SF3B1 [The Human Chemical-Genetic Interaction Map Project]

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======= SF3B1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: SF3B1
  * **<color #00a2e8>Official Name</color>**: splicing factor 3b subunit 1
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=23451|23451]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/O75533|O75533]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=SF3B1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20SF3B1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/605590|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes subunit 1 of the splicing factor 3b protein complex. Splicing factor 3b, together with splicing factor 3a and a 12S RNA unit, forms the U2 small nuclear ribonucleoproteins complex (U2 snRNP). The splicing factor 3b/3a complex binds pre-mRNA upstream of the intron's branch site in a sequence independent manner and may anchor the U2 snRNP to the pre-mRNA. Splicing factor 3b is also a component of the minor U12-type spliceosome. The carboxy-terminal two-thirds of subunit 1 have 22 non-identical, tandem HEAT repeats that form rod-like, helical structures. Alternative splicing results in multiple transcript variants encoding different isoforms. [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 (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'>
|SF3b1|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|U11/U12 snRNP|
|U2-type prespliceosome|
|U2 snRNP|
|U12-type spliceosomal complex|
|U2-type precatalytic spliceosome|
|spliceosomal complex assembly|
|positive regulation of gene expression, epigenetic|
|catalytic step 2 spliceosome|
|spliceosomal complex|
|mRNA binding|
|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|
|RNA splicing|
|nuclear speck|
|ribonucleoprotein complex biogenesis|
|mRNA processing|
|mRNA metabolic process|
|cellular protein-containing complex assembly|
|RNA processing|
|RNA binding|
|protein-containing complex assembly|
|RNA metabolic process|
|protein-containing complex subunit organization|
|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:exp494|Isoniazid 100μM R08 exp494]]|1.71|
|[[:results:exp415|Trichostatin-A 0.06μM R07 exp415]]|1.79|
|[[:results:exp311|2-Methoxyestradiol 0.55 to 0.75μM  on day4 R07 exp311]]|1.87|
|[[:results:exp425|Beta-Estradiol 0.55μM R07 exp425]]|1.96|
|[[:results:exp345|Cidofovir 10μM R07 exp345]]|1.99|
|[[:results:exp102|Nifuroxazide 5μM R03 exp102]]|2.02|
|[[:results:exp413|THZ531 0.11 to 0.175μM on day4 R07 exp413]]|2.16|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:h:hgc6.3|HGC6.3]]|0.645|
|[[:human genes:r:rpl35|RPL35]]|0.45|
|[[:human genes:p:polr2j3|POLR2J3]]|0.449|
|[[:human genes:p:psmb4|PSMB4]]|0.426|
|[[:human genes:s:sf3a1|SF3A1]]|0.422|
|[[:human genes:r:rpl34|RPL34]]|0.414|
|[[:human genes:t:tfrc|TFRC]]|0.405|
|[[:human genes:s:sf3a3|SF3A3]]|0.402|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 711/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|1/1|
|909776.0|1/1|
|bile duct|28/28|
|blood|27/28|
|bone|26/26|
|breast|33/33|
|central nervous system|54/56|
|cervix|4/4|
|colorectal|15/17|
|esophagus|12/13|
|fibroblast|1/1|
|gastric|14/16|
|kidney|19/21|
|liver|16/20|
|lung|71/75|
|lymphocyte|15/16|
|ovary|25/26|
|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|21/22|
|urinary tract|29/29|
|uterus|5/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 1177
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 9.42 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='SF3B1 Expression in NALM6 Cells: 9.42'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>