|
||||||
|
 | |
| |
| Differntial gene expression between RNA A-to-I edited versus non-edited samples |
| |
| |
| The effects of the RNA editing to the stability of the RNA structures |
| |
| |
| |
|
Gene summary for MICAL1 |
 Gene summary |
| Gene information | Gene symbol | MICAL1 | Gene ID | 64780 |
| Gene name | microtubule associated monooxygenase, calponin and LIM domain containing 1 | |
| Synonyms | MICAL|MICAL-1|NICAL | |
| Cytomap | 6q21 | |
| Type of gene | protein-coding | |
| Description | [F-actin]-monooxygenase MICAL1NEDD9-interacting protein with calponin homology and LIM domains[F-actin]-methionine sulfoxide oxidase MICAL1molecule interacting with CasL protein 1protein-methionine sulfoxide oxidase MICAL1 | |
| Modification date | 20200313 | |
| UniProtAcc | Q8TDZ2, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| MICAL1 | GO:0030042 | actin filament depolymerization | 21864500|28230050 |
| MICAL1 | GO:0055114 | oxidation-reduction process | 21864500|26845023 |
Top |
RNA A-to-I events for MICAL1 |
| 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). |
 |
| RNA editing frequencies across three data sets. |
 |
| The number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
 |
| RNA A-to-I editing events in AD. |
| ADediting_1223850(109450786, -), ADediting_1223851(109461483, -), ADediting_1223852(109461555, -), ADediting_1223853(109461557, -), ADediting_1223854(109463023, -), ADediting_1223855(109463034, -), ADediting_1223856(109463054, -), ADediting_1223857(109463059, -), ADediting_1223858(109463079, -), ADediting_1223859(109463083, -), ADediting_1223860(109463084, -), ADediting_1223861(109463092, -), ADediting_1223862(109463098, -), ADediting_1223863(109463115, -), ADediting_1223864(109463124, -), ADediting_1223865(109463125, -), ADediting_1223866(109463151, -), ADediting_1223867(109463188, -), ADediting_1223868(109463222, -), ADediting_1223869(109463235, -), ADediting_1223870(109463236, -), ADediting_1223871(109463257, -), ADediting_1223872(109463258, -), ADediting_1223873(109464666, -), ADediting_1223874(109464682, -), ADediting_1223875(109464684, -), ADediting_1223876(109464694, -), ADediting_1223877(109464706, -), ADediting_1223878(109464711, -), ADediting_1223879(109464719, -), ADediting_1223880(109464720, -), ADediting_1223881(109464723, -), ADediting_1223882(109464724, -), ADediting_1223883(109464737, -), ADediting_1223884(109464743, -), ADediting_1223885(109464749, -), ADediting_1223886(109464759, -), ADediting_1223887(109464787, -), ADediting_1223888(109464792, -), ADediting_1223889(109464800, -), ADediting_1223890(109464806, -), |
Top |
RNA editing positional annotations for MICAL1 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_1223850 | chr6_109450786_- | intronic |
| ADediting_1223851 | chr6_109461483_- | intronic |
| ADediting_1223852 | chr6_109461555_- | intronic |
| ADediting_1223853 | chr6_109461557_- | intronic |
| ADediting_1223854 | chr6_109463023_- | UTR3 |
| ADediting_1223855 | chr6_109463034_- | UTR3 |
| ADediting_1223856 | chr6_109463054_- | UTR3 |
| ADediting_1223857 | chr6_109463059_- | UTR3 |
| ADediting_1223858 | chr6_109463079_- | UTR3 |
| ADediting_1223859 | chr6_109463083_- | UTR3 |
| ADediting_1223860 | chr6_109463084_- | UTR3 |
| ADediting_1223861 | chr6_109463092_- | UTR3 |
| ADediting_1223862 | chr6_109463098_- | UTR3 |
| ADediting_1223863 | chr6_109463115_- | UTR3 |
| ADediting_1223864 | chr6_109463124_- | UTR3 |
| ADediting_1223865 | chr6_109463125_- | UTR3 |
| ADediting_1223866 | chr6_109463151_- | UTR3 |
| ADediting_1223867 | chr6_109463188_- | UTR3 |
| ADediting_1223868 | chr6_109463222_- | UTR3 |
| ADediting_1223869 | chr6_109463235_- | UTR3 |
| ADediting_1223870 | chr6_109463236_- | UTR3 |
| ADediting_1223871 | chr6_109463257_- | UTR3 |
| ADediting_1223872 | chr6_109463258_- | UTR3 |
| ADediting_1223873 | chr6_109464666_- | UTR3 |
| ADediting_1223874 | chr6_109464682_- | UTR3 |
| ADediting_1223875 | chr6_109464684_- | UTR3 |
| ADediting_1223876 | chr6_109464694_- | UTR3 |
| ADediting_1223877 | chr6_109464706_- | UTR3 |
| ADediting_1223878 | chr6_109464711_- | UTR3 |
| ADediting_1223879 | chr6_109464719_- | UTR3 |
| ADediting_1223880 | chr6_109464720_- | UTR3 |
| ADediting_1223881 | chr6_109464723_- | UTR3 |
| ADediting_1223882 | chr6_109464724_- | UTR3 |
| ADediting_1223883 | chr6_109464737_- | UTR3 |
| ADediting_1223884 | chr6_109464743_- | UTR3 |
| ADediting_1223885 | chr6_109464749_- | UTR3 |
| ADediting_1223886 | chr6_109464759_- | UTR3 |
| ADediting_1223887 | chr6_109464787_- | UTR3 |
| ADediting_1223888 | chr6_109464792_- | UTR3 |
| ADediting_1223889 | chr6_109464800_- | UTR3 |
| ADediting_1223890 | chr6_109464806_- | UTR3 |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_1223851 | chr6_109461483_- | SINE | Alu | Name=FLAM_C |
| ADediting_1223852 | chr6_109461555_- | SINE | Alu | Name=FLAM_C |
| ADediting_1223853 | chr6_109461557_- | SINE | Alu | Name=FLAM_C |
| ADediting_1223854 | chr6_109463023_- | SINE | Alu | Name=AluSg |
| ADediting_1223855 | chr6_109463034_- | SINE | Alu | Name=AluSg |
| ADediting_1223856 | chr6_109463054_- | SINE | Alu | Name=AluSg |
| ADediting_1223857 | chr6_109463059_- | SINE | Alu | Name=AluSg |
| ADediting_1223858 | chr6_109463079_- | SINE | Alu | Name=AluSg |
| ADediting_1223859 | chr6_109463083_- | SINE | Alu | Name=AluSg |
| ADediting_1223860 | chr6_109463084_- | SINE | Alu | Name=AluSg |
| ADediting_1223861 | chr6_109463092_- | SINE | Alu | Name=AluSg |
| ADediting_1223862 | chr6_109463098_- | SINE | Alu | Name=AluSg |
| ADediting_1223863 | chr6_109463115_- | SINE | Alu | Name=AluSg |
| ADediting_1223864 | chr6_109463124_- | SINE | Alu | Name=AluSg |
| ADediting_1223865 | chr6_109463125_- | SINE | Alu | Name=AluSg |
| ADediting_1223866 | chr6_109463151_- | SINE | Alu | Name=AluSg |
| ADediting_1223867 | chr6_109463188_- | SINE | Alu | Name=AluSg |
| ADediting_1223868 | chr6_109463222_- | SINE | Alu | Name=AluSg |
| ADediting_1223869 | chr6_109463235_- | SINE | Alu | Name=AluSg |
| ADediting_1223870 | chr6_109463236_- | SINE | Alu | Name=AluSg |
| ADediting_1223871 | chr6_109463257_- | SINE | Alu | Name=AluSg |
| ADediting_1223872 | chr6_109463258_- | SINE | Alu | Name=AluSg |
| ADediting_1223873 | chr6_109464666_- | SINE | Alu | Name=AluJr |
| ADediting_1223874 | chr6_109464682_- | SINE | Alu | Name=AluJr |
| ADediting_1223875 | chr6_109464684_- | SINE | Alu | Name=AluJr |
| ADediting_1223876 | chr6_109464694_- | SINE | Alu | Name=AluJr |
| ADediting_1223877 | chr6_109464706_- | SINE | Alu | Name=AluJr |
| ADediting_1223878 | chr6_109464711_- | SINE | Alu | Name=AluJr |
| ADediting_1223879 | chr6_109464719_- | SINE | Alu | Name=AluJr |
| ADediting_1223880 | chr6_109464720_- | SINE | Alu | Name=AluJr |
| ADediting_1223881 | chr6_109464723_- | SINE | Alu | Name=AluJr |
| ADediting_1223882 | chr6_109464724_- | SINE | Alu | Name=AluJr |
| ADediting_1223883 | chr6_109464737_- | SINE | Alu | Name=AluJr |
| ADediting_1223884 | chr6_109464743_- | SINE | Alu | Name=AluJr |
| ADediting_1223885 | chr6_109464749_- | SINE | Alu | Name=AluJr |
| ADediting_1223886 | chr6_109464759_- | SINE | Alu | Name=AluJr |
| ADediting_1223887 | chr6_109464787_- | SINE | Alu | Name=AluJr |
| ADediting_1223888 | chr6_109464792_- | SINE | Alu | Name=AluJr |
| ADediting_1223889 | chr6_109464800_- | SINE | Alu | Name=AluJr |
| ADediting_1223890 | chr6_109464806_- | SINE | Alu | Name=AluJr |
Top |
RNA A-to-I editing events in the alternative splicing sites for MICAL1 |
| 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 |
Top |
Differntial gene expression between RNA A-to-I edited versus non-edited samples for MICAL1 |
| 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. |
 | |
 | |
| - 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. |
 |
 |
 |
 |
 |
| - 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. |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
| ADeditome ID | Chr | Positoing | Skipped exon | ENSG | ENSTs |
Top |
Protein coding region RNA A-to-I editings for MICAL1 |
| - Lollipop plot for RNA A-to-I editings across protein structure. * Click on the image to enlarge it in a new window. |
Top |
The effects of the RNA editing to the miRNA binding sites for MICAL1 |
| 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 |
| 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 |
Top |
The effects of the RNA editing to the stability of the RNA structures for MICAL1 |
| - 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 |
Top |
Relation with ADAR for MICAL1 |
| 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.) |
| DLPFC | ADediting_1223850 | chr6_109450786_- | 1.5265628442373e-06 | 0.269094384440979 | 5.00505393449099e-08 | 0.303496499313654 | 0.994887824268962 | -0.000365380884376825 |
| DLPFC | ADediting_1223855 | chr6_109463034_- | 2.11504666380628e-08 | 0.311497362901649 | 2.7608758068136e-06 | 0.262624872993148 | 0.557552666426727 | -0.0334356104181884 |
| DLPFC | ADediting_1223859 | chr6_109463083_- | 9.75715019908673e-08 | 0.297126065408819 | 1.00024114901542e-16 | 0.448230364621402 | 0.335091267804404 | 0.0549269366212236 |
| TCX | ADediting_1223859 | chr6_109463083_- | 0.000101840428224456 | 0.3119580643327 | 4.88832044624826e-11 | 0.503962528967772 | 0.00136433825859143 | -0.25913652826326 |
| TCX | ADediting_1223861 | chr6_109463092_- | 0.105496099461974 | 0.132697158345831 | 3.05165752356548e-05 | 0.333439024980895 | 0.0613297560131721 | -0.153154150110022 |
| DLPFC | ADediting_1223862 | chr6_109463098_- | 0.000132881641543743 | 0.215339824609027 | 4.18700435864283e-08 | 0.305173942624118 | 0.487125092287348 | 0.0396115509498747 |
| TCX | ADediting_1223862 | chr6_109463098_- | 0.0199969364972348 | 0.189807895437207 | 5.31444783661468e-05 | 0.323751277841252 | 0.0163475985231225 | -0.195782486406466 |
| DLPFC | ADediting_1223864 | chr6_109463124_- | 4.96203178359404e-08 | 0.303577887346186 | 1.52136767165037e-13 | 0.403149093817984 | 0.399211835979424 | 0.0480473090392446 |
| CER | ADediting_1223864 | chr6_109463124_- | 0.000369347978245344 | 0.287018880505405 | 5.95683745145562e-07 | 0.394304243314081 | 0.385458401575601 | 0.0713689646422923 |
| TCX | ADediting_1223864 | chr6_109463124_- | 5.76790994262166e-07 | 0.394754991999624 | 5.83112013329167e-11 | 0.502226390390129 | 0.167741228525907 | -0.113220165432712 |
| DLPFC | ADediting_1223865 | chr6_109463125_- | 1.19688451204172e-08 | 0.316658083581131 | 1.34882375639671e-14 | 0.418814505578543 | 0.952215253950368 | -0.00341731466349099 |
| TCX | ADediting_1223865 | chr6_109463125_- | 6.14483072383821e-05 | 0.321160891292301 | 1.42877030164018e-05 | 0.346187203390799 | 0.295067542582021 | -0.0860540407616864 |
| DLPFC | ADediting_1223871 | chr6_109463257_- | 1.61335936610013e-11 | 0.370450611261083 | 9.5714478452544e-18 | 0.461358168633197 | 0.240658678994663 | 0.0668368114970133 |
| TCX | ADediting_1223871 | chr6_109463257_- | 4.42602592489315e-05 | 0.326982053657912 | 6.13720779054129e-05 | 0.321183139252438 | 0.990844428489452 | 0.000944838483524849 |
| DLPFC | ADediting_1223877 | chr6_109464706_- | 1.14987603741956e-12 | 0.389411223035276 | 9.23172855655749e-15 | 0.421193714516515 | 0.321688774698841 | 0.0564678413552921 |
| DLPFC | ADediting_1223878 | chr6_109464711_- | 2.39937764540383e-08 | 0.310340602325012 | 9.7971048475379e-09 | 0.31844980617558 | 0.0178419461681753 | 0.134475041629762 |
| DLPFC | ADediting_1223884 | chr6_109464743_- | 1.7731756089676e-18 | 0.470453227777838 | 7.51433794941436e-20 | 0.486808207918599 | 0.0247051502953823 | 0.12755700110544 |
| TCX | ADediting_1223884 | chr6_109464743_- | 1.435422735102e-05 | 0.346110838650511 | 3.5219500751239e-09 | 0.458841082110889 | 0.0897688488247976 | -0.139017767100321 |
| DLPFC | ADediting_1223888 | chr6_109464792_- | 4.04560578711159e-09 | 0.326226886144021 | 3.42889310633914e-08 | 0.307039020528773 | 0.111386456706053 | 0.0905990389868479 |
| DLPFC | ADediting_1223889 | chr6_109464800_- | 2.92453489189465e-13 | 0.39877937847985 | 3.01517180693075e-10 | 0.347873645703244 | 0.0807689528136157 | 0.0993357186425209 |
| TCX | ADediting_1223889 | chr6_109464800_- | 0.00125959865584145 | 0.260928354992956 | 0.00010152939881552 | 0.312014693416088 | 0.513714765596771 | -0.0537334481079697 |
| STG | ADediting_1223889 | chr6_109464800_- | 0.00293148410734217 | 0.320764078462865 | 0.0135161567801057 | 0.268539141619329 | 0.596645484190349 | -0.0585718136136839 |
| TCX | ADediting_1223890 | chr6_109464806_- | 0.00142418645085714 | 0.258168322334897 | 9.93870662066868e-05 | 0.312409208968172 | 0.0131764913635209 | -0.20200520782227 |
| 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 | 7.05055614555476e-14 | 0.408210849797993 | 2.81628133633896e-32 | 0.604552412486314 | 1.35448587622467e-08 | 0.315545185347223 |
| AC | 2.70176936720866e-18 | 0.514465856635266 | 2.22344378786138e-15 | 0.473573967414937 | 8.14849017307578e-14 | 0.449156091271119 |
| PCC | 7.29783695799059e-05 | 0.282965533244277 | 0.000402663537316796 | 0.25349403297026 | 3.74202593237635e-09 | 0.410322010908714 |
| CER | 2.50647066240228e-05 | 0.336799249973943 | 1.73669753240534e-08 | 0.440175202117632 | 0.0859658594300635 | 0.140677172579872 |
| FP | 1.77240571329088e-10 | 0.454953835163994 | 0.0127328867416971 | 0.186393785458034 | 4.13632754883908e-08 | 0.396896802276885 |
| IFG | 0.000535491658658317 | 0.642380552737331 | 1.81990258006936e-05 | 0.746560441072405 | 0.00332300700266224 | 0.563955465376173 |
| STG | 1.23630006615474e-05 | 0.457117151199265 | 0.0444049086115159 | 0.219938007530106 | 3.67553718554954e-05 | 0.434244650702023 |
Top |
Relation with AD stages for MICAL1 |
| 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 | 0.000353257036129149 | 0.337566955502749 |
Top |
RelatedDrugs for MICAL1 |
| 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 MICAL1 |
| 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)
|