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Editing gene: TOP1MT (CAeditome ID:116447)

Gene summary for TOP1MT

Gene summary

Gene information	Gene symbol	TOP1MT
	Gene ID	116447
	Gene name	DNA topoisomerase I mitochondrial
	Synonyms	-
	Cytomap	8q24.3
	Type of gene	protein-coding
	Description	DNA topoisomerase I, mitochondrialmitochondrial topoisomerase IBtopoisomerase (DNA) I, mitochondrial
	Modification date	20210518
	UniProtAcc	Q969P6
	Context

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

Gene	GO ID	GO term	PubMed ID
TOP1MT	GO:0005654	DNA topoisomerase I, mitochondrial	0000052
TOP1MT	GO:0005739	DNA topoisomerase I, mitochondrial	0000052
TOP1MT	GO:0042645	DNA topoisomerase I, mitochondrial	18063578

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RNA A-to-I events for TOP1MT

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: ENSG00000184428.11

RNA A-to-I editing events in Cancer.

CAediting_669764(143305969, -), CAediting_669765(143306137, -), CAediting_669766(143311016, -), CAediting_669767(143311024, -), CAediting_669768(143311026, -), CAediting_669769(143311031, -), CAediting_669770(143311035, -), CAediting_669771(143311042, -), CAediting_669772(143311048, -), CAediting_669773(143311055, -), CAediting_669774(143311061, -), CAediting_669775(143311067, -), CAediting_669776(143311070, -), CAediting_669777(143311077, -), CAediting_669778(143311091, -), CAediting_669779(143311099, -), CAediting_669780(143311101, -), CAediting_669781(143311145, -), CAediting_669782(143311162, -), CAediting_669783(143311163, -), CAediting_669784(143311164, -), CAediting_669785(143311172, -), CAediting_669786(143311182, -), CAediting_669787(143311187, -), CAediting_669788(143311201, -), CAediting_669789(143311206, -), CAediting_669790(143311211, -), CAediting_669791(143311215, -), CAediting_669792(143311224, -), CAediting_669793(143311233, -), CAediting_669794(143311235, -), CAediting_669795(143311236, -), CAediting_669796(143311241, -), CAediting_669797(143311242, -), CAediting_669798(143311259, -), CAediting_669799(143311260, -), CAediting_669800(143311264, -), CAediting_669801(143311491, -), CAediting_669802(143311494, -), CAediting_669803(143311554, -), CAediting_669804(143311558, -), CAediting_669805(143311563, -), CAediting_669806(143311566, -), CAediting_669807(143311583, -), CAediting_669808(143311624, -), CAediting_669809(143311634, -), CAediting_669810(143311637, -), CAediting_669811(143311646, -), CAediting_669812(143311689, -), CAediting_669813(143311694, -), CAediting_669814(143311708, -), CAediting_669815(143311713, -), CAediting_669816(143311742, -), CAediting_669817(143312832, -), CAediting_669818(143312833, -), CAediting_669819(143312865, -), CAediting_669820(143312894, -), CAediting_669821(143312946, -), CAediting_669822(143312954, -), CAediting_669823(143312959, -), CAediting_669824(143312995, -), CAediting_669825(143313018, -), CAediting_669826(143313026, -), CAediting_669827(143313307, -), CAediting_669828(143313393, -), CAediting_669829(143313431, -), CAediting_669830(143313433, -), CAediting_669831(143313438, -), CAediting_669832(143313609, -), CAediting_669833(143313849, -), CAediting_669834(143313851, -), CAediting_669835(143314427, -), CAediting_669836(143314430, -), CAediting_669837(143314482, -), CAediting_669838(143314511, -), CAediting_669839(143314512, -), CAediting_669840(143314542, -), CAediting_669841(143319961, -), CAediting_669842(143320024, -), CAediting_669843(143320037, -), CAediting_669844(143320041, -), CAediting_669845(143320042, -), CAediting_669846(143320088, -),

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RNA editing positional annotations for TOP1MT 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_669764	chr8_143305969_-	intronic
CAediting_669765	chr8_143306137_-	intronic
CAediting_669766	chr8_143311016_-	intronic
CAediting_669767	chr8_143311024_-	intronic
CAediting_669768	chr8_143311026_-	intronic
CAediting_669769	chr8_143311031_-	intronic
CAediting_669770	chr8_143311035_-	intronic
CAediting_669771	chr8_143311042_-	intronic
CAediting_669772	chr8_143311048_-	intronic
CAediting_669773	chr8_143311055_-	intronic
CAediting_669774	chr8_143311061_-	intronic
CAediting_669775	chr8_143311067_-	intronic
CAediting_669776	chr8_143311070_-	intronic
CAediting_669777	chr8_143311077_-	intronic
CAediting_669778	chr8_143311091_-	intronic
CAediting_669779	chr8_143311099_-	intronic
CAediting_669780	chr8_143311101_-	intronic
CAediting_669781	chr8_143311145_-	intronic
CAediting_669782	chr8_143311162_-	intronic
CAediting_669783	chr8_143311163_-	intronic
CAediting_669784	chr8_143311164_-	intronic
CAediting_669785	chr8_143311172_-	intronic
CAediting_669786	chr8_143311182_-	intronic
CAediting_669787	chr8_143311187_-	intronic
CAediting_669788	chr8_143311201_-	intronic
CAediting_669789	chr8_143311206_-	intronic
CAediting_669790	chr8_143311211_-	intronic
CAediting_669791	chr8_143311215_-	intronic
CAediting_669792	chr8_143311224_-	intronic
CAediting_669793	chr8_143311233_-	intronic
CAediting_669794	chr8_143311235_-	intronic
CAediting_669795	chr8_143311236_-	intronic
CAediting_669796	chr8_143311241_-	intronic
CAediting_669797	chr8_143311242_-	intronic
CAediting_669798	chr8_143311259_-	intronic
CAediting_669799	chr8_143311260_-	intronic
CAediting_669800	chr8_143311264_-	intronic
CAediting_669801	chr8_143311491_-	intronic
CAediting_669802	chr8_143311494_-	intronic
CAediting_669803	chr8_143311554_-	intronic
CAediting_669804	chr8_143311558_-	intronic
CAediting_669805	chr8_143311563_-	intronic
CAediting_669806	chr8_143311566_-	intronic
CAediting_669807	chr8_143311583_-	intronic
CAediting_669808	chr8_143311624_-	intronic
CAediting_669809	chr8_143311634_-	intronic
CAediting_669810	chr8_143311637_-	intronic
CAediting_669811	chr8_143311646_-	intronic
CAediting_669812	chr8_143311689_-	intronic
CAediting_669813	chr8_143311694_-	intronic
CAediting_669814	chr8_143311708_-	intronic
CAediting_669815	chr8_143311713_-	intronic
CAediting_669816	chr8_143311742_-	intronic
CAediting_669817	chr8_143312832_-	intronic
CAediting_669818	chr8_143312833_-	intronic
CAediting_669819	chr8_143312865_-	intronic
CAediting_669820	chr8_143312894_-	intronic
CAediting_669821	chr8_143312946_-	intronic
CAediting_669822	chr8_143312954_-	intronic
CAediting_669823	chr8_143312959_-	intronic
CAediting_669824	chr8_143312995_-	intronic
CAediting_669825	chr8_143313018_-	intronic
CAediting_669826	chr8_143313026_-	intronic
CAediting_669827	chr8_143313307_-	intronic
CAediting_669828	chr8_143313393_-	intronic
CAediting_669829	chr8_143313431_-	intronic
CAediting_669830	chr8_143313433_-	intronic
CAediting_669831	chr8_143313438_-	intronic
CAediting_669832	chr8_143313609_-	intronic
CAediting_669833	chr8_143313849_-	intronic
CAediting_669834	chr8_143313851_-	intronic
CAediting_669835	chr8_143314427_-	intronic
CAediting_669836	chr8_143314430_-	intronic
CAediting_669837	chr8_143314482_-	intronic
CAediting_669838	chr8_143314511_-	intronic
CAediting_669839	chr8_143314512_-	intronic
CAediting_669840	chr8_143314542_-	intronic
CAediting_669841	chr8_143319961_-	intronic
CAediting_669842	chr8_143320024_-	intronic
CAediting_669843	chr8_143320037_-	intronic
CAediting_669844	chr8_143320041_-	intronic
CAediting_669845	chr8_143320042_-	intronic
CAediting_669846	chr8_143320088_-	intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_669764	chr8_143305969_-	SINE	Alu	AluSq2
CAediting_669765	chr8_143306137_-	SINE	Alu	AluSq2
CAediting_669766	chr8_143311016_-	SINE	Alu	AluSz
CAediting_669767	chr8_143311024_-	SINE	Alu	AluSz
CAediting_669768	chr8_143311026_-	SINE	Alu	AluSz
CAediting_669769	chr8_143311031_-	SINE	Alu	AluSz
CAediting_669770	chr8_143311035_-	SINE	Alu	AluSz
CAediting_669771	chr8_143311042_-	SINE	Alu	AluSz
CAediting_669772	chr8_143311048_-	SINE	Alu	AluSz
CAediting_669773	chr8_143311055_-	SINE	Alu	AluSz
CAediting_669774	chr8_143311061_-	SINE	Alu	AluSz
CAediting_669775	chr8_143311067_-	SINE	Alu	AluSz
CAediting_669776	chr8_143311070_-	SINE	Alu	AluSz
CAediting_669777	chr8_143311077_-	SINE	Alu	AluSz
CAediting_669778	chr8_143311091_-	SINE	Alu	AluSz
CAediting_669779	chr8_143311099_-	SINE	Alu	AluSz
CAediting_669780	chr8_143311101_-	SINE	Alu	AluSz
CAediting_669781	chr8_143311145_-	SINE	Alu	AluSz
CAediting_669782	chr8_143311162_-	SINE	Alu	AluSz
CAediting_669783	chr8_143311163_-	SINE	Alu	AluSz
CAediting_669784	chr8_143311164_-	SINE	Alu	AluSz
CAediting_669785	chr8_143311172_-	SINE	Alu	AluSz
CAediting_669786	chr8_143311182_-	SINE	Alu	AluSz
CAediting_669787	chr8_143311187_-	SINE	Alu	AluSz
CAediting_669788	chr8_143311201_-	SINE	Alu	AluSz
CAediting_669789	chr8_143311206_-	SINE	Alu	AluSz
CAediting_669790	chr8_143311211_-	SINE	Alu	AluSz
CAediting_669791	chr8_143311215_-	SINE	Alu	AluSz
CAediting_669792	chr8_143311224_-	SINE	Alu	AluSz
CAediting_669793	chr8_143311233_-	SINE	Alu	AluSz
CAediting_669794	chr8_143311235_-	SINE	Alu	AluSz
CAediting_669795	chr8_143311236_-	SINE	Alu	AluSz
CAediting_669796	chr8_143311241_-	SINE	Alu	AluSz
CAediting_669797	chr8_143311242_-	SINE	Alu	AluSz
CAediting_669798	chr8_143311259_-	SINE	Alu	AluSz
CAediting_669799	chr8_143311260_-	SINE	Alu	AluSz
CAediting_669800	chr8_143311264_-	SINE	Alu	AluSz
CAediting_669801	chr8_143311491_-	SINE	Alu	AluSg
CAediting_669802	chr8_143311494_-	SINE	Alu	AluSg
CAediting_669803	chr8_143311554_-	SINE	Alu	AluSg
CAediting_669804	chr8_143311558_-	SINE	Alu	AluSg
CAediting_669805	chr8_143311563_-	SINE	Alu	AluSg
CAediting_669806	chr8_143311566_-	SINE	Alu	AluSg
CAediting_669807	chr8_143311583_-	SINE	Alu	AluSg
CAediting_669808	chr8_143311624_-	SINE	Alu	AluSg
CAediting_669809	chr8_143311634_-	SINE	Alu	AluSg
CAediting_669810	chr8_143311637_-	SINE	Alu	AluSg
CAediting_669811	chr8_143311646_-	SINE	Alu	AluSg
CAediting_669812	chr8_143311689_-	SINE	Alu	AluSg
CAediting_669813	chr8_143311694_-	SINE	Alu	AluSg
CAediting_669814	chr8_143311708_-	SINE	Alu	AluSg
CAediting_669815	chr8_143311713_-	SINE	Alu	AluSg
CAediting_669816	chr8_143311742_-	SINE	Alu	AluSg
CAediting_669817	chr8_143312832_-	SINE	Alu	AluJr
CAediting_669818	chr8_143312833_-	SINE	Alu	AluJr
CAediting_669819	chr8_143312865_-	SINE	Alu	AluJr
CAediting_669820	chr8_143312894_-	SINE	Alu	AluJr
CAediting_669821	chr8_143312946_-	SINE	Alu	AluJr
CAediting_669822	chr8_143312954_-	SINE	Alu	AluJr
CAediting_669823	chr8_143312959_-	SINE	Alu	AluJr
CAediting_669824	chr8_143312995_-	SINE	Alu	AluJr
CAediting_669825	chr8_143313018_-	SINE	Alu	AluJr
CAediting_669826	chr8_143313026_-	SINE	Alu	AluJr
CAediting_669827	chr8_143313307_-	SINE	Alu	AluSx
CAediting_669828	chr8_143313393_-	SINE	Alu	AluSx
CAediting_669829	chr8_143313431_-	SINE	Alu	AluSx
CAediting_669830	chr8_143313433_-	SINE	Alu	AluSx
CAediting_669831	chr8_143313438_-	SINE	Alu	AluSx
CAediting_669832	chr8_143313609_-	SINE	Alu	AluSx1
CAediting_669833	chr8_143313849_-	SINE	Alu	AluSx1
CAediting_669834	chr8_143313851_-	SINE	Alu	AluSx1
CAediting_669835	chr8_143314427_-	SINE	Alu	AluSz
CAediting_669836	chr8_143314430_-	SINE	Alu	AluSz
CAediting_669837	chr8_143314482_-	SINE	Alu	AluSz
CAediting_669838	chr8_143314511_-	SINE	Alu	AluSz
CAediting_669839	chr8_143314512_-	SINE	Alu	AluSz
CAediting_669840	chr8_143314542_-	SINE	Alu	AluSz
CAediting_669841	chr8_143319961_-	SINE	Alu	AluSg
CAediting_669842	chr8_143320024_-	SINE	Alu	AluSg
CAediting_669843	chr8_143320037_-	SINE	Alu	AluSg
CAediting_669844	chr8_143320041_-	SINE	Alu	AluSg
CAediting_669845	chr8_143320042_-	SINE	Alu	AluSg
CAediting_669846	chr8_143320088_-	SINE	Alu	AluSg

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RNA A-to-I editing events in the alternative splicing sites for TOP1MT

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 ENSG00000184428.11.TOP1MT.

Correlation between RNA A-to-I editing and PSI for ENSG00000184428.11.TOP1MT.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for TOP1MT

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 TOP1MT

- 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 TOP1MT

**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

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

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_748296	chr10_51299626_+	ENSG00000184428.11	ENST00000519977	hsa-miR-605-3p	143304475	143304482	8mer-1a	143304475	143304497	153	-17.46
CAediting_846604	chr11_93733708_-	ENSG00000184428.11	ENST00000518951	hsa-miR-1304-3p	143316046	143316052	7mer-m8	143316045	143316066	140	-12.77
CAediting_846604	chr11_93733708_-	ENSG00000184428.11	ENST00000522121	hsa-miR-1304-3p	143327474	143327481	8mer-1a	143327474	143327495	148	-16.13
CAediting_1054808	chr15_66496985_-	ENSG00000184428.11	ENST00000519977	hsa-miR-4512	143304758	143304765	8mer-1a	143304758	143304777	141	-17.7
CAediting_604450	chr7_133034877_-	ENSG00000184428.11	ENST00000518951	hsa-miR-3654	143321299	143321305	7mer-m8	143321298	143321316	149	-16.92
CAediting_1306323	chr19_13836462_-	ENSG00000184428.11	ENST00000522121	hsa-miR-27a-3p	143327409	143327415	7mer-m8	143327408	143327426	151	-19.46
CAediting_442554	chr5_154685830_+	ENSG00000184428.11	ENST00000523417	hsa-miR-1303	143328240	143328247	8mer-1a	143328240	143328261	145	-15.28
CAediting_468389	chr6_31355314_-	ENSG00000184428.11	ENST00000519977	hsa-miR-6891-5p	143304450	143304456	7mer-m8	143304449	143304467	140	-17.35

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_580943	chr7_100356700_+	ENSG00000184428.11	ENST00000519977	hsa-miR-6840-3p	143304504	143304510	7mer-m8	143304503	143304524	150	-17.16

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for TOP1MT

- 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 TOP1MT

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 TOP1MT

Correlation between Cancer stages and RNA editing frequency

Cancer	Stage_type	CAeditomID	position	P-val	Coeff.
BRCA	pathologic_stage	CAediting_669768	chr8_143311026_-	0.0371963005746212	-0.2696594741875

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Relation with survival for TOP1MT

Correlation between RNA editing and survival

Cancer	CAeditomID	position	KMpvalue	Coxpvalue	CoxHR
BLCA	CAediting_669778	chr8_143311091_-	0.000528917529964867	0.00642733	0.000350202

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RelatedDrugs for TOP1MT

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
TOP1MT	Q969P6	DB00762	Irinotecan	DNA topoisomerase I, mitochondrial	SmallMoleculeDrug	approved\|investigational
TOP1MT	Q969P6	DB01030	Topotecan	DNA topoisomerase I, mitochondrial	SmallMoleculeDrug	approved\|investigational

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RelatedDiseases for TOP1MT

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