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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 LUC7L3 |
 Gene summary |
| Gene information | Gene symbol | LUC7L3 | Gene ID | 51747 |
| Gene name | LUC7 like 3 pre-mRNA splicing factor | |
| Synonyms | CRA|CREAP-1|CROP|LUC7A|OA48-18|hLuc7A | |
| Cytomap | 17q21.33 | |
| Type of gene | protein-coding | |
| Description | luc7-like protein 3CRE-associated protein 1LUC7-like 3cAMP regulatory element-associated protein 1cisplatin resistance-associated-overexpressed proteinokadaic acid-inducible phosphoprotein OA48-18 | |
| Modification date | 20180523 | |
| UniProtAcc | O95232 | |
| Context | PubMed: LUC7L3 [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 LUC7L3 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 LUC7L3 |
| 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 LUC7L3 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_154398 | 17 | 48797162:48797192:48800024:48800106:48814320:48814387 | 48800024:48800106 | ENSG00000108848.11 | ENST00000510984.1 |
| exon_skip_154399 | 17 | 48797162:48797192:48801179:48801326:48814320:48814387 | 48801179:48801326 | ENSG00000108848.11 | ENST00000505619.1 |
| exon_skip_154400 | 17 | 48797162:48797192:48814320:48814387:48817666:48817706 | 48814320:48814387 | ENSG00000108848.11 | ENST00000240304.1,ENST00000393227.2,ENST00000508218.1 |
| exon_skip_154401 | 17 | 48814320:48814387:48814647:48814840:48815497:48815560 | 48814647:48814840 | ENSG00000108848.11 | ENST00000508045.1 |
| exon_skip_154403 | 17 | 48814320:48814387:48814647:48814840:48817666:48817706 | 48814647:48814840 | ENSG00000108848.11 | ENST00000504563.2,ENST00000509335.1 |
| exon_skip_154406 | 17 | 48814320:48814387:48815501:48815560:48817666:48817706 | 48815501:48815560 | ENSG00000108848.11 | ENST00000507200.1 |
| exon_skip_154407 | 17 | 48814647:48814840:48815497:48815560:48817666:48817706 | 48815497:48815560 | ENSG00000108848.11 | ENST00000508045.1 |
| exon_skip_154410 | 17 | 48818462:48818607:48819017:48819092:48821066:48821153 | 48819017:48819092 | ENSG00000108848.11 | ENST00000504563.2,ENST00000508045.1,ENST00000240304.1,ENST00000507200.1,ENST00000544170.1,ENST00000505658.1,ENST00000508482.1,ENST00000507503.1,ENST00000393227.2 |
| exon_skip_154413 | 17 | 48821066:48821171:48822012:48822174:48823080:48823364 | 48822012:48822174 | ENSG00000108848.11 | ENST00000240304.1,ENST00000544170.1,ENST00000505658.1,ENST00000508482.1,ENST00000393227.2 |
| exon_skip_154424 | 17 | 48823979:48824063:48826579:48826705:48827861:48827911 | 48826579:48826705 | ENSG00000108848.11 | ENST00000504065.1 |
| exon_skip_154430 | 17 | 48823979:48824063:48826584:48826705:48828107:48828213 | 48826584:48826705 | ENSG00000108848.11 | ENST00000509487.1 |
| exon_skip_154432 | 17 | 48823979:48824063:48827861:48828002:48828107:48828213 | 48827861:48828002 | ENSG00000108848.11 | ENST00000513969.1,ENST00000393227.2,ENST00000503728.1 |
| exon_skip_154436 | 17 | 48825749:48825777:48826579:48826705:48827861:48827911 | 48826579:48826705 | ENSG00000108848.11 | ENST00000512549.1 |
| exon_skip_154448 | 17 | 48828112:48828213:48828657:48828723:48829560:48829643 | 48828657:48828723 | ENSG00000108848.11 | ENST00000503728.1 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for LUC7L3 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_154398 | 17 | 48797162:48797192:48800024:48800106:48814320:48814387 | 48800024:48800106 | ENSG00000108848.11 | ENST00000510984.1 |
| exon_skip_154399 | 17 | 48797162:48797192:48801179:48801326:48814320:48814387 | 48801179:48801326 | ENSG00000108848.11 | ENST00000505619.1 |
| exon_skip_154400 | 17 | 48797162:48797192:48814320:48814387:48817666:48817706 | 48814320:48814387 | ENSG00000108848.11 | ENST00000508218.1,ENST00000393227.2,ENST00000240304.1 |
| exon_skip_154401 | 17 | 48814320:48814387:48814647:48814840:48815497:48815560 | 48814647:48814840 | ENSG00000108848.11 | ENST00000508045.1 |
| exon_skip_154403 | 17 | 48814320:48814387:48814647:48814840:48817666:48817706 | 48814647:48814840 | ENSG00000108848.11 | ENST00000509335.1,ENST00000504563.2 |
| exon_skip_154406 | 17 | 48814320:48814387:48815501:48815560:48817666:48817706 | 48815501:48815560 | ENSG00000108848.11 | ENST00000507200.1 |
| exon_skip_154407 | 17 | 48814647:48814840:48815497:48815560:48817666:48817706 | 48815497:48815560 | ENSG00000108848.11 | ENST00000508045.1 |
| exon_skip_154410 | 17 | 48818462:48818607:48819017:48819092:48821066:48821153 | 48819017:48819092 | ENSG00000108848.11 | ENST00000505658.1,ENST00000508045.1,ENST00000504563.2,ENST00000393227.2,ENST00000240304.1,ENST00000508482.1,ENST00000544170.1,ENST00000507200.1,ENST00000507503.1 |
| exon_skip_154413 | 17 | 48821066:48821171:48822012:48822174:48823080:48823364 | 48822012:48822174 | ENSG00000108848.11 | ENST00000505658.1,ENST00000393227.2,ENST00000240304.1,ENST00000508482.1,ENST00000544170.1 |
| exon_skip_154424 | 17 | 48823979:48824063:48826579:48826705:48827861:48827911 | 48826579:48826705 | ENSG00000108848.11 | ENST00000504065.1 |
| exon_skip_154430 | 17 | 48823979:48824063:48826584:48826705:48828107:48828213 | 48826584:48826705 | ENSG00000108848.11 | ENST00000509487.1 |
| exon_skip_154432 | 17 | 48823979:48824063:48827861:48828002:48828107:48828213 | 48827861:48828002 | ENSG00000108848.11 | ENST00000393227.2,ENST00000513969.1,ENST00000503728.1 |
| exon_skip_154436 | 17 | 48825749:48825777:48826579:48826705:48827861:48827911 | 48826579:48826705 | ENSG00000108848.11 | ENST00000512549.1 |
| exon_skip_154448 | 17 | 48828112:48828213:48828657:48828723:48829560:48829643 | 48828657:48828723 | ENSG00000108848.11 | ENST00000503728.1 |
| 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 LUC7L3 |
| 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 |
| ENST00000240304 | 48814320 | 48814387 | Frame-shift |
| ENST00000240304 | 48819017 | 48819092 | In-frame |
| ENST00000505658 | 48819017 | 48819092 | In-frame |
| ENST00000240304 | 48822012 | 48822174 | In-frame |
| ENST00000505658 | 48822012 | 48822174 | 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 |
| ENST00000240304 | 48814320 | 48814387 | Frame-shift |
| ENST00000240304 | 48819017 | 48819092 | In-frame |
| ENST00000505658 | 48819017 | 48819092 | In-frame |
| ENST00000240304 | 48822012 | 48822174 | In-frame |
| ENST00000505658 | 48822012 | 48822174 | In-frame |
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Infer the effects of exon skipping event on protein functional features for LUC7L3 |
| 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 |
| ENST00000240304 | 1989 | 432 | 48819017 | 48819092 | 482 | 556 | 117 | 142 |
| ENST00000505658 | 7057 | 432 | 48819017 | 48819092 | 541 | 615 | 117 | 142 |
| ENST00000240304 | 1989 | 432 | 48822012 | 48822174 | 662 | 823 | 177 | 231 |
| ENST00000505658 | 7057 | 432 | 48822012 | 48822174 | 721 | 882 | 177 | 231 |
| 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 |
| ENST00000240304 | 1989 | 432 | 48819017 | 48819092 | 482 | 556 | 117 | 142 |
| ENST00000505658 | 7057 | 432 | 48819017 | 48819092 | 541 | 615 | 117 | 142 |
| ENST00000240304 | 1989 | 432 | 48822012 | 48822174 | 662 | 823 | 177 | 231 |
| ENST00000505658 | 7057 | 432 | 48822012 | 48822174 | 721 | 882 | 177 | 231 |
| 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 |
| O95232 | 117 | 142 | 80 | 432 | Alternative sequence | ID=VSP_018137;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O95232 | 117 | 142 | 80 | 432 | Alternative sequence | ID=VSP_018137;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O95232 | 117 | 142 | 1 | 432 | Chain | ID=PRO_0000058013;Note=Luc7-like protein 3 |
| O95232 | 117 | 142 | 1 | 432 | Chain | ID=PRO_0000058013;Note=Luc7-like protein 3 |
| O95232 | 117 | 142 | 124 | 181 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O95232 | 117 | 142 | 124 | 181 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O95232 | 177 | 231 | 80 | 432 | Alternative sequence | ID=VSP_018137;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O95232 | 177 | 231 | 80 | 432 | Alternative sequence | ID=VSP_018137;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O95232 | 177 | 231 | 1 | 432 | Chain | ID=PRO_0000058013;Note=Luc7-like protein 3 |
| O95232 | 177 | 231 | 1 | 432 | Chain | ID=PRO_0000058013;Note=Luc7-like protein 3 |
| O95232 | 177 | 231 | 124 | 181 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O95232 | 177 | 231 | 124 | 181 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O95232 | 177 | 231 | 228 | 282 | Compositional bias | Note=Glu-rich |
| O95232 | 177 | 231 | 228 | 282 | Compositional bias | Note=Glu-rich |
| O95232 | 177 | 231 | 231 | 231 | Modified residue | Note=N6-acetyllysine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:19608861;Dbxref=PMID:19608861 |
| O95232 | 177 | 231 | 231 | 231 | Modified residue | Note=N6-acetyllysine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:19608861;Dbxref=PMID:19608861 |
| O95232 | 177 | 231 | 217 | 217 | Sequence conflict | Note=H->Y;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| O95232 | 177 | 231 | 217 | 217 | Sequence conflict | Note=H->Y;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| 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 |
| O95232 | 117 | 142 | 80 | 432 | Alternative sequence | ID=VSP_018137;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O95232 | 117 | 142 | 80 | 432 | Alternative sequence | ID=VSP_018137;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O95232 | 117 | 142 | 1 | 432 | Chain | ID=PRO_0000058013;Note=Luc7-like protein 3 |
| O95232 | 117 | 142 | 1 | 432 | Chain | ID=PRO_0000058013;Note=Luc7-like protein 3 |
| O95232 | 117 | 142 | 124 | 181 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O95232 | 117 | 142 | 124 | 181 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O95232 | 177 | 231 | 80 | 432 | Alternative sequence | ID=VSP_018137;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O95232 | 177 | 231 | 80 | 432 | Alternative sequence | ID=VSP_018137;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O95232 | 177 | 231 | 1 | 432 | Chain | ID=PRO_0000058013;Note=Luc7-like protein 3 |
| O95232 | 177 | 231 | 1 | 432 | Chain | ID=PRO_0000058013;Note=Luc7-like protein 3 |
| O95232 | 177 | 231 | 124 | 181 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O95232 | 177 | 231 | 124 | 181 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O95232 | 177 | 231 | 228 | 282 | Compositional bias | Note=Glu-rich |
| O95232 | 177 | 231 | 228 | 282 | Compositional bias | Note=Glu-rich |
| O95232 | 177 | 231 | 231 | 231 | Modified residue | Note=N6-acetyllysine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:19608861;Dbxref=PMID:19608861 |
| O95232 | 177 | 231 | 231 | 231 | Modified residue | Note=N6-acetyllysine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:19608861;Dbxref=PMID:19608861 |
| O95232 | 177 | 231 | 217 | 217 | Sequence conflict | Note=H->Y;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| O95232 | 177 | 231 | 217 | 217 | Sequence conflict | Note=H->Y;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
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SNVs in the skipped exons for LUC7L3 |
| - 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-G3-A3CJ-01 | exon_skip_154400 | 48814321 | 48814387 | 48814327 | 48814327 | Frame_Shift_Del | A | - | p.C35X |
| LIHC | TCGA-G3-A3CJ-01 | exon_skip_154400 | 48814321 | 48814387 | 48814327 | 48814327 | Frame_Shift_Del | A | - | p.K36fs |
| HNSC | TCGA-F7-A624-01 | exon_skip_154410 | 48819018 | 48819092 | 48819046 | 48819046 | Frame_Shift_Del | A | - | p.E127fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_154410 | 48819018 | 48819092 | 48819046 | 48819046 | Frame_Shift_Del | A | - | p.E127fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_154432 | 48827862 | 48828002 | 48827868 | 48827868 | Frame_Shift_Del | G | - | p.R382fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_154432 | 48827862 | 48828002 | 48827882 | 48827882 | Frame_Shift_Del | A | - | p.K388fs |
| STAD | TCGA-BR-7851-01 | exon_skip_154432 | 48827862 | 48828002 | 48827882 | 48827882 | Frame_Shift_Del | A | - | p.D386fs |
| STAD | TCGA-BR-7851-01 | exon_skip_154432 | 48827862 | 48828002 | 48827882 | 48827882 | Frame_Shift_Del | A | - | p.K387fs |
| SKCM | TCGA-D3-A51T-06 | exon_skip_154413 | 48822013 | 48822174 | 48822077 | 48822078 | Frame_Shift_Ins | - | A | p.L199fs |
| SKCM | TCGA-D3-A51T-06 | exon_skip_154413 | 48822013 | 48822174 | 48822077 | 48822078 | Frame_Shift_Ins | - | A | p.Y199fs |
| COAD | TCGA-CM-6171-01 | exon_skip_154432 | 48827862 | 48828002 | 48827881 | 48827882 | Frame_Shift_Ins | - | A | p.D386fs |
| HNSC | TCGA-CQ-5331-01 | exon_skip_154432 | 48827862 | 48828002 | 48827881 | 48827882 | Frame_Shift_Ins | - | A | p.D386fs |
| HNSC | TCGA-CQ-5331-01 | exon_skip_154432 | 48827862 | 48828002 | 48827881 | 48827882 | Frame_Shift_Ins | - | A | p.EK386fs |
| READ | TCGA-EI-6882-01 | exon_skip_154432 | 48827862 | 48828002 | 48827881 | 48827882 | Frame_Shift_Ins | - | A | p.D386fs |
| STAD | TCGA-BR-8361-01 | exon_skip_154432 | 48827862 | 48828002 | 48827882 | 48827883 | Frame_Shift_Ins | - | A | p.D386fs |
| STAD | TCGA-HU-A4H4-01 | exon_skip_154432 | 48827862 | 48828002 | 48827882 | 48827883 | Frame_Shift_Ins | - | A | p.D386fs |
| KIRP | TCGA-4A-A93X-01 | exon_skip_154432 | 48827862 | 48828002 | 48827997 | 48827998 | Frame_Shift_Ins | - | T | p.S425fs |
| - 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 |
| LNZTA3WT4_CENTRAL_NERVOUS_SYSTEM | 48827862 | 48828002 | 48827881 | 48827882 | Frame_Shift_Ins | - | A | p.K387fs |
| NCIH1155_LUNG | 48822013 | 48822174 | 48822082 | 48822082 | Missense_Mutation | G | A | p.V201I |
| NCIH1339_LUNG | 48822013 | 48822174 | 48822096 | 48822096 | Missense_Mutation | G | T | p.Q205H |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 48827862 | 48828002 | 48827868 | 48827868 | Missense_Mutation | G | A | p.R382K |
| SW780_URINARY_TRACT | 48827862 | 48828002 | 48827873 | 48827873 | Missense_Mutation | T | C | p.S384P |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 48827862 | 48828002 | 48827903 | 48827903 | Missense_Mutation | G | A | p.G394S |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 48827862 | 48828002 | 48827903 | 48827903 | Missense_Mutation | G | A | p.G394S |
| MZ1B_MATCHED_NORMAL_TISSUE | 48827862 | 48828002 | 48827927 | 48827927 | Missense_Mutation | G | C | p.D402H |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for LUC7L3 |
| 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 |
| exon_skip_154399 | 17 | 48797162:48797192:48801179:48801326:48814320:48814387 | 48801179:48801326 | ENST00000505619.1 | THCA | rs117687704 | chr17:48801239 | G/A | 1.65e-04 |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for LUC7L3 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for LUC7L3 |
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RelatedDrugs for LUC7L3 |
| 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 LUC7L3 |
| 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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