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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: FGD3 (CAeditome ID:89846)

Gene summary for FGD3

check button Gene summary
Gene informationGene symbol

FGD3

Gene ID

89846

Gene nameFYVE, RhoGEF and PH domain containing 3
SynonymsZFYVE5
Cytomap

9q22.31

Type of geneprotein-coding
DescriptionFYVE, RhoGEF and PH domain-containing protein 3FGD1 family, member 3faciogenital dysplasia 3zinc finger FYVE domain-containing protein 5
Modification date20210518
UniProtAcc

Q5JSP0

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 FGD3

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: ENSG00000127084.16

check button RNA A-to-I editing events in Cancer.
CAediting_695171(92962778, +), CAediting_695172(92962784, +), CAediting_695173(92967607, +), CAediting_695174(92967704, +), CAediting_695175(92972296, +), CAediting_695176(92972331, +), CAediting_695177(92972448, +), CAediting_695178(92973377, +), CAediting_695179(92978033, +), CAediting_695180(92978234, +), CAediting_695181(92978237, +), CAediting_695182(92978239, +), CAediting_695183(92978869, +), CAediting_695184(92978895, +), CAediting_695185(92980101, +), CAediting_695186(92980107, +), CAediting_695187(92980120, +), CAediting_695188(92980121, +), CAediting_695189(92980124, +), CAediting_695190(92980155, +), CAediting_695191(92980160, +), CAediting_695192(92980176, +), CAediting_695193(92980256, +), CAediting_695194(92980694, +), CAediting_695195(92980770, +), CAediting_695196(92980794, +), CAediting_695197(92980795, +), CAediting_695198(92980806, +), CAediting_695199(92980809, +), CAediting_695200(92980810, +), CAediting_695201(92980856, +), CAediting_695202(92980877, +), CAediting_695203(92980883, +), CAediting_695204(92980891, +), CAediting_695205(92980892, +), CAediting_695206(92980900, +), CAediting_695207(92981095, +), CAediting_695208(92981166, +), CAediting_695209(92981181, +), CAediting_695210(92981205, +), CAediting_695211(92981206, +), CAediting_695212(92981209, +), CAediting_695213(92981211, +), CAediting_695214(92981217, +), CAediting_695215(92981221, +), CAediting_695216(92981225, +), CAediting_695217(92981247, +), CAediting_695218(92981288, +), CAediting_695219(92985618, +), CAediting_695220(92985678, +), CAediting_695221(92987161, +), CAediting_695222(92987221, +), CAediting_695223(92987245, +), CAediting_695224(92987252, +), CAediting_695225(92987253, +), CAediting_695226(92987260, +), CAediting_695227(92987311, +), CAediting_695228(92987312, +), CAediting_695229(92987317, +), CAediting_695230(92987321, +), CAediting_695231(92987353, +), CAediting_695232(92987357, +), CAediting_695233(92987386, +), CAediting_695234(92987449, +), CAediting_695235(92987453, +), CAediting_695236(92989144, +), CAediting_695237(92989180, +), CAediting_695238(92989194, +), CAediting_695239(92989256, +), CAediting_695240(92990176, +), CAediting_695241(92990182, +), CAediting_695242(92990183, +), CAediting_695243(92991179, +), CAediting_695244(92991218, +), CAediting_695245(92991263, +), CAediting_695246(92999854, +), CAediting_695247(93002306, +), CAediting_695248(93002329, +), CAediting_695249(93002374, +), CAediting_695250(93002383, +), CAediting_695251(93006788, +), CAediting_695252(93006791, +), CAediting_695253(93007487, +), CAediting_695254(93007493, +), CAediting_695255(93007496, +), CAediting_695256(93007497, +), CAediting_695257(93007505, +), CAediting_695258(93007549, +), CAediting_695259(93007584, +), CAediting_695260(93015375, +), CAediting_695261(93015405, +), CAediting_695262(93016753, +), CAediting_695263(93017114, +), CAediting_695264(93017118, +), CAediting_695265(93017121, +), CAediting_695266(93029293, +),

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RNA editing positional annotations for FGD3 using Annovar

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

check button Gene structure information of RNA editing(s).
CAeditome IDPositionVariant type
CAediting_695171chr9_92962778_+intronic
CAediting_695172chr9_92962784_+intronic
CAediting_695173chr9_92967607_+ncRNA_intronic
CAediting_695174chr9_92967704_+ncRNA_intronic
CAediting_695175chr9_92972296_+ncRNA_intronic
CAediting_695176chr9_92972331_+ncRNA_intronic
CAediting_695177chr9_92972448_+ncRNA_intronic
CAediting_695178chr9_92973377_+ncRNA_intronic
CAediting_695179chr9_92978033_+intronic
CAediting_695180chr9_92978234_+intronic
CAediting_695181chr9_92978237_+intronic
CAediting_695182chr9_92978239_+intronic
CAediting_695183chr9_92978869_+intronic
CAediting_695184chr9_92978895_+intronic
CAediting_695185chr9_92980101_+intronic
CAediting_695186chr9_92980107_+intronic
CAediting_695187chr9_92980120_+intronic
CAediting_695188chr9_92980121_+intronic
CAediting_695189chr9_92980124_+intronic
CAediting_695190chr9_92980155_+intronic
CAediting_695191chr9_92980160_+intronic
CAediting_695192chr9_92980176_+intronic
CAediting_695193chr9_92980256_+intronic
CAediting_695194chr9_92980694_+intronic
CAediting_695195chr9_92980770_+intronic
CAediting_695196chr9_92980794_+intronic
CAediting_695197chr9_92980795_+intronic
CAediting_695198chr9_92980806_+intronic
CAediting_695199chr9_92980809_+intronic
CAediting_695200chr9_92980810_+intronic
CAediting_695201chr9_92980856_+intronic
CAediting_695202chr9_92980877_+intronic
CAediting_695203chr9_92980883_+intronic
CAediting_695204chr9_92980891_+intronic
CAediting_695205chr9_92980892_+intronic
CAediting_695206chr9_92980900_+intronic
CAediting_695207chr9_92981095_+intronic
CAediting_695208chr9_92981166_+intronic
CAediting_695209chr9_92981181_+intronic
CAediting_695210chr9_92981205_+intronic
CAediting_695211chr9_92981206_+intronic
CAediting_695212chr9_92981209_+intronic
CAediting_695213chr9_92981211_+intronic
CAediting_695214chr9_92981217_+intronic
CAediting_695215chr9_92981221_+intronic
CAediting_695216chr9_92981225_+intronic
CAediting_695217chr9_92981247_+intronic
CAediting_695218chr9_92981288_+intronic
CAediting_695219chr9_92985618_+intronic
CAediting_695220chr9_92985678_+intronic
CAediting_695221chr9_92987161_+intronic
CAediting_695222chr9_92987221_+intronic
CAediting_695223chr9_92987245_+intronic
CAediting_695224chr9_92987252_+intronic
CAediting_695225chr9_92987253_+intronic
CAediting_695226chr9_92987260_+intronic
CAediting_695227chr9_92987311_+intronic
CAediting_695228chr9_92987312_+intronic
CAediting_695229chr9_92987317_+intronic
CAediting_695230chr9_92987321_+intronic
CAediting_695231chr9_92987353_+intronic
CAediting_695232chr9_92987357_+intronic
CAediting_695233chr9_92987386_+intronic
CAediting_695234chr9_92987449_+intronic
CAediting_695235chr9_92987453_+intronic
CAediting_695236chr9_92989144_+intronic
CAediting_695237chr9_92989180_+intronic
CAediting_695238chr9_92989194_+intronic
CAediting_695239chr9_92989256_+intronic
CAediting_695240chr9_92990176_+intronic
CAediting_695241chr9_92990182_+intronic
CAediting_695242chr9_92990183_+intronic
CAediting_695243chr9_92991179_+intronic
CAediting_695244chr9_92991218_+intronic
CAediting_695245chr9_92991263_+intronic
CAediting_695246chr9_92999854_+intronic
CAediting_695247chr9_93002306_+intronic
CAediting_695248chr9_93002329_+intronic
CAediting_695249chr9_93002374_+intronic
CAediting_695250chr9_93002383_+intronic
CAediting_695251chr9_93006788_+intronic
CAediting_695252chr9_93006791_+intronic
CAediting_695253chr9_93007487_+intronic
CAediting_695254chr9_93007493_+intronic
CAediting_695255chr9_93007496_+intronic
CAediting_695256chr9_93007497_+intronic
CAediting_695257chr9_93007505_+intronic
CAediting_695258chr9_93007549_+intronic
CAediting_695259chr9_93007584_+intronic
CAediting_695260chr9_93015375_+intronic
CAediting_695261chr9_93015405_+intronic
CAediting_695262chr9_93016753_+ncRNA_intronic
CAediting_695263chr9_93017114_+ncRNA_intronic
CAediting_695264chr9_93017118_+ncRNA_intronic
CAediting_695265chr9_93017121_+ncRNA_intronic
CAediting_695266chr9_93029293_+intronic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_695171chr9_92962778_+SINEAluAluSx1
CAediting_695172chr9_92962784_+SINEAluAluSx1
CAediting_695173chr9_92967607_+SINEAluAluSc
CAediting_695174chr9_92967704_+SINEAluAluSc
CAediting_695175chr9_92972296_+SINEAluAluSx1
CAediting_695176chr9_92972331_+SINEAluAluSx1
CAediting_695177chr9_92972448_+SINEAluAluSx1
CAediting_695178chr9_92973377_+SINEAluAluSz
CAediting_695179chr9_92978033_+SINEAluAluSp
CAediting_695180chr9_92978234_+SINEAluAluSp
CAediting_695181chr9_92978237_+SINEAluAluSp
CAediting_695182chr9_92978239_+SINEAluAluSp
CAediting_695183chr9_92978869_+SINEAluAluJr
CAediting_695184chr9_92978895_+SINEAluAluJr
CAediting_695185chr9_92980101_+SINEAluAluSz
CAediting_695186chr9_92980107_+SINEAluAluSz
CAediting_695187chr9_92980120_+SINEAluAluSz
CAediting_695188chr9_92980121_+SINEAluAluSz
CAediting_695189chr9_92980124_+SINEAluAluSz
CAediting_695190chr9_92980155_+SINEAluAluSz
CAediting_695191chr9_92980160_+SINEAluAluSz
CAediting_695192chr9_92980176_+SINEAluAluSz
CAediting_695193chr9_92980256_+SINEAluAluSz
CAediting_695194chr9_92980694_+SINEAluAluSx1
CAediting_695195chr9_92980770_+SINEAluAluSx1
CAediting_695196chr9_92980794_+SINEAluAluSx1
CAediting_695197chr9_92980795_+SINEAluAluSx1
CAediting_695198chr9_92980806_+SINEAluAluSx1
CAediting_695199chr9_92980809_+SINEAluAluSx1
CAediting_695200chr9_92980810_+SINEAluAluSx1
CAediting_695201chr9_92980856_+SINEAluAluSx1
CAediting_695202chr9_92980877_+SINEAluAluSx1
CAediting_695203chr9_92980883_+SINEAluAluSx1
CAediting_695204chr9_92980891_+SINEAluAluSx1
CAediting_695205chr9_92980892_+SINEAluAluSx1
CAediting_695206chr9_92980900_+SINEAluAluSx1
CAediting_695207chr9_92981095_+SINEAluAluY
CAediting_695208chr9_92981166_+SINEAluAluY
CAediting_695209chr9_92981181_+SINEAluAluY
CAediting_695210chr9_92981205_+SINEAluAluY
CAediting_695211chr9_92981206_+SINEAluAluY
CAediting_695212chr9_92981209_+SINEAluAluY
CAediting_695213chr9_92981211_+SINEAluAluY
CAediting_695214chr9_92981217_+SINEAluAluY
CAediting_695215chr9_92981221_+SINEAluAluY
CAediting_695216chr9_92981225_+SINEAluAluY
CAediting_695217chr9_92981247_+SINEAluAluY
CAediting_695218chr9_92981288_+SINEAluAluY
CAediting_695219chr9_92985618_+SINEAluAluSq
CAediting_695220chr9_92985678_+SINEAluAluSq
CAediting_695221chr9_92987161_+SINEAluAluY
CAediting_695222chr9_92987221_+SINEAluAluY
CAediting_695223chr9_92987245_+SINEAluAluY
CAediting_695224chr9_92987252_+SINEAluAluY
CAediting_695225chr9_92987253_+SINEAluAluY
CAediting_695226chr9_92987260_+SINEAluAluY
CAediting_695227chr9_92987311_+SINEAluAluY
CAediting_695228chr9_92987312_+SINEAluAluY
CAediting_695229chr9_92987317_+SINEAluAluY
CAediting_695230chr9_92987321_+SINEAluAluY
CAediting_695231chr9_92987353_+SINEAluAluY
CAediting_695232chr9_92987357_+SINEAluAluY
CAediting_695233chr9_92987386_+SINEAluAluY
CAediting_695234chr9_92987449_+SINEAluAluY
CAediting_695235chr9_92987453_+SINEAluAluY
CAediting_695236chr9_92989144_+SINEAluAluSc8
CAediting_695237chr9_92989180_+SINEAluAluSc8
CAediting_695238chr9_92989194_+SINEAluAluSc8
CAediting_695239chr9_92989256_+SINEAluAluSc8
CAediting_695240chr9_92990176_+SINEAluAluJr4
CAediting_695241chr9_92990182_+SINEAluAluJr4
CAediting_695242chr9_92990183_+SINEAluAluJr4
CAediting_695243chr9_92991179_+SINEAluAluSx1
CAediting_695244chr9_92991218_+SINEAluAluSx1
CAediting_695245chr9_92991263_+SINEAluAluSx1
CAediting_695246chr9_92999854_+SINEAluAluSx1
CAediting_695247chr9_93002306_+SINEAluAluJo
CAediting_695248chr9_93002329_+SINEAluAluJo
CAediting_695249chr9_93002374_+SINEAluAluJo
CAediting_695250chr9_93002383_+SINEAluAluJo
CAediting_695251chr9_93006788_+SINEAluAluY
CAediting_695252chr9_93006791_+SINEAluAluY
CAediting_695253chr9_93007487_+SINEAluAluSc
CAediting_695254chr9_93007493_+SINEAluAluSc
CAediting_695255chr9_93007496_+SINEAluAluSc
CAediting_695256chr9_93007497_+SINEAluAluSc
CAediting_695257chr9_93007505_+SINEAluAluSc
CAediting_695258chr9_93007549_+SINEAluAluSc
CAediting_695259chr9_93007584_+SINEAluAluSc
CAediting_695260chr9_93015375_+SINEAluAluSx
CAediting_695261chr9_93015405_+SINEAluAluSx
CAediting_695262chr9_93016753_+SINEAluAluSg
CAediting_695263chr9_93017114_+SINEAluAluJb
CAediting_695264chr9_93017118_+SINEAluAluJb
CAediting_695265chr9_93017121_+SINEAluAluJb
CAediting_695266chr9_93029293_+SINEAluAluSx1

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RNA A-to-I editing events in the alternative splicing sites for FGD3

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

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000127084.16.FGD3.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000127084.16.FGD3.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for FGD3

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 FGD3

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 FGD3

**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

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

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_748296chr10_51299626_+ENSG00000127084.16ENST00000467786hsa-miR-605-3p93034297930343037mer-m89303428293034304152-18.12
CAediting_748296chr10_51299626_+ENSG00000127084.16ENST00000467786hsa-miR-605-3p93033169930331768mer-1a9303315693033176150-15.85
CAediting_688080chr9_63819626_+ENSG00000127084.16ENST00000467786hsa-miR-4477b93033583930335897mer-m89303356993033590140-10.66
CAediting_1229415chr17_67471547_+ENSG00000127084.16ENST00000416701hsa-miR-548aa93035718930357247mer-m89303570293035725149-11.67
CAediting_1229415chr17_67471547_+ENSG00000127084.16ENST00000337352hsa-miR-548aa93035718930357247mer-m89303570293035725149-11.67
CAediting_1054808chr15_66496985_-ENSG00000127084.16ENST00000467786hsa-miR-451293033013930330186mer9303299893033019151-32.7
CAediting_1229414chr17_67471546_+ENSG00000127084.16ENST00000467786hsa-miR-548aa93033892930338987mer-m89303387493033899150-15.43
CAediting_1351755chr19_40282625_-ENSG00000127084.16ENST00000467786hsa-miR-64193034424930344307mer-m89303440993034431153-17.67
CAediting_1368054chr19_46709310_-ENSG00000127084.16ENST00000467786hsa-miR-320e93034057930340637mer-m89303404793034064143-19.15
CAediting_1368054chr19_46709310_-ENSG00000127084.16ENST00000467786hsa-miR-320e93034436930344427mer-m89303442493034443154-17.65
CAediting_396018chr5_1062918_-ENSG00000127084.16ENST00000467786hsa-miR-463593033172930331787mer-m89303315993033179152-17.51
CAediting_396018chr5_1062918_-ENSG00000127084.16ENST00000467786hsa-miR-463593033584930335918mer-1a9303357193033591146-15.29
CAediting_604450chr7_133034877_-ENSG00000127084.16ENST00000467786hsa-miR-365493034055930340617mer-m89303404593034062143-19.76
CAediting_524911chr7_5495852_-ENSG00000127084.16ENST00000467786hsa-miR-589-3p93034571930345777mer-m89303455793034578141-14.35
CAediting_524911chr7_5495852_-ENSG00000127084.16ENST00000467786hsa-miR-589-3p93033802930338098mer-1a9303378793033809149-18.98
CAediting_573001chr7_92204086_-ENSG00000127084.16ENST00000467786hsa-miR-1285-5p93034604930346107mer-m89303458993034611144-20.91
CAediting_1229415chr17_67471547_+ENSG00000127084.16ENST00000467786hsa-miR-548aa93035718930357247mer-m89303570293035725149-11.67
CAediting_468389chr6_31355314_-ENSG00000127084.16ENST00000467786hsa-miR-6891-5p93034474930344818mer-1a9303446193034481152-28.62
CAediting_468389chr6_31355314_-ENSG00000127084.16ENST00000467786hsa-miR-6891-5p93035464930354707mer-m89303545493035471147-22.21

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_580943chr7_100356700_+ENSG00000127084.16ENST00000467786hsa-miR-6840-3p93035636930356438mer-1a9303562493035643152-27.14
CAediting_468389chr6_31355314_-ENSG00000127084.16ENST00000467786hsa-miR-6891-5p93036016930360227mer-m89303600393036023155-22.61

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 FGD3

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 FGD3

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 FGD3

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

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Relation with survival for FGD3

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for FGD3

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 FGD3

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