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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 CRMP1 |
Gene summary |
Gene information | Gene symbol | CRMP1 | Gene ID | 1400 |
Gene name | collapsin response mediator protein 1 | |
Synonyms | CRMP-1|DPYSL1|DRP-1|DRP1|ULIP-3 | |
Cytomap | 4p16.2 | |
Type of gene | protein-coding | |
Description | dihydropyrimidinase-related protein 1dihydropyrimidinase-like 1inactive dihydropyrimidinaseunc-33-like phosphoprotein 3 | |
Modification date | 20200320 | |
UniProtAcc | ||
Context | - 16611631(Distinct Priming Kinases Contribute to Differential Regulation of Collapsin Response Mediator Proteins by Glycogen Synthase kinase-3 in Vivo) |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
CRMP1 | GO:1904530 | negative regulation of actin filament binding | 25358863 |
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Gene structures and expression levels for CRMP1 |
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 | ENST00000513911.5 | CRMP1-206:lncRNA:CRMP1 | 2.590021e+02 | -1.564741e+00 | 1.700692e-13 | 3.498185e-11 |
TC | DOWN | ENST00000513911.5 | CRMP1-206:lncRNA:CRMP1 | 2.206065e+02 | -1.426751e+00 | 3.233734e-12 | 9.973533e-10 |
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 CRMP1 |
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_121891 | chr4 | 5861134:5861210:5866668:5866756:5892589:5893086 | 5866668:5866756 |
exon_skip_136336 | chr4 | 5856143:5856307:5861026:5861210:5866668:5866756 | 5861026:5861210 |
exon_skip_173587 | chr4 | 5861026:5861210:5866668:5866756:5889625:5890191 | 5866668:5866756 |
exon_skip_25997 | chr4 | 5861026:5861210:5866668:5866756:5888228:5888355 | 5866668:5866756 |
exon_skip_293791 | chr4 | 5821243:5821851:5825494:5825659:5828489:5828668 | 5825494:5825659 |
exon_skip_33699 | chr4 | 5835915:5836085:5836765:5836906:5839522:5839678 | 5836765:5836906 |
exon_skip_45356 | chr4 | 5861026:5861210:5866668:5866756:5888228:5888471 | 5866668:5866756 |
exon_skip_51228 | chr4 | 5861026:5861210:5866668:5866756:5892589:5893086 | 5866668:5866756 |
exon_skip_69823 | chr4 | 5856190:5856307:5861026:5861210:5866668:5866756 | 5861026:5861210 |
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 CRMP1 |
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 |
ENST00000397890 | 5825494 | 5825659 | Frame-shift |
ENST00000397890 | 5836765 | 5836906 | Frame-shift |
ENST00000397890 | 5861026 | 5861210 | Frame-shift |
ENST00000397890 | 5866668 | 5866756 | 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 |
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 |
ENST00000397890 | 5825494 | 5825659 | Frame-shift |
ENST00000397890 | 5861026 | 5861210 | Frame-shift |
ENST00000397890 | 5866668 | 5866756 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for CRMP1 |
p-ENSG00000072832_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 CRMP1 |
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 CRMP1 |
- 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 CRMP1 |
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 CRMP1 |
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 CRMP1 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for CRMP1 |
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 CRMP1 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |