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Editing gene: NCSTN (CAeditome ID:23385)

Gene summary for NCSTN

Gene summary

Gene information	Gene symbol	NCSTN
	Gene ID	23385
	Gene name	nicastrin
	Synonyms	ATAG1874
	Cytomap	1q23.2
	Type of gene	protein-coding
	Description	nicastrinanterior pharynx-defective 2
	Modification date	20210518
	UniProtAcc	Q92542
	Context

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

Gene	GO ID	GO term	PubMed ID
NCSTN	GO:0006509	Nicastrin	15274632
NCSTN	GO:0007220	Nicastrin	27608597
NCSTN	GO:0016485	Nicastrin	15274632
NCSTN	GO:0016485	Nicastrin	27608597
NCSTN	GO:0034205	Nicastrin	27608597
NCSTN	GO:0042982	Nicastrin	25043039
NCSTN	GO:0042982	Nicastrin	26280335
NCSTN	GO:0042987	Nicastrin	27608597
NCSTN	GO:0043085	Nicastrin	15274632
NCSTN	GO:0005783	Nicastrin	15274632
NCSTN	GO:0005794	Nicastrin	15274632
NCSTN	GO:0005887	Nicastrin	15274632
NCSTN	GO:0016021	Nicastrin	25043039
NCSTN	GO:0016021	Nicastrin	26280335
NCSTN	GO:0070765	Nicastrin	12297508
NCSTN	GO:0070765	Nicastrin	25043039
NCSTN	GO:0070765	Nicastrin	26280335

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RNA A-to-I events for NCSTN

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: ENSG00000162736.14

RNA A-to-I editing events in Cancer.

CAediting_115747(160345286, +), CAediting_115748(160345293, +), CAediting_115749(160345310, +), CAediting_115750(160345663, +), CAediting_115751(160345680, +), CAediting_115752(160345693, +), CAediting_115753(160345702, +), CAediting_115754(160345725, +), CAediting_115755(160345758, +), CAediting_115756(160345772, +), CAediting_115757(160345818, +), CAediting_115758(160345824, +), CAediting_115759(160345842, +), CAediting_115760(160345845, +), CAediting_115761(160345847, +), CAediting_115762(160345851, +), CAediting_115763(160345859, +), CAediting_115764(160345867, +), CAediting_115765(160345873, +), CAediting_115766(160345880, +), CAediting_115767(160345889, +), CAediting_115768(160345914, +), CAediting_115769(160347674, +), CAediting_115770(160350197, +), CAediting_115771(160350337, +),

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RNA editing positional annotations for NCSTN 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_115747	chr1_160345286_+	ncRNA_intronic
CAediting_115748	chr1_160345293_+	ncRNA_intronic
CAediting_115749	chr1_160345310_+	ncRNA_intronic
CAediting_115750	chr1_160345663_+	ncRNA_intronic
CAediting_115751	chr1_160345680_+	ncRNA_intronic
CAediting_115752	chr1_160345693_+	ncRNA_intronic
CAediting_115753	chr1_160345702_+	ncRNA_intronic
CAediting_115754	chr1_160345725_+	ncRNA_intronic
CAediting_115755	chr1_160345758_+	ncRNA_intronic
CAediting_115756	chr1_160345772_+	ncRNA_intronic
CAediting_115757	chr1_160345818_+	ncRNA_intronic
CAediting_115758	chr1_160345824_+	ncRNA_intronic
CAediting_115759	chr1_160345842_+	ncRNA_intronic
CAediting_115760	chr1_160345845_+	ncRNA_intronic
CAediting_115761	chr1_160345847_+	ncRNA_intronic
CAediting_115762	chr1_160345851_+	ncRNA_intronic
CAediting_115763	chr1_160345859_+	ncRNA_intronic
CAediting_115764	chr1_160345867_+	ncRNA_intronic
CAediting_115765	chr1_160345873_+	ncRNA_intronic
CAediting_115766	chr1_160345880_+	ncRNA_intronic
CAediting_115767	chr1_160345889_+	ncRNA_intronic
CAediting_115768	chr1_160345914_+	ncRNA_intronic
CAediting_115769	chr1_160347674_+	ncRNA_intronic
CAediting_115770	chr1_160350197_+	exonic
CAediting_115771	chr1_160350337_+	ncRNA_intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_115747	chr1_160345286_+	SINE	Alu	AluSq2
CAediting_115748	chr1_160345293_+	SINE	Alu	AluSq2
CAediting_115749	chr1_160345310_+	SINE	Alu	AluSq2
CAediting_115750	chr1_160345663_+	SINE	Alu	AluSz
CAediting_115751	chr1_160345680_+	SINE	Alu	AluSz
CAediting_115752	chr1_160345693_+	SINE	Alu	AluSz
CAediting_115753	chr1_160345702_+	SINE	Alu	AluSz
CAediting_115754	chr1_160345725_+	SINE	Alu	AluSz
CAediting_115755	chr1_160345758_+	SINE	Alu	AluSz
CAediting_115756	chr1_160345772_+	SINE	Alu	AluSz
CAediting_115757	chr1_160345818_+	SINE	Alu	AluSz
CAediting_115758	chr1_160345824_+	SINE	Alu	AluSz
CAediting_115759	chr1_160345842_+	SINE	Alu	AluSz
CAediting_115760	chr1_160345845_+	SINE	Alu	AluSz
CAediting_115761	chr1_160345847_+	SINE	Alu	AluSz
CAediting_115762	chr1_160345851_+	SINE	Alu	AluSz
CAediting_115763	chr1_160345859_+	SINE	Alu	AluSz
CAediting_115764	chr1_160345867_+	SINE	Alu	AluSz
CAediting_115765	chr1_160345873_+	SINE	Alu	AluSz
CAediting_115766	chr1_160345880_+	SINE	Alu	AluSz
CAediting_115767	chr1_160345889_+	SINE	Alu	AluSz
CAediting_115768	chr1_160345914_+	SINE	Alu	AluSz
CAediting_115769	chr1_160347674_+	SINE	Alu	AluSz
CAediting_115770	chr1_160350197_+	LINE	RTE-BovB	MamRTE1
CAediting_115771	chr1_160350337_+	SINE	Alu	AluJb

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

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 ENSG00000162736.14.NCSTN.

Correlation between RNA A-to-I editing and PSI for ENSG00000162736.14.NCSTN.

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

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_115770.ENSG00000162736.NCSTN.png
Soverview

OV.CAediting_115770.ENSG00000162736.NCSTN.png
Soverview

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

- 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 NCSTN

**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

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 NCSTN

- 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.
ENST00000294785.8	protein_coding
ENST00000368063.4	protein_coding
ENST00000421914.4	protein_coding
ENST00000438008.4	protein_coding
ENST00000467837.4	processed_transcript
ENST00000424645.4	protein_coding
ENST00000459963.4	processed_transcript

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_115770	ENST00000294785.8	chr1_160350197_+	-1003.00	-996.40	-1003.00
CAediting_115770	ENST00000368063.4	chr1_160350197_+	-1016.70	-1010.10	-1016.70
CAediting_115770	ENST00000421914.4	chr1_160350197_+	-258.60	-252.00	-258.60
CAediting_115770	ENST00000438008.4	chr1_160350197_+	-232.60	-226.00	-232.60
CAediting_115770	ENST00000467837.4	chr1_160350197_+	-232.30	-231.80	-232.30
CAediting_115770	ENST00000424645.4	chr1_160350197_+	-310.80	-304.20	-310.80
CAediting_115770	ENST00000459963.4	chr1_160350197_+	-432.00	-425.40	-432.00

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Relation with ADAR for NCSTN

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.)
BRCA	CAediting_115770	chr1_160350197_+	0.0420472181707675	0.203729142654284	.	.	.	.
LUAD	CAediting_115770	chr1_160350197_+	3.87830042589595e-10	0.739272954646664	.	.	.	.
OV	CAediting_115770	chr1_160350197_+	0.00809259722187386	0.344507784111825	.	.	.	.

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Relation with cancer stages for NCSTN

Correlation between Cancer stages and RNA editing frequency

Cancer	Stage_type	CAeditomID	position	P-val	Coeff.
OV	clinical_stage	CAediting_115770	chr1_160350197_+	0.00867578733264114	-0.341624123513338

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Relation with survival for NCSTN

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for NCSTN

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 NCSTN

Diseases associated with this gene.
(DisGeNet 7.0)

Gene	Disease ID	Disease name	# pubmeds	Source
NCSTN	C4551962	ACNE INVERSA, FAMILIAL, 1	5	GENOMICS_ENGLAND;UNIPROT
NCSTN	C0002395	Alzheimer's Disease	1	CTD_human
NCSTN	C0011265	Presenile dementia	1	CTD_human
NCSTN	C0162836	Hidradenitis Suppurativa	1	GENOMICS_ENGLAND
NCSTN	C0276496	Familial Alzheimer Disease (FAD)	1	CTD_human
NCSTN	C0494463	Alzheimer Disease, Late Onset	1	CTD_human
NCSTN	C0546126	Acute Confusional Senile Dementia	1	CTD_human
NCSTN	C0750900	Alzheimer's Disease, Focal Onset	1	CTD_human
NCSTN	C0750901	Alzheimer Disease, Early Onset	1	CTD_human
NCSTN	C1840560	Hidradenitis suppurativa, familial	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