Tbio SF3B1 Splicing factor 3B subunit 1

Protein Summary

Description

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). 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]

Uniprot Accession IDs

• O75533
• E9PCH3

Gene Name

• SF3B1

Ensembl ID

• ENST00000335508
• ENSP00000335321
• ENSG00000115524
• ENST00000409915
• ENSP00000428820
• ENST00000414963
• ENSP00000402997

Symbol

• SAP155
• MDS
• PRP10
• Hsh155
• PRPF10
• SAP155
• SF3b155

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
hub protein	1
kinase perturbation	0.99
transcription factor perturbation	0.88
drug perturbation	0.87
protein complex	0.87

Protein Classes

PANTHER Classes

Protein / Nucleic Acid Binding / Rna Binding Protein / Mrna Processing Factor / Mrna Splicing Factor / Splicing Factor 3b Subunit 1

DTO Classes

Protein / Nucleic Acid Binding / Rna Binding Protein / Mrna Processing Factor / Mrna Splicing Factor / Splicing Factor 3b Subunit 1

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 92.98   (req: < 5)

Gene RIFs: 120   (req: <= 3)

Antibodies: 233   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 92.98   (req: >= 5)

Gene RIFs: 120   (req: > 3)

Antibodies: 233   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 6

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Expression Data (0 Tissues)

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No expression data found

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Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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Approved Drugs (0)

No approved drugs found

Active Ligands (0)

No active ligands found

Protein-Protein Interactions (439)

Explore Interacting Targets

1 – 10 of 439

• See Interactions on String-DB

CCDC97

Tdark

Novelty:  2.36351796

p_int:  0.99988672

p_ni:  0.00011328

Score:  0.983

Data Source:  BioPlex,STRINGDB

PHF5A

Tbio

Family:  Epigenetic

Novelty:  0.02989472

p_int:  0.999613728

p_ni:  0.000386272

Score:  0.999

Data Source:  BioPlex,STRINGDB

SNRPE

Tbio

Novelty:  0.02033423

p_int:  0.998990018

p_ni:  0.001009982

Score:  0.997

Data Source:  BioPlex,STRINGDB

SNRPN

Tbio

Novelty:  0.002157

p_int:  0.998226869

p_ni:  0.001773131

Score:  0.986

Data Source:  BioPlex,STRINGDB

SNRPGP15

Tdark

p_int:  0.994863166

p_ni:  0.005136834

Data Source:  BioPlex

SNRPA1

Tbio

Novelty:  0.01232044

p_int:  0.992645829

p_ni:  0.007354171

Score:  0.999

Data Source:  BioPlex,STRINGDB

ZRSR2

Tbio

Novelty:  0.03449891

p_int:  0.98966913

p_ni:  0.01033087

Score:  0.991

Data Source:  BioPlex,STRINGDB

SNRPB2

Tbio

Novelty:  0.17219587

p_int:  0.989279919

p_ni:  0.010720081

Score:  0.999

Data Source:  BioPlex,STRINGDB

SNRPB

Tbio

Novelty:  0.01503535

p_int:  0.970042174

p_ni:  0.029957826

Score:  0.998

Data Source:  BioPlex,STRINGDB

ZCRB1

Tdark

Novelty:  0.37592387

p_int:  0.958288655

p_ni:  0.041711345

Score:  0.968

Data Source:  BioPlex,STRINGDB

Nearest Tclin Targets

Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.

Pathways (11)

Reactome (9)

KEGG (1)

WikiPathways (1)

B-WICH complex positively regulates rRNA expression (R-HSA-5250924)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	B-WICH complex positively regulates rRNA expression	61 targets	R-HSA-5250924
Reactome	Epigenetic regulation of gene expression	118 targets	R-HSA-212165
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160
Reactome	Metabolism of RNA	686 targets	R-HSA-8953854
Reactome	Positive epigenetic regulation of rRNA expression	76 targets	R-HSA-5250913

Name	Explore in Pharos	Explore in Source
B-WICH complex positively regulates rRNA expression	61 targets	R-HSA-5250924
Epigenetic regulation of gene expression	118 targets	R-HSA-212165
Gene expression (Transcription)	1452 targets	R-HSA-74160
Metabolism of RNA	686 targets	R-HSA-8953854
Positive epigenetic regulation of rRNA expression	76 targets	R-HSA-5250913

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (16)

Functions (2)

Components (10)

Processes (4)

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1 – 2 of 2

GO Term	Evidence	Assigned by
RNA binding	Inferred from High Throughput Direct Assay (HDA)	UniProtKB
mRNA binding	Inferred from Biological aspect of Ancestor (IBA)	GO_Central

Disease Associations ()

No disease associations found

GWAS Traits (15)

• Explore on Target Illumination GWAS Analytics (TIGA)

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1 – 5 of 15

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
chronotype measurement	EFO_0008328	1	2	0	1	76.1
schizophrenia	EFO_0000692	8	5	2	1.1	75.7
Eczema	HP_0000964	1	1	0	1	57.3
allergic rhinitis	EFO_0005854	1	1	0	1	57.3
autism spectrum disorder	EFO_0003756	1	2	0	1.1	52

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
chronotype measurement	EFO_0008328	0	1	76.1
schizophrenia	EFO_0000692	2	1.1	75.7
Eczema	HP_0000964	0	1	57.3
allergic rhinitis	EFO_0005854	0	1	57.3
autism spectrum disorder	EFO_0003756	0	1.1	52

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UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Acetylation
Alternative splicing
Citrullination
Complete proteome
Isopeptide bond
mRNA processing
mRNA splicing
Nucleus
Phosphoprotein

GWAS Trait Find Similar Targets

No Header	No Header
Abdominal Aortic Aneurysm
allergic rhinitis
anorexia nervosa
appendicular lean mass
autism spectrum disorder
bipolar disorder
BMI-adjusted waist circumference
brain aneurysm
chronotype measurement
Eczema

MGI Phenotype Find Similar Targets

No Header	No Header
hematopoietic system phenotype
homeostasis/metabolism phenotype
immune system phenotype
mortality/aging
skeleton phenotype

IDG Resources

No IDG generated resources found

Orthologs (16)

1 – 5 of 16

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	splicing factor 3b subunit 1	VGNC:2814	459850
Macaque	splicing factor 3b subunit 1		697773
Mouse	splicing factor 3b, subunit 1	MGI:1932339	81898
Rat	splicing factor 3b, subunit 1	RGD:620148	84486
Dog	splicing factor 3b subunit 1	VGNC:46069	488456

Species	Name	OMA	EggNOG	Inparanoid
Chimp	splicing factor 3b subunit 1
Macaque	splicing factor 3b subunit 1
Mouse	splicing factor 3b, subunit 1
Rat	splicing factor 3b, subunit 1
Dog	splicing factor 3b subunit 1

Publication Statistics

PubMed Score 92.98

PubMed score by year

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PubTator Score 222.51

PubTator score by year

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Related Publications

Text Mined References (149)

GeneRif Annotations (120)

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PMID	Year	Title