======= CLP1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: CLP1
  * **<color #00a2e8>Official Name</color>**: cleavage factor polyribonucleotide kinase subunit 1
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=10978|10978]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q92989|Q92989]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=CLP1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20CLP1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/608757|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a member of the Clp1 family. The encoded protein is a multifunctional kinase which is a component of the tRNA splicing endonuclease complex and a component of the pre-mRNA cleavage complex II. This protein is implicated in tRNA, mRNA, and siRNA maturation. Mutations in this gene are associated with pontocerebellar hypoplasia type 10 (PCH10). Alternatively splice transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2014]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Polynucleotide kinase that can phosphorylate the 5'- hydroxyl groups of double-stranded RNA (dsRNA), single-stranded RNA (ssRNA), double-stranded DNA (dsDNA) and double-stranded DNA:RNA hybrids. dsRNA is phosphorylated more efficiently than dsDNA, and the RNA component of a DNA:RNA hybrid is phosphorylated more efficiently than the DNA component. Plays a key role in both tRNA splicing and mRNA 3'-end formation. Component of the tRNA splicing endonuclease complex: phosphorylates the 5'-terminus of the tRNA 3'-exon during tRNA splicing; this phosphorylation event is a prerequisite for the subsequent ligation of the two exon halves and the production of a mature tRNA (PubMed:24766809, PubMed:24766810). Its role in tRNA splicing and maturation is required for cerebellar development (PubMed:24766809, PubMed:24766810). Component of the pre-mRNA cleavage complex II (CF-II), which seems to be required for mRNA 3'-end formation. Also phosphorylates the 5'-terminus of exogenously introduced short interfering RNAs (siRNAs), which is a necessary prerequisite for their incorporation into the RNA-induced silencing complex (RISC). However, endogenous siRNAs and microRNAs (miRNAs) that are produced by the cleavage of dsRNA precursors by DICER1 already contain a 5'-phosphate group, so this protein may be dispensible for normal RNA-mediated gene silencing. {ECO:0000269|PubMed:17495927, ECO:0000269|PubMed:18648070, ECO:0000269|PubMed:24766809, ECO:0000269|PubMed:24766810}.

<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'>
|MobB|
|Clp1|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|polydeoxyribonucleotide kinase activity|
|ATP-dependent polyribonucleotide 5-hydroxyl-kinase activity|
|ATP-dependent polydeoxyribonucleotide 5-hydroxyl-kinase activity|
|siRNA loading onto RISC involved in RNA interference|
|tRNA-intron endonuclease complex|
|targeting of mRNA for destruction involved in RNA interference|
|mRNA cleavage factor complex|
|small RNA loading onto RISC|
|tRNA splicing, via endonucleolytic cleavage and ligation|
|RNA splicing, via endonucleolytic cleavage and ligation|
|RNA interference|
|mRNA polyadenylation|
|RNA polyadenylation|
|termination of RNA polymerase II transcription|
|cerebellar cortex development|
|posttranscriptional gene silencing by RNA|
|posttranscriptional gene silencing|
|DNA-templated transcription, termination|
|mRNA 3-end processing|
|gene silencing by RNA|
|cerebellum development|
|metencephalon development|
|tRNA processing|
|RNA 3-end processing|
|hindbrain development|
|gene silencing|
|tRNA metabolic process|
|ribonucleoprotein complex assembly|
|regulation of gene expression, epigenetic|
|ribonucleoprotein complex subunit organization|
|RNA splicing, via transesterification reactions with bulged adenosine as nucleophile|
|mRNA splicing, via spliceosome|
|RNA splicing, via transesterification reactions|
|ncRNA processing|
|RNA splicing|
|ribonucleoprotein complex biogenesis|
|ncRNA metabolic process|
|mRNA processing|
|transcription by RNA polymerase II|
|posttranscriptional regulation of gene expression|
|transcription, DNA-templated|
|nucleic acid-templated transcription|
|RNA biosynthetic process|
|mRNA metabolic process|
|brain development|
|head development|
|cellular protein-containing complex assembly|
|RNA processing|
|central nervous system development|
|nucleobase-containing compound biosynthetic process|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|phosphorylation|
|organic cyclic compound biosynthetic process|
|ATP binding|
|protein-containing complex assembly|
|cellular nitrogen compound biosynthetic process|
|RNA metabolic process|
|cellular macromolecule biosynthetic process|
|negative regulation of gene expression|
|macromolecule biosynthetic process|
|protein-containing complex subunit organization|
|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:exp264|Arsenate 40μM R06 exp264]]|-2.15|
|[[:results:exp211|AICAR 240μM R05 exp211]]|-2.09|
|[[:results:exp53|Suberoylanilide-Hydroxamic-Acid 0.02μM R01 exp53]]|-2.06|
|[[:results:exp300|VE-822 0.04μM R06 exp300]]|-2|
|[[:results:exp274|Citral 50μM R06 exp274]]|-1.94|
|[[:results:exp343|Centrinone 0.5μM R07 exp343]]|-1.89|
|[[:results:exp98|BI-6727 0.04μM R03 exp98]]|-1.75|
|[[:results:exp536|Vitamin-D3 40μM R08 exp536]]|-1.75|
|[[:results:exp237|NN-Diethyl-meta-toluamide 100μM R05 exp237]]|1.74|
|[[:results:exp314|Dimethyloxaloylglycine 11μM R07 exp314]]|1.95|
|[[:results:exp286|HMS-I2 1μM R06 exp286]]|2.65|
</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: 680/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|1/1|
|909776.0|1/1|
|bile duct|26/28|
|blood|24/28|
|bone|20/25|
|breast|33/33|
|central nervous system|55/56|
|cervix|4/4|
|colorectal|17/17|
|esophagus|12/13|
|fibroblast|1/1|
|gastric|15/15|
|kidney|20/21|
|liver|18/20|
|lung|73/75|
|lymphocyte|13/14|
|ovary|23/26|
|pancreas|24/24|
|peripheral nervous system|15/16|
|plasma cell|14/15|
|prostate|1/1|
|skin|18/24|
|soft tissue|6/7|
|thyroid|2/2|
|upper aerodigestive|21/22|
|urinary tract|27/29|
|uterus|5/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 488
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 4.25 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='CLP1 Expression in NALM6 Cells: 4.25'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>