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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 IGDCC3 |
 Gene summary |
| Gene information | Gene symbol | IGDCC3 | Gene ID | 9543 |
| Gene name | immunoglobulin superfamily DCC subclass member 3 | |
| Synonyms | HsT18880|PUNC | |
| Cytomap | 15q22.31 | |
| Type of gene | protein-coding | |
| Description | immunoglobulin superfamily DCC subclass member 3putative neuronal cell adhesion molecule | |
| Modification date | 20180331 | |
| UniProtAcc | Q8IVU1 | |
| Context | PubMed: IGDCC3 [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 |
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Exon skipping events across known transcript of Ensembl for IGDCC3 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 IGDCC3 |
| 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 IGDCC3 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_128515 | 15 | 65622887:65623079:65623387:65623552:65623749:65623997 | 65623387:65623552 | ENSG00000174498.9 | ENST00000558354.1,ENST00000327987.4 |
| exon_skip_128516 | 15 | 65625594:65625753:65627065:65627203:65627628:65627759 | 65627065:65627203 | ENSG00000174498.9 | ENST00000558354.1,ENST00000327987.4 |
| exon_skip_128517 | 15 | 65627628:65627759:65628149:65628294:65667434:65667638 | 65628149:65628294 | ENSG00000174498.9 | ENST00000327987.4 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for IGDCC3 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_128515 | 15 | 65622887:65623079:65623387:65623552:65623749:65623997 | 65623387:65623552 | ENSG00000174498.9 | ENST00000327987.4,ENST00000558354.1 |
| exon_skip_128516 | 15 | 65625594:65625753:65627065:65627203:65627628:65627759 | 65627065:65627203 | ENSG00000174498.9 | ENST00000327987.4,ENST00000558354.1 |
| 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 IGDCC3 |
| 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 |
| ENST00000327987 | 65628149 | 65628294 | Frame-shift |
| ENST00000327987 | 65623387 | 65623552 | In-frame |
| ENST00000327987 | 65627065 | 65627203 | In-frame |
| 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 |
| ENST00000327987 | 65623387 | 65623552 | In-frame |
| ENST00000327987 | 65627065 | 65627203 | In-frame |
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Infer the effects of exon skipping event on protein functional features for IGDCC3 |
| 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 |
| ENST00000327987 | 4496 | 814 | 65627065 | 65627203 | 938 | 1075 | 228 | 274 |
| ENST00000327987 | 4496 | 814 | 65623387 | 65623552 | 1649 | 1813 | 465 | 520 |
| 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 |
| ENST00000327987 | 4496 | 814 | 65627065 | 65627203 | 938 | 1075 | 228 | 274 |
| ENST00000327987 | 4496 | 814 | 65623387 | 65623552 | 1649 | 1813 | 465 | 520 |
| 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 |
| Q8IVU1 | 228 | 274 | 36 | 814 | Chain | ID=PRO_0000014920;Note=Immunoglobulin superfamily DCC subclass member 3 |
| Q8IVU1 | 228 | 274 | 259 | 307 | Disulfide bond | Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00114 |
| Q8IVU1 | 228 | 274 | 238 | 321 | Domain | Note=Ig-like C2-type 3 |
| Q8IVU1 | 228 | 274 | 246 | 246 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q8IVU1 | 228 | 274 | 36 | 640 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q8IVU1 | 465 | 520 | 36 | 814 | Chain | ID=PRO_0000014920;Note=Immunoglobulin superfamily DCC subclass member 3 |
| Q8IVU1 | 465 | 520 | 426 | 520 | Domain | Note=Fibronectin type-III 1;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| Q8IVU1 | 465 | 520 | 36 | 640 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| 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 |
| Q8IVU1 | 228 | 274 | 36 | 814 | Chain | ID=PRO_0000014920;Note=Immunoglobulin superfamily DCC subclass member 3 |
| Q8IVU1 | 228 | 274 | 259 | 307 | Disulfide bond | Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00114 |
| Q8IVU1 | 228 | 274 | 238 | 321 | Domain | Note=Ig-like C2-type 3 |
| Q8IVU1 | 228 | 274 | 246 | 246 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q8IVU1 | 228 | 274 | 36 | 640 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q8IVU1 | 465 | 520 | 36 | 814 | Chain | ID=PRO_0000014920;Note=Immunoglobulin superfamily DCC subclass member 3 |
| Q8IVU1 | 465 | 520 | 426 | 520 | Domain | Note=Fibronectin type-III 1;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| Q8IVU1 | 465 | 520 | 36 | 640 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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SNVs in the skipped exons for IGDCC3 |
| - 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_128515 | 65623388 | 65623552 | 65623433 | 65623433 | Frame_Shift_Del | C | - | p.A506fs |
| LIHC | TCGA-G3-A3CJ-01 | exon_skip_128515 | 65623388 | 65623552 | 65623433 | 65623433 | Frame_Shift_Del | C | - | p.A506fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_128516 | 65627066 | 65627203 | 65627160 | 65627160 | Frame_Shift_Del | C | - | p.G243fs |
| LIHC | TCGA-DD-A3A0-01 | exon_skip_128516 | 65627066 | 65627203 | 65627176 | 65627176 | Frame_Shift_Del | G | - | p.P238fs |
| LUSC | TCGA-60-2723-01 | exon_skip_128517 | 65628150 | 65628294 | 65628268 | 65628268 | Frame_Shift_Del | G | - | p.Q146fs |
| - 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 |
| MDAPCA2B_PROSTATE | 65623388 | 65623552 | 65623505 | 65623506 | Frame_Shift_Ins | - | A | p.Q482fs |
| SW1573_LUNG | 65623388 | 65623552 | 65623405 | 65623405 | Missense_Mutation | G | A | p.A515V |
| VMRCMELG_SKIN | 65623388 | 65623552 | 65623513 | 65623513 | Missense_Mutation | C | T | p.S479N |
| OAW28_OVARY | 65623388 | 65623552 | 65623518 | 65623518 | Missense_Mutation | G | T | p.S477R |
| DU145_PROSTATE | 65623388 | 65623552 | 65623522 | 65623522 | Missense_Mutation | A | G | p.V476A |
| KCL22_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 65627066 | 65627203 | 65627120 | 65627120 | Missense_Mutation | G | C | p.L257V |
| NCIH358_LUNG | 65627066 | 65627203 | 65627191 | 65627191 | Missense_Mutation | C | A | p.G233V |
| NCIH1573_LUNG | 65627066 | 65627203 | 65627197 | 65627197 | Missense_Mutation | C | A | p.G231V |
| NCIH2030_LUNG | 65628150 | 65628294 | 65628265 | 65628265 | Missense_Mutation | C | T | p.A147T |
| NCIH2030_LUNG | 65628150 | 65628294 | 65628265 | 65628266 | Missense_Mutation | CC | TT | p.A147T |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for IGDCC3 |
| 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 IGDCC3 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for IGDCC3 |
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RelatedDrugs for IGDCC3 |
| 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 |
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RelatedDiseases for IGDCC3 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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