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Editing gene: MFSD2A (CAeditome ID:84879)

Gene summary for MFSD2A

Gene summary

Gene information	Gene symbol	MFSD2A
	Gene ID	84879
	Gene name	major facilitator superfamily domain containing 2A
	Synonyms	MCPH15\|MFSD2\|NEDMISBA\|NLS1\|SLC59A1
	Cytomap	1p34.2
	Type of gene	protein-coding
	Description	sodium-dependent lysophosphatidylcholine symporter 1major facilitator superfamily domain-containing protein 2Asodium-dependent LPC symporter 1
	Modification date	20210518
	UniProtAcc	Q8NA29
	Context	- 30292405(MFSD2A expression predicts better prognosis in gastric cancer)

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

Gene	GO ID	GO term	PubMed ID
MFSD2A	GO:0051978	Sodium-dependent lysophosphatidylcholine symporter 1	24828044
MFSD2A	GO:0051977	Sodium-dependent lysophosphatidylcholine symporter 1	24828044
MFSD2A	GO:0005886	Sodium-dependent lysophosphatidylcholine symporter 1	26005865
MFSD2A	GO:0005886	Sodium-dependent lysophosphatidylcholine symporter 1	26005868

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RNA A-to-I events for MFSD2A

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: ENSG00000168389.16

RNA A-to-I editing events in Cancer.

CAediting_50244(39956782, +), CAediting_50245(39956795, +), CAediting_50246(39959442, +), CAediting_50247(39959723, +), CAediting_50248(39959729, +), CAediting_50249(39959737, +), CAediting_50250(39959772, +), CAediting_50251(39959775, +), CAediting_50252(39959777, +), CAediting_50253(39959778, +), CAediting_50254(39959780, +), CAediting_50255(39959784, +), CAediting_50256(39959799, +), CAediting_50257(39959802, +), CAediting_50258(39959803, +), CAediting_50259(39959818, +), CAediting_50260(39959828, +), CAediting_50261(39959833, +), CAediting_50262(39959859, +), CAediting_50263(39959862, +), CAediting_50264(39959880, +), CAediting_50265(39960180, +), CAediting_50266(39961523, +), CAediting_50267(39961559, +), CAediting_50268(39961909, +), CAediting_50269(39961933, +), CAediting_50270(39961938, +), CAediting_50271(39961950, +), CAediting_50272(39961974, +), CAediting_50273(39962010, +), CAediting_50274(39962018, +), CAediting_50275(39962021, +), CAediting_50276(39962026, +), CAediting_50277(39962038, +), CAediting_50278(39962040, +), CAediting_50279(39962057, +), CAediting_50280(39962068, +), CAediting_50281(39962075, +), CAediting_50282(39962076, +), CAediting_50283(39962080, +), CAediting_50284(39963759, +),

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RNA editing positional annotations for MFSD2A 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_50244	chr1_39956782_+	ncRNA_intronic
CAediting_50245	chr1_39956795_+	ncRNA_intronic
CAediting_50246	chr1_39959442_+	ncRNA_intronic
CAediting_50247	chr1_39959723_+	ncRNA_intronic
CAediting_50248	chr1_39959729_+	ncRNA_intronic
CAediting_50249	chr1_39959737_+	ncRNA_intronic
CAediting_50250	chr1_39959772_+	ncRNA_intronic
CAediting_50251	chr1_39959775_+	ncRNA_intronic
CAediting_50252	chr1_39959777_+	ncRNA_intronic
CAediting_50253	chr1_39959778_+	ncRNA_intronic
CAediting_50254	chr1_39959780_+	ncRNA_intronic
CAediting_50255	chr1_39959784_+	ncRNA_intronic
CAediting_50256	chr1_39959799_+	ncRNA_intronic
CAediting_50257	chr1_39959802_+	ncRNA_intronic
CAediting_50258	chr1_39959803_+	ncRNA_intronic
CAediting_50259	chr1_39959818_+	ncRNA_intronic
CAediting_50260	chr1_39959828_+	ncRNA_intronic
CAediting_50261	chr1_39959833_+	ncRNA_intronic
CAediting_50262	chr1_39959859_+	ncRNA_intronic
CAediting_50263	chr1_39959862_+	ncRNA_intronic
CAediting_50264	chr1_39959880_+	ncRNA_intronic
CAediting_50265	chr1_39960180_+	ncRNA_intronic
CAediting_50266	chr1_39961523_+	ncRNA_intronic
CAediting_50267	chr1_39961559_+	ncRNA_intronic
CAediting_50268	chr1_39961909_+	ncRNA_intronic
CAediting_50269	chr1_39961933_+	ncRNA_intronic
CAediting_50270	chr1_39961938_+	ncRNA_intronic
CAediting_50271	chr1_39961950_+	ncRNA_intronic
CAediting_50272	chr1_39961974_+	ncRNA_intronic
CAediting_50273	chr1_39962010_+	ncRNA_intronic
CAediting_50274	chr1_39962018_+	ncRNA_intronic
CAediting_50275	chr1_39962021_+	ncRNA_intronic
CAediting_50276	chr1_39962026_+	ncRNA_intronic
CAediting_50277	chr1_39962038_+	ncRNA_intronic
CAediting_50278	chr1_39962040_+	ncRNA_intronic
CAediting_50279	chr1_39962057_+	ncRNA_intronic
CAediting_50280	chr1_39962068_+	ncRNA_intronic
CAediting_50281	chr1_39962075_+	ncRNA_intronic
CAediting_50282	chr1_39962076_+	ncRNA_intronic
CAediting_50283	chr1_39962080_+	ncRNA_intronic
CAediting_50284	chr1_39963759_+	ncRNA_intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_50244	chr1_39956782_+	SINE	Alu	AluY
CAediting_50245	chr1_39956795_+	SINE	Alu	AluY
CAediting_50246	chr1_39959442_+	SINE	Alu	AluJr
CAediting_50247	chr1_39959723_+	SINE	MIR	MIRb
CAediting_50248	chr1_39959729_+	SINE	MIR	MIRb
CAediting_50249	chr1_39959737_+	SINE	MIR	MIRb
CAediting_50250	chr1_39959772_+	SINE	MIR	MIRb
CAediting_50251	chr1_39959775_+	SINE	MIR	MIRb
CAediting_50252	chr1_39959777_+	SINE	MIR	MIRb
CAediting_50253	chr1_39959778_+	SINE	MIR	MIRb
CAediting_50254	chr1_39959780_+	SINE	MIR	MIRb
CAediting_50255	chr1_39959784_+	SINE	MIR	MIRb
CAediting_50256	chr1_39959799_+	SINE	MIR	MIRb
CAediting_50257	chr1_39959802_+	SINE	MIR	MIRb
CAediting_50258	chr1_39959803_+	SINE	MIR	MIRb
CAediting_50266	chr1_39961523_+	SINE	Alu	AluY
CAediting_50267	chr1_39961559_+	SINE	Alu	AluY
CAediting_50284	chr1_39963759_+	SINE	Alu	AluSx

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RNA A-to-I editing events in the alternative splicing sites for MFSD2A

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 ENSG00000168389.16.MFSD2A.

Correlation between RNA A-to-I editing and PSI for ENSG00000168389.16.MFSD2A.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for MFSD2A

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.

LUAD.CAediting_50249.ENSG00000168389.MFSD2A.png
Soverview

LUAD.CAediting_50257.ENSG00000168389.MFSD2A.png
Soverview

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Protein coding region RNA A-to-I editings for MFSD2A

- 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 MFSD2A

**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_524911	chr7_5495852_-	ENSG00000168389.16	ENST00000420632	hsa-miR-589-3p	39969727	39969733	7mer-m8	39969713	39969734	161	-35.48
CAediting_524911	chr7_5495852_-	ENSG00000168389.16	ENST00000372809	hsa-miR-589-3p	39969727	39969733	7mer-m8	39969713	39969734	161	-35.48

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 MFSD2A

- 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 MFSD2A

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 MFSD2A

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for MFSD2A

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for MFSD2A

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 MFSD2A

Diseases associated with this gene.
(DisGeNet 7.0)

Gene	Disease ID	Disease name	# pubmeds	Source
MFSD2A	C4225310	MICROCEPHALY 15, PRIMARY, AUTOSOMAL RECESSIVE	3	CTD_human;GENOMICS_ENGLAND;UNIPROT
MFSD2A	C0025958	Microcephaly	2	CTD_human
MFSD2A	C1956147	Microlissencephaly	2	CTD_human
MFSD2A	C3711387	Autosomal Recessive Primary Microcephaly	2	ORPHANET
MFSD2A	C3853041	Severe Congenital Microcephaly	2	CTD_human
MFSD2A	C0009090	Cluttering	1	CTD_human
MFSD2A	C0020796	Profound Mental Retardation	1	CTD_human
MFSD2A	C0025363	Mental Retardation, Psychosocial	1	CTD_human
MFSD2A	C0037822	Speech Disorders	1	CTD_human
MFSD2A	C0233726	Aprosodia	1	CTD_human
MFSD2A	C0751512	Dysglossia	1	CTD_human
MFSD2A	C0751513	Rhinolalia	1	CTD_human
MFSD2A	C0751514	Verbal Fluency Disorders	1	CTD_human
MFSD2A	C0917816	Mental deficiency	1	CTD_human
MFSD2A	C2239176	Liver carcinoma	1	CTD_human
MFSD2A	C3495145	Dyslalia	1	CTD_human
MFSD2A	C3714756	Intellectual Disability	1	CTD_human

	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