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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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Gene summary for APOD |
 Gene summary |
| Gene information | Gene symbol | APOD | Gene ID | 347 |
| Gene name | apolipoprotein D | |
| Synonyms | - | |
| Cytomap | 3q29 | |
| Type of gene | protein-coding | |
| Description | apolipoprotein Dapo-D | |
| Modification date | 20180523 | |
| UniProtAcc | P05090 | |
| Context | PubMed: APOD [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| APOD | GO:0000302 | response to reactive oxygen species | 18419796 |
| APOD | GO:0006006 | glucose metabolic process | 19176353 |
| APOD | GO:0006629 | lipid metabolic process | 19176353 |
| APOD | GO:0010642 | negative regulation of platelet-derived growth factor receptor signaling pathway | 14551159 |
| APOD | GO:0042308 | negative regulation of protein import into nucleus | 14551159 |
| APOD | GO:0048662 | negative regulation of smooth muscle cell proliferation | 14551159 |
| APOD | GO:0060588 | negative regulation of lipoprotein lipid oxidation | 18419796 |
| APOD | GO:0071638 | negative regulation of monocyte chemotactic protein-1 production | 18842892 |
| APOD | GO:1900016 | negative regulation of cytokine production involved in inflammatory response | 18842892 |
| APOD | GO:2000405 | negative regulation of T cell migration | 18842892 |
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Exon skipping events across known transcript of Ensembl for APOD from UCSC genome browser |
| Skipped exons in TCGA and GTEx 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. |
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Gene isoform structures and expression levels for APOD |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for APOD |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_391114 | 3 | 195295892:195296006:195298147:195298236:195300720:195300842 | 195298147:195298236 | ENSG00000189058.4 | ENST00000458447.1,ENST00000421243.1,ENST00000343267.3,ENST00000453131.1 |
| exon_skip_391117 | 3 | 195298147:195298236:195300720:195300842:195306209:195306366 | 195300720:195300842 | ENSG00000189058.4 | ENST00000421243.1,ENST00000343267.3,ENST00000463719.1,ENST00000453131.1 |
| exon_skip_391123 | 3 | 195300720:195300842:195303932:195304054:195306209:195306360 | 195303932:195304054 | ENSG00000189058.4 | ENST00000458447.1 |
| exon_skip_391133 | 3 | 195300720:195300842:195306209:195306366:195310748:195310811 | 195306209:195306366 | ENSG00000189058.4 | ENST00000463719.1 |
| exon_skip_391160 | 3 | 195306209:195306366:195309487:195309610:195310748:195310811 | 195309487:195309610 | ENSG00000189058.4 | ENST00000421243.1 |
| exon_skip_391162 | 3 | 195306209:195306366:195309937:195310073:195310748:195310811 | 195309937:195310073 | ENSG00000189058.4 | ENST00000453131.1 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for APOD |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_391114 | 3 | 195295892:195296006:195298147:195298236:195300720:195300842 | 195298147:195298236 | ENSG00000189058.4 | ENST00000343267.3,ENST00000458447.1,ENST00000421243.1,ENST00000453131.1 |
| exon_skip_391117 | 3 | 195298147:195298236:195300720:195300842:195306209:195306366 | 195300720:195300842 | ENSG00000189058.4 | ENST00000343267.3,ENST00000421243.1,ENST00000453131.1,ENST00000463719.1 |
| exon_skip_391123 | 3 | 195300720:195300842:195303932:195304054:195306209:195306360 | 195303932:195304054 | ENSG00000189058.4 | ENST00000458447.1 |
| exon_skip_391133 | 3 | 195300720:195300842:195306209:195306366:195310748:195310811 | 195306209:195306366 | ENSG00000189058.4 | ENST00000463719.1 |
| exon_skip_391160 | 3 | 195306209:195306366:195309487:195309610:195310748:195310811 | 195309487:195309610 | ENSG00000189058.4 | ENST00000421243.1 |
| exon_skip_391162 | 3 | 195306209:195306366:195309937:195310073:195310748:195310811 | 195309937:195310073 | ENSG00000189058.4 | ENST00000453131.1 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for APOD |
| Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000343267 | 195298147 | 195298236 | Frame-shift |
| ENST00000343267 | 195300720 | 195300842 | Frame-shift |
| Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000343267 | 195298147 | 195298236 | Frame-shift |
| ENST00000343267 | 195300720 | 195300842 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for APOD |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| Loci of skipped exons in TCGA 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 GTEx 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 TCGA. |
| 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 GTEx. |
| 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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SNVs in the skipped exons for APOD |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - Differential PSIs between mutated versus non-mutated samples. |
| - Non-synonymous mutations located in the skipped exons in TCGA. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_391114 | 195298148 | 195298236 | 195298187 | 195298187 | Frame_Shift_Del | G | - | p.L99fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_391114 | 195298148 | 195298236 | 195298195 | 195298195 | Frame_Shift_Del | G | - | p.P96fs |
| UCS | TCGA-ND-A4WC-01 | exon_skip_391117 | 195300721 | 195300842 | 195300766 | 195300766 | Nonsense_Mutation | G | T | p.S67* |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
| - 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 |
| TGBC11TKB_STOMACH | 195306210 | 195306366 | 195306309 | 195306310 | In_Frame_Ins | - | AGC | p.8_8L>LL |
| SKMEL1_SKIN | 195298148 | 195298236 | 195298207 | 195298207 | Missense_Mutation | C | T | p.G92D |
| SNU1040_LARGE_INTESTINE | 195306210 | 195306366 | 195306220 | 195306220 | Missense_Mutation | T | C | p.D38G |
| SUPB8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 195306210 | 195306366 | 195306248 | 195306248 | Missense_Mutation | G | A | p.P29S |
| TGBC11TKB_STOMACH | 195306210 | 195306366 | 195306298 | 195306298 | Missense_Mutation | G | A | p.A12V |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for APOD |
| sQTL information located at the skipped exons. |
| Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for APOD |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for APOD |
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RelatedDrugs for APOD |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| P05090 | DB00162 | Vitamin A | Apolipoprotein D | small molecule | approved|nutraceutical|vet_approved |
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RelatedDiseases for APOD |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| APOD | C0036341 | Schizophrenia | 3 | PSYGENET |
| APOD | C0005586 | Bipolar Disorder | 1 | PSYGENET |
| APOD | C0017638 | Glioma | 1 | CTD_human |
| APOD | C0023186 | Learning Disorders | 1 | CTD_human |
| APOD | C0086439 | Hypokinesia | 1 | CTD_human |
| APOD | C0524851 | Neurodegenerative Disorders | 1 | CTD_human |
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