CLN3
Gene Information
- Official Symbol: CLN3
- Official Name: CLN3 lysosomal/endosomal transmembrane protein, battenin
- Aliases and Previous Symbols: N/A
- Entrez ID: 1201
- UniProt: Q13286
- Interactions: BioGRID
- PubMed articles: Open PubMed
- OMIM: Open OMIM
Function Summary
- Entrez Summary: 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].
- UniProt Summary: N/A
Pfam Domains GO Terms
Pfam Domains
| CLN3 |
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 |
CRISPR Data
Compound Hit Most Correlated Genes in Chemogenomics Tissues where Essential in the Avana Dataset (DepMap 20Q1)
Compound Hit
| Screen | Score |
|---|---|
| Nicotine 3000μM R08 exp510 | -2.42 |
| 42°C R08 exp539 | -2.32 |
| Milciclib 2μM R08 exp502 | -2.21 |
| Centrinone 0.5μM R07 exp343 | -2.14 |
| Arsenate 40μM R06 exp264 | -1.95 |
| Nutlin-3A 1.6μM R06 exp294 | 1.91 |
| 3-Bromopyruvate 7μM R04 exp175 | 1.96 |
| Betulinic acid 10 to 15μM on day4 R05 exp222 | 2.22 |
| UM0011500 10μM R05 exp246 | 4.17 |
Most Correlated Genes in Chemogenomics
No correlation found to any other genes in chemogenomics.
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 |
Essentiality in NALM6
- Essentiality Rank: 8100
- Expression level (log2 read counts): 5.26
Expression Distribution
CLN3 Expression in NALM6 Cells: 5.26
