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Editing gene: ARF3 (CAeditome ID:377)

Gene summary for ARF3

Gene summary

Gene information	Gene symbol	ARF3
	Gene ID	377
	Gene name	ADP ribosylation factor 3
	Synonyms	-
	Cytomap	12q13.12
	Type of gene	protein-coding
	Description	ADP-ribosylation factor 3small GTP binding protein
	Modification date	20210518
	UniProtAcc	P61204
	Context

Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Gene

GO ID

GO term

PubMed ID

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RNA A-to-I events for ARF3

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

RNA editing frequencies across 33 cancers of gene: ENSG00000134287.8

RNA A-to-I editing events in Cancer.

CAediting_884377(48935867, -), CAediting_884378(48937442, -), CAediting_884379(48938461, -), CAediting_884380(48942327, -), CAediting_884381(48942331, -), CAediting_884382(48942332, -), CAediting_884383(48942353, -), CAediting_884384(48942376, -), CAediting_884385(48945431, -), CAediting_884386(48945905, -), CAediting_884387(48948199, -), CAediting_884388(48948418, -), CAediting_884389(48948419, -), CAediting_884390(48948422, -), CAediting_884391(48948480, -), CAediting_884392(48948648, -), CAediting_884393(48948699, -), CAediting_884394(48950862, -), CAediting_884395(48950878, -), CAediting_884396(48950882, -), CAediting_884397(48951511, -), CAediting_884398(48951675, -), CAediting_884399(48954763, -), CAediting_884400(48954817, -), CAediting_884401(48954907, -),

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RNA editing positional annotations for ARF3 using Annovar

Protein coding RNA editing(s).

CAeditome ID

Position

Variant type

ENST

NTchange

AAchange

SIFT_score

Polyphen2_HVAR_score

PROVEAN_pred

Gene structure information of RNA editing(s).

CAeditome ID	Position	Variant type
CAediting_884377	chr12_48935867_-	UTR3
CAediting_884378	chr12_48937442_-	UTR3
CAediting_884379	chr12_48938461_-	ncRNA_exonic
CAediting_884380	chr12_48942327_-	ncRNA_intronic
CAediting_884381	chr12_48942331_-	ncRNA_intronic
CAediting_884382	chr12_48942332_-	ncRNA_intronic
CAediting_884383	chr12_48942353_-	ncRNA_intronic
CAediting_884384	chr12_48942376_-	ncRNA_intronic
CAediting_884385	chr12_48945431_-	ncRNA_intronic
CAediting_884386	chr12_48945905_-	ncRNA_intronic
CAediting_884387	chr12_48948199_-	ncRNA_intronic
CAediting_884388	chr12_48948418_-	ncRNA_intronic
CAediting_884389	chr12_48948419_-	ncRNA_intronic
CAediting_884390	chr12_48948422_-	ncRNA_intronic
CAediting_884391	chr12_48948480_-	ncRNA_intronic
CAediting_884392	chr12_48948648_-	ncRNA_intronic
CAediting_884393	chr12_48948699_-	ncRNA_intronic
CAediting_884394	chr12_48950862_-	ncRNA_intronic
CAediting_884395	chr12_48950878_-	ncRNA_intronic
CAediting_884396	chr12_48950882_-	ncRNA_intronic
CAediting_884397	chr12_48951511_-	ncRNA_intronic
CAediting_884398	chr12_48951675_-	ncRNA_intronic
CAediting_884399	chr12_48954763_-	ncRNA_intronic
CAediting_884400	chr12_48954817_-	ncRNA_intronic
CAediting_884401	chr12_48954907_-	ncRNA_intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_884380	chr12_48942327_-	SINE	Alu	FLAM_C
CAediting_884381	chr12_48942331_-	SINE	Alu	FLAM_C
CAediting_884382	chr12_48942332_-	SINE	Alu	FLAM_C
CAediting_884383	chr12_48942353_-	SINE	Alu	FLAM_C
CAediting_884384	chr12_48942376_-	SINE	Alu	FLAM_C
CAediting_884385	chr12_48945431_-	SINE	Alu	AluSc8
CAediting_884386	chr12_48945905_-	SINE	Alu	AluSz6
CAediting_884387	chr12_48948199_-	SINE	Alu	AluJb
CAediting_884388	chr12_48948418_-	SINE	Alu	AluJr
CAediting_884389	chr12_48948419_-	SINE	Alu	AluJr
CAediting_884390	chr12_48948422_-	SINE	Alu	AluJr
CAediting_884391	chr12_48948480_-	SINE	Alu	AluJr
CAediting_884392	chr12_48948648_-	SINE	Alu	AluSg
CAediting_884393	chr12_48948699_-	SINE	Alu	AluSg
CAediting_884394	chr12_48950862_-	SINE	Alu	AluSq2
CAediting_884395	chr12_48950878_-	SINE	Alu	AluSq2
CAediting_884396	chr12_48950882_-	SINE	Alu	AluSq2
CAediting_884397	chr12_48951511_-	SINE	Alu	AluSq2
CAediting_884398	chr12_48951675_-	SINE	Alu	AluSp
CAediting_884399	chr12_48954763_-	SINE	Alu	AluJr
CAediting_884400	chr12_48954817_-	SINE	Alu	AluJr
CAediting_884401	chr12_48954907_-	SINE	Alu	AluJr

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RNA A-to-I editing events in the alternative splicing sites for ARF3

RNA A-to-I editing(s) in the alternative splicing sites.

AStype

CAeditomID

Editing position

AS position

AS direction

Exonic location

Wildtype sequence

Wildtype splicing strength

RNA edited sequence

RNA edited splicing strength

Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000134287.8.ARF3.

Correlation between RNA A-to-I editing and PSI for ENSG00000134287.8.ARF3.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for ARF3

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

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

- 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 ARF3

- 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 ARF3

**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.

RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.

CAeditom_ID	Position	ENSG	ENST	miRNA	Targetscan start	Targetscan end	Targetscan score	Miranda start	Miranda end	Miranda score	Miranda energy
CAediting_884377	chr12_48935867_-	ENSG00000134287.8	ENST00000256682	hsa-miR-4749-3p	48935863	48935869	7mer-m8	48935862	48935880	143.00	-18.09

RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.

CAeditom_ID	Position	ENSG	ENST	miRNA	Targetscan start	Targetscan end	Targetscan score	Miranda start	Miranda end	Miranda score	Miranda energy
CAediting_884378	chr12_48937442_-	ENSG00000134287.8	ENST00000256682	hsa-miR-1273h-3p	48937442	48937448	7mer-m8	48937441	48937462	140	-19
CAediting_884379	chr12_48938461_-	ENSG00000134287.8	ENST00000256682	hsa-miR-1284	48938459	48938466	8mer-1a	48938459	48938480	140	-12.24
CAediting_884378	chr12_48937442_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6801-3p	48937438	48937444	7mer-m8	48937437	48937456	140	-16.52
CAediting_884378	chr12_48937442_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6810-3p	48937438	48937444	7mer-m8	48937437	48937459	140	-16.67
CAediting_884377	chr12_48935867_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6851-3p	48935862	48935868	7mer-m8	48935861	48935881	142	-17.31
CAediting_884377	chr12_48935867_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6886-3p	48935863	48935869	7mer-m8	48935862	48935882	140	-14.68

RNA A-to-I editing in lncRNA gained miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in lncRNA lost miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs gained binding to lncRNA.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs lost binding to lncRNA.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

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.

CAeditom_ID	Position	ENSG	ENST	miRNA	Targetscan start	Targetscan end	Targetscan score	Miranda start	Miranda end	Miranda score	Miranda energy
CAediting_688081	chr9_63819627_+	ENSG00000134287.8	ENST00000256682	hsa-miR-4477b	48938756	48938762	7mer-m8	48938755	48938774	151	-11.49
CAediting_688081	chr9_63819627_+	ENSG00000134287.8	ENST00000447318	hsa-miR-4477b	48938756	48938762	7mer-m8	48938755	48938774	151	-11.49
CAediting_1229413	chr17_67471544_+	ENSG00000134287.8	ENST00000256682	hsa-miR-548aa	48938691	48938697	7mer-1a	48938691	48938715	143	-13.74
CAediting_1229414	chr17_67471546_+	ENSG00000134287.8	ENST00000256682	hsa-miR-548aa	48937508	48937514	7mer-m8	48937507	48937533	154	-19.38
CAediting_86358	chr1_109598906_+	ENSG00000134287.8	ENST00000256682	hsa-miR-197-5p	48937863	48937868	6mer	48937862	48937883	147	-36.42
CAediting_442554	chr5_154685830_+	ENSG00000134287.8	ENST00000256682	hsa-miR-1303	48937705	48937711	7mer-m8	48937704	48937727	155	-18.63
CAediting_414656	chr5_72878640_+	ENSG00000134287.8	ENST00000256682	hsa-miR-4804-3p	48938310	48938316	7mer-m8	48938309	48938330	160	-24.52
CAediting_524911	chr7_5495852_-	ENSG00000134287.8	ENST00000256682	hsa-miR-589-3p	48936909	48936915	7mer-m8	48936908	48936931	156	-16.67
CAediting_524911	chr7_5495852_-	ENSG00000134287.8	ENST00000256682	hsa-miR-589-3p	48938128	48938134	7mer-m8	48938127	48938151	159	-18.7
CAediting_1229413	chr17_67471544_+	ENSG00000134287.8	ENST00000447318	hsa-miR-548aa	48938691	48938697	7mer-1a	48938691	48938715	143	-13.74
CAediting_468389	chr6_31355314_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6891-5p	48936441	48936446	6mer	48936440	48936459	147	-29.46
CAediting_468389	chr6_31355314_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6891-5p	48936318	48936324	7mer-m8	48936317	48936334	143	-19.45
CAediting_468389	chr6_31355314_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6891-5p	48935944	48935950	7mer-m8	48935943	48935961	149	-19.52
CAediting_468389	chr6_31355314_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6891-5p	48938275	48938281	7mer-m8	48938274	48938292	156	-21.38

RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.

CAeditom_ID	Position	ENSG	ENST	miRNA	Targetscan start	Targetscan end	Targetscan score	Miranda start	Miranda end	Miranda score	Miranda energy
CAediting_573001	chr7_92204086_-	ENSG00000134287.8	ENST00000256682	hsa-miR-1285-5p	48938343	48938349	7mer-m8	48938342	48938362	141	-15.16
CAediting_1306324	chr19_13836464_-	ENSG00000134287.8	ENST00000256682	hsa-miR-27a-3p	48937156	48937163	8mer-1a	48937156	48937176	140	-11.93
CAediting_1306324	chr19_13836464_-	ENSG00000134287.8	ENST00000256682	hsa-miR-27a-3p	48936240	48936246	7mer-m8	48936239	48936259	145	-11.5
CAediting_1368054	chr19_46709310_-	ENSG00000134287.8	ENST00000256682	hsa-miR-320e	48936396	48936402	7mer-m8	48936395	48936412	150	-16.54
CAediting_1054808	chr15_66496985_-	ENSG00000134287.8	ENST00000256682	hsa-miR-4512	48937644	48937650	7mer-m8	48937643	48937664	140	-12.37
CAediting_980496	chr14_31014685_-	ENSG00000134287.8	ENST00000256682	hsa-miR-624-3p	48936657	48936663	7mer-m8	48936656	48936677	145	-14.05
CAediting_468389	chr6_31355314_-	ENSG00000134287.8	ENST00000256682	hsa-miR-6891-5p	48936868	48936873	6mer	48936867	48936886	148	-25.57

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for ARF3

- 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 RNA structures for Minimum free energy (MFE).

CAeditom_ID

ENST

Editing_Position

MFE_withoneAI

MFE_withoutAI

MFE_withmultipleAI

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Relation with ADAR for ARF3

Correlation between ADAR gene expression and RNA editing frequency

Cancer

CAeditomID

position

ADAR1 (p-val)

ADAR1 (coeff.)

ADAR2 (p-val)

ADAR2 (coeff.)

ADAR3 (p-val)

ADAR3 (coeff.)

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Relation with cancer stages for ARF3

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for ARF3

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for ARF3

Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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RelatedDiseases for ARF3

Diseases associated with this gene.
(DisGeNet 7.0)

Gene

Disease ID

Disease name

# pubmeds

Source

	Gene summary
	RNA A-to-I events
	Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples
	Protein coding region RNA A-to-I editings
	The effects of the RNA editing to the miRNA binding sites
	The effects of the RNA editing to the stability of the RNA structures
	Relation with ADAR
	Relation with cancer stages
	Relation with survival state
	Related drugs with this gene
	Related diseases with this gene