|
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 CARHSP1 |
Gene summary |
Gene information | Gene symbol | CARHSP1 | Gene ID | 23589 |
Gene name | calcium regulated heat stable protein 1 | |
Synonyms | CRHSP-24|CRHSP24|CSDC1 | |
Cytomap | 16p13.2 | |
Type of gene | protein-coding | |
Description | calcium-regulated heat-stable protein 1calcium regulated heat stable protein 1, 24kDacalcium-regulated heat-stable protein (24kD)calcium-regulated heat-stable protein of 24 kDa | |
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 |
Top |
Gene structures and expression levels for CARHSP1 |
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 | ENST00000561530.5 | CARHSP1-203:protein_coding:CARHSP1 | 2.168385e+01 | 1.029836e+00 | 5.891976e-03 | 2.253905e-02 |
Landscape of isoform expressions across multiple brain tissues between AD and control. |
Top |
Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for CARHSP1 |
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_25482 | chr16 | 8859331:8859335:8860105:8860218:8868966:8869006 | 8860105:8860218 |
exon_skip_259424 | chr16 | 8859173:8859335:8860105:8860218:8868966:8869006 | 8860105:8860218 |
exon_skip_84746 | chr16 | 8859331:8859335:8868049:8868160:8868532:8868719 | 8868049:8868160 |
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 |
Top |
Open reading frame (ORF) annotation in the exon skipping event for CARHSP1 |
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 |
ENST00000611932 | 8860105 | 8860218 | 3UTR-3UTR |
ENST00000618335 | 8868049 | 8868160 | 3UTR-3UTR |
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 |
ENST00000611932 | 8860105 | 8860218 | 3UTR-3UTR |
ENST00000618335 | 8868049 | 8868160 | 3UTR-3UTR |
Top |
Infer the effects of exon skipping event on protein functional features for CARHSP1 |
p-ENSG00000153048_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 |
Top |
3'-UTR located exon skipping events that lost miRNA binding sites in CARHSP1 |
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 |
Mayo | ENST00000611932 | 8860105 | 8860218 | hsa-miR-6742-3p | chr16:8860199-8860206 | 8mer-1a | chr16:8860192-8860210 | 151.00 | -24.63 |
Mayo | ENST00000618335 | 8868049 | 8868160 | hsa-miR-3158-5p | chr16:8868125-8868132 | 8mer-1a | chr16:8868113-8868132 | 146.00 | -25.08 |
Mayo | ENST00000618335 | 8868049 | 8868160 | hsa-miR-6505-3p | chr16:8868109-8868116 | 8mer-1a | chr16:8868107-8868129 | 155.00 | -20.96 |
Mayo | ENST00000611932 | 8860105 | 8860218 | hsa-miR-4308 | chr16:8860123-8860130 | 8mer-1a | chr16:8860108-8860130 | 151.00 | -32.99 |
Mayo | ENST00000618335 | 8868049 | 8868160 | hsa-miR-4720-5p | chr16:8868101-8868108 | 8mer-1a | chr16:8868088-8868108 | 159.00 | -20.78 |
Mayo | ENST00000618335 | 8868049 | 8868160 | hsa-miR-4771 | chr16:8868123-8868130 | 8mer-1a | chr16:8868113-8868132 | 146.00 | -25.08 |
Mayo | ENST00000618335 | 8868049 | 8868160 | hsa-miR-5588-5p | chr16:8868101-8868108 | 8mer-1a | chr16:8868088-8868108 | 159.00 | -20.78 |
Mayo | ENST00000618335 | 8868049 | 8868160 | hsa-miR-4799-3p | chr16:8868101-8868108 | 8mer-1a | chr16:8868088-8868108 | 159.00 | -20.78 |
Mayo | ENST00000611932 | 8860105 | 8860218 | hsa-miR-3934-3p | chr16:8860175-8860182 | 8mer-1a | chr16:8860160-8860182 | 151.00 | -23.25 |
Mayo | ENST00000611932 | 8860105 | 8860218 | hsa-miR-542-3p | chr16:8860184-8860191 | 8mer-1a | chr16:8860180-8860200 | 173.00 | -26.52 |
ROSMAP | ENST00000611932 | 8860105 | 8860218 | hsa-miR-6742-3p | chr16:8860199-8860206 | 8mer-1a | chr16:8860192-8860210 | 151.00 | -24.63 |
ROSMAP | ENST00000618335 | 8868049 | 8868160 | hsa-miR-3158-5p | chr16:8868125-8868132 | 8mer-1a | chr16:8868113-8868132 | 146.00 | -25.08 |
ROSMAP | ENST00000618335 | 8868049 | 8868160 | hsa-miR-6505-3p | chr16:8868109-8868116 | 8mer-1a | chr16:8868107-8868129 | 155.00 | -20.96 |
ROSMAP | ENST00000611932 | 8860105 | 8860218 | hsa-miR-4308 | chr16:8860123-8860130 | 8mer-1a | chr16:8860108-8860130 | 151.00 | -32.99 |
ROSMAP | ENST00000618335 | 8868049 | 8868160 | hsa-miR-4720-5p | chr16:8868101-8868108 | 8mer-1a | chr16:8868088-8868108 | 159.00 | -20.78 |
ROSMAP | ENST00000618335 | 8868049 | 8868160 | hsa-miR-4771 | chr16:8868123-8868130 | 8mer-1a | chr16:8868113-8868132 | 146.00 | -25.08 |
ROSMAP | ENST00000618335 | 8868049 | 8868160 | hsa-miR-5588-5p | chr16:8868101-8868108 | 8mer-1a | chr16:8868088-8868108 | 159.00 | -20.78 |
ROSMAP | ENST00000618335 | 8868049 | 8868160 | hsa-miR-4799-3p | chr16:8868101-8868108 | 8mer-1a | chr16:8868088-8868108 | 159.00 | -20.78 |
ROSMAP | ENST00000611932 | 8860105 | 8860218 | hsa-miR-3934-3p | chr16:8860175-8860182 | 8mer-1a | chr16:8860160-8860182 | 151.00 | -23.25 |
ROSMAP | ENST00000611932 | 8860105 | 8860218 | hsa-miR-542-3p | chr16:8860184-8860191 | 8mer-1a | chr16:8860180-8860200 | 173.00 | -26.52 |
Top |
SNVs in the skipped exons for CARHSP1 |
- 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 |
Top |
AD stage-associated exon skippint events for CARHSP1 |
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 |
Top |
Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for CARHSP1 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
Top |
Correlation with RNA binding proteins (RBPs) for CARHSP1 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
Top |
RelatedDrugs for CARHSP1 |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
RelatedDiseases for CARHSP1 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |