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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 LYG1 |
Gene summary |
Gene information | Gene symbol | LYG1 | Gene ID | 129530 |
Gene name | lysozyme g1 | |
Synonyms | SALW1939 | |
Cytomap | 2q11.2 | |
Type of gene | protein-coding | |
Description | lysozyme g-like protein 1lysozyme G-like 1 | |
Modification date | 20200313 | |
UniProtAcc | Q8N1E2, | |
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 LYG1 |
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 |
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 LYG1 |
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_11214 | chr2 | 99298459:99298549:99301050:99301140:99304640:99304742 | 99301050:99301140 |
exon_skip_15546 | chr2 | 99291237:99291421:99292536:99292640:99295628:99295702 | 99292536:99292640 |
exon_skip_194252 | chr2 | 99284257:99284511:99284688:99284820:99291237:99291418 | 99284688:99284820 |
exon_skip_89264 | chr2 | 99291237:99291421:99292536:99292640:99295628:99295694 | 99292536:99292640 |
exon_skip_92521 | chr2 | 99295628:99295702:99298459:99298549:99301050:99301140 | 99298459:99298549 |
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 LYG1 |
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 |
ENST00000409448 | 99301050 | 99301140 | 3UTR-3UTR |
ENST00000308528 | 99292536 | 99292640 | In-frame |
ENST00000409448 | 99292536 | 99292640 | 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 |
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 |
ENST00000409448 | 99298459 | 99298549 | 3UTR-3UTR |
ENST00000409448 | 99301050 | 99301140 | 3UTR-3UTR |
ENST00000308528 | 99284688 | 99284820 | Frame-shift |
ENST00000409448 | 99284688 | 99284820 | Frame-shift |
ENST00000308528 | 99292536 | 99292640 | In-frame |
ENST00000409448 | 99292536 | 99292640 | In-frame |
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Infer the effects of exon skipping event on protein functional features for LYG1 |
p-ENSG00000144214_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 |
ENST00000308528 | 1007 | 194 | 99292536 | 99292640 | 294 | 397 | 14 | 49 |
ENST00000409448 | 1055 | 194 | 99292536 | 99292640 | 361 | 464 | 14 | 49 |
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 |
ENST00000308528 | 1007 | 194 | 99292536 | 99292640 | 294 | 397 | 14 | 49 |
ENST00000409448 | 1055 | 194 | 99292536 | 99292640 | 361 | 464 | 14 | 49 |
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 |
Q8N1E2 | 14 | 49 | 20 | 194 | Chain | ID=PRO_0000012023;Note=Lysozyme g-like protein 1 |
Q8N1E2 | 14 | 49 | 20 | 194 | Chain | ID=PRO_0000012023;Note=Lysozyme g-like protein 1 |
Q8N1E2 | 14 | 49 | 24 | 80 | Disulfide bond | Ontology_term=ECO:0000250;evidence=ECO:0000250 |
Q8N1E2 | 14 | 49 | 24 | 80 | Disulfide bond | Ontology_term=ECO:0000250;evidence=ECO:0000250 |
Q8N1E2 | 14 | 49 | 38 | 49 | Disulfide bond | Ontology_term=ECO:0000250;evidence=ECO:0000250 |
Q8N1E2 | 14 | 49 | 38 | 49 | Disulfide bond | Ontology_term=ECO:0000250;evidence=ECO:0000250 |
Q8N1E2 | 14 | 49 | 1 | 19 | Signal peptide | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
Q8N1E2 | 14 | 49 | 1 | 19 | Signal peptide | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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 |
Q8N1E2 | 14 | 49 | 20 | 194 | Chain | ID=PRO_0000012023;Note=Lysozyme g-like protein 1 |
Q8N1E2 | 14 | 49 | 20 | 194 | Chain | ID=PRO_0000012023;Note=Lysozyme g-like protein 1 |
Q8N1E2 | 14 | 49 | 24 | 80 | Disulfide bond | Ontology_term=ECO:0000250;evidence=ECO:0000250 |
Q8N1E2 | 14 | 49 | 24 | 80 | Disulfide bond | Ontology_term=ECO:0000250;evidence=ECO:0000250 |
Q8N1E2 | 14 | 49 | 38 | 49 | Disulfide bond | Ontology_term=ECO:0000250;evidence=ECO:0000250 |
Q8N1E2 | 14 | 49 | 38 | 49 | Disulfide bond | Ontology_term=ECO:0000250;evidence=ECO:0000250 |
Q8N1E2 | 14 | 49 | 1 | 19 | Signal peptide | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
Q8N1E2 | 14 | 49 | 1 | 19 | Signal peptide | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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3'-UTR located exon skipping events that lost miRNA binding sites in LYG1 |
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 | ENST00000409448 | 99301050 | 99301140 | hsa-miR-3173-3p | chr2:99301068-99301075 | 8mer-1a | chr2:99301056-99301075 | 166.00 | -25.80 |
Mayo | ENST00000409448 | 99301050 | 99301140 | hsa-miR-4521 | chr2:99301070-99301077 | 8mer-1a | chr2:99301065-99301087 | 157.00 | -19.01 |
Mayo | ENST00000409448 | 99298459 | 99298549 | hsa-miR-3185 | chr2:99298528-99298535 | 8mer-1a | chr2:99298510-99298535 | 159.00 | -21.71 |
Mayo | ENST00000409448 | 99301050 | 99301140 | hsa-miR-6088 | chr2:99301131-99301138 | 8mer-1a | chr2:99301118-99301138 | 160.00 | -19.92 |
Mayo | ENST00000409448 | 99301050 | 99301140 | hsa-miR-4437 | chr2:99301083-99301090 | 8mer-1a | chr2:99301073-99301093 | 165.00 | -29.39 |
Mayo | ENST00000409448 | 99298459 | 99298549 | hsa-miR-4633-5p | chr2:99298510-99298517 | 8mer-1a | chr2:99298510-99298535 | 159.00 | -21.71 |
Mayo | ENST00000409448 | 99301050 | 99301140 | hsa-miR-143-3p | chr2:99301131-99301138 | 8mer-1a | chr2:99301118-99301138 | 160.00 | -19.92 |
Mayo | ENST00000409448 | 99301050 | 99301140 | hsa-miR-12118 | chr2:99301068-99301075 | 8mer-1a | chr2:99301056-99301075 | 166.00 | -25.80 |
Mayo | ENST00000409448 | 99301050 | 99301140 | hsa-miR-6891-5p | chr2:99301068-99301075 | 8mer-1a | chr2:99301056-99301075 | 166.00 | -25.80 |
Mayo | ENST00000409448 | 99298459 | 99298549 | hsa-miR-4672 | chr2:99298495-99298502 | 8mer-1a | chr2:99298490-99298512 | 141.00 | -16.58 |
Mayo | ENST00000409448 | 99301050 | 99301140 | hsa-miR-4770 | chr2:99301131-99301138 | 8mer-1a | chr2:99301118-99301138 | 160.00 | -19.92 |
Mayo | ENST00000409448 | 99298459 | 99298549 | hsa-miR-532-5p | chr2:99298509-99298516 | 8mer-1a | chr2:99298498-99298517 | 156.00 | -13.07 |
Mayo | ENST00000409448 | 99298459 | 99298549 | hsa-miR-450a-1-3p | chr2:99298484-99298491 | 8mer-1a | chr2:99298481-99298500 | 161.00 | -19.98 |
ROSMAP | ENST00000409448 | 99301050 | 99301140 | hsa-miR-3173-3p | chr2:99301068-99301075 | 8mer-1a | chr2:99301056-99301075 | 166.00 | -25.80 |
ROSMAP | ENST00000409448 | 99301050 | 99301140 | hsa-miR-4521 | chr2:99301070-99301077 | 8mer-1a | chr2:99301065-99301087 | 157.00 | -19.01 |
ROSMAP | ENST00000409448 | 99301050 | 99301140 | hsa-miR-6088 | chr2:99301131-99301138 | 8mer-1a | chr2:99301118-99301138 | 160.00 | -19.92 |
ROSMAP | ENST00000409448 | 99301050 | 99301140 | hsa-miR-4437 | chr2:99301083-99301090 | 8mer-1a | chr2:99301073-99301093 | 165.00 | -29.39 |
ROSMAP | ENST00000409448 | 99301050 | 99301140 | hsa-miR-143-3p | chr2:99301131-99301138 | 8mer-1a | chr2:99301118-99301138 | 160.00 | -19.92 |
ROSMAP | ENST00000409448 | 99301050 | 99301140 | hsa-miR-12118 | chr2:99301068-99301075 | 8mer-1a | chr2:99301056-99301075 | 166.00 | -25.80 |
ROSMAP | ENST00000409448 | 99301050 | 99301140 | hsa-miR-6891-5p | chr2:99301068-99301075 | 8mer-1a | chr2:99301056-99301075 | 166.00 | -25.80 |
ROSMAP | ENST00000409448 | 99301050 | 99301140 | hsa-miR-4770 | chr2:99301131-99301138 | 8mer-1a | chr2:99301118-99301138 | 160.00 | -19.92 |
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SNVs in the skipped exons for LYG1 |
- 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 LYG1 |
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 LYG1 |
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 LYG1 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for LYG1 |
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 LYG1 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |