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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 LTN1 |
 Gene summary |
| Gene information | Gene symbol | LTN1 | Gene ID | 26046 |
| Gene name | listerin E3 ubiquitin protein ligase 1 | |
| Synonyms | C21orf10|C21orf98|RNF160|ZNF294 | |
| Cytomap | 21q21.3 | |
| Type of gene | protein-coding | |
| Description | E3 ubiquitin-protein ligase listerinRING-type E3 ubiquitin transferase listerinring finger protein 160zinc finger protein 294 | |
| Modification date | 20180523 | |
| UniProtAcc | O94822 | |
| Context | PubMed: LTN1 [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 LTN1 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 LTN1 |
| 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 LTN1 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_361462 | 21 | 30303476:30303644:30304791:30304986:30307430:30307651 | 30304791:30304986 | ENSG00000198862.9 | ENST00000389194.2,ENST00000361371.5 |
| exon_skip_361463 | 21 | 30304791:30304986:30307430:30307651:30308847:30309019 | 30307430:30307651 | ENSG00000198862.9 | ENST00000389194.2,ENST00000361371.5 |
| exon_skip_361464 | 21 | 30315583:30315658:30315988:30316226:30316704:30316918 | 30315988:30316226 | ENSG00000198862.9 | ENST00000389194.2,ENST00000361371.5 |
| exon_skip_361466 | 21 | 30329083:30329270:30329653:30329798:30330707:30330861 | 30329653:30329798 | ENSG00000198862.9 | ENST00000389194.2,ENST00000361371.5 |
| exon_skip_361470 | 21 | 30332838:30333028:30338186:30338228:30338691:30339501 | 30338186:30338228 | ENSG00000198862.9 | ENST00000389194.2,ENST00000361371.5 |
| exon_skip_361472 | 21 | 30333638:30333855:30336898:30337088:30338186:30338228 | 30336898:30337088 | ENSG00000198862.9 | ENST00000389195.2 |
| exon_skip_361475 | 21 | 30339216:30339501:30339923:30340295:30341787:30341923 | 30339923:30340295 | ENSG00000198862.9 | ENST00000483326.1 |
| exon_skip_361477 | 21 | 30342873:30343064:30343592:30343766:30353440:30353621 | 30343592:30343766 | ENSG00000198862.9 | ENST00000389195.2,ENST00000389194.2,ENST00000483326.1,ENST00000361371.5 |
| exon_skip_361478 | 21 | 30343592:30343766:30353440:30353621:30354637:30354690 | 30353440:30353621 | ENSG00000198862.9 | ENST00000389195.2,ENST00000389194.2,ENST00000483326.1,ENST00000361371.5 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for LTN1 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_361462 | 21 | 30303476:30303644:30304791:30304986:30307430:30307651 | 30304791:30304986 | ENSG00000198862.9 | ENST00000361371.5,ENST00000389194.2 |
| exon_skip_361463 | 21 | 30304791:30304986:30307430:30307651:30308847:30309019 | 30307430:30307651 | ENSG00000198862.9 | ENST00000361371.5,ENST00000389194.2 |
| exon_skip_361464 | 21 | 30315583:30315658:30315988:30316226:30316704:30316918 | 30315988:30316226 | ENSG00000198862.9 | ENST00000361371.5,ENST00000389194.2 |
| exon_skip_361466 | 21 | 30329083:30329270:30329653:30329798:30330707:30330861 | 30329653:30329798 | ENSG00000198862.9 | ENST00000361371.5,ENST00000389194.2 |
| exon_skip_361470 | 21 | 30332838:30333028:30338186:30338228:30338691:30339501 | 30338186:30338228 | ENSG00000198862.9 | ENST00000361371.5,ENST00000389194.2 |
| exon_skip_361472 | 21 | 30333638:30333855:30336898:30337088:30338186:30338228 | 30336898:30337088 | ENSG00000198862.9 | ENST00000389195.2 |
| exon_skip_361475 | 21 | 30339216:30339501:30339923:30340295:30341787:30341923 | 30339923:30340295 | ENSG00000198862.9 | ENST00000483326.1 |
| exon_skip_361477 | 21 | 30342873:30343064:30343592:30343766:30353440:30353621 | 30343592:30343766 | ENSG00000198862.9 | ENST00000361371.5,ENST00000389194.2,ENST00000389195.2,ENST00000483326.1 |
| exon_skip_361478 | 21 | 30343592:30343766:30353440:30353621:30354637:30354690 | 30353440:30353621 | ENSG00000198862.9 | ENST00000361371.5,ENST00000389194.2,ENST00000389195.2,ENST00000483326.1 |
| 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 LTN1 |
| 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 |
| ENST00000361371 | 30307430 | 30307651 | Frame-shift |
| ENST00000361371 | 30315988 | 30316226 | Frame-shift |
| ENST00000361371 | 30329653 | 30329798 | Frame-shift |
| ENST00000361371 | 30353440 | 30353621 | Frame-shift |
| ENST00000361371 | 30304791 | 30304986 | In-frame |
| ENST00000361371 | 30338186 | 30338228 | In-frame |
| ENST00000361371 | 30343592 | 30343766 | 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 |
| ENST00000361371 | 30307430 | 30307651 | Frame-shift |
| ENST00000361371 | 30315988 | 30316226 | Frame-shift |
| ENST00000361371 | 30329653 | 30329798 | Frame-shift |
| ENST00000361371 | 30353440 | 30353621 | Frame-shift |
| ENST00000361371 | 30304791 | 30304986 | In-frame |
| ENST00000361371 | 30338186 | 30338228 | In-frame |
| ENST00000361371 | 30343592 | 30343766 | In-frame |
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Infer the effects of exon skipping event on protein functional features for LTN1 |
| 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 |
| ENST00000361371 | 7702 | 1766 | 30343592 | 30343766 | 891 | 1064 | 270 | 328 |
| ENST00000361371 | 7702 | 1766 | 30338186 | 30338228 | 2202 | 2243 | 707 | 721 |
| ENST00000361371 | 7702 | 1766 | 30304791 | 30304986 | 4956 | 5150 | 1625 | 1690 |
| 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 |
| ENST00000361371 | 7702 | 1766 | 30343592 | 30343766 | 891 | 1064 | 270 | 328 |
| ENST00000361371 | 7702 | 1766 | 30338186 | 30338228 | 2202 | 2243 | 707 | 721 |
| ENST00000361371 | 7702 | 1766 | 30304791 | 30304986 | 4956 | 5150 | 1625 | 1690 |
| 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 LTN1 |
| - 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_361464 | 30315989 | 30316226 | 30316046 | 30316046 | Frame_Shift_Del | G | - | p.P1388fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_361466 | 30329654 | 30329798 | 30329700 | 30329700 | Frame_Shift_Del | G | - | p.P949fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_361472 | 30336899 | 30337088 | 30337040 | 30337040 | Frame_Shift_Del | T | - | p.I784fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_361477 | 30343593 | 30343766 | 30343636 | 30343636 | Frame_Shift_Del | G | - | p.P314fs |
| HNSC | TCGA-CN-4730-01 | exon_skip_361464 | 30315989 | 30316226 | 30315991 | 30315991 | Nonsense_Mutation | G | C | p.Y1406* |
| ESCA | TCGA-L5-A8NM-01 | exon_skip_361470 | 30338187 | 30338228 | 30338185 | 30338185 | Splice_Site | A | G | e11+2 |
| - 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 |
| MHHPREB1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 30315989 | 30316226 | 30316092 | 30316092 | Frame_Shift_Del | T | - | p.T1373fs |
| MCAS_OVARY | 30304792 | 30304986 | 30304943 | 30304943 | Missense_Mutation | G | A | p.T1640I |
| WM88_SKIN | 30304792 | 30304986 | 30304964 | 30304964 | Missense_Mutation | C | T | p.R1633Q |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 30307431 | 30307651 | 30307495 | 30307495 | Missense_Mutation | C | T | p.S1604N |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 30307431 | 30307651 | 30307495 | 30307495 | Missense_Mutation | C | T | p.S1604N |
| SNU324_PANCREAS | 30307431 | 30307651 | 30307600 | 30307600 | Missense_Mutation | T | C | p.H1569R |
| MFE319_ENDOMETRIUM | 30307431 | 30307651 | 30307615 | 30307615 | Missense_Mutation | G | A | p.A1564V |
| KMRC20_KIDNEY | 30307431 | 30307651 | 30307648 | 30307648 | Missense_Mutation | G | T | p.T1553K |
| PEDS015T_SOFT_TISSUE | 30315989 | 30316226 | 30315997 | 30315997 | Missense_Mutation | C | G | p.M1404I |
| NCIH3255_LUNG | 30315989 | 30316226 | 30316100 | 30316100 | Missense_Mutation | T | C | p.D1370G |
| NCIH2286_LUNG | 30315989 | 30316226 | 30316146 | 30316146 | Missense_Mutation | T | G | p.K1355Q |
| MC116_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 30329654 | 30329798 | 30329662 | 30329662 | Missense_Mutation | G | A | p.P962S |
| LN443_CENTRAL_NERVOUS_SYSTEM | 30329654 | 30329798 | 30329707 | 30329707 | Missense_Mutation | C | T | p.V947I |
| HEC6_ENDOMETRIUM | 30329654 | 30329798 | 30329749 | 30329749 | Missense_Mutation | C | G | p.E933Q |
| NCIH292_LUNG | 30329654 | 30329798 | 30329791 | 30329791 | Missense_Mutation | C | T | p.V919I |
| JAR_PLACENTA | 30343593 | 30343766 | 30343646 | 30343646 | Missense_Mutation | T | C | p.I311V |
| SKN3_UPPER_AERODIGESTIVE_TRACT | 30343593 | 30343766 | 30343700 | 30343700 | Missense_Mutation | C | T | p.E293K |
| SNU324_PANCREAS | 30343593 | 30343766 | 30343723 | 30343723 | Missense_Mutation | C | T | p.R285H |
| PCI38_UPPER_AERODIGESTIVE_TRACT | 30353441 | 30353621 | 30353464 | 30353464 | Missense_Mutation | A | T | p.Y263N |
| HUNS1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 30353441 | 30353621 | 30353509 | 30353509 | Missense_Mutation | C | T | p.E248K |
| SKMEL2_SKIN | 30353441 | 30353621 | 30353550 | 30353550 | Missense_Mutation | C | A | p.R234I |
| HEC50B_ENDOMETRIUM | 30353441 | 30353621 | 30353554 | 30353554 | Missense_Mutation | T | G | p.K233Q |
| SNU1040_LARGE_INTESTINE | 30307431 | 30307651 | 30307431 | 30307431 | Splice_Site | C | T | p.T1625T |
| HPBALL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 30307431 | 30307651 | 30307432 | 30307432 | Splice_Site | G | A | p.T1625M |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for LTN1 |
| 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 LTN1 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for LTN1 |
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RelatedDrugs for LTN1 |
| 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 LTN1 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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