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Editing gene: THUMPD2 (CAeditome ID:80745)

Gene summary for THUMPD2

Gene summary

Gene information	Gene symbol	THUMPD2
	Gene ID	80745
	Gene name	THUMP domain containing 2
	Synonyms	C2orf8
	Cytomap	2p22.1\|2p22-p21
	Type of gene	protein-coding
	Description	THUMP domain-containing protein 2SAM-dependent methyltransferaseepididymis secretory sperm binding protein
	Modification date	20210518
	UniProtAcc	Q9BTF0
	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 THUMPD2

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: ENSG00000138050.13

RNA A-to-I editing events in Cancer.

CAediting_173945(39740804, -), CAediting_173946(39740881, -), CAediting_173947(39740930, -), CAediting_173948(39750631, -), CAediting_173949(39751752, -), CAediting_173950(39751776, -), CAediting_173951(39751777, -), CAediting_173952(39751794, -), CAediting_173953(39751910, -), CAediting_173954(39751929, -), CAediting_173955(39761389, -), CAediting_173956(39775059, -), CAediting_173957(39775077, -), CAediting_173958(39775216, -), CAediting_173959(39775222, -), CAediting_173960(39775243, -), CAediting_173961(39776628, -),

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RNA editing positional annotations for THUMPD2 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_173945	chr2_39740804_-	ncRNA_intronic
CAediting_173946	chr2_39740881_-	ncRNA_intronic
CAediting_173947	chr2_39740930_-	ncRNA_intronic
CAediting_173948	chr2_39750631_-	ncRNA_intronic
CAediting_173949	chr2_39751752_-	ncRNA_intronic
CAediting_173950	chr2_39751776_-	ncRNA_intronic
CAediting_173951	chr2_39751777_-	ncRNA_intronic
CAediting_173952	chr2_39751794_-	ncRNA_intronic
CAediting_173953	chr2_39751910_-	ncRNA_intronic
CAediting_173954	chr2_39751929_-	ncRNA_intronic
CAediting_173955	chr2_39761389_-	exonic
CAediting_173956	chr2_39775059_-	ncRNA_intronic
CAediting_173957	chr2_39775077_-	ncRNA_intronic
CAediting_173958	chr2_39775216_-	ncRNA_intronic
CAediting_173959	chr2_39775222_-	ncRNA_intronic
CAediting_173960	chr2_39775243_-	ncRNA_intronic
CAediting_173961	chr2_39776628_-	ncRNA_intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_173945	chr2_39740804_-	SINE	Alu	AluJr
CAediting_173946	chr2_39740881_-	SINE	Alu	AluJr
CAediting_173947	chr2_39740930_-	SINE	Alu	AluJr
CAediting_173948	chr2_39750631_-	SINE	Alu	AluSx
CAediting_173949	chr2_39751752_-	SINE	Alu	AluSz
CAediting_173950	chr2_39751776_-	SINE	Alu	AluSz
CAediting_173951	chr2_39751777_-	SINE	Alu	AluSz
CAediting_173952	chr2_39751794_-	SINE	Alu	AluSz
CAediting_173953	chr2_39751910_-	SINE	Alu	AluSz
CAediting_173954	chr2_39751929_-	SINE	Alu	AluSz
CAediting_173956	chr2_39775059_-	SINE	Alu	AluJb
CAediting_173957	chr2_39775077_-	SINE	Alu	AluJb
CAediting_173958	chr2_39775216_-	SINE	Alu	AluJb
CAediting_173959	chr2_39775222_-	SINE	Alu	AluJb
CAediting_173960	chr2_39775243_-	SINE	Alu	AluJb
CAediting_173961	chr2_39776628_-	SINE	Alu	AluSx

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RNA A-to-I editing events in the alternative splicing sites for THUMPD2

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 ENSG00000138050.13.THUMPD2.

Correlation between RNA A-to-I editing and PSI for ENSG00000138050.13.THUMPD2.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for THUMPD2

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 THUMPD2

- 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 THUMPD2

**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_1306324	chr19_13836464_-	ENSG00000138050.13	ENST00000530522	hsa-miR-27a-3p	39761373	39761379	7mer-m8	39761372	39761394	144	-13.79
CAediting_1306324	chr19_13836464_-	ENSG00000138050.13	ENST00000510781	hsa-miR-27a-3p	39761373	39761379	7mer-m8	39761372	39761394	144	-13.79
CAediting_228905	chr2_188297554_+	ENSG00000138050.13	ENST00000530522	hsa-miR-561-3p	39769867	39769873	7mer-m8	39769866	39769887	140	-11.3

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_228905	chr2_188297554_+	ENSG00000138050.13	ENST00000530522	hsa-miR-561-3p	39770006	39770012	7mer-m8	39770005	39770023	145	-8.69

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for THUMPD2

- 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.
ENST00000378727.7	nonsense_mediated_decay
ENST00000460072.4	retained_intron
ENST00000505747.4	protein_coding
ENST00000530522.1	nonsense_mediated_decay
ENST00000510781.2	nonsense_mediated_decay
ENST00000527689.1	retained_intron

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_173955	ENST00000378727.7	chr2_39761389_-	-561.00	-560.70	-561.00
CAediting_173955	ENST00000460072.4	chr2_39761389_-	-821.30	-821.00	-821.30
CAediting_173955	ENST00000505747.4	chr2_39761389_-	-518.20	-517.80	-518.20
CAediting_173955	ENST00000530522.1	chr2_39761389_-	-407.80	-407.50	-407.80
CAediting_173955	ENST00000510781.2	chr2_39761389_-	-245.20	-241.60	-245.20
CAediting_173955	ENST00000527689.1	chr2_39761389_-	-53.40	-51.70	-53.40

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Relation with ADAR for THUMPD2

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 THUMPD2

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for THUMPD2

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for THUMPD2

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 THUMPD2

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