TARDBP [The Human Chemical-Genetic Interaction Map Project]

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======= TARDBP =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: TARDBP
  * **<color #00a2e8>Official Name</color>**: TAR DNA binding protein
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=23435|23435]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q13148|Q13148]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=TARDBP&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20TARDBP|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/605078|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  HIV-1, the causative agent of acquired immunodeficiency syndrome (AIDS), contains an RNA genome that produces a chromosomally integrated DNA during the replicative cycle. Activation of HIV-1 gene expression by the transactivator Tat is dependent on an RNA regulatory element (TAR) located downstream of the transcription initiation site. The protein encoded by this gene is a transcriptional repressor that binds to chromosomally integrated TAR DNA and represses HIV-1 transcription. In addition, this protein regulates alternate splicing of the CFTR gene. A similar pseudogene is present on chromosome 20. [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'>
|RRM 1|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|nuclear inner membrane organization|
|perichromatin fibrils|
|interchromatin granule|
|nuclear membrane organization|
|sequence-specific double-stranded DNA binding|
|negative regulation by host of viral transcription|
|3-UTR-mediated mRNA stabilization|
|negative regulation of viral transcription|
|positive regulation of protein import into nucleus|
|positive regulation of protein import|
|mRNA stabilization|
|single-stranded RNA binding|
|RNA stabilization|
|negative regulation of mRNA catabolic process|
|nuclear envelope organization|
|regulation of protein import into nucleus|
|regulation of protein import|
|negative regulation of RNA catabolic process|
|positive regulation of nucleocytoplasmic transport|
|regulation of viral transcription|
|cytoplasmic stress granule|
|modification by host of symbiont morphology or physiology|
|positive regulation of insulin secretion|
|positive regulation of protein localization to nucleus|
|mRNA 3-UTR binding|
|interaction with symbiont|
|negative regulation of mRNA metabolic process|
|positive regulation of peptide hormone secretion|
|negative regulation of viral process|
|double-stranded DNA binding|
|regulation of nucleocytoplasmic transport|
|modification of morphology or physiology of other organism involved in symbiotic interaction|
|regulation of circadian rhythm|
|regulation of protein localization to nucleus|
|positive regulation of hormone secretion|
|nucleus organization|
|positive regulation of intracellular protein transport|
|ribonucleoprotein complex|
|modification of morphology or physiology of other organism|
|regulation of insulin secretion|
|regulation of mRNA stability|
|regulation of RNA stability|
|regulation of mRNA catabolic process|
|regulation of viral process|
|positive regulation of intracellular transport|
|regulation of peptide hormone secretion|
|negative regulation of multi-organism process|
|regulation of symbiosis, encompassing mutualism through parasitism|
|regulation of intracellular protein transport|
|negative regulation of cellular catabolic process|
|response to endoplasmic reticulum stress|
|regulation of hormone secretion|
|positive regulation of protein secretion|
|rhythmic process|
|regulation of protein stability|
|positive regulation of peptide secretion|
|negative regulation of catabolic process|
|positive regulation of cellular protein localization|
|regulation of mRNA metabolic process|
|regulation of intracellular transport|
|RNA splicing|
|nuclear speck|
|positive regulation of secretion by cell|
|negative regulation of protein phosphorylation|
|endomembrane system organization|
|positive regulation of protein transport|
|positive regulation of secretion|
|negative regulation of phosphorylation|
|DNA-binding transcription activator activity, RNA polymerase II-specific|
|positive regulation of establishment of protein localization|
|regulation of protein secretion|
|mRNA processing|
|transcription by RNA polymerase II|
|regulation of peptide secretion|
|posttranscriptional regulation of gene expression|
|regulation of hormone levels|
|regulation of cellular protein localization|
|negative regulation of phosphate metabolic process|
|negative regulation of phosphorus metabolic process|
|negative regulation of protein modification process|
|transcription, DNA-templated|
|nucleic acid-templated transcription|
|RNA biosynthetic process|
|DNA-binding transcription factor activity|
|mRNA metabolic process|
|regulation of protein transport|
|regulation of peptide transport|
|regulation of establishment of protein localization|
|regulation of secretion by cell|
|regulation of multi-organism process|
|symbiotic process|
|regulation of secretion|
|interspecies interaction between organisms|
|regulation of cellular catabolic process|
|membrane organization|
|RNA processing|
|regulation of cellular localization|
|positive regulation of transport|
|regulation of catabolic process|
|regulation of protein localization|
|negative regulation of cellular protein metabolic process|
|identical protein binding|
|nucleobase-containing compound biosynthetic process|
|negative regulation of protein metabolic process|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|regulation of cell cycle|
|positive regulation of transcription by RNA polymerase II|
|organic cyclic compound biosynthetic process|
|negative regulation of RNA metabolic process|
|RNA binding|
|negative regulation of nucleobase-containing compound metabolic process|
|regulation of protein phosphorylation|
|positive regulation of transcription, DNA-templated|
|regulation of apoptotic process|
|regulation of programmed cell death|
|regulation of phosphorylation|
|cellular nitrogen compound biosynthetic process|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|RNA metabolic process|
|regulation of cell death|
|cellular response to stress|
|cellular macromolecule biosynthetic process|
|negative regulation of gene expression|
|positive regulation of RNA metabolic process|
|macromolecule biosynthetic process|
|regulation of phosphate metabolic process|
|regulation of phosphorus metabolic process|
|positive regulation of cell communication|
|positive regulation of signaling|
|regulation of protein modification process|
|regulation of transport|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|positive regulation of cellular biosynthetic process|
|positive regulation of gene expression|
|gene expression|
|positive regulation of biosynthetic process|
</modal>
\\

 === CRISPR Data ===
<button type='primary' size='small' modal='Compound_Hit'>Compound Hit</button>
<button type='primary' 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:exp146|Quinacrine 2.5μM R03 exp146]]|-1.82|
|[[:results:exp456|Benzoate 20000μM R08 exp456]]|1.73|
|[[:results:exp349|Cytochalasin-B 5μM R07 exp349]]|1.77|
|[[:results:exp36|TRAIL 50ng/ml R00 exp36]]|1.84|
|[[:results:exp225|Celastrol 0.12μM R05 exp225]]|1.87|
|[[:results:exp211|AICAR 240μM R05 exp211]]|1.98|
|[[:results:exp35|TRAIL 5ng/ml R00 exp35]]|2.18|
|[[:results:exp214|2-Deoxy-D-glucose 800μM R05 exp214]]|5.04|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:m:meaf6|MEAF6]]|0.433|
|[[:human genes:t:tcf4|TCF4]]|0.424|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 565/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|1/1|
|909776.0|1/1|
|bile duct|24/28|
|blood|25/28|
|bone|17/26|
|breast|26/33|
|central nervous system|48/56|
|cervix|3/4|
|colorectal|13/17|
|esophagus|7/13|
|fibroblast|1/1|
|gastric|9/16|
|kidney|14/21|
|liver|15/20|
|lung|54/75|
|lymphocyte|10/16|
|ovary|18/26|
|pancreas|21/24|
|peripheral nervous system|13/16|
|plasma cell|11/15|
|prostate|1/1|
|skin|18/24|
|soft tissue|6/9|
|thyroid|2/2|
|upper aerodigestive|16/22|
|urinary tract|19/29|
|uterus|4/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 1323
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 8.14 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='TARDBP Expression in NALM6 Cells: 8.14'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>