|
||||||
|
 | |
| |
| |
| |
| Open reading frame (ORF) annotation in the exon skipping event |
| |
| |
| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
| |
|
Gene summary for LGALS3 |
 Gene summary |
| Gene information | Gene symbol | LGALS3 | Gene ID | 3958 |
| Gene name | galectin 3 | |
| Synonyms | CBP35|GAL3|GALBP|GALIG|L31|LGALS2|MAC2 | |
| Cytomap | 14q22.3 | |
| Type of gene | protein-coding | |
| Description | galectin-335 kDa lectinIgE-binding proteinMAC-2 antigenadvanced glycation end-product receptor 3carbohydrate-binding protein 35galactose-specific lectin 3laminin-binding proteinlectin L-29lectin, galactoside-binding, soluble, 3 | |
| Modification date | 20180527 | |
| UniProtAcc | P17931 | |
| Context | PubMed: LGALS3 [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 |
| LGALS3 | GO:0002548 | monocyte chemotaxis | 10925302 |
| LGALS3 | GO:0030593 | neutrophil chemotaxis | 10925302 |
| LGALS3 | GO:0045806 | negative regulation of endocytosis | 19706535 |
| LGALS3 | GO:0048245 | eosinophil chemotaxis | 10925302 |
| LGALS3 | GO:0048246 | macrophage chemotaxis | 10925302 |
| LGALS3 | GO:0050918 | positive chemotaxis | 10925302 |
| LGALS3 | GO:0070232 | regulation of T cell apoptotic process | 8692888 |
| LGALS3 | GO:0071674 | mononuclear cell migration | 10925302 |
| LGALS3 | GO:0071677 | positive regulation of mononuclear cell migration | 10925302 |
| LGALS3 | GO:0090280 | positive regulation of calcium ion import | 10925302 |
| LGALS3 | GO:2001200 | positive regulation of dendritic cell differentiation | 16116184 |
| LGALS3 | GO:2001237 | negative regulation of extrinsic apoptotic signaling pathway | 22761016 |
Top |
Exon skipping events across known transcript of Ensembl for LGALS3 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. |
 |
Top |
Gene isoform structures and expression levels for LGALS3 |
| Expression levels of gene isoforms across TCGA. |
 |
| Expression levels of gene isoforms across GTEx. |
 |
Top |
Exon skipping events with PSIs in TCGA for LGALS3 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_106658 | 14 | 55595977:55596018:55604087:55604109:55604762:55604831 | 55604087:55604109 | ENSG00000131981.11 | ENST00000554715.1,ENST00000254301.9 |
| exon_skip_106660 | 14 | 55595977:55596018:55604762:55605086:55606992:55607081 | 55604762:55605086 | ENSG00000131981.11 | ENST00000553755.1 |
| exon_skip_106695 | 14 | 55604087:55604109:55604344:55604412:55604762:55604831 | 55604344:55604412 | ENSG00000131981.11 | ENST00000556322.1 |
| exon_skip_106698 | 14 | 55604762:55605086:55606992:55607081:55609301:55609396 | 55606992:55607081 | ENSG00000131981.11 | ENST00000556322.1,ENST00000556438.2,ENST00000554715.1,ENST00000553755.1,ENST00000254301.9 |
| exon_skip_106705 | 14 | 55606992:55607081:55609301:55609467:55611833:55612121 | 55609301:55609467 | ENSG00000131981.11 | ENST00000556438.2,ENST00000254301.9 |
| PSI values of skipped exons in TCGA. |
 |
Top |
Exon skipping events with PSIs in GTEx for LGALS3 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_106658 | 14 | 55595977:55596018:55604087:55604109:55604762:55604831 | 55604087:55604109 | ENSG00000131981.11 | ENST00000254301.9,ENST00000554715.1 |
| exon_skip_106660 | 14 | 55595977:55596018:55604762:55605086:55606992:55607081 | 55604762:55605086 | ENSG00000131981.11 | ENST00000553755.1 |
| exon_skip_106695 | 14 | 55604087:55604109:55604344:55604412:55604762:55604831 | 55604344:55604412 | ENSG00000131981.11 | ENST00000556322.1 |
| exon_skip_106698 | 14 | 55604762:55605086:55606992:55607081:55609301:55609396 | 55606992:55607081 | ENSG00000131981.11 | ENST00000254301.9,ENST00000553755.1,ENST00000554715.1,ENST00000556438.2,ENST00000556322.1 |
| exon_skip_106705 | 14 | 55606992:55607081:55609301:55609467:55611833:55612121 | 55609301:55609467 | ENSG00000131981.11 | ENST00000254301.9,ENST00000556438.2 |
| PSI values of skipped exons in GTEx. |
 |
| * Skipped exon sequences. |
Top |
Open reading frame (ORF) annotation in the exon skipping event for LGALS3 |
| 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 |
| ENST00000254301 | 55604087 | 55604109 | 5CDS-5UTR |
| ENST00000254301 | 55606992 | 55607081 | Frame-shift |
| ENST00000254301 | 55609301 | 55609467 | 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 |
| ENST00000254301 | 55604087 | 55604109 | 5CDS-5UTR |
| ENST00000254301 | 55606992 | 55607081 | Frame-shift |
| ENST00000254301 | 55609301 | 55609467 | Frame-shift |
Top |
Infer the effects of exon skipping event on protein functional features for LGALS3 |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
 |
| 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 |
Top |
SNVs in the skipped exons for LGALS3 |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
 |
| - Differential PSIs between mutated versus non-mutated samples. |
LGALS3_HNSC_exon_skip_106660_psi_boxplot.png |
LGALS3_STAD_exon_skip_106660_psi_boxplot.png |
| - 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 |
| LGG | TCGA-DH-A669-02 | exon_skip_106658 | 55604088 | 55604109 | 55604096 | 55604099 | Frame_Shift_Del | CAGA | - | p.AD2fs |
| LIHC | TCGA-DD-A3A0-01 | exon_skip_106660 | 55604763 | 55605086 | 55604892 | 55604892 | Frame_Shift_Del | C | - | p.P51fs |
| LIHC | TCGA-DD-A3A0-01 | exon_skip_106698 | 55606993 | 55607081 | 55607020 | 55607020 | Frame_Shift_Del | G | - | p.G125fs |
| STAD | TCGA-F1-6177-01 | exon_skip_106660 | 55604763 | 55605086 | 55605002 | 55605003 | Frame_Shift_Ins | - | G | p.P86fs |
| STAD | TCGA-F1-6177-01 | exon_skip_106660 | 55604763 | 55605086 | 55605003 | 55605004 | Frame_Shift_Ins | - | G | p.P86fs |
| HNSC | TCGA-TN-A7HL-01 | exon_skip_106660 | 55604763 | 55605086 | 55604802 | 55604802 | Nonsense_Mutation | C | T | p.Q20* |
| PAAD | TCGA-XN-A8T3-01 | exon_skip_106705 | 55609302 | 55609467 | 55609433 | 55609433 | Nonsense_Mutation | C | A | p.S188X |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
 | Sample: TCGA-TN-A7HL-01 |
| Cancer type: HNSC | |
| ESID: exon_skip_106660 | |
| Skipped exon start: 55604763 | |
| Skipped exon end: 55605086 | |
| Mutation start: 55604802 | |
| Mutation end: 55604802 | |
| Mutation type: Nonsense_Mutation | |
| Reference seq: C | |
| Mutation seq: T | |
| AAchange: p.Q20* | |
exon_skip_106660_HNSC_TCGA-TN-A7HL-01.png | |
exon_skip_466309_HNSC_TCGA-TN-A7HL-01.png | |
| - 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 |
| SNU398_LIVER | 55604088 | 55604109 | 55604096 | 55604099 | Frame_Shift_Del | CAGA | - | p.AD2fs |
| COLO794_SKIN | 55604763 | 55605086 | 55604776 | 55604776 | Missense_Mutation | T | C | p.L11S |
| COLO800_SKIN | 55604763 | 55605086 | 55604776 | 55604776 | Missense_Mutation | T | C | p.L11S |
| NUGC3_STOMACH | 55604763 | 55605086 | 55604859 | 55604859 | Missense_Mutation | G | A | p.A39T |
| BFTC905_URINARY_TRACT | 55604763 | 55605086 | 55604946 | 55604946 | Missense_Mutation | G | A | p.G68R |
| SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 55604763 | 55605086 | 55604958 | 55604958 | Missense_Mutation | G | A | p.G72R |
| SUPHD1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 55604763 | 55605086 | 55604998 | 55604998 | Missense_Mutation | G | A | p.G85D |
| SW48_LARGE_INTESTINE | 55604763 | 55605086 | 55605039 | 55605039 | Missense_Mutation | G | A | p.G99R |
| HKA1_SKIN | 55604763 | 55605086 | 55605060 | 55605060 | Missense_Mutation | C | T | p.P106S |
| COLO792_SKIN | 55609302 | 55609467 | 55609442 | 55609442 | Missense_Mutation | C | T | p.P191L |
Top |
Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for LGALS3 |
| 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 |
Top |
Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for LGALS3 |
Top |
Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for LGALS3 |
Top |
RelatedDrugs for LGALS3 |
| 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 |
Top |
RelatedDiseases for LGALS3 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| LGALS3 | C0023893 | Liver Cirrhosis, Experimental | 2 | CTD_human |
| LGALS3 | C0000786 | Spontaneous abortion | 1 | CTD_human |
| LGALS3 | C0007621 | Neoplastic Cell Transformation | 1 | CTD_human |
| LGALS3 | C0014859 | Esophageal Neoplasms | 1 | CTD_human |
| LGALS3 | C0025202 | melanoma | 1 | CTD_human |
| LGALS3 | C0027540 | Necrosis | 1 | CTD_human |
| LGALS3 | C0027627 | Neoplasm Metastasis | 1 | CTD_human |
| LGALS3 | C0027697 | Nephritis | 1 | CTD_human |
| LGALS3 | C0038356 | Stomach Neoplasms | 1 | CTD_human |
| LGALS3 | C4277682 | Chemical and Drug Induced Liver Injury | 1 | CTD_human |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
|