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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 SECISBP2L |
Gene summary |
Gene information | Gene symbol | SECISBP2L | Gene ID | 9728 |
Gene name | SECIS binding protein 2 like | |
Synonyms | SBP2L|SLAN | |
Cytomap | 15q21.1 | |
Type of gene | protein-coding | |
Description | selenocysteine insertion sequence-binding protein 2-like | |
Modification date | 20200313 | |
UniProtAcc | ||
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
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Gene structures and expression levels for SECISBP2L |
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 | UP | ENST00000261847.7 | SECISBP2L-201:protein_coding:SECISBP2L | 1.320296e+03 | 1.215990e+00 | 3.432306e-06 | 4.277026e-05 |
CB | UP | ENST00000561203.1 | SECISBP2L-210:retained_intron:SECISBP2L | 1.414758e+00 | 9.359606e-01 | 5.723526e-04 | 3.230639e-03 |
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 SECISBP2L |
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_148886 | chr15 | 49000877:49001097:49009216:49009378:49011731:49011863 | 49009216:49009378 |
exon_skip_183485 | chr15 | 49027365:49027480:49028144:49028168:49028453:49028487 | 49028144:49028168 |
exon_skip_194681 | chr15 | 49016952:49017015:49017548:49017628:49027365:49027480 | 49017548:49017628 |
exon_skip_266959 | chr15 | 49017548:49017628:49019418:49019552:49027365:49027393 | 49019418:49019552 |
exon_skip_71826 | chr15 | 49017548:49017628:49019418:49019552:49027365:49027480 | 49019418:49019552 |
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 |
exon_skip_71826 | Mayo_CB | 4.576250e-01 | 6.327941e-01 | -1.751691e-01 | 3.202951e-09 |
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Open reading frame (ORF) annotation in the exon skipping event for SECISBP2L |
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 |
ENST00000559471 | 49009216 | 49009378 | Frame-shift |
ENST00000559471 | 49019418 | 49019552 | In-frame |
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 |
ENST00000559471 | 49009216 | 49009378 | Frame-shift |
ENST00000559471 | 49019418 | 49019552 | In-frame |
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 |
ENST00000559471 | 49009216 | 49009378 | Frame-shift |
ENST00000559471 | 49028144 | 49028168 | Frame-shift |
ENST00000559471 | 49019418 | 49019552 | In-frame |
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Infer the effects of exon skipping event on protein functional features for SECISBP2L |
p-ENSG00000138593_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 |
ENST00000559471 | 7193 | 1101 | 49019418 | 49019552 | 1300 | 1433 | 345 | 389 |
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 |
ENST00000559471 | 7193 | 1101 | 49019418 | 49019552 | 1300 | 1433 | 345 | 389 |
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 |
ENST00000559471 | 7193 | 1101 | 49019418 | 49019552 | 1300 | 1433 | 345 | 389 |
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 |
Q93073 | 345 | 389 | 346 | 390 | Alternative sequence | ID=VSP_016342;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:9039502;Dbxref=PMID:9039502 |
Q93073 | 345 | 389 | 1 | 1101 | Chain | ID=PRO_0000050739;Note=Selenocysteine insertion sequence-binding protein 2-like |
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 |
Q93073 | 345 | 389 | 346 | 390 | Alternative sequence | ID=VSP_016342;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:9039502;Dbxref=PMID:9039502 |
Q93073 | 345 | 389 | 1 | 1101 | Chain | ID=PRO_0000050739;Note=Selenocysteine insertion sequence-binding protein 2-like |
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 |
Q93073 | 345 | 389 | 346 | 390 | Alternative sequence | ID=VSP_016342;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:9039502;Dbxref=PMID:9039502 |
Q93073 | 345 | 389 | 1 | 1101 | Chain | ID=PRO_0000050739;Note=Selenocysteine insertion sequence-binding protein 2-like |
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3'-UTR located exon skipping events that lost miRNA binding sites in SECISBP2L |
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 SECISBP2L |
- 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 SECISBP2L |
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 SECISBP2L |
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 SECISBP2L |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | DAZAP1 | exon_skip_71826 | -5.093350e-01 | 3.825309e-11 |
CB | PABPN1 | exon_skip_71826 | -5.172153e-01 | 1.690832e-11 |
CB | ELAVL1 | exon_skip_71826 | -5.157043e-01 | 1.980592e-11 |
CB | CNOT4 | exon_skip_71826 | -6.401865e-01 | 1.947358e-18 |
CB | PCBP1 | exon_skip_71826 | -5.447611e-01 | 8.212272e-13 |
CB | PCBP4 | exon_skip_71826 | 4.845162e-01 | 4.385445e-10 |
CB | TRA2A | exon_skip_71826 | -6.387553e-01 | 2.446617e-18 |
CB | RC3H1 | exon_skip_71826 | -4.983782e-01 | 1.150353e-10 |
CB | FUBP1 | exon_skip_71826 | -6.785567e-01 | 2.648550e-21 |
DLPFC | RBM3 | exon_skip_71826 | 4.916565e-01 | 1.414879e-20 |
FL | RBM3 | exon_skip_71826 | 4.993978e-01 | 6.927593e-14 |
HCC | RBM3 | exon_skip_71826 | 5.794668e-01 | 8.544482e-26 |
IFG | ELAVL1 | exon_skip_71826 | -4.266340e-01 | 2.357067e-02 |
IFG | RBM3 | exon_skip_71826 | 8.424663e-01 | 1.882065e-08 |
IFG | RALYL | exon_skip_71826 | -4.298633e-01 | 2.242644e-02 |
PCC | RBM3 | exon_skip_71826 | 5.767462e-01 | 2.783301e-20 |
PG | RBM3 | exon_skip_71826 | 4.581730e-01 | 5.554687e-12 |
STG | RBM3 | exon_skip_71826 | 5.845779e-01 | 9.467724e-10 |
TC | RBM3 | exon_skip_266959 | 5.710291e-01 | 4.723395e-15 |
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RelatedDrugs for SECISBP2L |
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 SECISBP2L |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |