Home

Download

Statistics

Examples

Help

Contact

Editing gene: PDE4DIP (CAeditome ID:9659)

Gene summary for PDE4DIP

Gene summary

Gene information	Gene symbol	PDE4DIP
	Gene ID	9659
	Gene name	phosphodiesterase 4D interacting protein
	Synonyms	CMYA2\|MMGL
	Cytomap	1q21.2
	Type of gene	protein-coding
	Description	myomegalincardiomyopathy-associated protein 2myomegalin/phosphodiesterase 4D interacting protein variant 8
	Modification date	20210518
	UniProtAcc	Q5VU43
	Context	- 30030436(Recurrent homozygous deletion of DROSHA and microduplication of PDE4DIP in pineoblastoma)

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

Gene	GO ID	GO term	PubMed ID
PDE4DIP	GO:0060090	Myomegalin	27666745
PDE4DIP	GO:1903358	Myomegalin	27666745
PDE4DIP	GO:0005634	Myomegalin	11374908
PDE4DIP	GO:0005737	Myomegalin	11374908
PDE4DIP	GO:0005794	Myomegalin	27666745
PDE4DIP	GO:0005813	Myomegalin	21399614

Top

RNA A-to-I events for PDE4DIP

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: ENSG00000178104.18

RNA A-to-I editing events in Cancer.

CAediting_93311(148875853, +), CAediting_93312(148906998, +), CAediting_93313(148935179, +), CAediting_93314(148935195, +), CAediting_93315(148935197, +), CAediting_93316(148935200, +), CAediting_93317(148953708, +), CAediting_93318(148953748, +), CAediting_93319(148964623, +), CAediting_93320(148986128, +), CAediting_93321(148986134, +), CAediting_93322(148986155, +), CAediting_93323(148986170, +), CAediting_93324(148986209, +),

Top

RNA editing positional annotations for PDE4DIP using Annovar

Protein coding RNA editing(s).

CAeditome ID	Position	Variant type	ENST	NTchange	AAchange	SIFT_score	Polyphen2_HVAR_score	PROVEAN_pred
CAediting_93317	chr1_148953708_+	nonsynonymous SNV	ENST00000313431.12	c.A928G	p.R310G	D	.	D
CAediting_93317	chr1_148953708_+	nonsynonymous SNV	ENST00000529945.2	c.A928G	p.R310G	D	.	D

Gene structure information of RNA editing(s).

CAeditome ID	Position	Variant type
CAediting_93311	chr1_148875853_+	ncRNA_intronic
CAediting_93312	chr1_148906998_+	ncRNA_intronic
CAediting_93313	chr1_148935179_+	ncRNA_intronic
CAediting_93314	chr1_148935195_+	ncRNA_intronic
CAediting_93315	chr1_148935197_+	ncRNA_intronic
CAediting_93316	chr1_148935200_+	ncRNA_intronic
CAediting_93317	chr1_148953708_+	exonic
CAediting_93318	chr1_148953748_+	exonic
CAediting_93319	chr1_148964623_+	ncRNA_intronic
CAediting_93320	chr1_148986128_+	ncRNA_intronic
CAediting_93321	chr1_148986134_+	ncRNA_intronic
CAediting_93322	chr1_148986155_+	ncRNA_intronic
CAediting_93323	chr1_148986170_+	ncRNA_intronic
CAediting_93324	chr1_148986209_+	ncRNA_intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_93311	chr1_148875853_+	SINE	Alu	AluSx
CAediting_93312	chr1_148906998_+	SINE	Alu	AluSq2
CAediting_93313	chr1_148935179_+	SINE	Alu	AluSc5
CAediting_93314	chr1_148935195_+	SINE	Alu	AluSc5
CAediting_93315	chr1_148935197_+	SINE	Alu	AluSc5
CAediting_93316	chr1_148935200_+	SINE	Alu	AluSc5
CAediting_93319	chr1_148964623_+	SINE	Alu	AluSg7
CAediting_93320	chr1_148986128_+	SINE	Alu	AluSq2
CAediting_93321	chr1_148986134_+	SINE	Alu	AluSq2
CAediting_93322	chr1_148986155_+	SINE	Alu	AluSq2
CAediting_93323	chr1_148986170_+	SINE	Alu	AluSq2
CAediting_93324	chr1_148986209_+	SINE	Alu	AluSq2

Top

RNA A-to-I editing events in the alternative splicing sites for PDE4DIP

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 ENSG00000178104.18.PDE4DIP.

Correlation between RNA A-to-I editing and PSI for ENSG00000178104.18.PDE4DIP.

Top

Differntial gene expression between RNA A-to-I edited versus non-edited samples for PDE4DIP

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.

Top

Protein coding region RNA A-to-I editings for PDE4DIP

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

Top

The effects of the RNA editing to the miRNA binding sites for PDE4DIP

**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_93320	chr1_148986128_+	ENSG00000178104.18	ENST00000529945	hsa-miR-361-3p	148986122	148986128	7mer-m8	148986107	148986129	164.00	-24.32
CAediting_93321	chr1_148986134_+	ENSG00000178104.18	ENST00000529945	hsa-miR-1224-3p	148986127	148986133	7mer-m8	148986114	148986134	151.00	-26.29
CAediting_93322	chr1_148986155_+	ENSG00000178104.18	ENST00000529945	hsa-miR-564	148986153	148986159	7mer-1a	148986141	148986159	143.00	-19.46
CAediting_93323	chr1_148986170_+	ENSG00000178104.18	ENST00000529945	hsa-miR-4743-5p	148986166	148986172	7mer-m8	148986150	148986173	147.00	-24.48
CAediting_93324	chr1_148986209_+	ENSG00000178104.18	ENST00000529945	hsa-miR-12123	148986206	148986213	8mer-1a	148986192	148986213	153.00	-8.75
CAediting_93324	chr1_148986209_+	ENSG00000178104.18	ENST00000529945	hsa-miR-4729	148986202	148986209	8mer-1a	148986190	148986209	146.00	-10.76
CAediting_93324	chr1_148986209_+	ENSG00000178104.18	ENST00000529945	hsa-miR-5696	148986203	148986210	8mer-1a	148986188	148986210	149.00	-7.10
CAediting_93324	chr1_148986209_+	ENSG00000178104.18	ENST00000529945	hsa-miR-664a-3p	148986205	148986212	8mer-1a	148986190	148986212	155.00	-12.23

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_93323	chr1_148986170_+	ENSG00000178104.18	ENST00000529945	hsa-miR-3135b	148986165	148986171	7mer-m8	148986150	148986172	155	-29.1
CAediting_93323	chr1_148986170_+	ENSG00000178104.18	ENST00000529945	hsa-miR-3652	148986166	148986172	7mer-m8	148986157	148986173	153	-18.69
CAediting_93323	chr1_148986170_+	ENSG00000178104.18	ENST00000529945	hsa-miR-5787	148986167	148986172	6mer	148986154	148986173	140	-24.96

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_980496	chr14_31014685_-	ENSG00000178104.18	ENST00000524974	hsa-miR-624-3p	149032512	149032518	7mer-m8	149032500	149032519	146	-15.75
CAediting_980496	chr14_31014685_-	ENSG00000178104.18	ENST00000585156	hsa-miR-624-3p	149032512	149032518	7mer-m8	149032500	149032519	146	-15.75
CAediting_980496	chr14_31014685_-	ENSG00000178104.18	ENST00000618462	hsa-miR-624-3p	149032512	149032518	7mer-m8	149032500	149032519	146	-15.75
CAediting_980496	chr14_31014685_-	ENSG00000178104.18	ENST00000369356	hsa-miR-624-3p	149032512	149032518	7mer-m8	149032500	149032519	146	-15.75
CAediting_980496	chr14_31014685_-	ENSG00000178104.18	ENST00000369354	hsa-miR-624-3p	149032512	149032518	7mer-m8	149032500	149032519	146	-15.75
CAediting_688080	chr9_63819626_+	ENSG00000178104.18	ENST00000369349	hsa-miR-4477b	148992938	148992945	8mer-1a	148992926	148992945	153	-12.11
CAediting_688080	chr9_63819626_+	ENSG00000178104.18	ENST00000369351	hsa-miR-4477b	148992938	148992945	8mer-1a	148992926	148992945	153	-12.11
CAediting_688081	chr9_63819627_+	ENSG00000178104.18	ENST00000479408	hsa-miR-4477b	148981627	148981634	8mer-1a	148981613	148981634	148	-13.52
CAediting_688080	chr9_63819626_+	ENSG00000178104.18	ENST00000313431	hsa-miR-4477b	148992938	148992945	8mer-1a	148992926	148992945	153	-12.11
CAediting_688081	chr9_63819627_+	ENSG00000178104.18	ENST00000529945	hsa-miR-4477b	148981627	148981634	8mer-1a	148981613	148981634	148	-13.52
CAediting_524911	chr7_5495852_-	ENSG00000178104.18	ENST00000530472	hsa-miR-589-3p	148932670	148932676	7mer-m8	148932655	148932677	143	-20.68
CAediting_1054808	chr15_66496985_-	ENSG00000178104.18	ENST00000524974	hsa-miR-4512	149032801	149032808	8mer-1a	149032789	149032808	156	-23.83
CAediting_1054808	chr15_66496985_-	ENSG00000178104.18	ENST00000585156	hsa-miR-4512	149032801	149032808	8mer-1a	149032789	149032808	156	-23.83
CAediting_1054808	chr15_66496985_-	ENSG00000178104.18	ENST00000618462	hsa-miR-4512	149032801	149032808	8mer-1a	149032789	149032808	156	-23.83
CAediting_524911	chr7_5495852_-	ENSG00000178104.18	ENST00000618504	hsa-miR-589-3p	148868774	148868780	7mer-m8	148868758	148868781	154	-15.1
CAediting_524911	chr7_5495852_-	ENSG00000178104.18	ENST00000464103	hsa-miR-589-3p	148932670	148932676	7mer-m8	148932655	148932677	143	-20.68
CAediting_414656	chr5_72878640_+	ENSG00000178104.18	ENST00000528129	hsa-miR-4804-3p	148932244	148932250	7mer-m8	148932231	148932251	157	-19.56
CAediting_1054808	chr15_66496985_-	ENSG00000178104.18	ENST00000369356	hsa-miR-4512	149032801	149032808	8mer-1a	149032789	149032808	156	-23.83
CAediting_414656	chr5_72878640_+	ENSG00000178104.18	ENST00000526445	hsa-miR-4804-3p	148932244	148932250	7mer-m8	148932231	148932251	157	-19.56
CAediting_1054808	chr15_66496985_-	ENSG00000178104.18	ENST00000369354	hsa-miR-4512	149032801	149032808	8mer-1a	149032789	149032808	156	-23.83
CAediting_524911	chr7_5495852_-	ENSG00000178104.18	ENST00000369347	hsa-miR-589-3p	148932670	148932676	7mer-m8	148932655	148932677	143	-20.68
CAediting_1160181	chr17_7017644_-	ENSG00000178104.18	ENST00000369349	hsa-miR-195-3p	148992569	148992575	7mer-m8	148992555	148992576	140	-9.11
CAediting_1351755	chr19_40282625_-	ENSG00000178104.18	ENST00000369349	hsa-miR-641	148992690	148992696	7mer-m8	148992675	148992697	150	-16.31
CAediting_86358	chr1_109598906_+	ENSG00000178104.18	ENST00000369349	hsa-miR-197-5p	148992578	148992585	8mer-1a	148992566	148992585	150	-22.45
CAediting_1160181	chr17_7017644_-	ENSG00000178104.18	ENST00000369351	hsa-miR-195-3p	148992569	148992575	7mer-m8	148992555	148992576	140	-9.11
CAediting_1351755	chr19_40282625_-	ENSG00000178104.18	ENST00000369351	hsa-miR-641	148992690	148992696	7mer-m8	148992675	148992697	150	-16.31
CAediting_86358	chr1_109598906_+	ENSG00000178104.18	ENST00000369351	hsa-miR-197-5p	148992171	148992177	7mer-m8	148992156	148992178	157	-22.88
CAediting_86358	chr1_109598906_+	ENSG00000178104.18	ENST00000369351	hsa-miR-197-5p	148992578	148992585	8mer-1a	148992566	148992585	150	-22.45
CAediting_1399425	chr20_1392958_-	ENSG00000178104.18	ENST00000369351	hsa-miR-6869-5p	148992221	148992227	7mer-m8	148992207	148992228	150	-22.08
CAediting_442554	chr5_154685830_+	ENSG00000178104.18	ENST00000369351	hsa-miR-1303	148992164	148992170	7mer-m8	148992150	148992171	141	-12.94
CAediting_1160181	chr17_7017644_-	ENSG00000178104.18	ENST00000313431	hsa-miR-195-3p	148992569	148992575	7mer-m8	148992555	148992576	140	-9.11
CAediting_1351755	chr19_40282625_-	ENSG00000178104.18	ENST00000313431	hsa-miR-641	148992690	148992696	7mer-m8	148992675	148992697	150	-16.31
CAediting_86358	chr1_109598906_+	ENSG00000178104.18	ENST00000313431	hsa-miR-197-5p	148992578	148992585	8mer-1a	148992566	148992585	150	-22.45
CAediting_1229414	chr17_67471546_+	ENSG00000178104.18	ENST00000529945	hsa-miR-548aa	148984872	148984878	7mer-m8	148984855	148984879	140	-10.3
CAediting_1229414	chr17_67471546_+	ENSG00000178104.18	ENST00000529945	hsa-miR-548aa	148982233	148982239	7mer-m8	148982214	148982240	143	-10.22
CAediting_1229415	chr17_67471547_+	ENSG00000178104.18	ENST00000529945	hsa-miR-548aa	148982723	148982728	6mer	148982705	148982729	145	-16.16
CAediting_1229415	chr17_67471547_+	ENSG00000178104.18	ENST00000529945	hsa-miR-548aa	148983040	148983046	7mer-m8	148983020	148983047	141	-11.97
CAediting_117844	chr1_162342605_+	ENSG00000178104.18	ENST00000529945	hsa-miR-556-3p	148985266	148985272	7mer-m8	148985247	148985273	149	-13.11
CAediting_228905	chr2_188297554_+	ENSG00000178104.18	ENST00000529945	hsa-miR-561-3p	148984063	148984069	7mer-m8	148984049	148984070	147	-8.53
CAediting_228905	chr2_188297554_+	ENSG00000178104.18	ENST00000529945	hsa-miR-561-3p	148984504	148984510	7mer-m8	148984489	148984511	155	-13.47
CAediting_228905	chr2_188297554_+	ENSG00000178104.18	ENST00000529945	hsa-miR-561-3p	148984827	148984834	8mer-1a	148984809	148984834	146	-11.33
CAediting_228905	chr2_188297554_+	ENSG00000178104.18	ENST00000529945	hsa-miR-561-3p	148986188	148986194	7mer-m8	148986176	148986195	147	-15.96
CAediting_442554	chr5_154685830_+	ENSG00000178104.18	ENST00000529945	hsa-miR-1303	148985582	148985588	7mer-m8	148985568	148985589	150	-17.91
CAediting_442554	chr5_154685830_+	ENSG00000178104.18	ENST00000529945	hsa-miR-1303	148982083	148982089	7mer-m8	148982069	148982090	148	-12.13
CAediting_468389	chr6_31355314_-	ENSG00000178104.18	ENST00000530062	hsa-miR-6891-5p	149028636	149028643	8mer-1a	149028624	149028643	154	-23.63

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_468389	chr6_31355314_-	ENSG00000178104.18	ENST00000369351	hsa-miR-6891-5p	148993146	148993153	8mer-1a	148993134	148993153	144	-23.65
CAediting_573000	chr7_92204081_-	ENSG00000178104.18	ENST00000529945	hsa-miR-1285-5p	148982614	148982620	7mer-m8	148982601	148982621	152	-23.17
CAediting_573001	chr7_92204086_-	ENSG00000178104.18	ENST00000529945	hsa-miR-1285-5p	148982614	148982620	7mer-m8	148982601	148982621	152	-23.17
CAediting_573000	chr7_92204081_-	ENSG00000178104.18	ENST00000529945	hsa-miR-1285-5p	148985133	148985140	8mer-1a	148985119	148985140	144	-15.62
CAediting_573001	chr7_92204086_-	ENSG00000178104.18	ENST00000529945	hsa-miR-1285-5p	148985133	148985140	8mer-1a	148985119	148985140	144	-15.62
CAediting_393	chr1_1167164_+	ENSG00000178104.18	ENST00000529945	hsa-miR-200b-3p	148984818	148984824	7mer-1a	148984801	148984824	141	-14.91
CAediting_393	chr1_1167164_+	ENSG00000178104.18	ENST00000529945	hsa-miR-200b-3p	148984959	148984964	6mer	148984944	148984965	147	-12.46
CAediting_688081	chr9_63819627_+	ENSG00000178104.18	ENST00000529945	hsa-miR-4477b	148983259	148983265	7mer-m8	148983245	148983266	151	-11.88
CAediting_688080	chr9_63819626_+	ENSG00000178104.18	ENST00000529945	hsa-miR-4477b	148983259	148983265	7mer-m8	148983245	148983266	151	-11.88
CAediting_228905	chr2_188297554_+	ENSG00000178104.18	ENST00000529945	hsa-miR-561-3p	148986066	148986072	7mer-m8	148986052	148986073	155	-10.62
CAediting_980496	chr14_31014685_-	ENSG00000178104.18	ENST00000529945	hsa-miR-624-3p	148985069	148985076	8mer-1a	148985054	148985076	146	-14.71
CAediting_980496	chr14_31014685_-	ENSG00000178104.18	ENST00000529945	hsa-miR-624-3p	148981479	148981485	7mer-m8	148981466	148981486	147	-11.85

Differentially expressed gene-miRNA network

Top

The effects of the RNA editing to the stability of the RNA structures for PDE4DIP

- 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.
ENST00000313431.12	protein_coding
ENST00000529945.2	protein_coding

RNA A-to-I editing in RNA structures for Minimum free energy (MFE).

CAeditom_ID	ENST	Editing_Position	MFE_withoneAI	MFE_withoutAI	MFE_withmultipleAI
CAediting_93317	ENST00000313431.12	chr1_148953708_+	-1934.80	-1935.50	-1936.80
CAediting_93318	ENST00000313431.12	chr1_148953748_+	-1937.50	-1935.50	-1936.80
CAediting_93317	ENST00000529945.2	chr1_148953708_+	-2586.90	-2587.70	-2597.50
CAediting_93318	ENST00000529945.2	chr1_148953748_+	-2587.70	-2587.70	-2597.50
CAediting_93320	ENST00000529945.2	chr1_148986128_+	-2590.30	-2587.70	-2597.50
CAediting_93321	ENST00000529945.2	chr1_148986134_+	-2589.30	-2587.70	-2597.50
CAediting_93322	ENST00000529945.2	chr1_148986155_+	-2591.10	-2587.70	-2597.50
CAediting_93323	ENST00000529945.2	chr1_148986170_+	-2587.30	-2587.70	-2597.50
CAediting_93324	ENST00000529945.2	chr1_148986209_+	-2590.60	-2587.70	-2597.50

Top

Relation with ADAR for PDE4DIP

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.)

Top

Relation with cancer stages for PDE4DIP

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

Top

Relation with survival for PDE4DIP

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

Top

RelatedDrugs for PDE4DIP

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

Top

RelatedDiseases for PDE4DIP

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