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Editing gene: UPK3B (CAeditome ID:105375355)

Gene summary for UPK3B

Gene summary

Gene information	Gene symbol	UPK3B
	Gene ID	105375355
	Gene name	uroplakin 3B
	Synonyms	P35\|UP3B\|UPIIIB
	Cytomap	7q11.23
	Type of gene	protein-coding
	Description	uroplakin-3buroplakin IIIb
	Modification date	20210518
	UniProtAcc	Q9BT76
	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 UPK3B

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: ENSG00000243566.5

RNA A-to-I editing events in Cancer.

CAediting_567593(76513002, +), CAediting_567594(76514189, +), CAediting_567595(76514191, +), CAediting_567596(76514195, +), CAediting_567597(76514215, +), CAediting_567598(76514240, +), CAediting_567599(76514241, +), CAediting_567600(76514245, +), CAediting_567601(76514266, +), CAediting_567602(76514267, +), CAediting_567603(76514268, +), CAediting_567604(76514271, +), CAediting_567605(76514280, +), CAediting_567606(76514650, +), CAediting_567607(76514651, +), CAediting_567608(76514656, +), CAediting_567609(76514667, +), CAediting_567610(76514686, +), CAediting_567611(76514691, +), CAediting_567612(76514697, +), CAediting_567613(76514698, +), CAediting_567614(76514699, +), CAediting_567615(76514704, +), CAediting_567616(76514705, +), CAediting_567617(76514716, +), CAediting_567618(76514719, +), CAediting_567619(76514720, +), CAediting_567620(76514722, +), CAediting_567621(76514735, +), CAediting_567622(76514741, +), CAediting_567623(76514775, +), CAediting_567624(76514785, +), CAediting_567625(76514786, +), CAediting_567626(76514802, +), CAediting_567627(76514840, +), CAediting_567628(76514845, +), CAediting_567629(76514856, +), CAediting_567630(76514926, +), CAediting_567631(76515549, +),

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RNA editing positional annotations for UPK3B 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_567593	chr7_76513002_+	ncRNA_intronic
CAediting_567594	chr7_76514189_+	intronic
CAediting_567595	chr7_76514191_+	intronic
CAediting_567596	chr7_76514195_+	intronic
CAediting_567597	chr7_76514215_+	intronic
CAediting_567598	chr7_76514240_+	intronic
CAediting_567599	chr7_76514241_+	intronic
CAediting_567600	chr7_76514245_+	intronic
CAediting_567601	chr7_76514266_+	intronic
CAediting_567602	chr7_76514267_+	intronic
CAediting_567603	chr7_76514268_+	intronic
CAediting_567604	chr7_76514271_+	intronic
CAediting_567605	chr7_76514280_+	intronic
CAediting_567606	chr7_76514650_+	intronic
CAediting_567607	chr7_76514651_+	intronic
CAediting_567608	chr7_76514656_+	intronic
CAediting_567609	chr7_76514667_+	intronic
CAediting_567610	chr7_76514686_+	intronic
CAediting_567611	chr7_76514691_+	intronic
CAediting_567612	chr7_76514697_+	intronic
CAediting_567613	chr7_76514698_+	intronic
CAediting_567614	chr7_76514699_+	intronic
CAediting_567615	chr7_76514704_+	intronic
CAediting_567616	chr7_76514705_+	intronic
CAediting_567617	chr7_76514716_+	intronic
CAediting_567618	chr7_76514719_+	intronic
CAediting_567619	chr7_76514720_+	intronic
CAediting_567620	chr7_76514722_+	intronic
CAediting_567621	chr7_76514735_+	intronic
CAediting_567622	chr7_76514741_+	intronic
CAediting_567623	chr7_76514775_+	intronic
CAediting_567624	chr7_76514785_+	intronic
CAediting_567625	chr7_76514786_+	intronic
CAediting_567626	chr7_76514802_+	intronic
CAediting_567627	chr7_76514840_+	intronic
CAediting_567628	chr7_76514845_+	intronic
CAediting_567629	chr7_76514856_+	intronic
CAediting_567630	chr7_76514926_+	intronic
CAediting_567631	chr7_76515549_+	UTR3

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_567594	chr7_76514189_+	SINE	Alu	AluJo
CAediting_567595	chr7_76514191_+	SINE	Alu	AluJo
CAediting_567596	chr7_76514195_+	SINE	Alu	AluJo
CAediting_567597	chr7_76514215_+	SINE	Alu	AluJo
CAediting_567598	chr7_76514240_+	SINE	Alu	AluJo
CAediting_567599	chr7_76514241_+	SINE	Alu	AluJo
CAediting_567600	chr7_76514245_+	SINE	Alu	AluJo
CAediting_567601	chr7_76514266_+	SINE	Alu	AluJo
CAediting_567602	chr7_76514267_+	SINE	Alu	AluJo
CAediting_567603	chr7_76514268_+	SINE	Alu	AluJo
CAediting_567604	chr7_76514271_+	SINE	Alu	AluJo
CAediting_567605	chr7_76514280_+	SINE	Alu	AluJo
CAediting_567606	chr7_76514650_+	SINE	Alu	AluSx1
CAediting_567607	chr7_76514651_+	SINE	Alu	AluSx1
CAediting_567608	chr7_76514656_+	SINE	Alu	AluSx1
CAediting_567609	chr7_76514667_+	SINE	Alu	AluSx1
CAediting_567610	chr7_76514686_+	SINE	Alu	AluSx1
CAediting_567611	chr7_76514691_+	SINE	Alu	AluSx1
CAediting_567612	chr7_76514697_+	SINE	Alu	AluSx1
CAediting_567613	chr7_76514698_+	SINE	Alu	AluSx1
CAediting_567614	chr7_76514699_+	SINE	Alu	AluSx1
CAediting_567615	chr7_76514704_+	SINE	Alu	AluSx1
CAediting_567616	chr7_76514705_+	SINE	Alu	AluSx1
CAediting_567617	chr7_76514716_+	SINE	Alu	AluSx1
CAediting_567618	chr7_76514719_+	SINE	Alu	AluSx1
CAediting_567619	chr7_76514720_+	SINE	Alu	AluSx1
CAediting_567620	chr7_76514722_+	SINE	Alu	AluSx1
CAediting_567621	chr7_76514735_+	SINE	Alu	AluSx1
CAediting_567622	chr7_76514741_+	SINE	Alu	AluSx1
CAediting_567623	chr7_76514775_+	SINE	Alu	AluSx1
CAediting_567624	chr7_76514785_+	SINE	Alu	AluSx1
CAediting_567625	chr7_76514786_+	SINE	Alu	AluSx1
CAediting_567626	chr7_76514802_+	SINE	Alu	AluSx1
CAediting_567627	chr7_76514840_+	SINE	Alu	AluSx1
CAediting_567628	chr7_76514845_+	SINE	Alu	AluSx1
CAediting_567629	chr7_76514856_+	SINE	Alu	AluSx1
CAediting_567630	chr7_76514926_+	SINE	Alu	AluSx1

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RNA A-to-I editing events in the alternative splicing sites for UPK3B

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 ENSG00000243566.5.UPK3B.

Correlation between RNA A-to-I editing and PSI for ENSG00000243566.5.UPK3B.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for UPK3B

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.

MESO.CAediting_567596.ENSG00000243566.UPK3B.png
Soverview

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Protein coding region RNA A-to-I editings for UPK3B

- 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 UPK3B

**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_1054808	chr15_66496985_-	ENSG00000243566.5	ENST00000257632	hsa-miR-4512	76515285	76515291	7mer-m8	76515271	76515292	140	-14.93
CAediting_1229413	chr17_67471544_+	ENSG00000243566.5	ENST00000257632	hsa-miR-548aa	76515383	76515389	7mer-m8	76515366	76515390	147	-9.6
CAediting_1368054	chr19_46709310_-	ENSG00000243566.5	ENST00000257632	hsa-miR-320e	76515268	76515274	7mer-m8	76515258	76515275	150	-19.68
CAediting_442554	chr5_154685830_+	ENSG00000243566.5	ENST00000257632	hsa-miR-1303	76515396	76515402	7mer-m8	76515382	76515403	153	-18.81
CAediting_1054808	chr15_66496985_-	ENSG00000243566.5	ENST00000394849	hsa-miR-4512	76515285	76515291	7mer-m8	76515271	76515292	140	-14.93
CAediting_1229413	chr17_67471544_+	ENSG00000243566.5	ENST00000394849	hsa-miR-548aa	76515383	76515389	7mer-m8	76515366	76515390	147	-9.6
CAediting_1368054	chr19_46709310_-	ENSG00000243566.5	ENST00000394849	hsa-miR-320e	76515268	76515274	7mer-m8	76515258	76515275	150	-19.68
CAediting_442554	chr5_154685830_+	ENSG00000243566.5	ENST00000394849	hsa-miR-1303	76515396	76515402	7mer-m8	76515382	76515403	153	-18.81
CAediting_468389	chr6_31355314_-	ENSG00000243566.5	ENST00000257632	hsa-miR-6891-5p	76515369	76515374	6mer	76515357	76515375	145	-28.27
CAediting_468389	chr6_31355314_-	ENSG00000243566.5	ENST00000394849	hsa-miR-6891-5p	76515369	76515374	6mer	76515357	76515375	145	-28.27

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

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for UPK3B

- 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.
ENST00000334348.6	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_567631	ENST00000334348.6	chr7_76515549_+	-1066.40	-1066.50	-1066.40

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Relation with ADAR for UPK3B

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.)
BLCA	CAediting_567594	chr7_76514189_+	0.0253244472670307	0.243968924482922	0.0190874250315233	0.255303539617368	.	.
OV	CAediting_567596	chr7_76514195_+	0.00893247434251419	0.266903451551815	.	.	.	.
MESO	CAediting_567596	chr7_76514195_+	0.0138406384305444	0.330111850827114	.	.	.	.
OV	CAediting_567599	chr7_76514241_+	4.56060541088882e-06	0.47165856055232	.	.	.	.
MESO	CAediting_567599	chr7_76514241_+	0.000763408893875233	0.456345310026053	.	.	.	.
BLCA	CAediting_567602	chr7_76514267_+	.	.	0.0265779514641092	0.307515393998741	.	.
OV	CAediting_567602	chr7_76514267_+	0.000293667781516489	0.359904608615145	.	.	.	.
MESO	CAediting_567602	chr7_76514267_+	0.000953994143293184	0.422495129358335	.	.	.	.
BLCA	CAediting_567603	chr7_76514268_+	0.0249939311809981	0.269749081192532	.	.	.	.
OV	CAediting_567603	chr7_76514268_+	7.96659412212824e-05	0.380539566599435	.	.	.	.
MESO	CAediting_567603	chr7_76514268_+	0.001953920472029	0.398369952208477	.	.	.	.
BLCA	CAediting_567606	chr7_76514650_+	0.000193472633516017	0.420212488687918	0.0147243335453297	0.282545402602636	.	.
OV	CAediting_567606	chr7_76514650_+	0.0162095509930985	0.221869422069294	.	.	.	.
MESO	CAediting_567606	chr7_76514650_+	1.77549546959312e-05	0.508646505578778	.	.	.	.
BLCA	CAediting_567608	chr7_76514656_+	0.00017889028703971	0.336951705095619	0.0032035779667015	0.268062820013203	.	.
OV	CAediting_567608	chr7_76514656_+	4.77779345021481e-05	0.329889836509052	.	.	.	.
MESO	CAediting_567608	chr7_76514656_+	0.00112153753709252	0.389525440050124	.	.	.	.
OV	CAediting_567610	chr7_76514686_+	0.0421123574538697	0.177181455361301	.	.	.	.
MESO	CAediting_567610	chr7_76514686_+	.	.	0.00163416163248591	0.418553828858232	.	.
OV	CAediting_567616	chr7_76514705_+	0.0431014079261203	0.208005189312221	.	.	.	.
BLCA	CAediting_567631	chr7_76515549_+	2.56611222783574e-13	0.572908278358179	.	.	.	.
LUSC	CAediting_567631	chr7_76515549_+	0.00021000270693931	0.389493717724856	0.00633342846438808	0.292205021128905	.	.
HNSC	CAediting_567631	chr7_76515549_+	0.0243549411747418	0.306153778331464	.	.	.	.
OV	CAediting_567631	chr7_76515549_+	9.72530326649867e-15	0.523109465683203	.	.	.	.

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Relation with cancer stages for UPK3B

Correlation between Cancer stages and RNA editing frequency

Cancer	Stage_type	CAeditomID	position	P-val	Coeff.
MESO	pathologic_stage	CAediting_567599	chr7_76514241_+	0.0232314435619385	-0.317410053272823
OV	clinical_stage	CAediting_567602	chr7_76514267_+	0.0305769268505039	0.220872591809873
OV	clinical_stage	CAediting_567621	chr7_76514735_+	0.0176521836338272	0.295764481634108

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Relation with survival for UPK3B

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for UPK3B

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 UPK3B

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