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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 NCSTN |
 Gene summary |
| Gene information | Gene symbol | NCSTN | Gene ID | 23385 |
| Gene name | nicastrin | |
| Synonyms | ATAG1874 | |
| Cytomap | 1q23.2 | |
| Type of gene | protein-coding | |
| Description | nicastrinanterior pharynx-defective 2 | |
| Modification date | 20200327 | |
| UniProtAcc | Q92542, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| NCSTN | GO:0006509 | membrane protein ectodomain proteolysis | 15274632 |
| NCSTN | GO:0016485 | protein processing | 15274632 |
| NCSTN | GO:0042982 | amyloid precursor protein metabolic process | 25043039|26280335 |
| NCSTN | GO:0043085 | positive regulation of catalytic activity | 15274632 |
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RNA A-to-I events for NCSTN |
| 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_37091(160345286, +), ADediting_37092(160345453, +), ADediting_37093(160345456, +), ADediting_37094(160345663, +), ADediting_37095(160345772, +), ADediting_37096(160345818, +), ADediting_37097(160345824, +), ADediting_37098(160345842, +), ADediting_37099(160345845, +), ADediting_37100(160345848, +), ADediting_37101(160345859, +), ADediting_37102(160345864, +), ADediting_37103(160345914, +), ADediting_37104(160347674, +), ADediting_37105(160347679, +), ADediting_37106(160347689, +), ADediting_37107(160347703, +), ADediting_37108(160347710, +), ADediting_37109(160347727, +), ADediting_37110(160347743, +), ADediting_37111(160347819, +), ADediting_37112(160347888, +), ADediting_37113(160350197, +), |
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RNA editing positional annotations for NCSTN using Annovar |
| Protein coding RNA editing(s). |
| ADeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
| ADediting_37113 | chr1_160350197_+ | nonsynonymous SNV | ENST00000438008.5 | c.A628G | p.S210G | 0.475 | 0.085 | -0.33 |
| ADediting_37113 | chr1_160350197_+ | nonsynonymous SNV | ENST00000421914.5 | c.A529G | p.S177G | 0.475 | 0.085 | -0.33 |
| ADediting_37113 | chr1_160350197_+ | nonsynonymous SNV | ENST00000294785.10 | c.A529G | p.S177G | 0.475 | 0.085 | -0.33 |
| Gene structure information of RNA editing(s). |
| ADeditome ID | Position | Variant type |
| ADediting_37091 | chr1_160345286_+ | intronic |
| ADediting_37092 | chr1_160345453_+ | intronic |
| ADediting_37093 | chr1_160345456_+ | intronic |
| ADediting_37094 | chr1_160345663_+ | intronic |
| ADediting_37095 | chr1_160345772_+ | intronic |
| ADediting_37096 | chr1_160345818_+ | intronic |
| ADediting_37097 | chr1_160345824_+ | intronic |
| ADediting_37098 | chr1_160345842_+ | intronic |
| ADediting_37099 | chr1_160345845_+ | intronic |
| ADediting_37100 | chr1_160345848_+ | intronic |
| ADediting_37101 | chr1_160345859_+ | intronic |
| ADediting_37102 | chr1_160345864_+ | intronic |
| ADediting_37103 | chr1_160345914_+ | intronic |
| ADediting_37104 | chr1_160347674_+ | intronic |
| ADediting_37105 | chr1_160347679_+ | intronic |
| ADediting_37106 | chr1_160347689_+ | intronic |
| ADediting_37107 | chr1_160347703_+ | intronic |
| ADediting_37108 | chr1_160347710_+ | intronic |
| ADediting_37109 | chr1_160347727_+ | intronic |
| ADediting_37110 | chr1_160347743_+ | intronic |
| ADediting_37111 | chr1_160347819_+ | intronic |
| ADediting_37112 | chr1_160347888_+ | intronic |
| ADediting_37113 | chr1_160350197_+ | exonic |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_37091 | chr1_160345286_+ | SINE | Alu | Name=AluSq2 |
| ADediting_37092 | chr1_160345453_+ | SINE | Alu | Name=AluSq2 |
| ADediting_37093 | chr1_160345456_+ | SINE | Alu | Name=AluSq2 |
| ADediting_37094 | chr1_160345663_+ | SINE | Alu | Name=AluSz |
| ADediting_37095 | chr1_160345772_+ | SINE | Alu | Name=AluSz |
| ADediting_37096 | chr1_160345818_+ | SINE | Alu | Name=AluSz |
| ADediting_37097 | chr1_160345824_+ | SINE | Alu | Name=AluSz |
| ADediting_37098 | chr1_160345842_+ | SINE | Alu | Name=AluSz |
| ADediting_37099 | chr1_160345845_+ | SINE | Alu | Name=AluSz |
| ADediting_37100 | chr1_160345848_+ | SINE | Alu | Name=AluSz |
| ADediting_37101 | chr1_160345859_+ | SINE | Alu | Name=AluSz |
| ADediting_37102 | chr1_160345864_+ | SINE | Alu | Name=AluSz |
| ADediting_37103 | chr1_160345914_+ | SINE | Alu | Name=AluSz |
| ADediting_37104 | chr1_160347674_+ | SINE | Alu | Name=AluSz |
| ADediting_37105 | chr1_160347679_+ | SINE | Alu | Name=AluSz |
| ADediting_37106 | chr1_160347689_+ | SINE | Alu | Name=AluSz |
| ADediting_37107 | chr1_160347703_+ | SINE | Alu | Name=AluSz |
| ADediting_37108 | chr1_160347710_+ | SINE | Alu | Name=AluSz |
| ADediting_37109 | chr1_160347727_+ | SINE | Alu | Name=AluSz |
| ADediting_37110 | chr1_160347743_+ | SINE | Alu | Name=AluSz |
| ADediting_37111 | chr1_160347819_+ | SINE | Alu | Name=AluSz |
| ADediting_37112 | chr1_160347888_+ | SINE | Alu | Name=AluSz |
| ADediting_37113 | chr1_160350197_+ | LINE | RTE-BovB | Name=MamRTE1 |
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RNA A-to-I editing events in the alternative splicing sites for NCSTN |
| 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 NCSTN |
| 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 NCSTN |
| - 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 NCSTN |
| 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_98288 | chr1_32086990_+ | ENSG00000162736.17 | ENST00000294785.10 | NCSTN-201 | hsa-miR-5585-3p | chr1 | 160358497 | 160358503 | 7mer-m8 | 160358483 | 160358504 | 141 | -16.01 |
| 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_496066 | chr15_66496985_- | ENSG00000162736.17 | ENST00000294785.10 | NCSTN-201 | hsa-miR-4512 | chr1 | 160358771 | 160358777 | 7mer-m8 | 160358757 | 160358778 | 140 | -12.37 |
| Differentially expressed gene-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for NCSTN |
| - 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. |
| ENST00000294785.10 | protein_coding |  |  |
| ENST00000421914.5 | protein_coding |  |  |
| ENST00000438008.5 | protein_coding |  |  |
| ENST00000424645.6 | protein_coding |  |  |
| 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 |
| ADediting_37113 | ENST00000294785.10 | chr1_160350197_+ | 543 | -953.40 | -946.80 | -953.40 |
| ADediting_37113 | ENST00000421914.5 | chr1_160350197_+ | 540 | -258.60 | -252.00 | -258.60 |
| ADediting_37113 | ENST00000438008.5 | chr1_160350197_+ | 634 | -232.60 | -226.00 | -232.60 |
| ADediting_37113 | ENST00000424645.6 | chr1_160350197_+ | 93 | -308.10 | -301.50 | -308.10 |
| 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 NCSTN |
| 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 | 3.73223749964038e-44 | 0.684331256420986 | 2.01297912027357e-48 | 0.707864246508194 | 0.183987181312926 | 0.075655613122663 |
| AC | 4.82496638864624e-73 | 0.856081878063113 | 5.79289292185136e-42 | 0.724506670004243 | 1.07369357511805e-19 | 0.532319012004912 |
| PCC | 1.06700725152841e-24 | 0.65411320715299 | 3.24933222033985e-22 | 0.626452409390162 | 0.00128076427953087 | 0.231358627098982 |
| CER | 2.8972286019666e-33 | 0.790074389940856 | 5.13345255279684e-14 | 0.564813414380639 | 0.00589877836724245 | 0.22382346609598 |
| TCX | 1.46530093235914e-16 | 0.608474585670608 | 0.194998513723777 | 0.106401954484341 | 6.77167059534817e-23 | 0.694276029802258 |
| FP | 3.14563842890446e-21 | 0.631883180443622 | 4.18564648328328e-28 | 0.705391947632 | 0.00085686152445247 | 0.247713720071735 |
| IFG | 0.0125607465189332 | 0.491630461110515 | 0.326790451280412 | 0.204506680035067 | 0.106668543635224 | 0.330448488129869 |
| PG | 5.42450093169951e-26 | 0.674047122313195 | 6.0256565806356e-13 | 0.496072736901717 | 0.149251646934287 | 0.106162359339077 |
| STG | 2.72869110555592e-18 | 0.778862469098548 | 4.59053221131823e-14 | 0.708771302946071 | 0.0146851555414241 | 0.265414778322861 |
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Relation with AD stages for NCSTN |
| 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. |
| TCX | 5.57994710845367e-08 | 0.498002400068835 |
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RelatedDrugs for NCSTN |
| 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 NCSTN |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| NCSTN | C1840560 | Hidradenitis suppurativa, familial | 9 | CTD_human;GENOMICS_ENGLAND;UNIPROT |
| NCSTN | C0002395 | Alzheimer's Disease | 1 | CTD_human |
| NCSTN | C0011265 | Presenile dementia | 1 | CTD_human |
| NCSTN | C0276496 | Familial Alzheimer Disease (FAD) | 1 | CTD_human |
| NCSTN | C0494463 | Alzheimer Disease, Late Onset | 1 | CTD_human |
| NCSTN | C0546126 | Acute Confusional Senile Dementia | 1 | CTD_human |
| NCSTN | C0750900 | Alzheimer's Disease, Focal Onset | 1 | CTD_human |
| NCSTN | C0750901 | Alzheimer Disease, Early Onset | 1 | CTD_human |
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