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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 tumor samples versus normal 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 cancer stages

Soverview

Relation with survival state

Soverview

Related drugs with this gene

Soverview

Related diseases with this gene

Editing gene: VAPA (CAeditome ID:9218)

Gene summary for VAPA

check button Gene summary
Gene informationGene symbol

VAPA

Gene ID

9218

Gene nameVAMP associated protein A
SynonymsVAMP-A|VAP-33|VAP-A|VAP33|hVAP-33
Cytomap

18p11.22

Type of geneprotein-coding
Descriptionvesicle-associated membrane protein-associated protein A33 kDa VAMP-associated proteinVAMP (vesicle-associated membrane protein)-associated protein A, 33kDaepididymis secretory sperm binding protein
Modification date20210518
UniProtAcc

Q9P0L0

Context

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

GO:0070971

Vesicle-associated membrane protein-associated protein A

18713837

VAPA

GO:0005923

Vesicle-associated membrane protein-associated protein A

10523508

VAPA

GO:0048471

Vesicle-associated membrane protein-associated protein A

16895911

VAPA

GO:0044791

Vesicle-associated membrane protein-associated protein A

19515777

VAPA

GO:0044828

Vesicle-associated membrane protein-associated protein A

19515777

VAPA

GO:0044829

Vesicle-associated membrane protein-associated protein A

19515777

VAPA

GO:0005783

Vesicle-associated membrane protein-associated protein A

0000052

VAPA

GO:0005783

Vesicle-associated membrane protein-associated protein A

18713837

VAPA

GO:0005783

Vesicle-associated membrane protein-associated protein A

19289470

VAPA

GO:0005789

Vesicle-associated membrane protein-associated protein A

30741634

VAPA

GO:0005886

Vesicle-associated membrane protein-associated protein A

10523508

VAPA

GO:0031982

Vesicle-associated membrane protein-associated protein A

10523508


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RNA A-to-I events for VAPA

check buttonRNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure.
all structure

check button RNA editing frequencies across 33 cancers of gene: ENSG00000101558.12

check button RNA A-to-I editing events in Cancer.
CAediting_1253195(9922812, +), CAediting_1253196(9931851, +), CAediting_1253197(9931878, +), CAediting_1253198(9931890, +), CAediting_1253199(9932987, +), CAediting_1253200(9933026, +), CAediting_1253201(9933027, +), CAediting_1253202(9933028, +), CAediting_1253203(9933561, +), CAediting_1253204(9933607, +), CAediting_1253205(9933655, +), CAediting_1253206(9933671, +), CAediting_1253207(9933718, +), CAediting_1253208(9933790, +), CAediting_1253209(9933800, +), CAediting_1253210(9933801, +), CAediting_1253211(9933812, +), CAediting_1253212(9933814, +), CAediting_1253213(9934937, +), CAediting_1253214(9934980, +), CAediting_1253215(9935477, +), CAediting_1253216(9935494, +), CAediting_1253217(9935514, +), CAediting_1253218(9935516, +), CAediting_1253219(9936502, +), CAediting_1253220(9936640, +), CAediting_1253221(9936707, +), CAediting_1253222(9936716, +), CAediting_1253223(9936729, +), CAediting_1253224(9948839, +), CAediting_1253225(9952521, +), CAediting_1253226(9954092, +), CAediting_1253227(9954093, +), CAediting_1253228(9954104, +), CAediting_1253229(9954362, +), CAediting_1253230(9954368, +), CAediting_1253231(9954442, +), CAediting_1253232(9957075, +), CAediting_1253233(9957149, +), CAediting_1253234(9957212, +), CAediting_1253235(9957215, +), CAediting_1253236(9957297, +),

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RNA editing positional annotations for VAPA using Annovar

check button Protein coding RNA editing(s).
CAeditome IDPositionVariant typeENSTNTchangeAAchangeSIFT_scorePolyphen2_HVAR_scorePROVEAN_pred
CAediting_1253196chr18_9931851_+nonsynonymous SNVENST00000340541.4c.A121Gp.N41DDDD
CAediting_1253196chr18_9931851_+nonsynonymous SNVENST00000400000.5c.A121Gp.N41DDDD
CAediting_1253197chr18_9931878_+nonsynonymous SNVENST00000340541.4c.A148Gp.K50EDDD
CAediting_1253197chr18_9931878_+nonsynonymous SNVENST00000400000.5c.A148Gp.K50EDDD
CAediting_1253198chr18_9931890_+nonsynonymous SNVENST00000340541.4c.A160Gp.T54ADDD
CAediting_1253198chr18_9931890_+nonsynonymous SNVENST00000400000.5c.A160Gp.T54ADDD
CAediting_1253226chr18_9954092_+nonsynonymous SNVENST00000340541.4c.A766Gp.K256ETDN
CAediting_1253226chr18_9954092_+nonsynonymous SNVENST00000400000.5c.A631Gp.K211ETDN
CAediting_1253227chr18_9954093_+nonsynonymous SNVENST00000340541.4c.A767Gp.K256RTDN
CAediting_1253227chr18_9954093_+nonsynonymous SNVENST00000400000.5c.A632Gp.K211RTDN

check button Gene structure information of RNA editing(s).
CAeditome IDPositionVariant type
CAediting_1253195chr18_9922812_+ncRNA_intronic
CAediting_1253196chr18_9931851_+exonic
CAediting_1253197chr18_9931878_+exonic
CAediting_1253198chr18_9931890_+exonic
CAediting_1253199chr18_9932987_+ncRNA_intronic
CAediting_1253200chr18_9933026_+ncRNA_intronic
CAediting_1253201chr18_9933027_+ncRNA_intronic
CAediting_1253202chr18_9933028_+ncRNA_intronic
CAediting_1253203chr18_9933561_+ncRNA_intronic
CAediting_1253204chr18_9933607_+ncRNA_intronic
CAediting_1253205chr18_9933655_+ncRNA_intronic
CAediting_1253206chr18_9933671_+ncRNA_intronic
CAediting_1253207chr18_9933718_+ncRNA_intronic
CAediting_1253208chr18_9933790_+ncRNA_intronic
CAediting_1253209chr18_9933800_+ncRNA_intronic
CAediting_1253210chr18_9933801_+ncRNA_intronic
CAediting_1253211chr18_9933812_+ncRNA_intronic
CAediting_1253212chr18_9933814_+ncRNA_intronic
CAediting_1253213chr18_9934937_+ncRNA_intronic
CAediting_1253214chr18_9934980_+ncRNA_intronic
CAediting_1253215chr18_9935477_+ncRNA_intronic
CAediting_1253216chr18_9935494_+ncRNA_intronic
CAediting_1253217chr18_9935514_+ncRNA_intronic
CAediting_1253218chr18_9935516_+ncRNA_intronic
CAediting_1253219chr18_9936502_+ncRNA_exonic
CAediting_1253220chr18_9936640_+ncRNA_intronic
CAediting_1253221chr18_9936707_+ncRNA_intronic
CAediting_1253222chr18_9936716_+ncRNA_intronic
CAediting_1253223chr18_9936729_+ncRNA_exonic
CAediting_1253224chr18_9948839_+ncRNA_exonic
CAediting_1253225chr18_9952521_+ncRNA_intronic
CAediting_1253226chr18_9954092_+exonic
CAediting_1253227chr18_9954093_+exonic
CAediting_1253228chr18_9954104_+exonic
CAediting_1253229chr18_9954362_+ncRNA_exonic
CAediting_1253230chr18_9954368_+ncRNA_exonic
CAediting_1253231chr18_9954442_+ncRNA_exonic
CAediting_1253232chr18_9957075_+UTR3
CAediting_1253233chr18_9957149_+UTR3
CAediting_1253234chr18_9957212_+UTR3
CAediting_1253235chr18_9957215_+UTR3
CAediting_1253236chr18_9957297_+UTR3

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_1253199chr18_9932987_+SINEAluAluSg7
CAediting_1253200chr18_9933026_+SINEAluAluSg7
CAediting_1253201chr18_9933027_+SINEAluAluSg7
CAediting_1253202chr18_9933028_+SINEAluAluSg7
CAediting_1253203chr18_9933561_+SINEAluAluSz
CAediting_1253204chr18_9933607_+SINEAluAluSz
CAediting_1253205chr18_9933655_+SINEAluAluSz
CAediting_1253206chr18_9933671_+SINEAluAluSz
CAediting_1253207chr18_9933718_+SINEAluAluSz
CAediting_1253208chr18_9933790_+SINEAluAluSz
CAediting_1253209chr18_9933800_+SINEAluAluSz
CAediting_1253210chr18_9933801_+SINEAluAluSz
CAediting_1253211chr18_9933812_+SINEAluAluSz
CAediting_1253212chr18_9933814_+SINEAluAluSz
CAediting_1253213chr18_9934937_+SINEAluAluY
CAediting_1253214chr18_9934980_+SINEAluAluY
CAediting_1253215chr18_9935477_+SINEAluAluJb
CAediting_1253216chr18_9935494_+SINEAluAluJb
CAediting_1253217chr18_9935514_+SINEAluAluJb
CAediting_1253218chr18_9935516_+SINEAluAluJb
CAediting_1253219chr18_9936502_+SINEAluAluJo
CAediting_1253220chr18_9936640_+SINEAluAluJo
CAediting_1253221chr18_9936707_+SINEAluAluJo
CAediting_1253222chr18_9936716_+SINEAluAluJo
CAediting_1253223chr18_9936729_+SINEAluAluJo
CAediting_1253224chr18_9948839_+SINEAluAluJr
CAediting_1253225chr18_9952521_+SINEAluAluSq2
CAediting_1253232chr18_9957075_+SINEAluAluSg
CAediting_1253233chr18_9957149_+SINEAluAluSg
CAediting_1253234chr18_9957212_+SINEAluAluSg
CAediting_1253235chr18_9957215_+SINEAluAluSg
CAediting_1253236chr18_9957297_+SINEAluAluSg

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

check button RNA A-to-I editing(s) in the alternative splicing sites.
AStypeCAeditomIDEditing positionAS positionAS directionExonic locationWildtype sequenceWildtype splicing strengthRNA edited sequenceRNA edited splicing strength
IRCAediting_1253236chr18_9957297_+9957280:99573023SS0+3iCCCAAAGTGCTGGGATTACAGGT-18.22CCCAAAGTGCTGGGATTGCAGGT-30.13

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000101558.12.VAPA.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000101558.12.VAPA.

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

check button Differential gene expressions between RNA A-to-I edited and non-edited tumor samples.
* The grey color means N/A.

check button Correlation between RNA A-to-I editing and gene expression.

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

check button- Lollipop plot for RNA A-to-I editings across protein structure.
* Click on the image to enlarge it in a new window.
all structure


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The effects of the RNA editing to the miRNA binding sites for VAPA

**If you are searching a miRNA gene with RNA editing events in its seed regions, please see the search pages of miRNA targets to discover the effects of this RNA editing event to miRNA regulations. For more information, please check the files in the Download page.

check button RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
CAediting_1253198chr18_9931890_+ENSG00000101558.12ENST00000585042hsa-miR-1205993188799318926mer99318749931893142.00-20.58
CAediting_1253198chr18_9931890_+ENSG00000101558.12ENST00000585042hsa-miR-17-3p993188699318927mer-m899318749931893143.00-16.81
CAediting_1253232chr18_9957075_+ENSG00000101558.12ENST00000400000hsa-miR-3940-3p995707299570787mer-m899570589957079147.00-21.55
CAediting_1253233chr18_9957149_+ENSG00000101558.12ENST00000400000hsa-miR-1199-3p995714799571537mer-m899571359957154143.00-19.95
CAediting_1253233chr18_9957149_+ENSG00000101558.12ENST00000400000hsa-miR-615-3p995714399571497mer-m899571289957150158.00-22.90
CAediting_1253236chr18_9957297_+ENSG00000101558.12ENST00000400000hsa-miR-106a-3p995729399572986mer99572789957299141.00-21.13

check button RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
CAediting_1253233chr18_9957149_+ENSG00000101558.12ENST00000400000hsa-miR-1199-5p995714399571497mer-m899571309957150141-18.19
CAediting_1253232chr18_9957075_+ENSG00000101558.12ENST00000400000hsa-miR-3187-5p995706999570757mer-m899570519957076149-27.17
CAediting_1253233chr18_9957149_+ENSG00000101558.12ENST00000400000hsa-miR-4663995714499571507mer-m899571319957151149-18.25
CAediting_1253231chr18_9954442_+ENSG00000101558.12ENST00000400000hsa-miR-489-3p995443599544417mer-m899544219954442141-9.63
CAediting_1253232chr18_9957075_+ENSG00000101558.12ENST00000400000hsa-miR-5189-5p995706999570757mer-m899570549957076148-23.73
CAediting_1253235chr18_9957215_+ENSG00000101558.12ENST00000400000hsa-miR-593-3p995721499572207mer-1a99572029957220140-19.02
CAediting_1253232chr18_9957075_+ENSG00000101558.12ENST00000400000hsa-miR-612995706999570757mer-m899570529957076146-21.15
CAediting_1253232chr18_9957075_+ENSG00000101558.12ENST00000400000hsa-miR-661995707199570777mer-m899570559957078142-19.39
CAediting_1253233chr18_9957149_+ENSG00000101558.12ENST00000400000hsa-miR-6751-3p995714399571497mer-m899571309957150140-13.22
CAediting_1253233chr18_9957149_+ENSG00000101558.12ENST00000400000hsa-miR-6807-5p995714299571487mer-m899571289957149155-16.36
CAediting_1253232chr18_9957075_+ENSG00000101558.12ENST00000400000hsa-miR-6860995706999570757mer-m899570569957076142-17.44
CAediting_1253232chr18_9957075_+ENSG00000101558.12ENST00000400000hsa-miR-939-3p995707099570767mer-m899570579957077140-15.63
CAediting_1253198chr18_9931890_+ENSG00000101558.12ENST00000585042hsa-miR-20b-3p993188699318927mer-m899318749931893151-16.17
CAediting_1253196chr18_9931851_+ENSG00000101558.12ENST00000585042hsa-miR-3167993184899318558mer-1a99318349931855148-9.5
CAediting_1253197chr18_9931878_+ENSG00000101558.12ENST00000585042hsa-miR-510-3p993187299318798mer-1a99318589931879143-7.78
CAediting_1253196chr18_9931851_+ENSG00000101558.12ENST00000585042hsa-miR-876-5p993184899318558mer-1a99318309931855144-11.92

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

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

check button RNA A-to-I editing in miRNAs gained binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs lost binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
CAediting_1229414chr17_67471546_+ENSG00000101558.12ENST00000400000hsa-miR-548aa995931499593218mer-1a99592989959321157-10.38
CAediting_1351755chr19_40282625_-ENSG00000101558.12ENST00000400000hsa-miR-641995619199561977mer-1a99561759956197140-19.28
CAediting_524911chr7_5495852_-ENSG00000101558.12ENST00000400000hsa-miR-589-3p995657199565788mer-1a99565559956578149-17.6
CAediting_573001chr7_92204086_-ENSG00000101558.12ENST00000400000hsa-miR-1285-5p995658799565937mer-m899565749956594146-18.64

check button RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
CAediting_573001chr7_92204086_-ENSG00000101558.12ENST00000400000hsa-miR-1285-5p995782499578307mer-m899578119957831145-13.26
CAediting_1160181chr17_7017644_-ENSG00000101558.12ENST00000400000hsa-miR-195-3p995921499592218mer-1a99591989959221148-10.36
CAediting_393chr1_1167164_+ENSG00000101558.12ENST00000400000hsa-miR-200b-3p995888299588898mer-1a99588689958889140-9.82
CAediting_393chr1_1167164_+ENSG00000101558.12ENST00000400000hsa-miR-200b-3p995493099549367mer-m899549189954937144-8.07
CAediting_1368054chr19_46709310_-ENSG00000101558.12ENST00000400000hsa-miR-320e995819199581988mer-1a99581819958198147-14.02
CAediting_688080chr9_63819626_+ENSG00000101558.12ENST00000400000hsa-miR-4477b995689599569006mer99568799956901140-11.82
CAediting_688081chr9_63819627_+ENSG00000101558.12ENST00000400000hsa-miR-4477b995689599569006mer99568799956901140-11.82
CAediting_688080chr9_63819626_+ENSG00000101558.12ENST00000400000hsa-miR-4477b995989699599027mer-m899598789959903155-12.83
CAediting_688081chr9_63819627_+ENSG00000101558.12ENST00000400000hsa-miR-4477b995989699599027mer-m899598789959903155-12.83
CAediting_414656chr5_72878640_+ENSG00000101558.12ENST00000400000hsa-miR-4804-3p995776399577708mer-1a99577509957770140-9.21
CAediting_1229413chr17_67471544_+ENSG00000101558.12ENST00000400000hsa-miR-548aa995449699545038mer-1a99544799954503155-11.66
CAediting_1229414chr17_67471546_+ENSG00000101558.12ENST00000400000hsa-miR-548aa995449699545038mer-1a99544799954503155-11.66
CAediting_1229415chr17_67471547_+ENSG00000101558.12ENST00000400000hsa-miR-548aa995449699545038mer-1a99544799954503155-11.66
CAediting_1229413chr17_67471544_+ENSG00000101558.12ENST00000400000hsa-miR-548aa995517199551788mer-1a99551549955178145-6.07
CAediting_1229414chr17_67471546_+ENSG00000101558.12ENST00000400000hsa-miR-548aa995517199551788mer-1a99551549955178145-6.07
CAediting_1229415chr17_67471547_+ENSG00000101558.12ENST00000400000hsa-miR-548aa995517199551788mer-1a99551549955178145-6.07
CAediting_117844chr1_162342605_+ENSG00000101558.12ENST00000400000hsa-miR-556-3p995530499553107mer-m899552909955311150-10.72
CAediting_117844chr1_162342605_+ENSG00000101558.12ENST00000400000hsa-miR-556-3p995642799564348mer-1a99564139956434147-7.59
CAediting_228905chr2_188297554_+ENSG00000101558.12ENST00000400000hsa-miR-561-3p995767799576848mer-1a99576669957684152-6.78
CAediting_228905chr2_188297554_+ENSG00000101558.12ENST00000400000hsa-miR-561-3p995985799598637mer-m899598459959864149-9.73
CAediting_524911chr7_5495852_-ENSG00000101558.12ENST00000400000hsa-miR-589-3p995694099569478mer-1a99569219956947154-14.98
CAediting_1351755chr19_40282625_-ENSG00000101558.12ENST00000400000hsa-miR-641995929899593047mer-m899592829959305148-11.42
CAediting_468389chr6_31355314_-ENSG00000101558.12ENST00000400000hsa-miR-6891-5p995468199546877mer-m899546709954688148-14.79

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 VAPA

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 RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

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Relation with ADAR for VAPA

check button Correlation between ADAR gene expression and RNA editing frequency
CancerCAeditomIDpositionADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)

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Relation with cancer stages for VAPA

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.

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Relation with survival for VAPA

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for VAPA

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for VAPA

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource
VAPAC0005586Bipolar Disorder1PSYGENET