SF3B6

SF3B6
Available structures
PDB	Ortholog search: PDBe RCSB
List of PDB id codes
	2F9D, 2F9J, 2FHO, 3LQV
Identifiers
Aliases	SF3B6 , HSPC175, Ht006, P14, SAP14, SAP14a, SF3B14, SF3B14a, CGI-110, splicing factor 3b subunit 6
External IDs	OMIM: 607835; MGI: 1913305; HomoloGene: 9360; GeneCards: SF3B6; OMA:SF3B6 - orthologs
Gene location (Human)
Chr.	Chromosome 2 (human)
End	24,076,373 bp
Gene location (Mouse)
Chr.	Chromosome 12 (mouse)
End	4,877,659 bp
RNA expression pattern
	Top expressed in
	skin of arm; ; mucosa of ileum; ; olfactory zone of nasal mucosa; ; Achilles tendon; ; mucosa of sigmoid colon; ; ganglionic eminence; ; cartilage tissue; ; islet of Langerhans; ; rectum; ; tibialis anterior muscle;
	Top expressed in
	saccule; ; otic placode; ; otic vesicle; ; medial ganglionic eminence; ; transitional epithelium of urinary bladder; ; migratory enteric neural crest cell; ; abdominal wall; ; cervix; ; endocardial cushion; ; ventricular zone;
	More reference expression data
	n/a
Gene ontology
Molecular function	nucleic acid binding ; RNA binding ; protein binding ; mRNA binding ;
Cellular component	catalytic step 2 spliceosome ; U12-type spliceosomal complex ; U2-type spliceosomal complex ; precatalytic spliceosome ; nucleus ; U2 snRNP ; nucleoplasm ; spliceosomal complex ;
Biological process	mRNA splicing, via spliceosome ; mRNA processing ; blastocyst formation ; RNA splicing ;
	Sources:Amigo / QuickGO
Orthologs
	51639
	66055
	ENSG00000115128
	ENSMUSG00000037361
	Q9Y3B4
	P59708
	NM_016047
	NM_025323
	NP_057131
	NP_079599
	Wikidata
View/Edit Human	View/Edit Mouse

Last updated November 03, 2024

Splicing factor 3B subunit 6, is a protein encoded by SF3B6 gene in vertebrates.^[5]

Function

This gene encodes a 14 kDa protein subunit of the splicing factor 3b complex. Splicing factor 3b associates with both the U2 and U11/U12 small nuclear ribonucleoprotein complexes (U2 snRNP) of spliceosomes. This 14 kDa protein interacts directly with subunit 1 of the splicing factor 3b complex. This 14 kDa protein also interacts directly with the adenosine that carries out the first transesterification step of splicing at the pre-mRNA branch site.^[5]

Interactions

SF3B14 has been shown to interact with SF3B1.^[6]^[7]

Related Research Articles

A spliceosome is a large ribonucleoprotein (RNP) complex found primarily within the nucleus of eukaryotic cells. The spliceosome is assembled from small nuclear RNAs (snRNA) and numerous proteins. Small nuclear RNA (snRNA) molecules bind to specific proteins to form a small nuclear ribonucleoprotein complex, which in turn combines with other snRNPs to form a large ribonucleoprotein complex called a spliceosome. The spliceosome removes introns from a transcribed pre-mRNA, a type of primary transcript. This process is generally referred to as splicing. An analogy is a film editor, who selectively cuts out irrelevant or incorrect material from the initial film and sends the cleaned-up version to the director for the final cut.

snRNPs, or small nuclear ribonucleoproteins, are RNA-protein complexes that combine with unmodified pre-mRNA and various other proteins to form a spliceosome, a large RNA-protein molecular complex upon which splicing of pre-mRNA occurs. The action of snRNPs is essential to the removal of introns from pre-mRNA, a critical aspect of post-transcriptional modification of RNA, occurring only in the nucleus of eukaryotic cells. Additionally, U7 snRNP is not involved in splicing at all, as U7 snRNP is responsible for processing the 3′ stem-loop of histone pre-mRNA.

<span class="mw-page-title-main">Minor spliceosome</span>

The minor spliceosome is a ribonucleoprotein complex that catalyses the removal (splicing) of an atypical class of spliceosomal introns (U12-type) from messenger RNAs in some clades of eukaryotes. This process is called noncanonical splicing, as opposed to U2-dependent canonical splicing. U12-type introns represent less than 1% of all introns in human cells. However they are found in genes performing essential cellular functions.

The U11 snRNA is an important non-coding RNA in the minor spliceosome protein complex, which activates the alternative splicing mechanism. The minor spliceosome is associated with similar protein components as the major spliceosome. It uses U11 snRNA to recognize the 5' splice site while U12 snRNA binds to the branchpoint to recognize the 3' splice site.

<span class="mw-page-title-main">U1 spliceosomal RNA</span>

U1 spliceosomal RNA is the small nuclear RNA (snRNA) component of U1 snRNP, an RNA-protein complex that combines with other snRNPs, unmodified pre-mRNA, and various other proteins to assemble a spliceosome, a large RNA-protein molecular complex upon which splicing of pre-mRNA occurs. Splicing, or the removal of introns, is a major aspect of post-transcriptional modification, and takes place only in the nucleus of eukaryotes.

snRNP70 also known as U1 small nuclear ribonucleoprotein 70 kDa is a protein that in humans is encoded by the SNRNP70 gene. snRNP70 is a small nuclear ribonucleoprotein that associates with U1 spliceosomal RNA, forming the U1snRNP a core component of the spliceosome. The U1-70K protein and other components of the spliceosome complex form detergent-insoluble aggregates in both sporadic and familial human cases of Alzheimer's disease. U1-70K co-localizes with Tau in neurofibrillary tangles in Alzheimer's disease.

Splicing factor U2AF 35 kDa subunit is a protein that in humans is encoded by the U2AF1 gene.

Splicing factor 3 subunit 1 is a protein that in humans is encoded by the SF3A1 gene.

Splicing factor 3B subunit 1 is a protein that in humans is encoded by the SF3B1 gene.

Splicing factor 3A subunit 3 is a protein that in humans is encoded by the SF3A3 gene.

U5 small nuclear ribonucleoprotein 200 kDa helicase is an enzyme that in humans is encoded by the SNRNP200 gene.

Small nuclear ribonucleoprotein F is a protein that in humans is encoded by the SNRPF gene.

Splicing factor 3A subunit 2 is a protein that in humans is encoded by the SF3A2 gene.

Splicing factor 3B subunit 2 is a protein that in humans is encoded by the SF3B2 gene.

Splicing factor 3B subunit 4 is a protein that in humans is encoded by the SF3B4 gene.

Splicing factor 3B subunit 3 is a protein that in humans is encoded by the SF3B3 gene.

116 kDa U5 small nuclear ribonucleoprotein component is a protein that in humans is encoded by the EFTUD2 gene.

Probable ATP-dependent RNA helicase DDX46 is an enzyme that in humans is encoded by the DDX46 gene.

ATP-dependent RNA helicase DDX42 is an enzyme that in humans is encoded by the DDX42 gene.

Splicing factor 3B subunit 5 is a protein that in humans is encoded by the SF3B5 gene.

References

1 2 3 GRCh38: Ensembl release 89: ENSG00000115128 – Ensembl, May 2017
1 2 3 GRCm38: Ensembl release 89: ENSMUSG00000037361 – Ensembl, May 2017
↑ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
↑ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
1 2 "Entrez Gene: SF3B14 splicing factor 3B, 14 kDa subunit".
↑ Will CL, Schneider C, MacMillan AM, Katopodis NF, Neubauer G, Wilm M, Lührmann R, Query CC (August 2001). "A novel U2 and U11/U12 snRNP protein that associates with the pre-mRNA branch site". EMBO J. 20 (16): 4536–46. doi:10.1093/emboj/20.16.4536. PMC 125580 . PMID 11500380.
↑ Will CL, Urlaub H, Achsel T, Gentzel M, Wilm M, Lührmann R (September 2002). "Characterization of novel SF3b and 17S U2 snRNP proteins, including a human Prp5p homologue and an SF3b DEAD-box protein". EMBO J. 21 (18): 4978–88. doi:10.1093/emboj/cdf480. PMC 126279 . PMID 12234937.

Lai CH, Chou CY, Ch'ang LY, Liu CS, Lin W (2000). "Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics". Genome Res. 10 (5): 703–13. doi:10.1101/gr.10.5.703. PMC 310876 . PMID 10810093.
Hu RM, Han ZG, Song HD, Peng YD, Huang QH, Ren SX, Gu YJ, Huang CH, Li YB, Jiang CL, Fu G, Zhang QH, Gu BW, Dai M, Mao YF, Gao GF, Rong R, Ye M, Zhou J, Xu SH, Gu J, Shi JX, Jin WR, Zhang CK, Wu TM, Huang GY, Chen Z, Chen MD, Chen JL (2000). "Gene expression profiling in the human hypothalamus-pituitary-adrenal axis and full-length cDNA cloning". Proc. Natl. Acad. Sci. U.S.A. 97 (17): 9543–8. Bibcode:2000PNAS...97.9543H. doi: 10.1073/pnas.160270997 . PMC 16901 . PMID 10931946.
Zhang QH, Ye M, Wu XY, Ren SX, Zhao M, Zhao CJ, Fu G, Shen Y, Fan HY, Lu G, Zhong M, Xu XR, Han ZG, Zhang JW, Tao J, Huang QH, Zhou J, Hu GX, Gu J, Chen SJ, Chen Z (2000). "Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells". Genome Res. 10 (10): 1546–60. doi:10.1101/gr.140200. PMC 310934 . PMID 11042152.
Harrington JJ, Sherf B, Rundlett S, Jackson PD, Perry R, Cain S, Leventhal C, Thornton M, Ramachandran R, Whittington J, Lerner L, Costanzo D, McElligott K, Boozer S, Mays R, Smith E, Veloso N, Klika A, Hess J, Cothren K, Lo K, Offenbacher J, Danzig J, Ducar M (2001). "Creation of genome-wide protein expression libraries using random activation of gene expression". Nat. Biotechnol. 19 (5): 440–5. doi:10.1038/88107. PMID 11329013. S2CID 25064683.
Will CL, Schneider C, MacMillan AM, Katopodis NF, Neubauer G, Wilm M, Lührmann R, Query CC (2001). "A novel U2 and U11/U12 snRNP protein that associates with the pre-mRNA branch site". EMBO J. 20 (16): 4536–46. doi:10.1093/emboj/20.16.4536. PMC 125580 . PMID 11500380.
Will CL, Urlaub H, Achsel T, Gentzel M, Wilm M, Lührmann R (2002). "Characterization of novel SF3b and 17S U2 snRNP proteins, including a human Prp5p homologue and an SF3b DEAD-box protein". EMBO J. 21 (18): 4978–88. doi:10.1093/emboj/cdf480. PMC 126279 . PMID 12234937.
Golas MM, Sander B, Will CL, Lührmann R, Stark H (2003). "Molecular architecture of the multiprotein splicing factor SF3b". Science. 300 (5621): 980–4. Bibcode:2003Sci...300..980G. doi:10.1126/science.1084155. PMID 12738865. S2CID 31046270.
Will CL, Schneider C, Hossbach M, Urlaub H, Rauhut R, Elbashir S, Tuschl T, Lührmann R (2004). "The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome". RNA. 10 (6): 929–41. doi:10.1261/rna.7320604. PMC 1370585 . PMID 15146077.
Rush J, Moritz A, Lee KA, Guo A, Goss VL, Spek EJ, Zhang H, Zha XM, Polakiewicz RD, Comb MJ (2005). "Immunoaffinity profiling of tyrosine phosphorylation in cancer cells". Nat. Biotechnol. 23 (1): 94–101. doi:10.1038/nbt1046. PMID 15592455. S2CID 7200157.
Andersen JS, Lam YW, Leung AK, Ong SE, Lyon CE, Lamond AI, Mann M (2005). "Nucleolar proteome dynamics". Nature. 433 (7021): 77–83. Bibcode:2005Natur.433...77A. doi:10.1038/nature03207. PMID 15635413. S2CID 4344740.
Ewing RM, Chu P, Elisma F, Li H, Taylor P, Climie S, McBroom-Cerajewski L, Robinson MD, O'Connor L, Li M, Taylor R, Dharsee M, Ho Y, Heilbut A, Moore L, Zhang S, Ornatsky O, Bukhman YV, Ethier M, Sheng Y, Vasilescu J, Abu-Farha M, Lambert JP, Duewel HS, Stewart II, Kuehl B, Hogue K, Colwill K, Gladwish K, Muskat B, Kinach R, Adams SL, Moran MF, Morin GB, Topaloglou T, Figeys D (2007). "Large-scale mapping of human protein-protein interactions by mass spectrometry". Mol. Syst. Biol. 3 (1): 89. doi:10.1038/msb4100134. PMC 1847948 . PMID 17353931.

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[refGRCh38Ensembl-1] 1 2 3 GRCh38: Ensembl release 89: ENSG00000115128 – Ensembl, May 2017

[refGRCm38Ensembl-2] 1 2 3 GRCm38: Ensembl release 89: ENSMUSG00000037361 – Ensembl, May 2017

[3] "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.

[4] "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.

[entrez-5] 1 2 "Entrez Gene: SF3B14 splicing factor 3B, 14 kDa subunit".

[pmid11500380-6] Will CL, Schneider C, MacMillan AM, Katopodis NF, Neubauer G, Wilm M, Lührmann R, Query CC (August 2001). "A novel U2 and U11/U12 snRNP protein that associates with the pre-mRNA branch site". EMBO J. 20 (16): 4536–46. doi:10.1093/emboj/20.16.4536. PMC 125580 . PMID 11500380.

[pmid12234937-7] Will CL, Urlaub H, Achsel T, Gentzel M, Wilm M, Lührmann R (September 2002). "Characterization of novel SF3b and 17S U2 snRNP proteins, including a human Prp5p homologue and an SF3b DEAD-box protein". EMBO J. 21 (18): 4978–88. doi:10.1093/emboj/cdf480. PMC 126279 . PMID 12234937.

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SF3B6

Contents

Function

Interactions

Related Research Articles

References

Further reading