SMG9 [The Human Chemical-Genetic Interaction Map Project]

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======= SMG9 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: SMG9
  * **<color #00a2e8>Official Name</color>**: SMG9 nonsense mediated mRNA decay factor
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=56006|56006]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q9H0W8|Q9H0W8]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=SMG9&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20SMG9|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/613176|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a regulatory subunit of the SMG1 complex, which plays a critical role in nonsense-mediated mRNA decay (NMD). Binding of the encoded protein to the SMG1 complex kinase scaffold protein results in the inhibition of its kinase activity. Mutations in this gene cause a multiple congenital anomaly syndrome in human patients, characterized by brain malformation, congenital heart disease and other features. [provided by RefSeq, Jul 2016]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons (PubMed:19417104). Is recruited by release factors to stalled ribosomes together with SMG1 and SMG8 (forming the SMG1C protein kinase complex) and, in the SMG1C complex, is required for the efficient association between SMG1 and SMG8 (PubMed:19417104). Plays a role in brain, heart, and eye development (By similarity). {ECO:0000250|UniProtKB:Q9DB90, ECO:0000269|PubMed:19417104}.

<button type='default' 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'>
No Pfam Domain information is available for this gene.
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|intracellular|
|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|
|nuclear-transcribed mRNA catabolic process|
|mRNA catabolic process|
|RNA catabolic process|
|eye development|
|visual system development|
|sensory system development|
|nucleobase-containing compound catabolic process|
|in utero embryonic development|
|heterocycle catabolic process|
|cellular nitrogen compound catabolic process|
|aromatic compound catabolic process|
|organic cyclic compound catabolic process|
|heart development|
|sensory organ development|
|chordate embryonic development|
|embryo development ending in birth or egg hatching|
|mRNA metabolic process|
|brain development|
|head development|
|circulatory system development|
|cellular macromolecule catabolic process|
|embryo development|
|central nervous system development|
|macromolecule catabolic process|
|identical protein binding|
|RNA metabolic process|
|negative regulation of gene expression|
|organic substance catabolic process|
|cellular catabolic 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:exp85|UM0129480 7μM R02 exp85]]|-2.46|
|[[:results:exp357|Dorsomorphin 5μM R07 exp357]]|-2.14|
|[[:results:exp480|ETC-159 50μM R08 exp480]]|-2.05|
|[[:results:exp189|Temozolomide 200μM R04 exp189]]|-2.01|
|[[:results:exp25|Oligomycin-A 2μM R00 exp25]]|-1.95|
|[[:results:exp351|Dexamethasone 0.006μM R07 exp351]]|-1.76|
|[[:results:exp222|Betulinic acid 10 to 15μM on day4 R05 exp222]]|-1.73|
|[[:results:exp289|Hydroxyurea 15μM R06 exp289]]|-1.71|
|[[:results:exp372|Ibrutinib 1μM R07 exp372]]|-1.71|
|[[:results:exp376|Losmapimod 1μM R07 exp376]]|-1.7|
|[[:results:exp400|Senexin-A 25μM R07 exp400]]|-1.7|
|[[:results:exp34|Rotenone 20μM R00 exp34]]|1.71|
|[[:results:exp95|BI-2536 0.0042μM R03 exp95]]|1.76|
|[[:results:exp264|Arsenate 40μM R06 exp264]]|1.82|
|[[:results:exp211|AICAR 240μM R05 exp211]]|1.94|
|[[:results:exp513|ONC212 0.15μM R08 exp513]]|2.08|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:s:smg8|SMG8]]|0.494|
|[[:human genes:u:ube2g2|UBE2G2]]|0.447|
|[[:human genes:s:sox7|SOX7]]|0.421|
|[[:human genes:m:manf|MANF]]|0.419|
|[[:human genes:p:pmm2|PMM2]]|0.409|
|[[:human genes:e:eed|EED]]|0.401|
|[[:human genes:d:dnajc3|DNAJC3]]|0.4|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 0/739
^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|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 10075
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 5.84 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='SMG9 Expression in NALM6 Cells: 5.84'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>