenesis 2020) 3
- Association analysis between HOTAIR RS1899663 single nucleotide polymorphism and clear cell renal cell carcinoma development in Ukrainian population. (PMID: 32124799) Volkohon AD … Tsyndrenko NL (Wiadomosci lekarskie (Warsaw, Poland : 1960) 2020) 3
ExternalLinks
Products for HOTAIR Gene
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- OriGene qPCR primer pairs for HOTAIR
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- antibodies-online: Search results for available HOTAIR related products ranked by validation data
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Sources for HOTAIR Gene
- (1) GeneCards
- (2) HGNC
- (3) NCBI Entrez Gene
- (4) UniProtKB/Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
- (8) Gene Wiki
- (9) UCSC
- (10) PhosphoSitePlus
- (11) Cell Signaling Technology
- (12) GO
- (13) UniProtKB/TrEMBL
- (14) InterPro
- (15) ProtoNet
- (16) Blocks
- (17) MGI
- (18) IUBMB
- (19) KEGG
- (20) MINT
- (21) STRING
- (22) IntAct
- (23) Novoseek
- (24) PharmGKB
- (25) DrugBank
- (26) HMDB
- (27) ASD
- (28) SAGE
- (29) SOURCE
- (30) HomoloGene
- (31) PanEnsembl
- (32) euGenes
- (33) SGD
- (34) FlyBase
- (35) WormBase
- (36) Pseudogene
- (37) DGV
- (38) dbSNP
- (39) GenAtlas
- (40) HGMD
- (41) GAD
- (42) BGMUT
- (43) HuGE
- (44) Atlas
- (45) GenBank
- (46) HORDE
- (47) HUGE
- (48) IMGT
- (49) Leiden
- (50) miRBase
- (51) DME
- (52) OriGene
- (53) PubMed
- (54) R&D Systems
- (55) TGDB
- (56) Tocris
- (57) Abcam
- (58) Novus Biologicals
- (59) ProSpec
- (60) Sino Biological
- (61) GenScript
- (62) Qiagen
- (63) OCA
- (64) Proteopedia
- (65) MOPED
- (66) neXtProt
- (67) Reactome
- (68) GeneGo (Thomson Reuters)
- (69) DISEASES
- (70) SIMAP
- (71) GenomeRNAi
- (72) LifeMap
- (73) miRTarBase
- (74) MalaCards
- (75) Invitrogen
- (76) BitterDB
- (77) ESI-BIO
- (78) RefSeq
- (79) BioSystems
- (80) MaxQB
- (81) IUPHAR
- (82) BioGPS
- (83) Illumina
- (84) COMPARTMENTS
- (85) HOMER
- (86) PaxDb
- (87) ApexBio
- (88) Addgene
- (89) antibodies-online
- (90) CYP
- (91) NONCODE
- (92) TreeFam
- (93) PathCards
- (94) GeneReviews
- (95) GeneTex
- (96) Taconic Biosciences
- (97) GTEx
- (98) ProteomicsDB
- (99) SCBT
- (100) DGIdb
- (101) ClinicalTrials
- (102) RVIS
- (103) SIGNOR
- (104) diseasecard
- (105) NIH Rare Diseases
- (106) Orphanet
- (107) UMLS
- (108) GTR
- (109) Disease Ontology
- (110) Genetics Home Reference
- (111) MeSH
- (112) MedlinePlus
- (113) CDC
- (114) NINDS
- (115) NCBI Bookshelf
- (116) ClinVar
- (117) Gene Damage Index
- (118) HPO
- (119) UDN
- (120) VISTA
- (121) FANTOM5
- (122) ENCODE
- (123) ProSci
- (124) Horizon
- (125) The Signaling Pathways Project (SPP)
- (126) IID
- (127) VectorBuilder
- (128) SNPedia
- (129) BRCA Exchange
- (130) CIViC
- (131) ProteoGenix
- (132) dbSUPER
- (133) TISSUES
- (134) Gene ORGANizer
- (135) abm
- (136) Human Protein Atlas
- (137) GWAS Catalog
- (138) Monarch Initiative
- (139) DataMed
- (140) HumanCyc
- (141) UCNEbase
- (142) EPDnew
- (143) Applied Biosystems
- (144) GlyConnect
- (145) Aminode
- (146) GeneCopoeia
- (147) GPS-Prot
- (148) RNACentral
- (149) LncRNADisease
- (150) LOVD
- (151) miR2Disease
- (152) DiseaseEnhancer
- (153) Boster Bio
- (154) Biorbyt
- (155) Biocompare
- (156) Mastermind
- (157) CTD^2 Dashboard
- (158) CraniofacialAtlas
- (159) GeneImprint
- (160) Synthego
- (161) ENA
- (162) GtRNAdb
- (163) LncBase
- (164) LncBook
- (165) LNCipedia
- (166) Modomics
- (167) PDBe
- (168) Rfam
- (169) SILVA
- (170) snOPY
- (171) SRPDB
- (172) GENCODE
- (173) TarBase
- (174) Signalway Antibody
- (175) Open Targets Platform
- (176) 5SRRNADB
- (177) snoDB
- (178) MirGeneDB