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| Differntial gene expression between RNA A-to-I edited versus non-edited samples |
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| The effects of the RNA editing to the stability of the RNA structures |
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Gene summary for LGI1 |
 Gene summary |
| Gene information | Gene symbol | LGI1 | Gene ID | 9211 |
| Gene name | leucine rich glioma inactivated 1 | |
| Synonyms | ADLTE|ADPAEF|ADPEAF|EPITEMPIN|EPT|ETL1|IB1099 | |
| Cytomap | 10q23.33 | |
| Type of gene | protein-coding | |
| Description | leucine-rich glioma-inactivated protein 1epitempin-1 | |
| Modification date | 20200313 | |
| UniProtAcc | O95970, | |
| Context |
| 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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RNA A-to-I events for LGI1 |
| RNA A-to-I editing events in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure. * This pie chart shows the number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
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| RNA editing frequencies across three data sets. |
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| The number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
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| RNA A-to-I editing events in AD. |
| ADediting_224768(93764269, +), ADediting_224769(93764338, +), ADediting_224770(93765716, +), ADediting_224771(93765746, +), ADediting_224772(93765751, +), ADediting_224773(93766781, +), ADediting_224774(93766932, +), ADediting_224775(93771722, +), ADediting_224776(93771855, +), ADediting_224777(93789709, +), |
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RNA editing positional annotations for LGI1 using Annovar |
| Protein coding RNA editing(s). |
| ADeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
| Gene structure information of RNA editing(s). |
| ADeditome ID | Position | Variant type |
| ADediting_224768 | chr10_93764269_+ | ncRNA_exonic |
| ADediting_224769 | chr10_93764338_+ | ncRNA_exonic |
| ADediting_224770 | chr10_93765716_+ | ncRNA_intronic |
| ADediting_224771 | chr10_93765746_+ | ncRNA_intronic |
| ADediting_224772 | chr10_93765751_+ | ncRNA_intronic |
| ADediting_224773 | chr10_93766781_+ | ncRNA_intronic |
| ADediting_224774 | chr10_93766932_+ | ncRNA_exonic |
| ADediting_224775 | chr10_93771722_+ | ncRNA_exonic |
| ADediting_224776 | chr10_93771855_+ | ncRNA_exonic |
| ADediting_224777 | chr10_93789709_+ | intronic |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_224768 | chr10_93764269_+ | SINE | Alu | Name=FLAM_C |
| ADediting_224769 | chr10_93764338_+ | SINE | Alu | Name=FLAM_C |
| ADediting_224770 | chr10_93765716_+ | SINE | Alu | Name=AluY |
| ADediting_224771 | chr10_93765746_+ | SINE | Alu | Name=AluY |
| ADediting_224772 | chr10_93765751_+ | SINE | Alu | Name=AluY |
| ADediting_224773 | chr10_93766781_+ | SINE | Alu | Name=AluY |
| ADediting_224774 | chr10_93766932_+ | SINE | MIR | Name=MIRb |
| ADediting_224775 | chr10_93771722_+ | SINE | Alu | Name=AluSp |
| ADediting_224776 | chr10_93771855_+ | SINE | Alu | Name=AluSp |
| ADediting_224777 | chr10_93789709_+ | SINE | Alu | Name=AluSx1 |
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RNA A-to-I editing events in the alternative splicing sites for LGI1 |
| RNA A-to-I editing(s) in the alternative splicing sites. |
| AStype | ADeditomID | Editing position | AS position | AS direction | Exonic location | Wildtype sequence | Wildtype splicing strength | RNA edited sequence | RNA edited splicing strength |
| Differential pencent of spliced in (PSI) between RNA A-to-I edited and non-edited samples |
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Differntial gene expression between RNA A-to-I edited versus non-edited samples for LGI1 |
| Distribution of the averaged gene expression in AD and control with or without RNA A-to-I editing event. * The grey color means N/A. |
| Distribution of the averaged gene isoform expression in AD and control with or without RNA A-to-I editing event. |
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| - Differentially expressed gene between RNA A-to-I edited samples versus non-edited samples. * Click on the image to enlarge it in a new window. |
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| - Differentially expressed transcript between RNA A-to-I edited samples versus non-edited samples. * Click on the image to enlarge it in a new window. |
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| ADeditome ID | Chr | Positoing | Skipped exon | ENSG | ENSTs |
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Protein coding region RNA A-to-I editings for LGI1 |
| - Lollipop plot for RNA A-to-I editings across protein structure. * Click on the image to enlarge it in a new window. |
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The effects of the RNA editing to the miRNA binding sites for LGI1 |
| RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in lncRNA gained miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in lncRNA lost miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs gained binding to lncRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs lost binding to lncRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| ADediting_1391023 | chr8_140732605_- | ENSG00000108231.13 | ENST00000371413.4 | LGI1-201 | hsa-miR-151a-3p | chr10 | 93797963 | 93797969 | 7mer-m8 | 93797950 | 93797970 | 142 | -21.59 |
| ADediting_1391023 | chr8_140732605_- | ENSG00000108231.13 | ENST00000371418.9 | LGI1-202 | hsa-miR-151a-3p | chr10 | 93797963 | 93797969 | 7mer-m8 | 93797950 | 93797970 | 142 | -21.59 |
| ADediting_1391023 | chr8_140732605_- | ENSG00000108231.13 | ENST00000629035.2 | LGI1-210 | hsa-miR-151a-3p | chr10 | 93797963 | 93797969 | 7mer-m8 | 93797950 | 93797970 | 142 | -21.59 |
| ADediting_1391023 | chr8_140732605_- | ENSG00000108231.13 | ENST00000637689.1 | LGI1-228 | hsa-miR-151a-3p | chr10 | 93797963 | 93797969 | 7mer-m8 | 93797950 | 93797970 | 142 | -21.59 |
| RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| ADediting_1097295 | chr3_85385762_+ | ENSG00000108231.13 | ENST00000627699.1 | LGI1-209 | hsa-miR-5688 | chr10 | 93758974 | 93758980 | 7mer-m8 | 93758960 | 93758981 | 151 | -11.61 |
| ADediting_1391023 | chr8_140732605_- | ENSG00000108231.13 | ENST00000630184.2 | LGI1-212 | hsa-miR-151a-3p | chr10 | 93791397 | 93791403 | 7mer-m8 | 93791384 | 93791404 | 148 | -13.13 |
| ADediting_1471003 | chr9_63819626_+ | ENSG00000108231.13 | ENST00000371413.4 | LGI1-201 | hsa-miR-4477b | chr10 | 93797951 | 93797957 | 7mer-m8 | 93797940 | 93797958 | 142 | -7.82 |
| ADediting_1471003 | chr9_63819626_+ | ENSG00000108231.13 | ENST00000371418.9 | LGI1-202 | hsa-miR-4477b | chr10 | 93797951 | 93797957 | 7mer-m8 | 93797940 | 93797958 | 142 | -7.82 |
| ADediting_1471003 | chr9_63819626_+ | ENSG00000108231.13 | ENST00000629035.2 | LGI1-210 | hsa-miR-4477b | chr10 | 93797951 | 93797957 | 7mer-m8 | 93797940 | 93797958 | 142 | -7.82 |
| ADediting_1471003 | chr9_63819626_+ | ENSG00000108231.13 | ENST00000637689.1 | LGI1-228 | hsa-miR-4477b | chr10 | 93797951 | 93797957 | 7mer-m8 | 93797940 | 93797958 | 142 | -7.82 |
| ADediting_1471004 | chr9_63819627_+ | ENSG00000108231.13 | ENST00000371413.4 | LGI1-201 | hsa-miR-4477b | chr10 | 93797951 | 93797957 | 7mer-m8 | 93797940 | 93797958 | 142 | -7.82 |
| ADediting_1471004 | chr9_63819627_+ | ENSG00000108231.13 | ENST00000371418.9 | LGI1-202 | hsa-miR-4477b | chr10 | 93797951 | 93797957 | 7mer-m8 | 93797940 | 93797958 | 142 | -7.82 |
| ADediting_1471004 | chr9_63819627_+ | ENSG00000108231.13 | ENST00000629035.2 | LGI1-210 | hsa-miR-4477b | chr10 | 93797951 | 93797957 | 7mer-m8 | 93797940 | 93797958 | 142 | -7.82 |
| ADediting_1471004 | chr9_63819627_+ | ENSG00000108231.13 | ENST00000637689.1 | LGI1-228 | hsa-miR-4477b | chr10 | 93797951 | 93797957 | 7mer-m8 | 93797940 | 93797958 | 142 | -7.82 |
| ADediting_1535951 | chr14_100874558_+ | ENSG00000108231.13 | ENST00000636155.1 | LGI1-219 | hsa-miR-337-3p | chr10 | 93805852 | 93805858 | 7mer-m8 | 93805838 | 93805859 | 153 | -15.27 |
| ADediting_843620 | chr2_207754818_+ | ENSG00000108231.13 | ENST00000630184.2 | LGI1-212 | hsa-miR-4775 | chr10 | 93790265 | 93790271 | 7mer-1a | 93790255 | 93790277 | 145 | -7.72 |
| ADediting_843620 | chr2_207754818_+ | ENSG00000108231.13 | ENST00000630184.2 | LGI1-212 | hsa-miR-4775 | chr10 | 93790270 | 93790276 | 7mer-m8 | 93790255 | 93790277 | 145 | -7.72 |
| ADediting_843620 | chr2_207754818_+ | ENSG00000108231.13 | ENST00000630184.2 | LGI1-212 | hsa-miR-4775 | chr10 | 93790962 | 93790968 | 7mer-m8 | 93790948 | 93790969 | 151 | -5.76 |
| ADediting_843620 | chr2_207754818_+ | ENSG00000108231.13 | ENST00000630184.2 | LGI1-212 | hsa-miR-4775 | chr10 | 93791624 | 93791630 | 7mer-m8 | 93791610 | 93791631 | 145 | -9.39 |
| Differentially expressed gene-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for LGI1 |
| - RNA A-to-I editing in mRNA. * Click on the image to enlarge it in a new window. |
| ENST | ENST type | RNA structure without RNA A-to-I editing. | RNA structure with RNA A-to-I editing. |
| RNA A-to-I editing in miRNA. |
| ADeditom_ID | ENST | mir_ID | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
| RNA A-to-I editing in mRNA. |
| ADeditom_ID | ENST | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
| RNA A-to-I editing in lncRNA. |
| ADeditom_ID | ENST | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
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Relation with ADAR for LGI1 |
| Correlation between ADAR gene expression and RNA editing frequency |
| Tissue | ADeditomID | position | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
| Correlation between ADAR gene expression and this gene's expression |
| Tissue | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
| DLPFC | 2.52349061360285e-23 | 0.524651125957474 | 3.22840353574206e-25 | 0.543439842509933 | 0.51096808166244 | 0.037472158321689 |
| AC | 6.11504529310282e-78 | 0.869520058164126 | 2.69372984806491e-61 | 0.817244139723235 | 4.34800334432499e-14 | 0.453557419212601 |
| PCC | 2.59496576552672e-29 | 0.698822502695453 | 1.95851455419003e-28 | 0.69090767194017 | 0.00058734068198335 | 0.246490305239336 |
| CER | 7.76296709849384e-10 | 0.475553495329144 | 6.73250686933327e-13 | 0.543383845818981 | 0.00574233251006785 | 0.224519505893099 |
| TCX | 6.34148754016375e-18 | 0.629395581673328 | 3.14103337924006e-15 | 0.586450665381552 | 0.331810418378582 | 0.0797798541373334 |
| FP | 3.69423795411613e-22 | 0.643122456966578 | 1.19363686203493e-29 | 0.719289661358207 | 0.00428853720519233 | 0.213111822817904 |
| IFG | 8.86134981045998e-05 | 0.703084363080131 | 1.3231771625473e-05 | 0.754394398789025 | 0.676182210111569 | 0.0878725246616846 |
| PG | 6.48614635865771e-56 | 0.860981866078137 | 1.76295828692484e-29 | 0.706896759793966 | 0.719421010566905 | 0.0265143292817454 |
| STG | 1.72115684191446e-20 | 0.807498788834406 | 4.73870637399152e-20 | 0.802127428055677 | 0.499557282486833 | 0.0746849715434001 |
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Relation with AD stages for LGI1 |
| Correlation between AD stages and RNA editing frequency |
| Tissue | ADeditomID | position | P-val | Coeff. |
| Correlation between AD stages and this gene's expression |
| Tissue | P-val | Coeff. |
| CER | 3.88466277393919e-07 | 0.465357001778138 |
| TCX | 1.88154963864544e-06 | 0.44386533883352 |
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RelatedDrugs for LGI1 |
| 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 LGI1 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| LGI1 | C1838062 | EPILEPSY, LATERAL TEMPORAL LOBE, AUTOSOMAL DOMINANT | 10 | CTD_human;ORPHANET;UNIPROT |
| LGI1 | C0011570 | Mental Depression | 1 | PSYGENET |
| LGI1 | C0011581 | Depressive disorder | 1 | PSYGENET |
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