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protein coding gene - prp10 (SPAC27F1.09c) - U2 snRNP-associated protein SF3B1

Gene summary

Standard name
prp10
Systematic ID
SPAC27F1.09c
Product
U2 snRNP-associated protein SF3B1
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
sap155, SF3b155
UniProt ID
Q10178
ORFeome ID
48/48E04
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome I: 4333135..4336804 reverse strand

Annotation

Disease association

MONDO:0018881 - myelodysplastic syndrome

References:

GO biological process

GO:0045292 - mRNA cis splicing, via spliceosome

References:

GO:0140727 - siRNA-mediated pericentric heterochromatin formation

References:

GO:0000245 - spliceosomal complex assembly

References:

GO cellular component

GO:0071013 - catalytic step 2 spliceosome

References:

GO:0005634 - nucleus

References:

GO:0071014 - post-mRNA release spliceosomal complex

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GO:0005686 - U2 snRNP

References:

GO:0071004 - U2-type prespliceosome

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GO molecular function

GO:0003729 - mRNA binding

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GO:0005515 - protein binding

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Genome organisation

PBO:0002475 - alternative splicing

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Modification

MOD:00046 - O-phospho-L-serine

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MOD:00047 - O-phospho-L-threonine

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MOD:00048 - O4'-phospho-L-tyrosine

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MOD:00696 - phosphorylated residue

References:

MOD:01148 - ubiquitinylated lysine

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Multi-locus phenotype

FYPO:0003412 - decreased chromatin silencing at centromere outer repeat

References:

Genotypes:

FYPO:0004085 - decreased vegetative cell growth

References:

Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

FYPO:0003619 - normal mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

References:

Genotypes:

Protein features

PBO:0111765 - HEAT repeat

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0003602 - abolished mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0000082 - decreased cell population growth at high temperature

References:

Genotypes:

FYPO:0004201 - decreased centromeric outer repeat transcript-derived siRNA level

References:

Genotypes:

FYPO:0003412 - decreased chromatin silencing at centromere outer repeat

References:

Genotypes:

FYPO:0003096 - decreased histone H3-K9 methylation at centromere outer repeat during vegetative growth

References:

Genotypes:

FYPO:0003029 - decreased mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0006599 - decreased protein localization to centromeric chromatin during vegetative growth

References:

Genotypes:

FYPO:0003041 - decreased snRNA splicing

References:

Genotypes:

FYPO:0000220 - increased centromeric outer repeat transcript level

References:

Genotypes:

FYPO:0001908 - increased pre-mRNA level

References:

Genotypes:

FYPO:0000311 - inviable after spore germination with normal, unseptated germ tube morphology

References:

Genotypes:

FYPO:0002151 - inviable spore

References:

Genotypes:

FYPO:0002107 - inviable stubby vegetative cell

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

FYPO:0003619 - normal mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0000091 - sensitive to thiabendazole

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

References:

Genotypes:

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

PBO:0006222 - predominantly single copy (one to one)

Warnings

PBO:0000070 - gene structure updated

Protein features

IDNameInterPro nameDB name
PF08920SF3b1SF3b_su1Pfam
PF22646PPP2R1A-like_HEATPP2A/SF3B1-like_HEATPfam
G3DSA:1.25.10.10:FF:000066CATH-FunFam
G3DSA:1.25.10.10:FF:000073CATH-FunFam
G3DSA:1.25.10.10:FF:000504CATH-FunFam
G3DSA:1.25.10.10ARM-likeCATH-Gene3D
SSF48371ARM-type_foldSUPERFAMILY
PTHR12097SF3b_su1-likePANTHER
CoilCOILS
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte

Orthologs

References / Literature

PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:22681890 - Hierarchical modularity and the evolution of genetic interactomes across species.
Ryan CJ et al. Mol Cell 2012 Jun 08;46(5):691-704
PMID:21386897 - Systematic two-hybrid and comparative proteomic analyses reveal novel yeast pre-mRNA splicing factors connected to Prp19.
Ren L et al. PLoS One 2011 Feb 28;6(2):e16719
PMID:24442611 - Endogenous U2·U5·U6 snRNA complexes in S. pombe are intron lariat spliceosomes.
Chen W et al. RNA 2014 Mar;20(3):308-20
PMID:30726745 - Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.
Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.
Hayles J et al. Open Biol 2013 May 22;3(5):130053
PMID:10923022 - Mutations in the large subunit of U2AF disrupt pre-mRNA splicing, cell cycle progression and nuclear structure.
Beales M et al. Yeast 2000 Aug;16(11):1001-13
PMID:32168916 - Human Cancer-Associated Mutations of SF3B1 Lead to a Splicing Modification of Its Own RNA.
Bergot T et al. Cancers (Basel) 2020 Mar 11;12(3)
PMID:25274039 - A systematic genetic screen identifies new factors influencing centromeric heterochromatin integrity in fission yeast.
Bayne EH et al. Genome Biol 2014;15(10):481
PMID:15755920 - Dim1p is required for efficient splicing and export of mRNA encoding lid1p, a component of the fission yeast anaphase-promoting complex.
Carnahan RH et al. Eukaryot Cell 2005 Mar;4(3):577-87
PMID:21712547 - Mitotic substrates of the kinase aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast.
Koch A et al. Sci Signal 2011 Jun 28;4(179):rs6
PMID:14730023 - The conserved RNA recognition motif 3 of U2 snRNA auxiliary factor (U2AF 65) is essential in vivo but dispensable for activity in vitro.
Banerjee H et al. RNA 2004 Feb;10(2):240-53
PMID:28947618 - Sde2 is an intron-specific pre-mRNA splicing regulator activated by ubiquitin-like processing.
Thakran P et al. EMBO J 2018 Jan 04;37(1):89-101
PMID:19547744 - Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species.
Beltrao P et al. PLoS Biol 2009 Jun 16;7(6):e1000134
PMID:22240020 - Characterization of the ptr5+ gene involved in nuclear mRNA export in fission yeast.
Watanabe N et al. Biochem Biophys Res Commun 2012 Feb 03;418(1):62-6
PMID:22064476 - A U1-U2 snRNP interaction network during intron definition.
Shao W et al. Mol Cell Biol 2012 Jan;32(2):470-8
PMID:24713849 - Post-transcriptional regulation of meiotic genes by a nuclear RNA silencing complex.
Egan ED et al. RNA 2014 Jun;20(6):867-81
PMID:26771498 - A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.
Vo TV et al. Cell 2016 Jan 14;164(1-2):310-323
PMID:18948543 - Splicing factors facilitate RNAi-directed silencing in fission yeast.
Bayne EH et al. Science 2008 Oct 24;322(5901):602-6
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.
Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).
Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36
PMID:18257517 - Phosphoproteome analysis of fission yeast.
Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
PMID:34496258 - Transcription and chromatin-based surveillance mechanism controls suppression of cryptic antisense transcription.
Heo DH et al. Cell Rep 2021 Sep 07;36(10):109671
PMID:24081329 - Poly(A) tail-mediated gene regulation by opposing roles of Nab2 and Pab2 nuclear poly(A)-binding proteins in pre-mRNA decay.
Grenier St-Sauveur V et al. Mol Cell Biol 2013 Dec;33(23):4718-31
PMID:29996109 - Quantitative Phosphoproteomics Reveals the Signaling Dynamics of Cell-Cycle Kinases in the Fission Yeast Schizosaccharomyces pombe.
Swaffer MP et al. Cell Rep 2018 Jul 10;24(2):503-514
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.
Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
PMID:39476757 - Characterization of Ksg1 protein kinase-dependent phosphoproteome in the fission yeast S. pombe.
Cipak L et al. Biochem Biophys Res Commun 2024 Oct 25;736:150895
PMID:33823663 - A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.
Halova L et al. Open Biol 2021 Apr;11(4):200405
PMID:24014766 - Structural and functional characterization of the N terminus of Schizosaccharomyces pombe Cwf10.
Livesay SB et al. Eukaryot Cell 2013 Nov;12(11):1472-89
PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.
Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87
PMID:9003295 - Isolation of novel pre-mRNA splicing mutants of Schizosaccharomyces pombe.
Urushiyama S et al. Mol Gen Genet 1996 Nov 27;253(1-2):118-27
PMID:9671485 - A potential role for U2AF-SAP 155 interactions in recruiting U2 snRNP to the branch site.
Gozani O et al. Mol Cell Biol 1998 Aug;18(8):4752-60
PMID:9837997 - The fission yeast prp10(+) gene involved in pre-mRNA splicing encodes a homologue of highly conserved splicing factor, SAP155.
Habara Y et al. Nucleic Acids Res 1998 Dec 15;26(24):5662-9
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.
Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
PMID:28218250 - Chromatin remodeller Fun30 Fft3 induces nucleosome disassembly to facilitate RNA polymerase II elongation.
Lee J et al. Nat Commun 2017 Feb 20;8:14527
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:28446597 - The histone variant H2A.Z promotes splicing of weak introns.
Nissen KE et al. Genes Dev 2017 Apr 01;31(7):688-701
PMID:20018856 - Involvement of the spliceosomal U4 small nuclear RNA in heterochromatic gene silencing at fission yeast centromeres.
Chinen M et al. J Biol Chem 2010 Feb 19;285(8):5630-8
PMID:11350031 - Mutation in the prp12+ gene encoding a homolog of SAP130/SF3b130 causes differential inhibition of pre-mRNA splicing and arrest of cell-cycle progression in Schizosaccharomyces pombe.
Habara Y et al. RNA 2001 May;7(5):671-81
PMID:26167880 - SR protein kinases promote splicing of nonconsensus introns.
Lipp JJ et al. Nat Struct Mol Biol 2015 Aug;22(8):611-7
PMID:10759889 - Large-scale screening of intracellular protein localization in living fission yeast cells by the use of a GFP-fusion genomic DNA library.
Ding DQ et al. Genes Cells 2000 Mar;5(3):169-90