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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 LINC00899 |
 Gene summary |
| Gene information | Gene symbol | LINC00899 | Gene ID | 100271722 |
| Gene name | long intergenic non-protein coding RNA 899 | |
| Synonyms | - | |
| Cytomap | 22q13.31 | |
| Type of gene | ncRNA | |
| Description | - | |
| Modification date | 20200313 | |
| 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 LINC00899 |
| 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_1004131(46041872, -), ADediting_1004132(46041886, -), ADediting_1004133(46041887, -), ADediting_1004134(46041896, -), ADediting_1004135(46041912, -), ADediting_1004136(46041917, -), ADediting_1004137(46041921, -), ADediting_1004138(46041949, -), ADediting_1004139(46041950, -), ADediting_1004140(46041954, -), ADediting_1004141(46041958, -), ADediting_1004142(46041959, -), ADediting_1004143(46041960, -), ADediting_1004144(46041963, -), ADediting_1004145(46041983, -), ADediting_1004146(46041984, -), ADediting_1004147(46041985, -), ADediting_1004148(46042003, -), ADediting_1004149(46042013, -), ADediting_1004150(46042062, -), ADediting_1004151(46042063, -), ADediting_1004152(46042249, -), ADediting_1004153(46042272, -), ADediting_1004154(46042280, -), ADediting_1004155(46042312, -), ADediting_1004156(46042315, -), ADediting_1004157(46042327, -), ADediting_1004158(46042332, -), ADediting_1004159(46042338, -), ADediting_1004160(46042346, -), ADediting_1004161(46042371, -), ADediting_1004162(46042373, -), ADediting_1004163(46042383, -), ADediting_1004164(46042386, -), ADediting_1571343(46041910, -), ADediting_1571344(46041957, -), ADediting_1571345(46041968, -), ADediting_1571346(46041974, -), ADediting_1571347(46042237, -), ADediting_1571348(46042320, -), |
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RNA editing positional annotations for LINC00899 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_1004131 | chr22_46041872_- | ncRNA_exonic |
| ADediting_1004132 | chr22_46041886_- | ncRNA_exonic |
| ADediting_1004133 | chr22_46041887_- | ncRNA_exonic |
| ADediting_1004134 | chr22_46041896_- | ncRNA_exonic |
| ADediting_1004135 | chr22_46041912_- | ncRNA_exonic |
| ADediting_1004136 | chr22_46041917_- | ncRNA_exonic |
| ADediting_1004137 | chr22_46041921_- | ncRNA_exonic |
| ADediting_1004138 | chr22_46041949_- | ncRNA_exonic |
| ADediting_1004139 | chr22_46041950_- | ncRNA_exonic |
| ADediting_1004140 | chr22_46041954_- | ncRNA_exonic |
| ADediting_1004141 | chr22_46041958_- | ncRNA_exonic |
| ADediting_1004142 | chr22_46041959_- | ncRNA_exonic |
| ADediting_1004143 | chr22_46041960_- | ncRNA_exonic |
| ADediting_1004144 | chr22_46041963_- | ncRNA_exonic |
| ADediting_1004145 | chr22_46041983_- | ncRNA_exonic |
| ADediting_1004146 | chr22_46041984_- | ncRNA_exonic |
| ADediting_1004147 | chr22_46041985_- | ncRNA_exonic |
| ADediting_1004148 | chr22_46042003_- | ncRNA_exonic |
| ADediting_1004149 | chr22_46042013_- | ncRNA_exonic |
| ADediting_1004150 | chr22_46042062_- | ncRNA_exonic |
| ADediting_1004151 | chr22_46042063_- | ncRNA_exonic |
| ADediting_1004152 | chr22_46042249_- | ncRNA_exonic |
| ADediting_1004153 | chr22_46042272_- | ncRNA_exonic |
| ADediting_1004154 | chr22_46042280_- | ncRNA_exonic |
| ADediting_1004155 | chr22_46042312_- | ncRNA_exonic |
| ADediting_1004156 | chr22_46042315_- | ncRNA_exonic |
| ADediting_1004157 | chr22_46042327_- | ncRNA_exonic |
| ADediting_1004158 | chr22_46042332_- | ncRNA_exonic |
| ADediting_1004159 | chr22_46042338_- | ncRNA_exonic |
| ADediting_1004160 | chr22_46042346_- | ncRNA_exonic |
| ADediting_1004161 | chr22_46042371_- | ncRNA_exonic |
| ADediting_1004162 | chr22_46042373_- | ncRNA_exonic |
| ADediting_1004163 | chr22_46042383_- | ncRNA_exonic |
| ADediting_1004164 | chr22_46042386_- | ncRNA_exonic |
| ADediting_1571343 | chr22_46041910_- | ncRNA_exonic |
| ADediting_1571344 | chr22_46041957_- | ncRNA_exonic |
| ADediting_1571345 | chr22_46041968_- | ncRNA_exonic |
| ADediting_1571346 | chr22_46041974_- | ncRNA_exonic |
| ADediting_1571347 | chr22_46042237_- | ncRNA_exonic |
| ADediting_1571348 | chr22_46042320_- | ncRNA_exonic |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_1004131 | chr22_46041872_- | SINE | Alu | Name=AluJb |
| ADediting_1004132 | chr22_46041886_- | SINE | Alu | Name=AluJb |
| ADediting_1004133 | chr22_46041887_- | SINE | Alu | Name=AluJb |
| ADediting_1004134 | chr22_46041896_- | SINE | Alu | Name=AluJb |
| ADediting_1004135 | chr22_46041912_- | SINE | Alu | Name=AluJb |
| ADediting_1004136 | chr22_46041917_- | SINE | Alu | Name=AluJb |
| ADediting_1004137 | chr22_46041921_- | SINE | Alu | Name=AluJb |
| ADediting_1004138 | chr22_46041949_- | SINE | Alu | Name=AluJb |
| ADediting_1004139 | chr22_46041950_- | SINE | Alu | Name=AluJb |
| ADediting_1004140 | chr22_46041954_- | SINE | Alu | Name=AluJb |
| ADediting_1004141 | chr22_46041958_- | SINE | Alu | Name=AluJb |
| ADediting_1004142 | chr22_46041959_- | SINE | Alu | Name=AluJb |
| ADediting_1004143 | chr22_46041960_- | SINE | Alu | Name=AluJb |
| ADediting_1004144 | chr22_46041963_- | SINE | Alu | Name=AluJb |
| ADediting_1004145 | chr22_46041983_- | SINE | Alu | Name=AluJb |
| ADediting_1004146 | chr22_46041984_- | SINE | Alu | Name=AluJb |
| ADediting_1004147 | chr22_46041985_- | SINE | Alu | Name=AluJb |
| ADediting_1004148 | chr22_46042003_- | SINE | Alu | Name=AluJb |
| ADediting_1004149 | chr22_46042013_- | SINE | Alu | Name=AluJb |
| ADediting_1004150 | chr22_46042062_- | SINE | Alu | Name=AluJb |
| ADediting_1004151 | chr22_46042063_- | SINE | Alu | Name=AluJb |
| ADediting_1004152 | chr22_46042249_- | SINE | Alu | Name=AluSc |
| ADediting_1004153 | chr22_46042272_- | SINE | Alu | Name=AluSc |
| ADediting_1004154 | chr22_46042280_- | SINE | Alu | Name=AluSc |
| ADediting_1004155 | chr22_46042312_- | SINE | Alu | Name=AluSc |
| ADediting_1004156 | chr22_46042315_- | SINE | Alu | Name=AluSc |
| ADediting_1004157 | chr22_46042327_- | SINE | Alu | Name=AluSc |
| ADediting_1004158 | chr22_46042332_- | SINE | Alu | Name=AluSc |
| ADediting_1004159 | chr22_46042338_- | SINE | Alu | Name=AluSc |
| ADediting_1004160 | chr22_46042346_- | SINE | Alu | Name=AluSc |
| ADediting_1004161 | chr22_46042371_- | SINE | Alu | Name=AluSc |
| ADediting_1004162 | chr22_46042373_- | SINE | Alu | Name=AluSc |
| ADediting_1004163 | chr22_46042383_- | SINE | Alu | Name=AluSc |
| ADediting_1004164 | chr22_46042386_- | SINE | Alu | Name=AluSc |
| ADediting_1571343 | chr22_46041910_- | SINE | Alu | Name=AluJb |
| ADediting_1571344 | chr22_46041957_- | SINE | Alu | Name=AluJb |
| ADediting_1571345 | chr22_46041968_- | SINE | Alu | Name=AluJb |
| ADediting_1571346 | chr22_46041974_- | SINE | Alu | Name=AluJb |
| ADediting_1571347 | chr22_46042237_- | SINE | Alu | Name=AluSc |
| ADediting_1571348 | chr22_46042320_- | SINE | Alu | Name=AluSc |
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RNA A-to-I editing events in the alternative splicing sites for LINC00899 |
| 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 LINC00899 |
| 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 LINC00899 |
| - 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 LINC00899 |
| 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 |
| ADediting_1337757 | chr7_5495852_- | ENSG00000231711.2 | ENST00000609737.1 | LINC00899-203 | hsa-miR-589-3p | chr22 | 46042483 | 46042489 | 7mer-m8 | 46042482 | 46042504 | 154 | -15.27 |
| ADediting_1631458 | chr19_40282624_- | ENSG00000231711.2 | ENST00000421538.1 | LINC00899-201 | hsa-miR-641 | chr22 | 46040506 | 46040512 | 7mer-m8 | 46040505 | 46040528 | 140 | -15.16 |
| ADediting_1631458 | chr19_40282624_- | ENSG00000231711.2 | ENST00000609737.1 | LINC00899-203 | hsa-miR-641 | chr22 | 46040506 | 46040512 | 7mer-m8 | 46040505 | 46040528 | 140 | -15.16 |
| ADediting_496066 | chr15_66496985_- | ENSG00000231711.2 | ENST00000421538.1 | LINC00899-201 | hsa-miR-4512 | chr22 | 46042722 | 46042728 | 7mer-1a | 46042722 | 46042742 | 146 | -26.84 |
| ADediting_496066 | chr15_66496985_- | ENSG00000231711.2 | ENST00000609737.1 | LINC00899-203 | hsa-miR-4512 | chr22 | 46042722 | 46042728 | 7mer-1a | 46042722 | 46042742 | 146 | -26.84 |
| 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_1097295 | chr3_85385762_+ | ENSG00000231711.2 | ENST00000421538.1 | LINC00899-201 | hsa-miR-5688 | chr22 | 46040432 | 46040438 | 7mer-m8 | 46040431 | 46040452 | 154 | -10.33 |
| ADediting_1097295 | chr3_85385762_+ | ENSG00000231711.2 | ENST00000609737.1 | LINC00899-203 | hsa-miR-5688 | chr22 | 46040432 | 46040438 | 7mer-m8 | 46040431 | 46040452 | 154 | -10.33 |
| ADediting_1337757 | chr7_5495852_- | ENSG00000231711.2 | ENST00000609737.1 | LINC00899-203 | hsa-miR-589-3p | chr22 | 46041702 | 46041709 | 8mer-1a | 46041702 | 46041726 | 152 | -20.44 |
| ADediting_496066 | chr15_66496985_- | ENSG00000231711.2 | ENST00000609737.1 | LINC00899-203 | hsa-miR-4512 | chr22 | 46041462 | 46041468 | 7mer-m8 | 46041461 | 46041482 | 140 | -12.5 |
| ADediting_843620 | chr2_207754818_+ | ENSG00000231711.2 | ENST00000609737.1 | LINC00899-203 | hsa-miR-4775 | chr22 | 46041954 | 46041960 | 7mer-m8 | 46041953 | 46041977 | 151 | -5.67 |
| 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 LINC00899 |
| - 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 LINC00899 |
| 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 | 5.96501177361469e-06 | 0.253949851619033 | 0.0155697294616606 | 0.137284870925631 | 6.8742335200589e-58 | 0.752828292003311 |
| AC | 6.03765947220694e-20 | 0.535397551424491 | 3.13205303033041e-09 | 0.363617509210447 | 7.45802679013259e-32 | 0.653657269172968 |
| PCC | 0.163593121759043 | 0.101205666022704 | 0.399284237439711 | 0.0613352951498768 | 3.89839173624395e-10 | 0.433117912474443 |
| CER | 3.24373895019999e-08 | 0.432549227076909 | 3.64562005649562e-05 | 0.33036868502647 | 0.0204448945419338 | 0.189141085880131 |
| TCX | 0.0328966997933208 | 0.174309029397404 | 0.00779954885351382 | -0.216468075638673 | 2.68631120342433e-24 | 0.70991384187642 |
| FP | 5.0545514933644e-05 | 0.298922481832604 | 0.000249774087236444 | 0.271261249482596 | 3.86216338230017e-14 | 0.527519501798207 |
| IFG | 0.570754267607936 | 0.119079929079996 | 0.340517548193254 | 0.198897527073429 | 0.000164914393689684 | 0.683652643882412 |
| PG | 0.010116306619601 | 0.188156654980179 | 0.0137514777859919 | 0.180378284785317 | 1.15327516075123e-10 | 0.450092605551321 |
| STG | 0.103352962451342 | 0.178961517711295 | 0.911926061351338 | 0.0122516050586829 | 1.11281944059015e-07 | 0.540520587367043 |
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Relation with AD stages for LINC00899 |
| 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 | 0.000429910798718115 | 0.332962366595927 |
| TCX | 7.37965557930933e-05 | 0.375269681398814 |
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RelatedDrugs for LINC00899 |
| 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 LINC00899 |
| 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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