RARA [The Human Chemical-Genetic Interaction Map Project]

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======= RARA =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: RARA
  * **<color #00a2e8>Official Name</color>**: retinoic acid receptor alpha
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=5914|5914]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/P10276|P10276]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=RARA&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20RARA|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/180240|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene represents a nuclear retinoic acid receptor. The encoded protein, retinoic acid receptor alpha, regulates transcription in a ligand-dependent manner. This gene has been implicated in regulation of development, differentiation, apoptosis, granulopoeisis, and transcription of clock genes. Translocations between this locus and several other loci have been associated with acute promyelocytic leukemia. Alternatively spliced transcript variants have been found for this locus.[provided by RefSeq, Sep 2010]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Receptor for retinoic acid. Retinoic acid receptors bind as heterodimers to their target response elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various biological processes. The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5'-AGGTCA-3' sites known as DR1-DR5. In the absence of ligand, the RXR-RAR heterodimers associate with a multiprotein complex containing transcription corepressors that induce histone acetylation, chromatin condensation and transcriptional suppression. On ligand binding, the corepressors dissociate from the receptors and associate with the coactivators leading to transcriptional activation. RARA plays an essential role in the regulation of retinoic acid-induced germ cell development during spermatogenesis. Has a role in the survival of early spermatocytes at the beginning prophase of meiosis. In Sertoli cells, may promote the survival and development of early meiotic prophase spermatocytes. In concert with RARG, required for skeletal growth, matrix homeostasis and growth plate function (By similarity). {ECO:0000250|UniProtKB:P11416, ECO:0000269|PubMed:16417524, ECO:0000269|PubMed:19850744, ECO:0000269|PubMed:20215566}.

<button type='primary' size='sm' modal='Pfam_Domains'>Pfam Domains</button>
<button type='primary' size='sm' modal='GO_terms'>GO Terms</button>


<modal id='Pfam_Domains' size='lg' title='Pfam Domains'>
|zf-C4|
|Hormone recep|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|Sertoli cell fate commitment|
|chondroblast differentiation|
|retinoic acid-responsive element binding|
|positive regulation of T-helper 2 cell differentiation|
|negative regulation of granulocyte differentiation|
|trachea cartilage development|
|protein kinase B binding|
|regulation of T-helper 2 cell differentiation|
|positive regulation of interleukin-5 production|
|epithelial cell fate commitment|
|regulation of granulocyte differentiation|
|translation repressor activity, mRNA regulatory element binding|
|positive regulation of interleukin-13 production|
|cellular response to estrogen stimulus|
|positive regulation of type 2 immune response|
|ventricular cardiac muscle cell differentiation|
|retinoic acid receptor signaling pathway|
|alpha-actinin binding|
|trachea development|
|response to vitamin A|
|glandular epithelial cell development|
|Sertoli cell differentiation|
|positive regulation of T-helper cell differentiation|
|regulation of interleukin-5 production|
|regulation of interleukin-13 production|
|positive regulation of interleukin-4 production|
|mRNA 5-UTR binding|
|protein kinase A binding|
|retinoic acid binding|
|regulation of interleukin-4 production|
|outflow tract septum morphogenesis|
|negative regulation of cartilage development|
|positive regulation of CD4-positive, alpha-beta T cell differentiation|
|regulation of type 2 immune response|
|negative regulation of interferon-gamma production|
|growth plate cartilage development|
|regulation of T-helper cell differentiation|
|positive regulation of CD4-positive, alpha-beta T cell activation|
|embryonic camera-type eye development|
|glandular epithelial cell differentiation|
|apoptotic cell clearance|
|prostate gland development|
|endochondral bone growth|
|regulation of myelination|
|cartilage development involved in endochondral bone morphogenesis|
|bone growth|
|regulation of CD4-positive, alpha-beta T cell differentiation|
|positive regulation of alpha-beta T cell differentiation|
|negative regulation of myeloid leukocyte differentiation|
|nuclear receptor activity|
|face development|
|columnar/cuboidal epithelial cell development|
|steroid hormone receptor activity|
|drug binding|
|negative regulation of tumor necrosis factor production|
|regulation of CD4-positive, alpha-beta T cell activation|
|positive regulation of alpha-beta T cell activation|
|negative regulation of tumor necrosis factor superfamily cytokine production|
|regulation of alpha-beta T cell differentiation|
|nuclear receptor transcription coactivator activity|
|cellular response to retinoic acid|
|regulation of cartilage development|
|chromatin DNA binding|
|RNA polymerase II transcription factor complex|
|endochondral bone morphogenesis|
|cardiac septum morphogenesis|
|outflow tract morphogenesis|
|transcription regulatory region sequence-specific DNA binding|
|response to estrogen|
|negative regulation of myeloid cell differentiation|
|hippocampus development|
|positive regulation of T cell differentiation|
|multicellular organism growth|
|ureteric bud development|
|mesonephric tubule development|
|mesonephric epithelium development|
|response to vitamin|
|cardiac muscle cell differentiation|
|neural tube closure|
|mesonephros development|
|tube closure|
|regulation of alpha-beta T cell activation|
|positive regulation of lymphocyte differentiation|
|columnar/cuboidal epithelial cell differentiation|
|organ growth|
|primary neural tube formation|
|regulation of interferon-gamma production|
|negative regulation of leukocyte differentiation|
|neural tube formation|
|response to retinoic acid|
|cardiac septum development|
|limbic system development|
|histone deacetylase binding|
|bone morphogenesis|
|cardiocyte differentiation|
|regulation of myeloid leukocyte differentiation|
|steroid hormone mediated signaling pathway|
|embryonic epithelial tube formation|
|liver development|
|response to ethanol|
|cardiac chamber morphogenesis|
|hepaticobiliary system development|
|kidney epithelium development|
|negative regulation of translation|
|epithelial tube formation|
|male gonad development|
|development of primary male sexual characteristics|
|response to estradiol|
|negative regulation of hemopoiesis|
|regulation of T cell differentiation|
|morphogenesis of embryonic epithelium|
|tube formation|
|positive regulation of leukocyte differentiation|
|negative regulation of cellular amide metabolic process|
|regulation of tumor necrosis factor production|
|regulation of tumor necrosis factor superfamily cytokine production|
|male sex differentiation|
|neural tube development|
|cardiac muscle tissue development|
|intracellular receptor signaling pathway|
|regulation of lymphocyte differentiation|
|cardiac chamber development|
|hormone-mediated signaling pathway|
|cartilage development|
|pallium development|
|transcription initiation from RNA polymerase II promoter|
|positive regulation of binding|
|female pregnancy|
|limb development|
|appendage development|
|cellular response to lipopolysaccharide|
|positive regulation of hemopoiesis|
|cellular response to steroid hormone stimulus|
|regulation of synaptic plasticity|
|cellular response to molecule of bacterial origin|
|epithelial cell development|
|respiratory system development|
|bone development|
|striated muscle cell differentiation|
|positive regulation of T cell activation|
|signaling receptor activity|
|cellular response to acid chemical|
|gonad development|
|multi-multicellular organism process|
|response to nutrient|
|cellular response to biotic stimulus|
|DNA-templated transcription, initiation|
|actin cytoskeleton|
|development of primary sexual characteristics|
|positive regulation of leukocyte cell-cell adhesion|
|positive regulation of immune effector process|
|connective tissue development|
|regulation of myeloid cell differentiation|
|response to alcohol|
|nuclear chromatin|
|skeletal system morphogenesis|
|transcription corepressor activity|
|protein domain specific binding|
|muscle cell differentiation|
|cell fate commitment|
|heart morphogenesis|
|positive regulation of cell-cell adhesion|
|germ cell development|
|telencephalon development|
|sex differentiation|
|kidney development|
|regulation of leukocyte differentiation|
|negative regulation of cytokine production|
|striated muscle tissue development|
|transcription coactivator activity|
|renal system development|
|muscle tissue development|
|regulation of leukocyte cell-cell adhesion|
|response to antibiotic|
|epithelial tube morphogenesis|
|camera-type eye development|
|RNA polymerase II regulatory region sequence-specific DNA binding|
|response to lipopolysaccharide|
|regulation of T cell activation|
|urogenital system development|
|response to molecule of bacterial origin|
|response to steroid hormone|
|phagocytosis|
|transcription factor binding|
|signaling receptor binding|
|response to acid chemical|
|enzyme binding|
|regulation of translation|
|cellular process involved in reproduction in multicellular organism|
|eye development|
|positive regulation of lymphocyte activation|
|visual system development|
|sensory system development|
|positive regulation of neuron differentiation|
|regulation of binding|
|positive regulation of cell cycle|
|forebrain development|
|developmental growth|
|growth|
|regulation of cell-cell adhesion|
|positive regulation of leukocyte activation|
|regulation of cellular amide metabolic process|
|positive regulation of cell adhesion|
|gland development|
|positive regulation of cell activation|
|dendrite|
|reproductive structure development|
|reproductive system development|
|morphogenesis of an epithelium|
|embryonic organ development|
|modulation of chemical synaptic transmission|
|negative regulation of immune system process|
|regulation of trans-synaptic signaling|
|positive regulation of cytokine production|
|regulation of hemopoiesis|
|regulation of immune effector process|
|positive regulation of neurogenesis|
|muscle structure development|
|transcription by RNA polymerase II|
|protein heterodimerization activity|
|skeletal system development|
|response to nutrient levels|
|response to toxic substance|
|regulation of lymphocyte activation|
|cellular response to lipid|
|posttranscriptional regulation of gene expression|
|heart development|
|response to extracellular stimulus|
|positive regulation of nervous system development|
|positive regulation of cell development|
|cellular response to organic cyclic compound|
|spermatogenesis|
|sensory organ development|
|male gamete generation|
|tissue morphogenesis|
|embryonic morphogenesis|
|regulation of leukocyte activation|
|cellular response to hormone stimulus|
|cell surface|
|chordate embryonic development|
|regulation of cell activation|
|transcription, DNA-templated|
|nucleic acid-templated transcription|
|embryo development ending in birth or egg hatching|
|RNA biosynthetic process|
|tube morphogenesis|
|regulation of neuron differentiation|
|developmental process involved in reproduction|
|negative regulation of cell population proliferation|
|DNA-binding transcription factor activity|
|epithelial cell differentiation|
|regulation of cell adhesion|
|response to bacterium|
|gamete generation|
|regulation of cytokine production|
|perinuclear region of cytoplasm|
|negative regulation of cell differentiation|
|brain development|
|head development|
|regulation of neurogenesis|
|multicellular organismal reproductive process|
|sexual reproduction|
|zinc ion binding|
|multicellular organism reproduction|
|tube development|
|response to lipid|
|negative regulation of transcription by RNA polymerase II|
|positive regulation of immune response|
|circulatory system development|
|negative regulation of apoptotic process|
|anatomical structure formation involved in morphogenesis|
|negative regulation of programmed cell death|
|response to hormone|
|positive regulation of cell population proliferation|
|response to organic cyclic compound|
|regulation of nervous system development|
|regulation of cell development|
|negative regulation of developmental process|
|animal organ morphogenesis|
|positive regulation of cell differentiation|
|protein phosphorylation|
|embryo development|
|central nervous system development|
|negative regulation of cell death|
|multi-organism reproductive process|
|response to drug|
|negative regulation of cellular protein metabolic process|
|cellular response to oxygen-containing compound|
|nucleobase-containing compound biosynthetic process|
|response to cytokine|
|negative regulation of protein metabolic process|
|epithelium development|
|regulation of immune response|
|positive regulation of immune system process|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|regulation of cell cycle|
|negative regulation of transcription, DNA-templated|
|negative regulation of multicellular organismal process|
|positive regulation of transcription by RNA polymerase II|
|cellular response to endogenous stimulus|
|negative regulation of nucleic acid-templated transcription|
|negative regulation of RNA biosynthetic process|
|phosphorylation|
|response to other organism|
|organic cyclic compound biosynthetic process|
|response to external biotic stimulus|
|response to biotic stimulus|
|negative regulation of RNA metabolic process|
|positive regulation of developmental process|
|negative regulation of cellular macromolecule biosynthetic process|
|reproductive process|
|reproduction|
|negative regulation of nucleobase-containing compound metabolic process|
|negative regulation of macromolecule biosynthetic process|
|response to endogenous stimulus|
|negative regulation of cellular biosynthetic process|
|generation of neurons|
|regulation of apoptotic process|
|positive regulation of transcription, DNA-templated|
|negative regulation of biosynthetic process|
|response to oxygen-containing compound|
|DNA-binding transcription factor activity, RNA polymerase II-specific|
|regulation of programmed cell death|
|regulation of cell population proliferation|
|neurogenesis|
|cellular nitrogen compound biosynthetic process|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|cell development|
|regulation of immune system process|
|RNA metabolic process|
|regulation of cell death|
|cellular macromolecule biosynthetic process|
|negative regulation of gene expression|
|positive regulation of RNA metabolic process|
|positive regulation of multicellular organismal process|
|tissue development|
|macromolecule biosynthetic process|
|positive regulation of molecular function|
|regulation of cell differentiation|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|vesicle-mediated transport|
|positive regulation of cellular biosynthetic process|
|positive regulation of gene expression|
|gene expression|
|positive regulation of biosynthetic process|
</modal>
\\

 === CRISPR Data ===
<button type='default' size='small' modal='Compound_Hit'>Compound Hit</button>
<button type='default' size='small' modal='Most_Correlated_Genes'>Most Correlated Genes in Chemogenomics</button>
<button type='primary' size='small' modal='Essential_Avana'>Tissues where Essential in the Avana Dataset (DepMap 20Q1)</button>

<modal id='Compound_Hit' size='lg' title='Compound Hit'>
No hits were found.
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
No correlation found to any other genes in chemogenomics.
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 0/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|0/28|
|bone|0/25|
|breast|0/33|
|central nervous system|0/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/15|
|kidney|0/21|
|liver|0/20|
|lung|0/75|
|lymphocyte|0/14|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|0/24|
|soft tissue|0/7|
|thyroid|0/2|
|upper aerodigestive|0/22|
|urinary tract|0/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 13105
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 3.73 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='RARA Expression in NALM6 Cells: 3.73'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>