SF3B4 [The Human Chemical-Genetic Interaction Map Project]

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======= SF3B4 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: SF3B4
  * **<color #00a2e8>Official Name</color>**: splicing factor 3b subunit 4
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=10262|10262]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q15427|Q15427]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=SF3B4&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20SF3B4|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/605593|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes one of four subunits of the splicing factor 3B. The protein encoded by this gene cross-links to a region in the pre-mRNA immediately upstream of the branchpoint sequence in pre-mRNA in the prespliceosomal complex A. It also may be involved in the assembly of the B, C and E spliceosomal complexes. In addition to RNA-binding activity, this protein interacts directly and highly specifically with subunit 2 of the splicing factor 3B. This protein contains two N-terminal RNA-recognition motifs (RRMs), consistent with the observation that it binds directly to pre-mRNA. [provided by RefSeq, Jul 2008]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Involved in pre-mRNA splicing as a component of the splicing factor SF3B complex (PubMed:27720643). SF3B complex is required for 'A' complex assembly formed by the stable binding of U2 snRNP to the branchpoint sequence (BPS) in pre-mRNA. Sequence independent binding of SF3A/SF3B complex upstream of the branch site is essential, it may anchor U2 snRNP to the pre-mRNA (PubMed:12234937). May also be involved in the assembly of the 'E' complex. SF3B4 has been found in complex 'B' and 'C' as well (PubMed:10882114). Belongs also to the minor U12-dependent spliceosome, which is involved in the splicing of rare class of nuclear pre-mRNA intron (PubMed:15146077). {ECO:0000269|PubMed:10882114, ECO:0000269|PubMed:12234937, ECO:0000269|PubMed:15146077, ECO:0000269|PubMed:27720643}.

<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'>
|positive regulation of mRNA splicing, via spliceosome|
|U12-type spliceosomal complex|
|positive regulation of mRNA processing|
|positive regulation of RNA splicing|
|U2-type precatalytic spliceosome|
|positive regulation of mRNA metabolic process|
|spliceosomal complex|
|regulation of mRNA splicing, via spliceosome|
|regulation of RNA splicing|
|regulation of mRNA processing|
|ribonucleoprotein complex|
|RNA splicing, via transesterification reactions with bulged adenosine as nucleophile|
|mRNA splicing, via spliceosome|
|RNA splicing, via transesterification reactions|
|regulation of mRNA metabolic process|
|RNA splicing|
|mRNA processing|
|mRNA metabolic process|
|nucleolus|
|RNA processing|
|RNA binding|
|RNA metabolic process|
|positive regulation of RNA metabolic process|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of gene expression|
|gene expression|
</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:exp3|Actinomycin-D 0.001μM R00 exp3]]|-1.74|
|[[:results:exp497|Lead acetate 2000μM R08 exp497]]|1.8|
|[[:results:exp77|Prochlorperazine 5.2μM R02 exp77]]|1.85|
|[[:results:exp444|THZ531 0.225μM R08 exp444]]|1.89|
|[[:results:exp15|Cycloheximide 0.2μM R00 exp15]]|1.96|
|[[:results:exp498|Lead acetate 2000μM R08 exp498 no dilution day6]]|2.16|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:t:terf1|TERF1]]|0.413|
|[[:human genes:p:psmb4|PSMB4]]|0.404|
</modal>

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

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 408
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 6.29 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='SF3B4 Expression in NALM6 Cells: 6.29'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>