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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 LINC00391 |
 Gene summary |
| Gene information | Gene symbol | LINC00391 | Gene ID | 100874154 |
| Gene name | long intergenic non-protein coding RNA 391 | |
| Synonyms | - | |
| Cytomap | 13q32.1 | |
| Type of gene | ncRNA | |
| Description | - | |
| Modification date | 20190324 | |
| UniProtAcc | ||
| 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 LINC00391 |
| 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. |
| 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_406958(94698828, -), ADediting_406959(94698841, -), ADediting_406960(94698844, -), ADediting_406961(94698851, -), ADediting_406962(94698895, -), ADediting_406963(94698952, -), |
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RNA editing positional annotations for LINC00391 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_406958 | chr13_94698828_- | ncRNA_exonic |
| ADediting_406959 | chr13_94698841_- | ncRNA_exonic |
| ADediting_406960 | chr13_94698844_- | ncRNA_exonic |
| ADediting_406961 | chr13_94698851_- | ncRNA_exonic |
| ADediting_406962 | chr13_94698895_- | ncRNA_exonic |
| ADediting_406963 | chr13_94698952_- | ncRNA_exonic |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_406958 | chr13_94698828_- | SINE | Alu | Name=AluJo |
| ADediting_406959 | chr13_94698841_- | SINE | Alu | Name=AluJo |
| ADediting_406960 | chr13_94698844_- | SINE | Alu | Name=AluJo |
| ADediting_406961 | chr13_94698851_- | SINE | Alu | Name=AluJo |
| ADediting_406962 | chr13_94698895_- | SINE | Alu | Name=AluJo |
| ADediting_406963 | chr13_94698952_- | SINE | Alu | Name=AluJo |
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RNA A-to-I editing events in the alternative splicing sites for LINC00391 |
| 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 LINC00391 |
| 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 LINC00391 |
| - 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 LINC00391 |
| RNA A-to-I editings in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure. |
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| 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 |
| ADediting_406958 | chr13_94698828_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-1302 | chr13 | 94698822 | 94698829 | 8mer-1a | 94698822 | 94698842 | 146 | -17.04 |
| ADediting_406958 | chr13_94698828_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-2277-3p | chr13 | 94698826 | 94698832 | 7mer-m8 | 94698825 | 94698846 | 152 | -19.39 |
| ADediting_406958 | chr13_94698828_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-4298 | chr13 | 94698822 | 94698829 | 8mer-1a | 94698822 | 94698843 | 145 | -15.01 |
| ADediting_406960 | chr13_94698844_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-215-3p | chr13 | 94698839 | 94698846 | 8mer-1a | 94698839 | 94698861 | 161 | -22.63 |
| ADediting_406960 | chr13_94698844_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-6729-3p | chr13 | 94698843 | 94698850 | 8mer-1a | 94698843 | 94698863 | 144 | -17.3 |
| ADediting_406961 | chr13_94698851_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-331-3p | chr13 | 94698848 | 94698854 | 7mer-m8 | 94698847 | 94698867 | 141 | -17.71 |
| ADediting_406961 | chr13_94698851_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-4254 | chr13 | 94698850 | 94698856 | 7mer-m8 | 94698849 | 94698871 | 140 | -14.61 |
| ADediting_406961 | chr13_94698851_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-4308 | chr13 | 94698849 | 94698855 | 7mer-m8 | 94698848 | 94698865 | 150 | -20.02 |
| ADediting_406962 | chr13_94698895_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-2276-5p | chr13 | 94698893 | 94698899 | 7mer-m8 | 94698892 | 94698912 | 144 | -21.55 |
| ADediting_406962 | chr13_94698895_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-518c-5p | chr13 | 94698895 | 94698901 | 7mer-m8 | 94698894 | 94698917 | 152 | -21.66 |
| 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 |
| ADediting_406959 | chr13_94698841_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-3664-5p | chr13 | 94698837 | 94698843 | 7mer-m8 | 94698836 | 94698856 | 153 | -16.01 |
| ADediting_406961 | chr13_94698851_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-432-5p | chr13 | 94698850 | 94698856 | 7mer-m8 | 94698849 | 94698872 | 151 | -21.23 |
| ADediting_406962 | chr13_94698895_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-1237-3p | chr13 | 94698893 | 94698899 | 7mer-m8 | 94698892 | 94698918 | 145 | -24.19 |
| ADediting_406963 | chr13_94698952_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-4759 | chr13 | 94698946 | 94698953 | 8mer-1a | 94698946 | 94698966 | 140 | -15.6 |
| 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 |
| ADediting_1097295 | chr3_85385762_+ | ENSG00000238230.2 | ENST00000433569.1 | LINC00391-201 | hsa-miR-5688 | chr13 | 94701600 | 94701606 | 7mer-m8 | 94701599 | 94701619 | 148 | -16.54 |
| ADediting_1471003 | chr9_63819626_+ | ENSG00000238230.2 | ENST00000433569.1 | LINC00391-201 | hsa-miR-4477b | chr13 | 94701914 | 94701920 | 7mer-m8 | 94701913 | 94701934 | 141 | -16.35 |
| ADediting_286380 | chr11_79422188_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-5579-3p | chr13 | 94699620 | 94699626 | 7mer-m8 | 94699619 | 94699638 | 157 | -13.2 |
| ADediting_291761 | chr11_93733708_- | ENSG00000238230.2 | ENST00000433569.1 | LINC00391-201 | hsa-miR-1304-3p | chr13 | 94701967 | 94701973 | 7mer-m8 | 94701966 | 94701987 | 156 | -21.51 |
| ADediting_496066 | chr15_66496985_- | ENSG00000238230.2 | ENST00000433569.1 | LINC00391-201 | hsa-miR-4512 | chr13 | 94701874 | 94701881 | 8mer-1a | 94701874 | 94701896 | 146 | -15.51 |
| ADediting_496066 | chr15_66496985_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-4512 | chr13 | 94699676 | 94699682 | 7mer-m8 | 94699675 | 94699696 | 154 | -19.97 |
| 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 |
| ADediting_1391023 | chr8_140732605_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-151a-3p | chr13 | 94699022 | 94699028 | 7mer-m8 | 94699021 | 94699037 | 144 | -18.76 |
| ADediting_1471003 | chr9_63819626_+ | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-4477b | chr13 | 94698732 | 94698739 | 8mer-1a | 94698732 | 94698752 | 153 | -10.27 |
| ADediting_1471004 | chr9_63819627_+ | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-4477b | chr13 | 94698732 | 94698739 | 8mer-1a | 94698732 | 94698752 | 153 | -10.27 |
| ADediting_291761 | chr11_93733708_- | ENSG00000238230.2 | ENST00000670861.1 | LINC00391-202 | hsa-miR-1304-3p | chr13 | 94698920 | 94698926 | 7mer-m8 | 94698919 | 94698943 | 154 | -26.95 |
| 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 |
| 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 |
| Differentially expressed gene-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for LINC00391 |
| - 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. |
| ENST00000670861.1 | lncRNA |  |  |
| 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 |
| ADediting_406958 | ENST00000670861.1 | chr13_94698828_- | 1286 | -427.92 | -425.29 | -425.42 |
| ADediting_406959 | ENST00000670861.1 | chr13_94698841_- | 1273 | -424.90 | -425.29 | -425.42 |
| ADediting_406960 | ENST00000670861.1 | chr13_94698844_- | 1270 | -425.29 | -425.29 | -425.42 |
| ADediting_406961 | ENST00000670861.1 | chr13_94698851_- | 1263 | -424.89 | -425.29 | -425.42 |
| ADediting_406962 | ENST00000670861.1 | chr13_94698895_- | 1219 | -425.29 | -425.29 | -425.42 |
| ADediting_406963 | ENST00000670861.1 | chr13_94698952_- | 1162 | -423.89 | -425.29 | -425.42 |
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Relation with ADAR for LINC00391 |
| 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 | 8.65006363138314e-06 | 0.249650494665475 | 0.0678672594130805 | 0.103842395966669 | 1.78059292716156e-25 | 0.545915847325943 |
| AC | 1.4267625909962e-15 | 0.476451724591433 | 1.79343185388294e-07 | 0.322849996862742 | 8.72941162591944e-37 | 0.690766346335849 |
| PCC | 0.0788771805327996 | 0.127466868738523 | 0.949883054767756 | -0.00457795679571669 | 7.27127854263909e-18 | 0.570233073519501 |
| CER | 0.116137983905882 | 0.128829839349583 | 0.728627676554032 | 0.0285616302270895 | 1.72391867835517e-12 | 0.535159245501966 |
| TCX | 0.158502091451974 | 0.115717278487643 | 0.0709901044499183 | -0.147847329911332 | 6.52079471976295e-09 | 0.451767271023476 |
| FP | 0.047760099387566 | 0.148591719914816 | 0.766114174999548 | 0.0224510470491865 | 5.42164908583517e-18 | 0.588810773043534 |
| IFG | 0.397738923564267 | 0.176848217164727 | 0.081202161376036 | 0.355455731213128 | 0.0424576048492154 | 0.408802410471899 |
| PG | 8.89896201668103e-08 | 0.379886311373948 | 0.00775584855023742 | 0.194666349204666 | 2.0372395920752e-05 | 0.306910463946753 |
| STG | 0.800040768484664 | -0.0280515618188309 | 0.0481734871419645 | -0.216263207020911 | 4.32588406986421e-10 | 0.616378522514661 |
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Relation with AD stages for LINC00391 |
| Correlation between AD stages and RNA editing frequency |
| Tissue | ADeditomID | position | P-val | Coeff. |
| TCX | ADediting_406958 | chr13_94698828_- | 0.000879123070110364 | 0.318429944324649 |
| Correlation between AD stages and this gene's expression |
| Tissue | P-val | Coeff. |
| CER | 0.00103788715267693 | 0.311361935736127 |
| TCX | 6.23694303661732e-07 | 0.461880246242911 |
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RelatedDrugs for LINC00391 |
| 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 LINC00391 |
| 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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