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Center for Computational Systems Medicine
Soverview

Gene summary

Soverview

RNA A-to-I events

Soverview

Differntial gene expression between RNA A-to-I edited versus non-edited samples

Soverview

Protein coding region RNA A-to-I editings

Soverview

The effects of the RNA editing to the miRNA binding sites

Soverview

The effects of the RNA editing to the stability of the RNA structures

Soverview

Relation with ADAR

Soverview

Relation with AD stages

Soverview

Related drugs with this gene

Soverview

Related diseases with this gene


Gene summary for MSANTD4

check button Gene summary
Gene informationGene symbol

MSANTD4

Gene ID

84437

Gene nameMyb/SANT DNA binding domain containing 4 with coiled-coils
SynonymsKIAA1826
Cytomap

11q22.3

Type of geneprotein-coding
Descriptionmyb/SANT-like DNA-binding domain-containing protein 4Myb/SANT-like DNA-binding domain containing 4 with coiled-coils
Modification date20200313
UniProtAcc

Q8NCY6,

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID

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RNA A-to-I events for MSANTD4

check buttonRNA 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).
all structure

check button RNA editing frequencies across three data sets.
boxplot

check buttonThe number of RNA A-to-I editing events in different types of transcripts (# event, percentage).
boxplot

check button RNA A-to-I editing events in AD.
ADediting_230056(106005404, -), ADediting_230057(106005438, -), ADediting_230058(106005442, -), ADediting_230059(106005451, -), ADediting_230060(106005471, -), ADediting_230061(106005477, -), ADediting_230062(106005494, -), ADediting_230063(106005504, -), ADediting_230064(106005530, -), ADediting_230065(106005633, -), ADediting_230066(106005641, -), ADediting_230067(106005642, -), ADediting_230068(106005650, -), ADediting_230069(106006402, -), ADediting_230070(106006415, -), ADediting_230071(106006447, -), ADediting_230072(106006467, -), ADediting_230073(106006502, -), ADediting_230074(106006536, -), ADediting_230075(106006545, -), ADediting_230076(106006554, -), ADediting_230077(106006557, -), ADediting_230078(106006558, -), ADediting_230079(106006559, -), ADediting_230080(106006576, -), ADediting_230081(106006580, -), ADediting_230082(106006588, -), ADediting_230083(106006596, -), ADediting_230084(106006597, -), ADediting_230085(106006612, -), ADediting_230086(106006626, -), ADediting_230087(106006637, -), ADediting_230088(106006643, -), ADediting_230089(106006661, -), ADediting_230090(106006679, -), ADediting_230091(106006684, -), ADediting_230092(106006701, -), ADediting_230093(106006719, -), ADediting_230094(106006732, -), ADediting_230095(106006738, -), ADediting_230096(106006749, -), ADediting_230097(106006779, -), ADediting_230098(106006795, -), ADediting_230099(106006799, -), ADediting_230100(106006861, -), ADediting_230101(106006871, -), ADediting_230102(106006883, -), ADediting_230103(106006893, -), ADediting_230104(106006896, -), ADediting_230105(106006901, -), ADediting_230106(106006906, -), ADediting_230107(106006914, -), ADediting_230108(106006925, -), ADediting_230109(106006936, -), ADediting_230110(106006944, -), ADediting_230111(106006951, -), ADediting_230112(106006956, -), ADediting_230113(106006960, -), ADediting_230114(106006968, -), ADediting_230115(106006973, -), ADediting_230116(106006980, -),

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RNA editing positional annotations for MSANTD4 using Annovar

check button Protein coding RNA editing(s).
ADeditome IDPositionVariant typeENSTNTchangeAAchangeSIFT_scorePolyphen2_HVAR_scorePROVEAN_pred

check button Gene structure information of RNA editing(s).
ADeditome IDPositionVariant type
ADediting_230056chr11_106005404_-intergenic
ADediting_230057chr11_106005438_-intergenic
ADediting_230058chr11_106005442_-intergenic
ADediting_230059chr11_106005451_-intergenic
ADediting_230060chr11_106005471_-intergenic
ADediting_230061chr11_106005477_-intergenic
ADediting_230062chr11_106005494_-intergenic
ADediting_230063chr11_106005504_-intergenic
ADediting_230064chr11_106005530_-intergenic
ADediting_230065chr11_106005633_-intergenic
ADediting_230066chr11_106005641_-intergenic
ADediting_230067chr11_106005642_-intergenic
ADediting_230068chr11_106005650_-intergenic
ADediting_230069chr11_106006402_-intergenic
ADediting_230070chr11_106006415_-intergenic
ADediting_230071chr11_106006447_-intergenic
ADediting_230072chr11_106006467_-intergenic
ADediting_230073chr11_106006502_-intergenic
ADediting_230074chr11_106006536_-intergenic
ADediting_230075chr11_106006545_-intergenic
ADediting_230076chr11_106006554_-intergenic
ADediting_230077chr11_106006557_-intergenic
ADediting_230078chr11_106006558_-intergenic
ADediting_230079chr11_106006559_-intergenic
ADediting_230080chr11_106006576_-intergenic
ADediting_230081chr11_106006580_-intergenic
ADediting_230082chr11_106006588_-intergenic
ADediting_230083chr11_106006596_-intergenic
ADediting_230084chr11_106006597_-intergenic
ADediting_230085chr11_106006612_-intergenic
ADediting_230086chr11_106006626_-intergenic
ADediting_230087chr11_106006637_-intergenic
ADediting_230088chr11_106006643_-intergenic
ADediting_230089chr11_106006661_-intergenic
ADediting_230090chr11_106006679_-intergenic
ADediting_230091chr11_106006684_-intergenic
ADediting_230092chr11_106006701_-intergenic
ADediting_230093chr11_106006719_-intergenic
ADediting_230094chr11_106006732_-intergenic
ADediting_230095chr11_106006738_-intergenic
ADediting_230096chr11_106006749_-intergenic
ADediting_230097chr11_106006779_-intergenic
ADediting_230098chr11_106006795_-intergenic
ADediting_230099chr11_106006799_-intergenic
ADediting_230100chr11_106006861_-intergenic
ADediting_230101chr11_106006871_-intergenic
ADediting_230102chr11_106006883_-intergenic
ADediting_230103chr11_106006893_-intergenic
ADediting_230104chr11_106006896_-intergenic
ADediting_230105chr11_106006901_-downstream
ADediting_230106chr11_106006906_-downstream
ADediting_230107chr11_106006914_-downstream
ADediting_230108chr11_106006925_-downstream
ADediting_230109chr11_106006936_-downstream
ADediting_230110chr11_106006944_-downstream
ADediting_230111chr11_106006951_-downstream
ADediting_230112chr11_106006956_-downstream
ADediting_230113chr11_106006960_-downstream
ADediting_230114chr11_106006968_-downstream
ADediting_230115chr11_106006973_-downstream
ADediting_230116chr11_106006980_-downstream

check button Repat-regional RNA editing(s).
ADeditome IDPositionRepeat familyRepeat sub familyRepeat name
ADediting_230056chr11_106005404_-SINEAluName=AluY
ADediting_230057chr11_106005438_-SINEAluName=AluY
ADediting_230058chr11_106005442_-SINEAluName=AluY
ADediting_230059chr11_106005451_-SINEAluName=AluY
ADediting_230060chr11_106005471_-SINEAluName=AluY
ADediting_230061chr11_106005477_-SINEAluName=AluY
ADediting_230062chr11_106005494_-SINEAluName=AluY
ADediting_230063chr11_106005504_-SINEAluName=AluY
ADediting_230064chr11_106005530_-SINEAluName=AluY
ADediting_230065chr11_106005633_-SINEAluName=AluY
ADediting_230066chr11_106005641_-SINEAluName=AluY
ADediting_230067chr11_106005642_-SINEAluName=AluY
ADediting_230068chr11_106005650_-SINEAluName=AluY
ADediting_230069chr11_106006402_-SINEAluName=AluSz
ADediting_230070chr11_106006415_-SINEAluName=AluSz
ADediting_230071chr11_106006447_-SINEAluName=AluSz
ADediting_230072chr11_106006467_-SINEAluName=AluSz
ADediting_230073chr11_106006502_-SINEAluName=AluSz
ADediting_230074chr11_106006536_-SINEAluName=AluY
ADediting_230075chr11_106006545_-SINEAluName=AluY
ADediting_230076chr11_106006554_-SINEAluName=AluY
ADediting_230077chr11_106006557_-SINEAluName=AluY
ADediting_230078chr11_106006558_-SINEAluName=AluY
ADediting_230079chr11_106006559_-SINEAluName=AluY
ADediting_230080chr11_106006576_-SINEAluName=AluY
ADediting_230081chr11_106006580_-SINEAluName=AluY
ADediting_230082chr11_106006588_-SINEAluName=AluY
ADediting_230083chr11_106006596_-SINEAluName=AluY
ADediting_230084chr11_106006597_-SINEAluName=AluY
ADediting_230085chr11_106006612_-SINEAluName=AluY
ADediting_230086chr11_106006626_-SINEAluName=AluY
ADediting_230087chr11_106006637_-SINEAluName=AluY
ADediting_230088chr11_106006643_-SINEAluName=AluY
ADediting_230089chr11_106006661_-SINEAluName=AluY
ADediting_230090chr11_106006679_-SINEAluName=AluY
ADediting_230091chr11_106006684_-SINEAluName=AluY
ADediting_230092chr11_106006701_-SINEAluName=AluY
ADediting_230093chr11_106006719_-SINEAluName=AluY
ADediting_230094chr11_106006732_-SINEAluName=AluY
ADediting_230095chr11_106006738_-SINEAluName=AluY
ADediting_230096chr11_106006749_-SINEAluName=AluY
ADediting_230097chr11_106006779_-SINEAluName=AluY
ADediting_230098chr11_106006795_-SINEAluName=AluY
ADediting_230099chr11_106006799_-SINEAluName=AluY
ADediting_230100chr11_106006861_-SINEAluName=AluSz
ADediting_230101chr11_106006871_-SINEAluName=AluSz
ADediting_230102chr11_106006883_-SINEAluName=AluSz
ADediting_230103chr11_106006893_-SINEAluName=AluSz
ADediting_230104chr11_106006896_-SINEAluName=AluSz
ADediting_230105chr11_106006901_-SINEAluName=AluSz
ADediting_230106chr11_106006906_-SINEAluName=AluSz
ADediting_230107chr11_106006914_-SINEAluName=AluSz
ADediting_230108chr11_106006925_-SINEAluName=AluSz
ADediting_230109chr11_106006936_-SINEAluName=AluSz
ADediting_230110chr11_106006944_-SINEAluName=AluSz
ADediting_230111chr11_106006951_-SINEAluName=AluSz
ADediting_230112chr11_106006956_-SINEAluName=AluSz
ADediting_230113chr11_106006960_-SINEAluName=AluSz
ADediting_230114chr11_106006968_-SINEAluName=AluSz
ADediting_230115chr11_106006973_-SINEAluName=AluSz
ADediting_230116chr11_106006980_-SINEAluName=AluSz

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RNA A-to-I editing events in the alternative splicing sites for MSANTD4

check button RNA A-to-I editing(s) in the alternative splicing sites.
AStypeADeditomIDEditing positionAS positionAS directionExonic locationWildtype sequenceWildtype splicing strengthRNA edited sequenceRNA edited splicing strength

check button 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 MSANTD4

check button 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.

check button Distribution of the averaged gene isoform expression in AD and control with or without RNA A-to-I editing event.
boxplot

check button - 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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check button - 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 IDChrPositoingSkipped exonENSGENSTs

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Protein coding region RNA A-to-I editings for MSANTD4

check button- 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 MSANTD4


check button RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA gained miRNA binding sites.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA lost miRNA binding sites.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to lncRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs lost binding to lncRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
ADediting_1471003chr9_63819626_+ENSG00000170903.11ENST00000301919.9MSANTD4-201hsa-miR-4477bchr111060091161060091227mer-m8106009115106009135158-14.8

check button RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
ADediting_1535951chr14_100874558_+ENSG00000170903.11ENST00000301919.9MSANTD4-201hsa-miR-337-3pchr111060089061060089138mer-1a106008906106008929146-10.95
ADediting_1535953chr14_101045971_+ENSG00000170903.11ENST00000301919.9MSANTD4-201hsa-miR-381-3pchr111060092901060092967mer-m8106009289106009310141-14.53
ADediting_1535954chr14_101045974_+ENSG00000170903.11ENST00000301919.9MSANTD4-201hsa-miR-381-3pchr111060092901060092967mer-m8106009289106009310141-14.53

check button Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for MSANTD4

check button - RNA A-to-I editing in mRNA.
* Click on the image to enlarge it in a new window.
ENSTENST typeRNA structure without RNA A-to-I editing.RNA structure with RNA A-to-I editing.

check button RNA A-to-I editing in miRNA.
ADeditom_IDENSTmir_IDEditing_InformationEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

check button RNA A-to-I editing in mRNA.
ADeditom_IDENSTEditing_InformationEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

check button RNA A-to-I editing in lncRNA.
ADeditom_IDENSTEditing_InformationEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

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Relation with ADAR for MSANTD4

check button Correlation between ADAR gene expression and RNA editing frequency
TissueADeditomIDpositionADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)
DLPFCADediting_230091chr11_106006684_-0.107656008907330.09155261274641140.472279762572048-0.04097202988579812.25067355449115e-110.3679709568938
DLPFCADediting_230094chr11_106006732_-0.004404312939841190.1613267219889130.05923550144257770.1072666781027023.37792094641939e-080.307178340419859
CERADediting_230101chr11_106006871_-2.83045677785124e-070.4045447395601880.0007358442649851930.2726768528418370.004079945035702480.233199650240054
STGADediting_230101chr11_106006871_-0.0008761076189453710.3564060217456630.003036387987927150.3196610836106050.99025793955257-0.00135250369556319
STGADediting_230104chr11_106006896_-0.005124412251585330.3027419183339660.28357378962210.118361978268820.2415984605120540.129166021262783
CERADediting_230106chr11_106006906_-1.7376668299171e-060.3789381430866112.92128249913876e-050.3341878648763810.01816395479586940.19267853285385
STGADediting_230106chr11_106006906_-2.59960296443618e-050.4416944067686560.002475958608574830.3260063440387380.2338470353215880.131299154666082
CERADediting_230107chr11_106006914_-7.45952968432345e-130.5424976132885861.85217425905704e-110.5133452276993060.02532215269021950.182595071925942
STGADediting_230107chr11_106006914_-0.0001990284646484060.3951799379710280.0004867527472534350.3723624112302940.9876963266327460.00170816074354552
STGADediting_230108chr11_106006925_-5.53192010656977e-050.4252205455932610.0003504033037660690.3809420471493790.9480610792844770.00721558213975384
DLPFCADediting_230111chr11_106006951_-0.2013917347204670.07276032710691230.348004677876534-0.05347921101833483.2909876962163e-100.347170465573766

check button Correlation between ADAR gene expression and this gene's expression
TissueADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)
DLPFC9.22725727471434e-480.7043653867500572.30743226651285e-180.4690502725475371.29580679671588e-050.244885380452032
AC5.67374609042989e-470.7529769762934453.87477055707351e-260.6029465037628525.22894891623403e-270.611288852610972
PCC7.5315925787286e-410.7831218254183111.68336556172409e-360.7551222465440362.53421959870709e-060.332891805643513
CER1.10753294053151e-340.8002328170328425.64361265566843e-260.7273618850163450.0008892195492329910.268598566545434
TCX2.6369019984213e-280.7495487180395179.02190178614055e-070.3884381880808690.0001089176108594910.310711343015929
FP3.1263122949978e-260.687378645739411.17308313870779e-220.6489553697610260.008135333789814290.197786162727254
IFG5.57482534618072e-060.7742835691388530.003356285856028530.5634681438629230.5410500392961240.128307036376632
PG9.71222674323707e-590.8711588131601678.66256356343118e-270.6819429397699980.9178292351226480.00761591345718155
STG5.95744862877714e-220.8241994793959873.08037463623585e-130.6920946687266680.05848727680911970.207294824765548

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Relation with AD stages for MSANTD4

check button Correlation between AD stages and RNA editing frequency
TissueADeditomIDpositionP-valCoeff.
CERADediting_230107chr11_106006914_-0.000897465484372140.315036342648828
TCXADediting_230101chr11_106006871_-0.001292822155377180.308515623667702
TCXADediting_230113chr11_106006960_-0.0006748547105892760.325038295589637

check button Correlation between AD stages and this gene's expression
TissueP-valCoeff.
CER1.8412732664703e-050.399512499640951
TCX2.12158262948775e-060.441842880850842
STG0.00263786824838144-0.324050773659458

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RelatedDrugs for MSANTD4

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.0 2018-04-02)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for MSANTD4

check button Diseases associated with this gene.
(DisGeNet 4.0)
GeneDisease IDDisease name# pubmedsSource