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lncRNA: ENSG00000274925

Summary for ZKSCAN2-DT

Gene summary

Gene information	Ensembl ID	ENSG00000274925
	Gene symbol	ZKSCAN2-DT
	Gene name	ZKSCAN2 divergent transcript
	HGNC	53912
	Entrez ID	112577464
	Gene type	lincRNA
	Synonyms	CTD-2547G23.4\|ZKSCAN2-DT\|16p12.1
	UniProtAcc

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Structure and expression level for ZKSCAN2-DT

AS events and RNA A-to-I editing events of lncRNA in TCGA based on Genvode V22 structure.

Differentially expressed gene analysis between cancer and normal samples.

Ensembl ID	Base mean	log2FC(AD/control)	lfcSE	Stat	P-value	Adjc.p-value	DEG direction	Cancer type
ENSG00000274925	1.233620e+02	2.200975e+00	3.004527e-01	7.325531e+00	2.380000e-13	4.680000e-12	UP	CHOL
ENSG00000274925	1.614512e+02	1.342675e+00	2.169866e-01	6.187825e+00	6.100000e-10	4.370000e-09	UP	KIRP
ENSG00000274925	1.759068e+02	1.426244e+00	1.384907e-01	1.029848e+01	7.160000e-25	3.410000e-23	UP	PRAD

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000274925	6.824960e-01	2.419560e-07	CHOL	8.363814e-06
ENSG00000274925	3.501295e-01	2.461952e-17	PRAD	3.267076e-16

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lncRNA-Protein interaction for ZKSCAN2-DT

lncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

lncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

lncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

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lncRNA-DNA interaction for ZKSCAN2-DT

lncRNA targets the enhancer region and positively regulates the gene expression.

Only predicted by TDF

DDX11,CHTOP,TFAP4,RBM6,ZBED5,ZC3H8,GLI4,RBM39,CENPT,TTC14,HSF4,THOC6,RBM5,CIRBP,SUGP1,DDX56,ZFP62,MZF1,ZNF48,SGSM2,NRF1,ZNF84,RBMX,RBM4B,DMTF1,CSTF3,TIGD1,RBM26,RBM45,CPSF1,RBM14,DDX51,TRA2A,ZBTB3,MYEF2,RBM28,ZNF74,SRSF2,HINFP,ZMAT1,ZNF83,SFPQ,USF1,CXXC1,RNPC3,ZNF3,ZFP69,SNRPA,NXF1,SAFB2,THOC1,RBM33,DDX17,ZNF10

Exist in public source

lncRNA targets the promoter region and positively regulates the gene expression.

lncRNA targets the promoter region and negatively regulates the gene expression.

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lncRNA-RNA interaction for ZKSCAN2-DT

lncRNA targets the 3'UTR region and negatively regulates the mRNA.

lncRNA targets the skipped exon region.

-lncRNA and exonskipping events are positively correlated.

LncRNA Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

ORF mutation

-lncRNA and exonskipping events are negatively correlated.

lncRNA and exonskipping events negative correlated

LncRNA Ensembl ID	LncRNA ENST ID	Exon ID	Skipped Exon	dG	ndG	Gene name with skipped exon	TransID with skipped exon	LOF
ENSG00000274925	ENST00000612792	exon_skip_382458	chr3:38131595-38131638	-11.92	-0.3056	ACAA1	ENST00000333167	Frame-shift
ENSG00000274925	ENST00000612792	exon_skip_470226	chr7:103307595-103307708	-13.25	-0.1183	PMPCB	ENST00000249269	Frame-shift

lncRNA targets by miRNA.

LncRNA Ensembl ID

miRNA ID

LncRNA ENST ID

Binding site in lncRNA

Score

Energy

Align Len

Public source

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Variants for ZKSCAN2-DT

RNA A-to-I editing events in lncRNA.

LncRNAediting ID	LncRNA Ensembl ID	Chromosome	Editing Position	Strand	Gene Type	Gene Name	Transcript ID	Transcript Type	Transcript Name
LncEditing_307345	ENSG00000274925.1	chr16	25260781	+	lincRNA	CTD-2547G23.4	ENST00000612792.1	lincRNA	CTD-2547G23.4-001
LncEditing_307347	ENSG00000274925.1	chr16	25260799	+	lincRNA	CTD-2547G23.4	ENST00000612792.1	lincRNA	CTD-2547G23.4-001

Edited-associated DElncRNAs in cancer.

LncRNA Ensembl ID	LncRNA Index	Cancer Type	Chr_Postion_Strand	AVE1	AVE2	log2FC	W-value	P-value	Adjc.p-value	Change
ENSG00000274925	LncEditing_307345	THYM	chr16_25260781_+	2.715208e+00	1.884045e+00	1.896708e+00	4.385875e+00	1.155206e-05	2.445787e-05	UP
ENSG00000274925	LncEditing_307347	THYM	chr16_25260799_+	2.485197e+00	1.948349e+00	2.848124e+00	3.318345e+00	9.055252e-04	1.281448e-03	UP

Correlation between RNA A-to-I editing events's frequecy and lncRNA expression.

LncRNA Ensembl ID

LncRNA Index

Correlation

P-value

Adjc.p-value

Cis-expression quantitative trait loci(cis-eQTL) of lncRNA.

LncRNA Ensembl ID

LncRNA Name

SNP info

Number of Positive corelated Cancer

Positive corelated Cancer

Number of Negative corelated Cancer

Negative corelated Cancer

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lncRNAs regulate the target genes through functioning as enhancers

lncRNA regulates differentially expressed genes by function as enhancer.

LncRNA Ensembl ID

PC Gene ID

PC Gene Name

Positive correlated cancers

Cancer with PC gene up-regulation

Cancer with PC gene down-regulation

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lncRNAs regulate the target genes through recruiting transcript factors

LncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

LncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

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lncRNAs regulate the alternative splicing event through interacting with splicing factor

LncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

LncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

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lncRNAs regulate mRNA through targeting the 3'-UTR region

lncRNA regulates differential expressed mRNA by directly targeting 3' UTR region.

LncRNA Ensembl ID

LncRNA ENST ID

PC Gene Name

PC Gene ID

PC ENST ID

nDG

Cancer with PC gene up-regulation

Cancer with PC gene Down-regulation

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lncRNAs regulate mRNA by competing with miRNA

lncRNA regulates mRNA by competing the miRNA binding site with mRNA.

LncRNA Ensembl ID

lncRNA-miRNA-mRNA

Cancer Types

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lncRNA coding potential

ORFfinder result for the gencode.v22.lncRNA.transcript.fa.

lncRNA Ensembl ID	lncRNA ENST ID	length(AA)	start at transcript	end at transcript
ENSG00000274925.1	ENST00000612792.1	52	162	320

	lncRNA summary
	lncRNA structure and expression level
	lncRNA-Protein interaction
	lncRNA-DNA interaction
	lncRNA-RNA interaction
	Variants in lncRNA
	lncRNAs regulate the target genes through functioning as enhancers
	lncRNAs regulate the target genes through recruiting transcript factors
	lncRNAs regulate the alternative splicing events through interacting with splicing factor
	lncRNAs regulate mRNA through targeting the 3'-UTR region
	lncRNAs regulate mRNA by competing with miRNA
	lncRNA coding potential