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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 SRA1 |
Gene summary |
Gene information | Gene symbol | SRA1 | Gene ID | 10011 |
Gene name | steroid receptor RNA activator 1 | |
Synonyms | SRA|SRAP|STRAA1|pp7684 | |
Cytomap | 5q31.3 | |
Type of gene | protein-coding | |
Description | steroid receptor RNA activator 1steroid receptor RNA activator 1 (complexes with NCOA1)steroid receptor RNA activator proteinsteroid receptor coactivator | |
Modification date | 20200313 | |
UniProtAcc | ||
Context | - 21271304(Collapsin Response Mediator protein-2: An Emerging Pathologic Feature and Therapeutic Target for Neurodisease Indications) |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
SRA1 | GO:0007346 | regulation of mitotic cell cycle | 14517287 |
SRA1 | GO:0030154 | cell differentiation | 14517287 |
SRA1 | GO:0042981 | regulation of apoptotic process | 14517287 |
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Gene structures and expression levels for SRA1 |
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 |
CB | DOWN | ENST00000602775.5 | SRA1-205:retained_intron:SRA1 | 3.810490e+02 | -1.220948e+00 | 7.419041e-16 | 4.558954e-13 |
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 SRA1 |
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_274579 | chr5 | 140551061:140551169:140551982:140552184:140557147:140557272 | 140551982:140552184 |
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 SRA1 |
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 |
ENST00000336283 | 140551982 | 140552184 | Frame-shift |
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 |
ENST00000336283 | 140551982 | 140552184 | Frame-shift |
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 |
ENST00000336283 | 140551982 | 140552184 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for SRA1 |
p-ENSG00000213523_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 SRA1 |
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 SRA1 |
- 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 SRA1 |
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 SRA1 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
PCC | exon_skip_274579 | rs7712617 | chr5:140509005 | 4.710278e-08 | 2.411210e-05 |
PCC | exon_skip_274579 | rs2569163 | chr5:140595881 | 3.810876e-07 | 1.483678e-04 |
PCC | exon_skip_274579 | rs2163786 | chr5:140606905 | 9.281122e-06 | 2.379089e-03 |
PCC | exon_skip_274579 | rs2245643 | chr5:140650195 | 7.534740e-05 | 1.372818e-02 |
DLPFC | exon_skip_274579 | rs7712617 | chr5:140509005 | 2.106398e-15 | 1.385272e-12 |
DLPFC | exon_skip_274579 | rs2569163 | chr5:140595881 | 3.868611e-13 | 1.815237e-10 |
DLPFC | exon_skip_274579 | rs2163786 | chr5:140606905 | 7.207556e-09 | 1.706293e-06 |
DLPFC | exon_skip_274579 | rs2245643 | chr5:140650195 | 1.819071e-06 | 2.464421e-04 |
DLPFC | exon_skip_274579 | rs753279 | chr5:140644233 | 4.310788e-06 | 5.365775e-04 |
DLPFC | exon_skip_274579 | rs250432 | chr5:140545130 | 5.860079e-05 | 5.322921e-03 |
DLPFC | exon_skip_274579 | rs10041762 | chr5:140483189 | 7.599503e-05 | 6.653269e-03 |
DLPFC | exon_skip_274579 | rs6550 | chr5:140569031 | 7.599503e-05 | 6.653269e-03 |
DLPFC | exon_skip_274579 | rs2253378 | chr5:140569217 | 1.000245e-04 | 8.447116e-03 |
DLPFC | exon_skip_274579 | rs2569169 | chr5:140597766 | 6.200674e-04 | 3.832283e-02 |
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Correlation with RNA binding proteins (RBPs) for SRA1 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for SRA1 |
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 SRA1 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |