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Editing gene: SLC38A3 (CAeditome ID:10991)

Gene summary for SLC38A3

Gene summary

Gene information	Gene symbol	SLC38A3
	Gene ID	10991
	Gene name	solute carrier family 38 member 3
	Synonyms	G17\|NAT1\|SN1\|SNAT3
	Cytomap	3p21.31
	Type of gene	protein-coding
	Description	sodium-coupled neutral amino acid transporter 3N-system amino acid transporter 1Na(+)-coupled neutral amino acid transporter 3system N amino acid transporter 1system N1 Na+ and H+-coupled glutamine transporter
	Modification date	20210518
	UniProtAcc	Q99624
	Context

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

Gene	GO ID	GO term	PubMed ID
SLC38A3	GO:0005290	Sodium-coupled neutral amino acid transporter 3	10823827
SLC38A3	GO:0015180	Sodium-coupled neutral amino acid transporter 3	10823827
SLC38A3	GO:0015182	Sodium-coupled neutral amino acid transporter 3	10823827
SLC38A3	GO:0015186	Sodium-coupled neutral amino acid transporter 3	10823827
SLC38A3	GO:0006867	Sodium-coupled neutral amino acid transporter 3	10823827
SLC38A3	GO:0006868	Sodium-coupled neutral amino acid transporter 3	10823827
SLC38A3	GO:0015808	Sodium-coupled neutral amino acid transporter 3	10823827
SLC38A3	GO:0015817	Sodium-coupled neutral amino acid transporter 3	10823827
SLC38A3	GO:0005886	Sodium-coupled neutral amino acid transporter 3	0000054

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RNA A-to-I events for SLC38A3

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: ENSG00000188338.13

RNA A-to-I editing events in Cancer.

CAediting_283196(50207376, +), CAediting_283197(50207378, +), CAediting_283198(50207379, +), CAediting_283199(50207408, +), CAediting_283200(50207427, +), CAediting_283201(50207432, +), CAediting_283202(50207444, +), CAediting_283203(50207448, +), CAediting_283204(50207457, +),

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RNA editing positional annotations for SLC38A3 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_283196	chr3_50207376_+	ncRNA_intronic
CAediting_283197	chr3_50207378_+	ncRNA_intronic
CAediting_283198	chr3_50207379_+	ncRNA_intronic
CAediting_283199	chr3_50207408_+	ncRNA_intronic
CAediting_283200	chr3_50207427_+	ncRNA_intronic
CAediting_283201	chr3_50207432_+	ncRNA_intronic
CAediting_283202	chr3_50207444_+	ncRNA_intronic
CAediting_283203	chr3_50207448_+	ncRNA_intronic
CAediting_283204	chr3_50207457_+	ncRNA_intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_283196	chr3_50207376_+	SINE	Alu	AluSz
CAediting_283197	chr3_50207378_+	SINE	Alu	AluSz
CAediting_283198	chr3_50207379_+	SINE	Alu	AluSz
CAediting_283199	chr3_50207408_+	SINE	Alu	AluSz
CAediting_283200	chr3_50207427_+	SINE	Alu	AluSz
CAediting_283201	chr3_50207432_+	SINE	Alu	AluSz
CAediting_283202	chr3_50207444_+	SINE	Alu	AluSz
CAediting_283203	chr3_50207448_+	SINE	Alu	AluSz
CAediting_283204	chr3_50207457_+	SINE	Alu	AluSz

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RNA A-to-I editing events in the alternative splicing sites for SLC38A3

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 ENSG00000188338.13.SLC38A3.

Correlation between RNA A-to-I editing and PSI for ENSG00000188338.13.SLC38A3.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for SLC38A3

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 SLC38A3

- 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 SLC38A3

**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_+	ENSG00000188338.13	ENST00000614032	hsa-miR-605-3p	50221355	50221361	7mer-m8	50221341	50221362	140	-14.98
CAediting_980496	chr14_31014685_-	ENSG00000188338.13	ENST00000614032	hsa-miR-624-3p	50221437	50221442	6mer	50221424	50221443	145	-20.71
CAediting_1054808	chr15_66496985_-	ENSG00000188338.13	ENST00000614032	hsa-miR-4512	50221228	50221235	8mer-1a	50221213	50221235	159	-27.57

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_1054808	chr15_66496985_-	ENSG00000188338.13	ENST00000614032	hsa-miR-4512	50220350	50220356	7mer-m8	50220336	50220357	140	-16.65
CAediting_1054808	chr15_66496985_-	ENSG00000188338.13	ENST00000614032	hsa-miR-4512	50220635	50220641	7mer-m8	50220622	50220642	142	-12.5
CAediting_1399425	chr20_1392958_-	ENSG00000188338.13	ENST00000614032	hsa-miR-6869-5p	50220199	50220205	7mer-m8	50220184	50220206	147	-17.83

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for SLC38A3

- 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.
ENST00000610458.3	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_283196	ENST00000610458.3	chr3_50207376_+	-234.30	-230.80	-251.60
CAediting_283197	ENST00000610458.3	chr3_50207378_+	-232.60	-230.80	-251.60
CAediting_283198	ENST00000610458.3	chr3_50207379_+	-235.50	-230.80	-251.60
CAediting_283199	ENST00000610458.3	chr3_50207408_+	-230.70	-230.80	-251.60
CAediting_283200	ENST00000610458.3	chr3_50207427_+	-230.90	-230.80	-251.60
CAediting_283201	ENST00000610458.3	chr3_50207432_+	-232.50	-230.80	-251.60
CAediting_283202	ENST00000610458.3	chr3_50207444_+	-234.10	-230.80	-251.60
CAediting_283203	ENST00000610458.3	chr3_50207448_+	-231.00	-230.80	-251.60
CAediting_283204	ENST00000610458.3	chr3_50207457_+	-233.60	-230.80	-251.60

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Relation with ADAR for SLC38A3

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.)
LIHC	CAediting_283200	chr3_50207427_+	0.000352714290973372	0.378633422459351	.	.	.	.
LIHC	CAediting_283203	chr3_50207448_+	0.000283141604613623	0.271963390018922	.	.	.	.
LIHC	CAediting_283204	chr3_50207457_+	9.29774187586647e-08	0.352045597859397	.	.	.	.

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Relation with cancer stages for SLC38A3

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for SLC38A3

Correlation between RNA editing and survival

Cancer	CAeditomID	position	KMpvalue	Coxpvalue	CoxHR
LGG	CAediting_283204	chr3_50207457_+	0.00809743885743242	0.00939451	0.0788705

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RelatedDrugs for SLC38A3

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
SLC38A3	Q99624	DB00174	Asparagine	Sodium-coupled neutral amino acid transporter 3	SmallMoleculeDrug	approved\|investigational\|nutraceutical

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RelatedDiseases for SLC38A3

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