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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 BMS1P4-AGAP5

check button Gene summary
Gene informationGene symbol

BMS1P4-AGAP5

Gene ID

113939925

Gene nameBMS1P4-AGAP5 readthough
Synonyms-
Cytomap

10q22.2

Type of genepseudo
Description-
Modification date20200303
UniProtAcc

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 BMS1P4-AGAP5

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_214088(73693599, -), ADediting_214089(73693639, -), ADediting_214090(73696134, -), ADediting_214091(73699331, -), ADediting_214092(73699334, -), ADediting_214093(73699340, -), ADediting_214094(73699343, -), ADediting_214095(73699346, -), ADediting_214096(73699347, -), ADediting_214097(73699374, -), ADediting_214098(73699388, -), ADediting_214099(73699399, -), ADediting_214100(73699403, -), ADediting_214101(73699406, -), ADediting_214102(73699419, -), ADediting_214103(73699434, -), ADediting_214104(73699442, -), ADediting_214105(73699443, -), ADediting_214106(73699447, -), ADediting_214107(73699451, -), ADediting_214108(73699469, -), ADediting_214109(73699479, -), ADediting_214110(73699504, -), ADediting_214111(73699544, -), ADediting_214112(73700091, -), ADediting_214113(73700132, -), ADediting_214114(73700150, -), ADediting_214115(73700389, -), ADediting_214116(73700560, -), ADediting_214117(73702222, -), ADediting_214118(73702275, -), ADediting_214119(73702287, -), ADediting_214120(73702288, -), ADediting_214121(73702337, -), ADediting_214122(73702364, -), ADediting_214123(73702369, -), ADediting_214124(73704587, -), ADediting_214125(73704597, -), ADediting_214126(73704615, -), ADediting_214127(73704639, -), ADediting_214128(73704645, -), ADediting_214129(73704649, -), ADediting_214130(73704666, -), ADediting_214131(73704669, -), ADediting_214132(73704714, -), ADediting_214133(73704716, -), ADediting_214134(73704775, -), ADediting_214135(73704776, -), ADediting_214136(73704792, -), ADediting_214137(73704794, -), ADediting_214138(73704824, -), ADediting_214139(73708867, -), ADediting_214140(73708907, -), ADediting_214141(73708933, -), ADediting_214142(73709014, -), ADediting_214143(73712344, -), ADediting_214144(73712347, -), ADediting_214145(73712926, -), ADediting_1524725(73699318, -), ADediting_1524726(73699508, -), ADediting_1524727(73704659, -), ADediting_1524728(73704726, -), ADediting_1524729(73712335, -), ADediting_1524730(73712364, -), ADediting_1524731(73712744, -), ADediting_1524732(73712754, -), ADediting_1524733(73712792, -), ADediting_1524734(73712848, -), ADediting_1524735(73712849, -), ADediting_1524736(73712852, -), ADediting_1524737(73712872, -), ADediting_1524738(73712880, -), ADediting_1606989(73699348, -), ADediting_1606990(73704690, -),

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RNA editing positional annotations for BMS1P4-AGAP5 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_214088chr10_73693599_-ncRNA_intronic
ADediting_214089chr10_73693639_-ncRNA_intronic
ADediting_214090chr10_73696134_-ncRNA_intronic
ADediting_214091chr10_73699331_-ncRNA_exonic
ADediting_214092chr10_73699334_-ncRNA_exonic
ADediting_214093chr10_73699340_-ncRNA_exonic
ADediting_214094chr10_73699343_-ncRNA_exonic
ADediting_214095chr10_73699346_-ncRNA_exonic
ADediting_214096chr10_73699347_-ncRNA_exonic
ADediting_214097chr10_73699374_-ncRNA_exonic
ADediting_214098chr10_73699388_-ncRNA_exonic
ADediting_214099chr10_73699399_-ncRNA_exonic
ADediting_214100chr10_73699403_-ncRNA_exonic
ADediting_214101chr10_73699406_-ncRNA_exonic
ADediting_214102chr10_73699419_-ncRNA_exonic
ADediting_214103chr10_73699434_-ncRNA_exonic
ADediting_214104chr10_73699442_-ncRNA_exonic
ADediting_214105chr10_73699443_-ncRNA_exonic
ADediting_214106chr10_73699447_-ncRNA_exonic
ADediting_214107chr10_73699451_-ncRNA_exonic
ADediting_214108chr10_73699469_-ncRNA_exonic
ADediting_214109chr10_73699479_-ncRNA_exonic
ADediting_214110chr10_73699504_-ncRNA_exonic
ADediting_214111chr10_73699544_-ncRNA_exonic
ADediting_214112chr10_73700091_-ncRNA_intronic
ADediting_214113chr10_73700132_-ncRNA_intronic
ADediting_214114chr10_73700150_-ncRNA_intronic
ADediting_214115chr10_73700389_-ncRNA_intronic
ADediting_214116chr10_73700560_-ncRNA_intronic
ADediting_214117chr10_73702222_-ncRNA_intronic
ADediting_214118chr10_73702275_-ncRNA_intronic
ADediting_214119chr10_73702287_-ncRNA_intronic
ADediting_214120chr10_73702288_-ncRNA_intronic
ADediting_214121chr10_73702337_-ncRNA_intronic
ADediting_214122chr10_73702364_-ncRNA_intronic
ADediting_214123chr10_73702369_-ncRNA_intronic
ADediting_214124chr10_73704587_-ncRNA_intronic
ADediting_214125chr10_73704597_-ncRNA_intronic
ADediting_214126chr10_73704615_-ncRNA_intronic
ADediting_214127chr10_73704639_-ncRNA_intronic
ADediting_214128chr10_73704645_-ncRNA_intronic
ADediting_214129chr10_73704649_-ncRNA_intronic
ADediting_214130chr10_73704666_-ncRNA_intronic
ADediting_214131chr10_73704669_-ncRNA_intronic
ADediting_214132chr10_73704714_-ncRNA_intronic
ADediting_214133chr10_73704716_-ncRNA_intronic
ADediting_214134chr10_73704775_-ncRNA_intronic
ADediting_214135chr10_73704776_-ncRNA_intronic
ADediting_214136chr10_73704792_-ncRNA_intronic
ADediting_214137chr10_73704794_-ncRNA_intronic
ADediting_214138chr10_73704824_-ncRNA_intronic
ADediting_214139chr10_73708867_-ncRNA_intronic
ADediting_214140chr10_73708907_-ncRNA_intronic
ADediting_214141chr10_73708933_-ncRNA_intronic
ADediting_214142chr10_73709014_-ncRNA_intronic
ADediting_214143chr10_73712344_-ncRNA_intronic
ADediting_214144chr10_73712347_-ncRNA_intronic
ADediting_214145chr10_73712926_-ncRNA_intronic
ADediting_1524725chr10_73699318_-ncRNA_exonic
ADediting_1524726chr10_73699508_-ncRNA_exonic
ADediting_1524727chr10_73704659_-ncRNA_intronic
ADediting_1524728chr10_73704726_-ncRNA_intronic
ADediting_1524729chr10_73712335_-ncRNA_intronic
ADediting_1524730chr10_73712364_-ncRNA_intronic
ADediting_1524731chr10_73712744_-ncRNA_intronic
ADediting_1524732chr10_73712754_-ncRNA_intronic
ADediting_1524733chr10_73712792_-ncRNA_intronic
ADediting_1524734chr10_73712848_-ncRNA_intronic
ADediting_1524735chr10_73712849_-ncRNA_intronic
ADediting_1524736chr10_73712852_-ncRNA_intronic
ADediting_1524737chr10_73712872_-ncRNA_intronic
ADediting_1524738chr10_73712880_-ncRNA_intronic
ADediting_1606989chr10_73699348_-ncRNA_exonic
ADediting_1606990chr10_73704690_-ncRNA_intronic

check button Repat-regional RNA editing(s).
ADeditome IDPositionRepeat familyRepeat sub familyRepeat name
ADediting_214088chr10_73693599_-SINEAluName=AluSz
ADediting_214089chr10_73693639_-SINEAluName=AluSz
ADediting_214090chr10_73696134_-SINEAluName=AluSx
ADediting_214091chr10_73699331_-SINEAluName=AluSx
ADediting_214092chr10_73699334_-SINEAluName=AluSx
ADediting_214093chr10_73699340_-SINEAluName=AluSx
ADediting_214094chr10_73699343_-SINEAluName=AluSx
ADediting_214095chr10_73699346_-SINEAluName=AluSx
ADediting_214096chr10_73699347_-SINEAluName=AluSx
ADediting_214097chr10_73699374_-SINEAluName=AluSx
ADediting_214098chr10_73699388_-SINEAluName=AluSx
ADediting_214099chr10_73699399_-SINEAluName=AluSx
ADediting_214100chr10_73699403_-SINEAluName=AluSx
ADediting_214101chr10_73699406_-SINEAluName=AluSx
ADediting_214102chr10_73699419_-SINEAluName=AluSx
ADediting_214103chr10_73699434_-SINEAluName=AluSx
ADediting_214104chr10_73699442_-SINEAluName=AluSx
ADediting_214105chr10_73699443_-SINEAluName=AluSx
ADediting_214106chr10_73699447_-SINEAluName=AluSx
ADediting_214107chr10_73699451_-SINEAluName=AluSx
ADediting_214108chr10_73699469_-SINEAluName=AluSx
ADediting_214109chr10_73699479_-SINEAluName=AluSx
ADediting_214110chr10_73699504_-SINEAluName=AluSx
ADediting_214111chr10_73699544_-SINEAluName=AluSx
ADediting_214112chr10_73700091_-SINEAluName=AluSp
ADediting_214113chr10_73700132_-SINEAluName=AluSp
ADediting_214114chr10_73700150_-SINEAluName=AluSp
ADediting_214115chr10_73700389_-SINEAluName=AluSx1
ADediting_214116chr10_73700560_-SINEAluName=AluSx1
ADediting_214117chr10_73702222_-SINEAluName=AluY
ADediting_214118chr10_73702275_-SINEAluName=AluY
ADediting_214119chr10_73702287_-SINEAluName=AluY
ADediting_214120chr10_73702288_-SINEAluName=AluY
ADediting_214121chr10_73702337_-SINEAluName=AluY
ADediting_214122chr10_73702364_-SINEAluName=AluY
ADediting_214123chr10_73702369_-SINEAluName=AluY
ADediting_214124chr10_73704587_-SINEAluName=AluSx1
ADediting_214125chr10_73704597_-SINEAluName=AluSx1
ADediting_214126chr10_73704615_-SINEAluName=AluSx1
ADediting_214127chr10_73704639_-SINEAluName=AluSx1
ADediting_214128chr10_73704645_-SINEAluName=AluSx1
ADediting_214129chr10_73704649_-SINEAluName=AluSx1
ADediting_214130chr10_73704666_-SINEAluName=AluSx1
ADediting_214131chr10_73704669_-SINEAluName=AluSx1
ADediting_214132chr10_73704714_-SINEAluName=AluSx1
ADediting_214133chr10_73704716_-SINEAluName=AluSx1
ADediting_214134chr10_73704775_-SINEAluName=AluSx1
ADediting_214135chr10_73704776_-SINEAluName=AluSx1
ADediting_214136chr10_73704792_-SINEAluName=AluSx1
ADediting_214137chr10_73704794_-SINEAluName=AluSx1
ADediting_214138chr10_73704824_-SINEAluName=AluSx1
ADediting_214139chr10_73708867_-SINEAluName=AluSp
ADediting_214140chr10_73708907_-SINEAluName=AluSp
ADediting_214141chr10_73708933_-SINEAluName=AluSp
ADediting_214142chr10_73709014_-SINEAluName=AluSp
ADediting_214143chr10_73712344_-SINEAluName=AluSc
ADediting_214144chr10_73712347_-SINEAluName=AluSc
ADediting_214145chr10_73712926_-SINEAluName=AluJr
ADediting_1524725chr10_73699318_-SINEAluName=AluSx
ADediting_1524726chr10_73699508_-SINEAluName=AluSx
ADediting_1524727chr10_73704659_-SINEAluName=AluSx1
ADediting_1524728chr10_73704726_-SINEAluName=AluSx1
ADediting_1524729chr10_73712335_-SINEAluName=AluSc
ADediting_1524730chr10_73712364_-SINEAluName=AluSc
ADediting_1524731chr10_73712744_-SINEAluName=AluJr
ADediting_1524732chr10_73712754_-SINEAluName=AluJr
ADediting_1524733chr10_73712792_-SINEAluName=AluJr
ADediting_1524734chr10_73712848_-SINEAluName=AluJr
ADediting_1524735chr10_73712849_-SINEAluName=AluJr
ADediting_1524736chr10_73712852_-SINEAluName=AluJr
ADediting_1524737chr10_73712872_-SINEAluName=AluJr
ADediting_1524738chr10_73712880_-SINEAluName=AluJr
ADediting_1606989chr10_73699348_-SINEAluName=AluSx
ADediting_1606990chr10_73704690_-SINEAluName=AluSx1

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RNA A-to-I editing events in the alternative splicing sites for BMS1P4-AGAP5

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 BMS1P4-AGAP5

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.
Soverview
Soverview

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.

Soverview
Soverview
ADeditome IDChrPositoingSkipped exonENSGENSTs

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Protein coding region RNA A-to-I editings for BMS1P4-AGAP5

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 BMS1P4-AGAP5


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
ADediting_1631458chr19_40282624_-ENSG00000242288.9ENST00000399449.3BMS1P4-AGAP5-201hsa-miR-641chr1073674417736744237mer-m87367441673674438165-21.47
ADediting_286380chr11_79422188_-ENSG00000242288.9ENST00000399449.3BMS1P4-AGAP5-201hsa-miR-5579-3pchr1073718063737180697mer-m87371806273718087149-15.34

check button RNA A-to-I editing in miRNAs lost binding to lncRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
ADediting_107020chr1_37500952_-ENSG00000242288.9ENST00000399449.3BMS1P4-AGAP5-201hsa-miR-5581-3pchr1073721466737214727mer-m87372146573721489153-20.1
ADediting_1337757chr7_5495852_-ENSG00000242288.9ENST00000399449.3BMS1P4-AGAP5-201hsa-miR-589-3pchr1073721488737214947mer-m87372148773722392143-19.28
ADediting_496066chr15_66496985_-ENSG00000242288.9ENST00000399449.3BMS1P4-AGAP5-201hsa-miR-4512chr1073674384736743907mer-m87367438373674404151-18.36
ADediting_496066chr15_66496985_-ENSG00000242288.9ENST00000399449.3BMS1P4-AGAP5-201hsa-miR-4512chr1073727309737273157mer-m87372730873727328150-24.88
ADediting_843620chr2_207754818_+ENSG00000242288.9ENST00000399449.3BMS1P4-AGAP5-201hsa-miR-4775chr1073722487737224937mer-m87372248673722507140-7.52

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

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

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 BMS1P4-AGAP5

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 BMS1P4-AGAP5

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.)

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.)
CER3.12999083696266e-150.5864769585036813.16124920088904e-060.3699955616447870.07540773863353480.145614511153387
TCX9.5401413845325e-050.3131647994530880.616423967731806-0.04122784106050535.71280383020305e-110.502428691898635
FP1.63942519228143e-060.350301612382995.22086316967259e-060.3339625229234450.000787625592860040.249394907138487
PG1.56764572800748e-150.5409940784900241.89167032683424e-100.445387167657810.5206626940651910.047390498252572
STG0.01290202975410040.2702755786669640.0003376997874975720.3818914872404580.380424445948671-0.0969277856589958

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Relation with AD stages for BMS1P4-AGAP5

check button Correlation between AD stages and RNA editing frequency
TissueADeditomIDpositionP-valCoeff.

check button Correlation between AD stages and this gene's expression
TissueP-valCoeff.
STG0.00293075410083142-0.320771877059354

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RelatedDrugs for BMS1P4-AGAP5

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 BMS1P4-AGAP5

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