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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 LPCAT4 |
 Gene summary |
| Gene information | Gene symbol | LPCAT4 | Gene ID | 254531 |
| Gene name | lysophosphatidylcholine acyltransferase 4 | |
| Synonyms | AGPAT7|AYTL3|LPAAT-eta|LPEAT2 | |
| Cytomap | 15q14 | |
| Type of gene | protein-coding | |
| Description | lysophospholipid acyltransferase LPCAT41-AGP acyltransferase 71-AGPAT 71-acylglycerol-3-phosphate O-acyltransferase 7 (lysophosphatidic acid acyltransferase, eta)1-acylglycerophosphocholine O-acyltransferase1-acylglycerophosphoserine O-acyltransferas | |
| Modification date | 20180519 | |
| UniProtAcc | Q643R3 | |
| Context | PubMed: LPCAT4 [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 |
| LPCAT4 | GO:0006644 | phospholipid metabolic process | 18458083 |
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Exon skipping events across known transcript of Ensembl for LPCAT4 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 LPCAT4 |
| 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 LPCAT4 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_125840 | 15 | 34651296:34651503:34651789:34651946:34652311:34652410 | 34651789:34651946 | ENSG00000176454.9 | ENST00000567507.1,ENST00000314891.6 |
| exon_skip_125845 | 15 | 34651789:34651946:34652311:34652410:34653600:34653733 | 34652311:34652410 | ENSG00000176454.9 | ENST00000314891.6 |
| exon_skip_125857 | 15 | 34652311:34652410:34653600:34653733:34654396:34654522 | 34653600:34653733 | ENSG00000176454.9 | ENST00000314891.6,ENST00000563748.1 |
| exon_skip_125863 | 15 | 34654396:34654522:34654773:34654856:34654982:34655037 | 34654773:34654856 | ENSG00000176454.9 | ENST00000563240.1,ENST00000314891.6 |
| exon_skip_125864 | 15 | 34655622:34655657:34655861:34655920:34656213:34656274 | 34655861:34655920 | ENSG00000176454.9 | ENST00000314891.6 |
| exon_skip_125870 | 15 | 34656394:34656507:34657208:34657429:34657759:34657902 | 34657208:34657429 | ENSG00000176454.9 | ENST00000566581.1,ENST00000314891.6 |
| exon_skip_125875 | 15 | 34657299:34657429:34657759:34657902:34659187:34659377 | 34657759:34657902 | ENSG00000176454.9 | ENST00000566581.1 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for LPCAT4 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_125840 | 15 | 34651296:34651503:34651789:34651946:34652311:34652410 | 34651789:34651946 | ENSG00000176454.9 | ENST00000314891.6,ENST00000567507.1 |
| exon_skip_125845 | 15 | 34651789:34651946:34652311:34652410:34653600:34653733 | 34652311:34652410 | ENSG00000176454.9 | ENST00000314891.6 |
| exon_skip_125857 | 15 | 34652311:34652410:34653600:34653733:34654396:34654522 | 34653600:34653733 | ENSG00000176454.9 | ENST00000314891.6,ENST00000563748.1 |
| exon_skip_125863 | 15 | 34654396:34654522:34654773:34654856:34654982:34655037 | 34654773:34654856 | ENSG00000176454.9 | ENST00000314891.6,ENST00000563240.1 |
| exon_skip_125864 | 15 | 34655622:34655657:34655861:34655920:34656213:34656274 | 34655861:34655920 | ENSG00000176454.9 | ENST00000314891.6 |
| exon_skip_125870 | 15 | 34656394:34656507:34657208:34657429:34657759:34657902 | 34657208:34657429 | ENSG00000176454.9 | ENST00000314891.6,ENST00000566581.1 |
| exon_skip_125875 | 15 | 34657299:34657429:34657759:34657902:34659187:34659377 | 34657759:34657902 | ENSG00000176454.9 | ENST00000566581.1 |
| 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 LPCAT4 |
| 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 |
| ENST00000314891 | 34651789 | 34651946 | Frame-shift |
| ENST00000314891 | 34653600 | 34653733 | Frame-shift |
| ENST00000314891 | 34654773 | 34654856 | Frame-shift |
| ENST00000314891 | 34655861 | 34655920 | Frame-shift |
| ENST00000314891 | 34657208 | 34657429 | Frame-shift |
| ENST00000314891 | 34652311 | 34652410 | 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 |
| ENST00000314891 | 34651789 | 34651946 | Frame-shift |
| ENST00000314891 | 34653600 | 34653733 | Frame-shift |
| ENST00000314891 | 34654773 | 34654856 | Frame-shift |
| ENST00000314891 | 34655861 | 34655920 | Frame-shift |
| ENST00000314891 | 34657208 | 34657429 | Frame-shift |
| ENST00000314891 | 34652311 | 34652410 | In-frame |
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Infer the effects of exon skipping event on protein functional features for LPCAT4 |
| 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 |
| ENST00000314891 | 1992 | 524 | 34652311 | 34652410 | 1322 | 1420 | 381 | 414 |
| 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 |
| ENST00000314891 | 1992 | 524 | 34652311 | 34652410 | 1322 | 1420 | 381 | 414 |
| 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 |
| Q643R3 | 381 | 414 | 1 | 524 | Chain | ID=PRO_0000247054;Note=Lysophospholipid acyltransferase LPCAT4 |
| 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 |
| Q643R3 | 381 | 414 | 1 | 524 | Chain | ID=PRO_0000247054;Note=Lysophospholipid acyltransferase LPCAT4 |
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SNVs in the skipped exons for LPCAT4 |
| - 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-A1EG-01 | exon_skip_125870 | 34657209 | 34657429 | 34657292 | 34657292 | Frame_Shift_Del | A | - | p.F133fs |
| LIHC | TCGA-BC-A3KG-01 | exon_skip_125875 | 34657760 | 34657902 | 34657887 | 34657887 | Frame_Shift_Del | C | - | p.A44fs |
| BRCA | TCGA-AQ-A1H2-01 | exon_skip_125863 | 34654774 | 34654856 | 34654803 | 34654803 | Nonsense_Mutation | A | T | p.Y285* |
| LUAD | TCGA-95-7944-01 | exon_skip_125875 | 34657760 | 34657902 | 34657815 | 34657815 | Nonsense_Mutation | G | A | p.Q68* |
| STAD | TCGA-BR-7851-01 | exon_skip_125845 | 34652312 | 34652410 | 34652412 | 34652412 | Splice_Site | T | C | . |
| STAD | TCGA-BR-7851-01 | exon_skip_125845 | 34652312 | 34652410 | 34652412 | 34652412 | Splice_Site | T | C | p.D382_splice |
| - 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 |
| EB1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 34657209 | 34657429 | 34657267 | 34657267 | Frame_Shift_Del | G | - | p.P140fs |
| GRST_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 34651790 | 34651946 | 34651843 | 34651843 | Missense_Mutation | G | A | p.T449I |
| HEC265_ENDOMETRIUM | 34651790 | 34651946 | 34651847 | 34651847 | Missense_Mutation | C | T | p.A448T |
| SNU407_LARGE_INTESTINE | 34652312 | 34652410 | 34652325 | 34652325 | Missense_Mutation | C | T | p.R410H |
| HCC461_LUNG | 34652312 | 34652410 | 34652362 | 34652362 | Missense_Mutation | C | A | p.A398S |
| EFM192A_BREAST | 34653601 | 34653733 | 34653620 | 34653620 | Missense_Mutation | G | A | p.A375V |
| NCIH2087_LUNG | 34653601 | 34653733 | 34653673 | 34653673 | Missense_Mutation | C | A | p.Q357H |
| BCP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 34654774 | 34654856 | 34654790 | 34654790 | Missense_Mutation | G | C | p.Q290E |
| HEC1A_ENDOMETRIUM | 34654774 | 34654856 | 34654846 | 34654846 | Missense_Mutation | A | G | p.V271A |
| HEC1_ENDOMETRIUM | 34654774 | 34654856 | 34654846 | 34654846 | Missense_Mutation | A | G | p.V271A |
| HEC1B_ENDOMETRIUM | 34654774 | 34654856 | 34654846 | 34654846 | Missense_Mutation | A | G | p.V271A |
| LU134A_LUNG | 34657209 | 34657429 | 34657214 | 34657214 | Missense_Mutation | A | G | p.I158T |
| 2313287_STOMACH | 34657209 | 34657429 | 34657257 | 34657257 | Missense_Mutation | G | A | p.P144S |
| HCT15_LARGE_INTESTINE | 34657209 | 34657429 | 34657280 | 34657280 | Missense_Mutation | A | T | p.I136N |
| DOK_UPPER_AERODIGESTIVE_TRACT | 34657209 | 34657429 | 34657314 | 34657314 | Missense_Mutation | C | T | p.V125I |
| EW22_BONE | 34657209 | 34657429 | 34657320 | 34657320 | Missense_Mutation | C | G | p.V123L |
| SNU1040_LARGE_INTESTINE | 34657209 | 34657429 | 34657344 | 34657344 | Nonsense_Mutation | G | A | p.R115* |
| SUM149PT_BREAST | 34652312 | 34652410 | 34652313 | 34652313 | Splice_Site | T | C | p.E414G |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for LPCAT4 |
| 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 LPCAT4 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for LPCAT4 |
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RelatedDrugs for LPCAT4 |
| 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 LPCAT4 |
| 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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