Entry Detail



General Information

Database ID:LDA0001085
Species:Homo sapiens
Confidence Score:0.5483
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:3069D001254
Disease Name:astrocytomaAstrocytoma
Category:Disease OntologyMeSH
Type:disease of cellular proliferationNeoplasms
Define:A malignant glioma that is has_material_basis_in astocyte cells, a type of star-shaped glial cell, located_in the cerebrum.Neoplasms of the brain and spinal cord derived from glial cells which vary from histologically benign forms to highly anaplastic and malignant tumors. Fibrillary astrocytomas are the most common type and may be classified in order of increasing malignancy (grades I through IV). In the first two decades of life, astrocytomas tend to originate in the cerebellar hemispheres; in adults, they most frequently arise in the cerebrum and frequently undergo malignant transformation. (From Devita et al., Cancer: Principles and Practice of Oncology, 5th ed, pp2013-7; Holland et al., Cancer Medicine, 3d ed, p1082)
Alias:Astrocytic tumor//astrocytoma of brain (disorder)//astrocytoma of Cerebrum//astrocytoma, no ICD-O subtype (morphologic abnormality)//astroglioma//cerebral astrocytomaAstrocytomas//Astroglioma//Astrogliomas//Glioma, Astrocytic//Astrocytic Glioma//Astrocytic Gliomas//Gliomas, Astrocytic//Astrocytoma, Grade I//Astrocytomas, Grade I//Grade I Astrocytoma//Grade I Astrocytomas//Astrocytoma, Grade II//Astrocytomas, Grade II//Grade II Astrocytoma//Grade II Astrocytomas//Astrocytoma, Protoplasmic//Astrocytomas, Protoplasmic//Protoplasmic Astrocytoma//Protoplasmic Astrocytomas//Astrocytoma, Subependymal Giant Cell//Subependymal Giant Cell Astrocytoma//Pilocytic Astrocytoma//Astrocytoma, Pilocytic//Astrocytomas, Pilocytic//Pilocytic Astrocytomas//Childhood Cerebral Astrocytoma//Astrocytoma, Childhood Cerebral//Astrocytomas, Childhood Cerebral//Cerebral Astrocytoma, Childhood//Cerebral Astrocytomas, Childhood//Childhood Cerebral Astrocytomas//Fibrillary Astrocytoma//Astrocytoma, Fibrillary//Astrocytomas, Fibrillary//Fibrillary Astrocytomas//Gemistocytic Astrocytoma//Astrocytoma, Gemistocytic//Astrocytomas, Gemistocytic//Gemistocytic Astrocytomas//Intracranial Astrocytoma//Astrocytoma, Intracranial//Astrocytomas, Intracranial//Intracranial Astrocytomas//Juvenile Pilocytic Astrocytoma//Astrocytoma, Juvenile Pilocytic//Astrocytomas, Juvenile Pilocytic//Juvenile Pilocytic Astrocytomas//Pilocytic Astrocytoma, Juvenile//Pilocytic Astrocytomas, Juvenile//Oligoastrocytoma, Mixed//Mixed Oligoastrocytoma//Mixed Oligoastrocytomas//Oligoastrocytomas, Mixed//Anaplastic Astrocytoma//Anaplastic Astrocytomas//Astrocytoma, Anaplastic//Astrocytomas, Anaplastic//Astrocytoma, Grade III//Astrocytomas, Grade III//Grade III Astrocytoma//Grade III Astrocytomas//Cerebral Astrocytoma//Astrocytoma, Cerebral//Astrocytomas, Cerebral//Cerebral Astrocytomas

 

Evidence Support

Strong Evidence:N/A
Weak Evidence:Nanostring
Prediction Method:N/A

 

Reference

[1] PubMed ID:25085602
Disease Name:astrocytoma
Sample:brain
Dysfunction Pattern:Regulation [up-regulated]
Validated Method:Nanostring
Description:Results indicate that in ATRTs,medulloblastomas,and juvenile pilocytic astrocytomas (JPAs),the HOTAIR and HOXC genes are highly expressed, however,HOXD8-10 genes are not silenced. In ependymomas,there is low expression of the HOXC,HOTAIR,and HOXD8-10 genes.HOX genes are also known to be associated with long noncoding RNAs (lncRNAs) such as HOTAIR,which induces transcriptional silencing of the HOXD locus by recruiting polycomb repressive complex 2 to the HOXD locus.
Author:Chakravadhanula M,Ozols VV,Hampton CN,Zhou L,Catchpoole D,Bhardwaj RD
Year:2014
Title:Expression of the HOX genes and HOTAIR in atypical teratoid rhabdoid tumors and other pediatric brain tumors.
Causality:No