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lncRNA: ENSG00000225329

Summary for LHFPL3-AS2

Gene summary

Gene information	Ensembl ID	ENSG00000225329
	Gene symbol	LHFPL3-AS2
	Gene name	LHFPL3 antisense RNA 2
	HGNC	44106
	Entrez ID	723809
	Gene type	processed_transcript
	Synonyms	LHFPL3-AS2\|07q22.3
	UniProtAcc

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Structure and expression level for LHFPL3-AS2

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
ENSG00000225329	4.270403e+02	5.173822e+00	7.943552e-01	6.513235e+00	7.350000e-11	9.870000e-10	UP	CHOL
ENSG00000225329	5.696870e+02	-1.334030e+00	1.951709e-01	-6.835191e+00	8.190000e-12	2.920000e-11	DOWN	KIRC
ENSG00000225329	3.040830e+02	-6.266450e+00	3.519809e-01	-1.780338e+01	6.650000e-71	2.560000e-68	DOWN	KICH
ENSG00000225329	7.334854e+01	1.513666e+00	3.861278e-01	3.920117e+00	8.850000e-05	2.757350e-04	UP	UCEC
ENSG00000225329	1.882895e+02	-4.253972e+00	2.836545e-01	-1.499702e+01	7.680000e-51	1.910000e-49	DOWN	LUSC
ENSG00000225329	4.025537e+02	-2.090996e+00	2.920557e-01	-7.159581e+00	8.090000e-13	4.780000e-12	DOWN	LUAD

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000225329	4.086959e-01	5.314313e-03	CHOL	6.833849e-03
ENSG00000225329	-5.258506e-01	1.211141e-07	KICH	4.583001e-07
ENSG00000225329	-3.608536e-01	3.893195e-20	KIRC	3.128460e-19
ENSG00000225329	-4.008557e-01	4.986815e-24	LUAD	1.186862e-21
ENSG00000225329	-3.070449e-01	2.090862e-13	LUSC	4.967600e-12

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lncRNA-Protein interaction for LHFPL3-AS2

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
ENSG00000225329	ENST00000453666	LHFPL3-AS2	ENSG00000103449	SALL1	21.1	90.6419	Q9NSC2	TF	NA

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 LHFPL3-AS2

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

Only predicted by TDF

MYORG,SALL1,C1orf210,NOL4L,TSPAN3,MPC2,IFT140,HNF4A,PLS1,SLC35D2,ARSD,PRPSAP2,CAMKMT,FAM171A1,SLC37A1,LGR4,PKP4,AGPS,KCNK5,CYS1,RHPN2,CNP,HES1,VWA7,GATA6,CARMIL1,DENND11,C3orf33,TMEM106A,SEMA4G,FNDC3A,MARVELD3,WDR35,PLEKHA6,TMEM50B,NAPEPLD,SH3RF1,SLC44A4,HOOK1,DPP4,KIAA0895,ZNF69,ASTE1,DCDC2,ADCY6,PTPN13,KIF12,MRPS14,PLXNB1,GLIS3,KANSL1L,ATP1B1,RUNDC1,TMEM63A,DCAF7,AGPAT1,ODC1,MARVELD2,KIAA0319L,LLGL2,RBM47,LRATD2,PAN3,TOB1,HNF1B,ATP9A

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 LHFPL3-AS2

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 Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

LOF

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 LHFPL3-AS2

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_189776	ENSG00000225329.2	chr7	104919480	-	processed_transcript	LHFPL3-AS2	ENST00000631061.1	lincRNA	LHFPL3-AS2-002
LncEditing_189782	ENSG00000225329.2	chr7	104919519	-	processed_transcript	LHFPL3-AS2	ENST00000631061.1	lincRNA	LHFPL3-AS2-002

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

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

LncRNA Ensembl ID	LncRNA Index	Correlation	P-value	Adjc.p-value
ENSG00000225329	LncEditing_189776	-4.384729e-01	1.825383e-03	3.135029e-03
ENSG00000225329	LncEditing_189776	-4.138911e-01	6.112248e-05	3.343759e-04
ENSG00000225329	LncEditing_189782	-5.530472e-01	2.670100e-07	1.102856e-05

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
ENSG00000225329	ENSG00000079691	CARMIL1	CHOL,KICH,KIRC,PAAD,UCS	CHOL	KICH,KIRC
ENSG00000225329	ENSG00000095539	SEMA4G	CHOL,ESCA,KICH,STAD,TGCT,UCS		KICH
ENSG00000225329	ENSG00000118965	WDR35	CHOL,KICH,KIRC,KIRP,UCS	CHOL	KICH
ENSG00000225329	ENSG00000140832	MARVELD3	CHOL,ESCA,KICH,KIRC,PAAD,TGCT	CHOL	KIRC
ENSG00000225329	ENSG00000143153	ATP1B1	CHOL,KICH,KIRC,PAAD,UCS	CHOL	KIRC
ENSG00000225329	ENSG00000143919	CAMKMT	CHOL,ESCA,KICH,KIRC,TGCT		KICH
ENSG00000225329	ENSG00000144445	KANSL1L	CHOL,ESCA,KICH,KIRC,KIRP,UCS	CHOL
ENSG00000225329	ENSG00000146038	DCDC2	CHOL,KICH,KIRP,UCEC,UCS	CHOL,UCEC	KICH
ENSG00000225329	ENSG00000148468	FAM171A1	CHOL,ESCA,KICH,KIRC,KIRP	CHOL	KICH,KIRC
ENSG00000225329	ENSG00000160190	SLC37A1	CHOL,ESCA,KICH,KIRP,PAAD	CHOL
ENSG00000225329	ENSG00000161048	NAPEPLD	CHOL,KICH,KIRC,KIRP,PAAD		KICH,KIRC
ENSG00000225329	ENSG00000163629	PTPN13	CHOL,KICH,KIRC,KIRP,TGCT,UCS	CHOL	KICH,KIRC
ENSG00000225329	ENSG00000164050	PLXNB1	CHOL,KICH,KIRC,KIRP,TGCT,UCS		KICH,KIRC
ENSG00000225329	ENSG00000164976	MYORG	CHOL,ESCA,KIRC,PAAD,TGCT		KIRC
ENSG00000225329	ENSG00000168672	LRATD2	CHOL,ESCA,KICH,KIRC,UCS	CHOL
ENSG00000225329	ENSG00000173786	CNP	CHOL,KICH,KIRC,KIRP,TGCT		KICH,KIRC
ENSG00000225329	ENSG00000174233	ADCY6	CHOL,ESCA,KICH,TGCT,UCS	CHOL
ENSG00000225329	ENSG00000184988	TMEM106A	CHOL,ESCA,KICH,KIRC,TGCT		KICH
ENSG00000225329	ENSG00000187535	IFT140	CHOL,KICH,KIRC,KIRP,UCS	CHOL	KICH
ENSG00000225329	ENSG00000197183	NOL4L	CHOL,COAD,ESCA,KIRP,READ,STAD,TGCT	CHOL
ENSG00000225329	ENSG00000197635	DPP4	CHOL,ESCA,KICH,TGCT,UCS		KICH
ENSG00000225329	ENSG00000198863	RUNDC1	CHOL,ESCA,KICH,KIRC,KIRP	CHOL
ENSG00000225329	ENSG00000204396	VWA7	CHOL,ESCA,KICH,KIRC,KIRP	CHOL	KIRC
ENSG00000225329	ENSG00000120756	PLS1	ESCA,ESCA,KICH,KICH,KIRC,KIRC		KICH,KICH
ENSG00000225329	ENSG00000073350	LLGL2	ESCA,KICH,KIRC,KIRP,TGCT		KIRC
ENSG00000225329	ENSG00000136883	KIF12	ESCA,KICH,KIRP,TGCT,UCS		KICH
ENSG00000225329	ENSG00000152939	MARVELD2	ESCA,KICH,KIRC,KIRP,TGCT		KIRC
ENSG00000225329	ENSG00000164626	KCNK5	ESCA,KICH,KIRC,PAAD,TGCT,UCS		KICH
ENSG00000225329	ENSG00000204385	SLC44A4	ESCA,KICH,KIRP,PAAD,TGCT		KICH
ENSG00000225329	ENSG00000205795	CYS1	ESCA,KICH,KIRC,UCEC,UCS		KICH,KIRC
ENSG00000225329	ENSG00000115758	ODC1	KICH,KIRC,KIRP,TGCT,UCS		KICH
ENSG00000225329	ENSG00000144283	PKP4	KICH,KIRC,KIRP,TGCT,UCS		KICH
ENSG00000225329	ENSG00000164542	KIAA0895	KICH,KIRC,KIRP,TGCT,UCS		KICH

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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
ENSG00000225329.2	ENST00000631061.1	102	768	460
ENSG00000225329.2	ENST00000453666.2	107	221	544

	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