======= CLN3 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: CLN3
  * **<color #00a2e8>Official Name</color>**: CLN3 lysosomal/endosomal transmembrane protein, battenin
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=1201|1201]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q13286|Q13286]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=CLN3&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20CLN3|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/607042|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a protein that is involved in lysosomal function. Mutations in this, as well as other neuronal ceroid-lipofuscinosis (CLN) genes, cause neurodegenerative diseases commonly known as Batten disease or collectively known as neuronal ceroid lipofuscinoses (NCLs). Many alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jul 2008]. 
  * **<color #00a2e8>UniProt Summary</color>**: N/A

<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'>
|CLN3|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|lysosomal lumen pH elevation|
|globoside metabolic process|
|intracellular pH elevation|
|glucosylceramide metabolic process|
|pH elevation|
|lysosomal lumen acidification|
|arginine transport|
|galactosylceramide metabolic process|
|amyloid precursor protein catabolic process|
|galactolipid metabolic process|
|regulation of lysosomal lumen pH|
|basic amino acid transport|
|sphingomyelin metabolic process|
|amyloid precursor protein metabolic process|
|glycosylceramide metabolic process|
|vacuolar acidification|
|ionotropic glutamate receptor signaling pathway|
|autophagosome maturation|
|Golgi stack|
|vesicle transport along microtubule|
|glutamate receptor signaling pathway|
|intracellular pH reduction|
|pH reduction|
|vesicle cytoskeletal trafficking|
|neuromuscular process controlling balance|
|lytic vacuole organization|
|lysosome organization|
|glycosphingolipid metabolic process|
|autophagosome|
|caveola|
|associative learning|
|organelle transport along microtubule|
|ceramide metabolic process|
|regulation of intracellular pH|
|regulation of cellular pH|
|neurotransmitter metabolic process|
|action potential|
|regulation of pH|
|integral component of endoplasmic reticulum membrane|
|neuromuscular process|
|cellular monovalent inorganic cation homeostasis|
|glycolipid metabolic process|
|liposaccharide metabolic process|
|amino acid transport|
|synaptic vesicle|
|late endosome|
|vacuole organization|
|unfolded protein binding|
|monovalent inorganic cation homeostasis|
|negative regulation of neuron apoptotic process|
|learning|
|sphingolipid metabolic process|
|transport along microtubule|
|protein processing|
|macroautophagy|
|trans-Golgi network|
|establishment of vesicle localization|
|cytoskeleton-dependent intracellular transport|
|microtubule-based transport|
|vesicle localization|
|ammonium ion metabolic process|
|membrane lipid metabolic process|
|negative regulation of neuron death|
|regulation of neuron apoptotic process|
|membrane raft|
|protein maturation|
|receptor-mediated endocytosis|
|protein-containing complex disassembly|
|lysosome|
|early endosome|
|learning or memory|
|process utilizing autophagic mechanism|
|autophagy|
|microtubule-based movement|
|organic acid transport|
|carboxylic acid transport|
|cognition|
|lysosomal membrane|
|cellular amino acid metabolic process|
|regulation of neuron death|
|neuron projection|
|regulation of cytosolic calcium ion concentration|
|regulation of neurotransmitter levels|
|negative regulation of proteolysis|
|establishment of organelle localization|
|phospholipid metabolic process|
|cellular component disassembly|
|regulation of membrane potential|
|cellular calcium ion homeostasis|
|calcium ion homeostasis|
|organic anion transport|
|cellular divalent inorganic cation homeostasis|
|divalent inorganic cation homeostasis|
|endocytosis|
|cellular metal ion homeostasis|
|behavior|
|organelle localization|
|anion transport|
|Golgi membrane|
|metal ion homeostasis|
|cellular cation homeostasis|
|cellular ion homeostasis|
|microtubule-based process|
|import into cell|
|protein catabolic process|
|cation homeostasis|
|inorganic ion homeostasis|
|regulation of proteolysis|
|cellular chemical homeostasis|
|ion homeostasis|
|cellular amide metabolic process|
|negative regulation of catalytic activity|
|cation transport|
|membrane organization|
|organophosphate metabolic process|
|negative regulation of apoptotic process|
|cellular homeostasis|
|negative regulation of programmed cell death|
|carboxylic acid metabolic process|
|cellular lipid metabolic process|
|Golgi apparatus|
|negative regulation of cell death|
|oxoacid metabolic process|
|endoplasmic reticulum|
|organic acid metabolic process|
|carbohydrate derivative metabolic process|
|negative regulation of cellular protein metabolic process|
|macromolecule catabolic process|
|organonitrogen compound catabolic process|
|negative regulation of protein metabolic process|
|chemical homeostasis|
|negative regulation of molecular function|
|lipid metabolic process|
|mitochondrion|
|proteolysis|
|ion transport|
|nervous system process|
|intracellular transport|
|regulation of apoptotic process|
|movement of cell or subcellular component|
|regulation of programmed cell death|
|homeostatic process|
|regulation of cell death|
|small molecule metabolic process|
|organic substance catabolic process|
|cellular catabolic process|
|establishment of localization in cell|
|nitrogen compound transport|
|protein-containing complex subunit organization|
|vesicle-mediated transport|
|system process|
|gene expression|
</modal>
\\

 === CRISPR Data ===
<button type='primary' 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'>
^Screen^Score^
|[[:results:exp510|Nicotine 3000μM R08 exp510]]|-2.42|
|[[:results:exp539|42°C R08 exp539]]|-2.32|
|[[:results:exp502|Milciclib 2μM R08 exp502]]|-2.21|
|[[:results:exp343|Centrinone 0.5μM R07 exp343]]|-2.14|
|[[:results:exp264|Arsenate 40μM R06 exp264]]|-1.95|
|[[:results:exp294|Nutlin-3A 1.6μM R06 exp294]]|1.91|
|[[:results:exp175|3-Bromopyruvate 7μM R04 exp175]]|1.96|
|[[:results:exp222|Betulinic acid 10 to 15μM on day4 R05 exp222]]|2.22|
|[[:results:exp246|UM0011500 10μM R05 exp246]]|4.17|
</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: 1/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|0/28|
|bone|0/26|
|breast|0/33|
|central nervous system|0/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/16|
|kidney|0/21|
|liver|0/20|
|lung|0/75|
|lymphocyte|0/16|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|0/24|
|soft tissue|0/9|
|thyroid|0/2|
|upper aerodigestive|0/22|
|urinary tract|0/29|
|uterus|1/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 8100
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 5.26 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='CLN3 Expression in NALM6 Cells: 5.26'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>