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Open reading frame (ORF) annotation in the exon skipping event | |
3'-UTR located exon skipping events lost miRNA binding sites | |
Splicing Quantitative Trait Loci (sQTLs) in the skipped exons | |
Gene summary for SRSF3 |
Gene summary |
Gene information | Gene symbol | SRSF3 | Gene ID | 6428 |
Gene name | serine and arginine rich splicing factor 3 | |
Synonyms | SFRS3|SRp20 | |
Cytomap | 6p21.31-p21.2 | |
Type of gene | protein-coding | |
Description | serine/arginine-rich splicing factor 3epididymis secretory sperm binding proteinpre-mRNA splicing factor SRp20pre-mRNA-splicing factor SRP20splicing factor, arginine/serine-rich 3splicing factor, arginine/serine-rich, 20-kD | |
Modification date | 20200313 | |
UniProtAcc | A0A087X2D0, P84103, | |
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
SRSF3 | GO:0006406 | mRNA export from nucleus | 28984244 |
SRSF3 | GO:0048024 | regulation of mRNA splicing, via spliceosome | 26876937 |
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Gene structures and expression levels for SRSF3 |
Skipped exons in the ROSMAP, MSBB, and Mayo based on Ensembl gene isoform structure. * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
Differentially expressed gene analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
Differentially expressed isoform analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
STG | UP | ENST00000477442.6 | SRSF3-203:nonsense_mediated_decay:SRSF3 | 5.214558e+01 | 1.326476e+00 | 1.612198e-06 | 7.343113e-04 |
STG | UP | ENST00000620242.1 | SRSF3-206:retained_intron:SRSF3 | 6.995760e+00 | 1.485096e+00 | 5.455639e-04 | 2.808335e-02 |
Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for SRSF3 |
Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
All exon skipping events in AD cohorts. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
exon_skip_153334 | chr6 | 36598849:36598983:36599821:36600276:36601152:36601190 | 36599821:36600276 |
exon_skip_248467 | chr6 | 36594391:36594481:36596761:36596968:36598849:36598983 | 36596761:36596968 |
exon_skip_270500 | chr6 | 36596761:36596968:36598429:36598526:36598849:36598982 | 36598429:36598526 |
exon_skip_27518 | chr6 | 36596939:36596968:36598429:36598526:36598849:36598983 | 36598429:36598526 |
exon_skip_35812 | chr6 | 36596761:36596968:36598429:36598526:36598849:36598983 | 36598429:36598526 |
Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
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Open reading frame (ORF) annotation in the exon skipping event for SRSF3 |
Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000373715 | 36596761 | 36596968 | 5CDS-5UTR |
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Infer the effects of exon skipping event on protein functional features for SRSF3 |
p-ENSG00000112081_img4.png |
Loci of skipped exons in ROSMAP across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
Loci of skipped exons in MSBB across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
Loci of skipped exons in Mayo across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
Lost protein functional features of individual exon skipping events in ROSMAP. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
Lost protein functional features of individual exon skipping events in MSBB. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
Lost protein functional features of individual exon skipping events in Mayo. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
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3'-UTR located exon skipping events that lost miRNA binding sites in SRSF3 |
3'-UTR exon skipping evnets lost miRNA binding. |
Tissue type | ENST | Exon skip start | Exon skip end | microRNA | Binding site by TargetScan | Binding type by TargetScan | Bdinding site by miRanda | Score of miRanda | Energy by miRanda |
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SNVs in the skipped exons for SRSF3 |
- Differential PSIs between mutated versus non-mutated samples. |
- Depth of Coverage in the skipped exon of the mutated samples. |
- Sashimi plot in the skipped exon of the mutated samples. |
- Non-synonymous mutations located in the skipped exons. |
Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
- Non-synonymous mutations located in the skipped exons in CCLE. |
Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
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AD stage-associated exon skippint events for SRSF3 |
Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR). |
AD stage info | Cohort | Tissue | SE id | Coefficient | P-value | Chromosome | Strand | E1 start | E1 end | Skipped start | Skipped end | E2 start | E2 end |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for SRSF3 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for SRSF3 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | RC3H1 | exon_skip_153334 | 4.330238e-01 | 1.192310e-08 |
CB | ZFP36 | exon_skip_153334 | 5.623639e-01 | 1.221358e-14 |
FL | ELAVL4 | exon_skip_153334 | -4.201190e-01 | 7.198222e-10 |
FL | ZFP36 | exon_skip_153334 | 4.341157e-01 | 1.664288e-10 |
HCC | SAMD4A | exon_skip_153334 | 4.064022e-01 | 2.788973e-12 |
HCC | ZFP36 | exon_skip_153334 | 4.945375e-01 | 3.031089e-18 |
IFG | SAMD4A | exon_skip_153334 | 4.594276e-01 | 1.391337e-02 |
IFG | RBM47 | exon_skip_153334 | 5.277032e-01 | 3.902199e-03 |
IFG | ZFP36 | exon_skip_153334 | 4.168151e-01 | 2.734560e-02 |
IFG | NUP42 | exon_skip_153334 | -4.543034e-01 | 1.515751e-02 |
IFG | PTBP1 | exon_skip_153334 | 4.121507e-01 | 2.930324e-02 |
PCC | RBMS2 | exon_skip_153334 | 4.229056e-01 | 9.732203e-11 |
PCC | RBFOX2 | exon_skip_153334 | -4.460312e-01 | 6.609855e-12 |
PCC | ZFP36 | exon_skip_153334 | 5.206119e-01 | 2.475163e-16 |
PCC | PTBP1 | exon_skip_153334 | 4.365711e-01 | 2.035612e-11 |
PG | SRSF2 | exon_skip_153334 | -4.007977e-01 | 4.461220e-09 |
PG | RBFOX2 | exon_skip_153334 | -5.000366e-01 | 5.498998e-14 |
PG | ELAVL4 | exon_skip_153334 | -5.389968e-01 | 2.163440e-16 |
PG | SFPQ | exon_skip_153334 | -4.051813e-01 | 2.914374e-09 |
PG | HNRNPK | exon_skip_153334 | -4.295767e-01 | 2.428367e-10 |
PG | KHDRBS2 | exon_skip_153334 | -5.267625e-01 | 1.329904e-15 |
PG | ZFP36 | exon_skip_153334 | 5.181978e-01 | 4.542779e-15 |
PG | KHDRBS3 | exon_skip_153334 | -4.839720e-01 | 4.428138e-13 |
PG | RBM24 | exon_skip_153334 | -5.098191e-01 | 1.461971e-14 |
PG | HNRNPA0 | exon_skip_153334 | -5.093383e-01 | 1.561890e-14 |
PG | RBM45 | exon_skip_153334 | -4.464851e-01 | 3.847219e-11 |
PG | NUP42 | exon_skip_153334 | -4.705876e-01 | 2.321277e-12 |
PG | RALYL | exon_skip_153334 | -5.180692e-01 | 4.626123e-15 |
PG | EIF4G2 | exon_skip_153334 | -4.255856e-01 | 3.696909e-10 |
PG | HNRNPL | exon_skip_153334 | -4.243672e-01 | 4.198412e-10 |
PG | CELF1 | exon_skip_153334 | -4.652725e-01 | 4.394320e-12 |
PG | SRSF9 | exon_skip_153334 | -4.370974e-01 | 1.083539e-10 |
PG | NOVA1 | exon_skip_153334 | -4.828195e-01 | 5.121683e-13 |
PG | RBM4 | exon_skip_153334 | -4.102122e-01 | 1.774223e-09 |
STG | KHDRBS2 | exon_skip_153334 | -4.129481e-01 | 4.298142e-05 |
STG | ZFP36 | exon_skip_153334 | 4.309561e-01 | 1.799757e-05 |
STG | NOVA1 | exon_skip_153334 | -4.466670e-01 | 8.078996e-06 |
TC | RBFOX2 | exon_skip_153334 | -4.144650e-01 | 5.077653e-08 |
TC | ELAVL4 | exon_skip_153334 | -5.009326e-01 | 1.518783e-11 |
TC | KHDRBS2 | exon_skip_153334 | -4.420765e-01 | 4.845733e-09 |
TC | ZFP36 | exon_skip_153334 | 4.112934e-01 | 6.563083e-08 |
TC | RBM24 | exon_skip_153334 | -4.763645e-01 | 1.926511e-10 |
TC | NUP42 | exon_skip_153334 | -4.083011e-01 | 8.340591e-08 |
TC | RALYL | exon_skip_153334 | -4.663732e-01 | 5.116865e-10 |
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RelatedDrugs for SRSF3 |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for SRSF3 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |