Entry Detail



General Information

Database ID:LDA0007526
Species:Homo sapiens
Confidence Score:0.7802
Contents:>> ncRNA Information
>> Regulatory Relationship
>> Disease Information
>> Evidence Support
>> Reference

 

ncRNA Information

ncRNA Symbol:HOTAIR
Full Name:HOX transcript antisense RNA
Category:lncRNA
Species:Homo sapiens
Synonyms:HOXC-AS4//HOXC11-AS1//NCRNA00072
Chromosome:12
Strand:-
Coordinate:
Start Site(bp):53962308End Site(bp):53974956
Gene Summary:This gene is located within the Homeobox C (HOXC) gene cluster on chromosome 12 and is co-expressed with HOXC genes. It represses transcription of HOXD genes on chromosome 2 in trans. This gene is shuttled from chromosome 12 to chromosome 2 by a component of Polycomb Repressive Complex 2 (PRC2). This gene interacts with both PRC2 and lysine specific demethylase 1 (LSD1) complexes through its 5' and 3' domains, respectively, and serves as a scaffold to assemble PRC2 and LSD1 complexes to the HOXD gene cluster. It couples H3K27 methylation and H3K4 demethylation for epigenetic silencing of HOXD genes in multiple tissues. This gene is highly expressed in multiple tumors. Alternatively spliced transcript variants have been identified. [provided by RefSeq, Feb 2013]
External Links:
Ensembl ID:ENSG00000228630
HGNC ID:HGNC:33510
Entrez Gene:100124700
VEGA ID:OTTHUMG00000152934
UCSC ID:uc009zne.5
ENA:DQ926657
RefSeq Accession:NR_003716
UniProtKB:N/A

 

Regulatory Relationship

mRNA targets:
Gene SymbolChromosomeStart Site(bp)End Site(bp)Strand
HOXC13
12
53938765
53946544
+
HOXC12
12
53954834
53958956
+
HOXC11
12
53973126
53977643
+
HOXC10
12
53985065
53990279
+
AC012531.3
12
53985845
54034888
+
HOXC6
12
53990624
54030823
+
HOXC9
12
53994895
54003337
+
HOXC8
12
54009106
54012362
+
HOXC4
12
54016931
54056030
+
HOXC5
12
54032853
54035358
+
miRNA targets:
miRNA SymbolChromosomeStart Site(bp)End Site(bp)Strand
MIR196A2
12
53991738
53991847
+
MIR615
12
54033950
54034045
+
Display:

 

Disease Information

 Disease OntologyMeSH
Disease ID:DOID:9253D046152
Disease Name:gastrointestinal stromal tumorGastrointestinal Stromal Tumors
Category:Disease OntologyMeSH
Type:disease of cellular proliferationNeoplasms//Digestive System Diseases
Define:N/AAll tumors in the GASTROINTESTINAL TRACT arising from mesenchymal cells (MESODERM) except those of smooth muscle cells (LEIOMYOMA) or Schwann cells (SCHWANNOMA).
Alias:GANT//GIST//Stromal tumor of gastrointestinal tractStromal Tumor, Gastrointestinal//Stromal Tumors, Gastrointestinal//Tumor, Gastrointestinal Stromal//Tumors, Gastrointestinal Stromal//Gastrointestinal Stromal Neoplasms//Neoplasm, Gastrointestinal Stromal//Neoplasms, Gastrointestinal Stromal//Stromal Neoplasm, Gastrointestinal//Stromal Neoplasms, Gastrointestinal//Gastrointestinal Stromal Tumor//Gastrointestinal Stromal Neoplasm//Gastrointestinal Stromal Sarcoma

 

Evidence Support

Strong Evidence:qPCR
Weak Evidence:N/A
Prediction Method:RWRlncD

 

Reference

[1] PubMed ID:22258453
Disease Name:gastrointestinal stromal tumor
Sample:gastric tissue
Dysfunction Pattern:Regulation [up-regulated]
Validated Method:qPCR
Description:In this study,we identified frequent upregulation of miR-196a and lincRNA HOTAIR in high-risk gastrointestinal stromal tumors (GIST). In like manner,overexpression of HOTAIR was also strongly associated with high-risk grade and metastasis among GIST specimens. RNA interference-mediated knockdown of HOTAIR altered the expression of reported HOTAIR target genes and suppressed GIST cell invasiveness.
Author:Niinuma T,Suzuki H,Nojima M,Nosho K,Yamamoto H,Takamaru H,Yamamoto E,Maruyama R,Nobuoka T,Miyazaki Y,Nishida T,Bamba T,Kanda T,Ajioka Y,Taguchi T,Okahara S,Takahashi H,Nishida Y,Hosokawa M,Hasegawa T,Tokino T,Hirata K,Imai K,Toyota M,Shinomura Y
Year:2012
Title:Upregulation of miR-196a and HOTAIR drive malignant character in gastrointestinal stromal tumors.
Causality:No

[2] PubMed ID:27659532
Disease Name:gastrointestinal stromal tumor
Sample:N/A
Dysfunction Pattern:Regulation
Validated Method:qPCR
Description:Promoter methylation of PCDH10 by HOTAIR regulates the progression of gastrointestinal stromal tumors.
Author:Lee NK,Lee JH,Kim WK,Yun S,Youn YH,Park CH,Choi YY,Kim H,Lee SK
Year:2016
Title:Promoter methylation of PCDH10 by HOTAIR regulates the progression of gastrointestinal stromal tumors.
Causality:Yes