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Editing gene: TRIM54 (CAeditome ID:57159)

Gene summary for TRIM54

Gene summary

Gene information	Gene symbol	TRIM54
	Gene ID	57159
	Gene name	tripartite motif containing 54
	Synonyms	MURF\|MURF-3\|RNF30\|muRF3
	Cytomap	2p23.3
	Type of gene	protein-coding
	Description	tripartite motif-containing protein 54muscle-specific RING finger protein 3ring finger protein 30
	Modification date	20210518
	UniProtAcc	Q9BYV2
	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 TRIM54

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: ENSG00000138100.12

RNA A-to-I editing events in Cancer.

CAediting_163859(27297874, +), CAediting_163860(27299534, +), CAediting_163861(27299542, +), CAediting_163862(27299572, +), CAediting_163863(27299590, +), CAediting_163864(27299611, +), CAediting_163865(27299628, +), CAediting_163866(27299644, +), CAediting_163867(27299645, +), CAediting_163868(27299650, +), CAediting_163869(27299780, +), CAediting_163870(27299782, +), CAediting_163871(27299786, +), CAediting_163872(27299831, +), CAediting_163873(27299845, +), CAediting_163874(27300233, +), CAediting_163875(27300271, +), CAediting_163876(27300275, +), CAediting_163877(27300289, +), CAediting_163878(27300311, +), CAediting_163879(27300333, +), CAediting_163880(27300337, +), CAediting_163881(27300347, +), CAediting_163882(27300353, +), CAediting_163883(27300402, +), CAediting_163884(27300515, +), CAediting_163885(27300571, +), CAediting_163886(27300641, +), CAediting_163887(27300693, +), CAediting_163888(27300745, +), CAediting_163889(27300807, +), CAediting_163890(27300823, +), CAediting_163891(27300896, +), CAediting_163892(27300897, +), CAediting_163893(27301269, +), CAediting_163894(27301279, +), CAediting_163895(27301305, +), CAediting_163896(27301306, +), CAediting_163897(27301320, +), CAediting_163898(27301321, +), CAediting_163899(27301323, +), CAediting_163900(27301383, +), CAediting_163901(27301402, +), CAediting_163902(27301912, +), CAediting_163903(27301913, +), CAediting_163904(27301934, +), CAediting_163905(27301944, +), CAediting_163906(27301972, +), CAediting_163907(27301973, +), CAediting_163908(27301992, +), CAediting_163909(27302003, +), CAediting_163910(27302007, +), CAediting_163911(27302095, +), CAediting_163912(27302273, +), CAediting_163913(27302330, +), CAediting_163914(27302378, +), CAediting_163915(27302537, +), CAediting_163916(27302592, +), CAediting_163917(27302644, +), CAediting_163918(27302730, +), CAediting_163919(27302732, +), CAediting_163920(27303420, +), CAediting_163921(27303505, +), CAediting_163922(27303993, +), CAediting_163923(27304091, +), CAediting_163924(27304132, +), CAediting_163925(27304316, +), CAediting_163926(27304334, +), CAediting_163927(27304335, +), CAediting_163928(27304336, +), CAediting_163929(27304344, +),

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RNA editing positional annotations for TRIM54 using Annovar

Protein coding RNA editing(s).

CAeditome ID	Position	Variant type	ENST	NTchange	AAchange	SIFT_score	Polyphen2_HVAR_score	PROVEAN_pred
CAediting_163860	chr2_27299534_+	nonsynonymous SNV	ENST00000296098.4	c.A518G	p.Q173R	D	P	N

Gene structure information of RNA editing(s).

CAeditome ID	Position	Variant type
CAediting_163859	chr2_27297874_+	intronic
CAediting_163860	chr2_27299534_+	exonic
CAediting_163861	chr2_27299542_+	exonic
CAediting_163862	chr2_27299572_+	exonic
CAediting_163863	chr2_27299590_+	exonic
CAediting_163864	chr2_27299611_+	exonic
CAediting_163865	chr2_27299628_+	exonic
CAediting_163866	chr2_27299644_+	exonic
CAediting_163867	chr2_27299645_+	exonic
CAediting_163868	chr2_27299650_+	exonic
CAediting_163869	chr2_27299780_+	intronic
CAediting_163870	chr2_27299782_+	intronic
CAediting_163871	chr2_27299786_+	intronic
CAediting_163872	chr2_27299831_+	intronic
CAediting_163873	chr2_27299845_+	intronic
CAediting_163874	chr2_27300233_+	intronic
CAediting_163875	chr2_27300271_+	intronic
CAediting_163876	chr2_27300275_+	intronic
CAediting_163877	chr2_27300289_+	intronic
CAediting_163878	chr2_27300311_+	intronic
CAediting_163879	chr2_27300333_+	intronic
CAediting_163880	chr2_27300337_+	intronic
CAediting_163881	chr2_27300347_+	intronic
CAediting_163882	chr2_27300353_+	intronic
CAediting_163883	chr2_27300402_+	intronic
CAediting_163884	chr2_27300515_+	intronic
CAediting_163885	chr2_27300571_+	intronic
CAediting_163886	chr2_27300641_+	intronic
CAediting_163887	chr2_27300693_+	intronic
CAediting_163888	chr2_27300745_+	intronic
CAediting_163889	chr2_27300807_+	intronic
CAediting_163890	chr2_27300823_+	intronic
CAediting_163891	chr2_27300896_+	intronic
CAediting_163892	chr2_27300897_+	intronic
CAediting_163893	chr2_27301269_+	intronic
CAediting_163894	chr2_27301279_+	intronic
CAediting_163895	chr2_27301305_+	intronic
CAediting_163896	chr2_27301306_+	intronic
CAediting_163897	chr2_27301320_+	intronic
CAediting_163898	chr2_27301321_+	intronic
CAediting_163899	chr2_27301323_+	intronic
CAediting_163900	chr2_27301383_+	intronic
CAediting_163901	chr2_27301402_+	intronic
CAediting_163902	chr2_27301912_+	intronic
CAediting_163903	chr2_27301913_+	intronic
CAediting_163904	chr2_27301934_+	intronic
CAediting_163905	chr2_27301944_+	intronic
CAediting_163906	chr2_27301972_+	intronic
CAediting_163907	chr2_27301973_+	intronic
CAediting_163908	chr2_27301992_+	intronic
CAediting_163909	chr2_27302003_+	intronic
CAediting_163910	chr2_27302007_+	intronic
CAediting_163911	chr2_27302095_+	intronic
CAediting_163912	chr2_27302273_+	intronic
CAediting_163913	chr2_27302330_+	intronic
CAediting_163914	chr2_27302378_+	intronic
CAediting_163915	chr2_27302537_+	intronic
CAediting_163916	chr2_27302592_+	intronic
CAediting_163917	chr2_27302644_+	intronic
CAediting_163918	chr2_27302730_+	intronic
CAediting_163919	chr2_27302732_+	intronic
CAediting_163920	chr2_27303420_+	intronic
CAediting_163921	chr2_27303505_+	intronic
CAediting_163922	chr2_27303993_+	intronic
CAediting_163923	chr2_27304091_+	intronic
CAediting_163924	chr2_27304132_+	intronic
CAediting_163925	chr2_27304316_+	intronic
CAediting_163926	chr2_27304334_+	intronic
CAediting_163927	chr2_27304335_+	intronic
CAediting_163928	chr2_27304336_+	intronic
CAediting_163929	chr2_27304344_+	intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_163859	chr2_27297874_+	SINE	Alu	AluJr
CAediting_163860	chr2_27299534_+	SINE	Alu	AluJb
CAediting_163861	chr2_27299542_+	SINE	Alu	AluJb
CAediting_163862	chr2_27299572_+	SINE	Alu	AluJb
CAediting_163863	chr2_27299590_+	SINE	Alu	AluJb
CAediting_163864	chr2_27299611_+	SINE	Alu	AluJb
CAediting_163865	chr2_27299628_+	SINE	Alu	AluJb
CAediting_163866	chr2_27299644_+	SINE	Alu	AluJb
CAediting_163867	chr2_27299645_+	SINE	Alu	AluJb
CAediting_163868	chr2_27299650_+	SINE	Alu	AluJb
CAediting_163869	chr2_27299780_+	SINE	Alu	AluSz6
CAediting_163870	chr2_27299782_+	SINE	Alu	AluSz6
CAediting_163871	chr2_27299786_+	SINE	Alu	AluSz6
CAediting_163872	chr2_27299831_+	SINE	Alu	AluSz6
CAediting_163873	chr2_27299845_+	SINE	Alu	AluSz6
CAediting_163874	chr2_27300233_+	SINE	Alu	AluSq2
CAediting_163875	chr2_27300271_+	SINE	Alu	AluSq2
CAediting_163876	chr2_27300275_+	SINE	Alu	AluSq2
CAediting_163877	chr2_27300289_+	SINE	Alu	AluSq2
CAediting_163878	chr2_27300311_+	SINE	Alu	AluSq2
CAediting_163879	chr2_27300333_+	SINE	Alu	AluSq2
CAediting_163880	chr2_27300337_+	SINE	Alu	AluSq2
CAediting_163881	chr2_27300347_+	SINE	Alu	AluSq2
CAediting_163882	chr2_27300353_+	SINE	Alu	AluSq2
CAediting_163883	chr2_27300402_+	SINE	Alu	AluSq2
CAediting_163885	chr2_27300571_+	Simple_repeat	Simple_repeat	(ATA)n
CAediting_163886	chr2_27300641_+	SINE	Alu	AluJb
CAediting_163887	chr2_27300693_+	SINE	Alu	AluJb
CAediting_163888	chr2_27300745_+	SINE	Alu	AluJb
CAediting_163889	chr2_27300807_+	SINE	Alu	AluJb
CAediting_163890	chr2_27300823_+	SINE	Alu	AluJb
CAediting_163891	chr2_27300896_+	SINE	Alu	AluJo
CAediting_163892	chr2_27300897_+	SINE	Alu	AluJo
CAediting_163893	chr2_27301269_+	SINE	Alu	AluSq2
CAediting_163894	chr2_27301279_+	SINE	Alu	AluSq2
CAediting_163895	chr2_27301305_+	SINE	Alu	AluSq2
CAediting_163896	chr2_27301306_+	SINE	Alu	AluSq2
CAediting_163897	chr2_27301320_+	SINE	Alu	AluSq2
CAediting_163898	chr2_27301321_+	SINE	Alu	AluSq2
CAediting_163899	chr2_27301323_+	SINE	Alu	AluSq2
CAediting_163900	chr2_27301383_+	SINE	Alu	AluSq2
CAediting_163901	chr2_27301402_+	SINE	Alu	AluSq2
CAediting_163902	chr2_27301912_+	SINE	Alu	AluSq2
CAediting_163903	chr2_27301913_+	SINE	Alu	AluSq2
CAediting_163904	chr2_27301934_+	SINE	Alu	AluSq2
CAediting_163905	chr2_27301944_+	SINE	Alu	AluSq2
CAediting_163906	chr2_27301972_+	SINE	Alu	AluSq2
CAediting_163907	chr2_27301973_+	SINE	Alu	AluSq2
CAediting_163908	chr2_27301992_+	SINE	Alu	AluSq2
CAediting_163909	chr2_27302003_+	SINE	Alu	AluSq2
CAediting_163910	chr2_27302007_+	SINE	Alu	AluSq2
CAediting_163911	chr2_27302095_+	SINE	Alu	AluSq2
CAediting_163912	chr2_27302273_+	SINE	Alu	AluY
CAediting_163913	chr2_27302330_+	SINE	Alu	AluY
CAediting_163914	chr2_27302378_+	SINE	Alu	AluY
CAediting_163915	chr2_27302537_+	SINE	Alu	AluSq2
CAediting_163916	chr2_27302592_+	SINE	Alu	AluSq2
CAediting_163917	chr2_27302644_+	SINE	Alu	AluSq2
CAediting_163918	chr2_27302730_+	SINE	Alu	AluSq2
CAediting_163919	chr2_27302732_+	SINE	Alu	AluSq2
CAediting_163920	chr2_27303420_+	SINE	Alu	AluSx3
CAediting_163921	chr2_27303505_+	SINE	Alu	AluSx3
CAediting_163922	chr2_27303993_+	SINE	Alu	AluJb
CAediting_163923	chr2_27304091_+	SINE	Alu	AluJb
CAediting_163924	chr2_27304132_+	SINE	Alu	AluJb
CAediting_163925	chr2_27304316_+	SINE	Alu	AluJr4
CAediting_163926	chr2_27304334_+	SINE	Alu	AluJr4
CAediting_163927	chr2_27304335_+	SINE	Alu	AluJr4
CAediting_163928	chr2_27304336_+	SINE	Alu	AluJr4
CAediting_163929	chr2_27304344_+	SINE	Alu	AluJr4

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RNA A-to-I editing events in the alternative splicing sites for TRIM54

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 ENSG00000138100.12.TRIM54.

Correlation between RNA A-to-I editing and PSI for ENSG00000138100.12.TRIM54.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for TRIM54

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 TRIM54

- 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 TRIM54

**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_393	chr1_1167164_+	ENSG00000138100.12	ENST00000380075	hsa-miR-200b-3p	27307304	27307310	7mer-m8	27307292	27307311	142	-11.1
CAediting_393	chr1_1167164_+	ENSG00000138100.12	ENST00000296098	hsa-miR-200b-3p	27307304	27307310	7mer-m8	27307292	27307311	142	-11.1
CAediting_1524209	chrX_134546392_-	ENSG00000138100.12	ENST00000380075	hsa-miR-503-5p	27307029	27307035	7mer-m8	27307014	27307036	156	-18.98
CAediting_1524209	chrX_134546392_-	ENSG00000138100.12	ENST00000296098	hsa-miR-503-5p	27307029	27307035	7mer-m8	27307014	27307036	156	-18.98

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_1524209	chrX_134546392_-	ENSG00000138100.12	ENST00000380075	hsa-miR-503-5p	27307360	27307366	7mer-m8	27307343	27307367	152	-22.12
CAediting_1524209	chrX_134546392_-	ENSG00000138100.12	ENST00000296098	hsa-miR-503-5p	27307360	27307366	7mer-m8	27307343	27307367	152	-22.12

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for TRIM54

- 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.
ENST00000296098.4	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_163860	ENST00000296098.4	chr2_27299534_+	-809.00	-809.70	-813.70
CAediting_163861	ENST00000296098.4	chr2_27299542_+	-809.70	-809.70	-813.70
CAediting_163862	ENST00000296098.4	chr2_27299572_+	-809.80	-809.70	-813.70
CAediting_163863	ENST00000296098.4	chr2_27299590_+	-810.10	-809.70	-813.70
CAediting_163864	ENST00000296098.4	chr2_27299611_+	-809.40	-809.70	-813.70
CAediting_163865	ENST00000296098.4	chr2_27299628_+	-809.90	-809.70	-813.70
CAediting_163866	ENST00000296098.4	chr2_27299644_+	-808.90	-809.70	-813.70
CAediting_163867	ENST00000296098.4	chr2_27299645_+	-810.60	-809.70	-813.70
CAediting_163868	ENST00000296098.4	chr2_27299650_+	-809.70	-809.70	-813.70

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Relation with ADAR for TRIM54

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 TRIM54

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for TRIM54

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for TRIM54

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 TRIM54

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