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lncRNA: ENSG00000273188

Summary for RP3-402G11.25

Gene summary

Gene information	Ensembl ID	ENSG00000273188
	Gene symbol	RP3-402G11.25
	Gene name
	HGNC
	Entrez ID
	Gene type	antisense
	Synonyms
	UniProtAcc

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Structure and expression level for RP3-402G11.25

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
ENSG00000273188	3.044603e+01	-2.149560e+00	3.610260e-01	-5.954030e+00	2.620000e-09	3.880000e-08	DOWN	GBM

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID

Correlation

P-value

Cancer Type

Adjc.p-value

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lncRNA-Protein interaction for RP3-402G11.25

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
ENSG00000273188	ENST00000607943	RP3-402G11.25	ENSG00000104885	DOT1L	72.33	95.339	Q8TEK3	TF,Epi	NA
ENSG00000273188	ENST00000607943	RP3-402G11.25	ENSG00000197857	ZNF44	14.29	92.3183	P15621	TF	NA
ENSG00000273188	ENST00000607943	RP3-402G11.25	ENSG00000102878	HSF4	6.94	91.9992	Q9ULV5	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
ENSG00000273188	ENST00000607943	RP3-402G11.25	ENSG00000139746	RBM26	73.92	93.7296	Q5T8P6	RBP	NA
ENSG00000273188	ENST00000607943	RP3-402G11.25	ENSG00000135870	RC3H1	55.38	91.1218	Q5TC82	RBP	NA

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lncRNA-DNA interaction for RP3-402G11.25

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

Only predicted by TDF

AGAP6,GGA3,NISCH,TSPYL2,ARHGEF1,GTPBP1,IFFO1,VAMP1,GLI4,TRMU,TBC1D24,SLC26A6,ABHD17A,LENG8,BICRA,SH2B1,BRD1,MAST3,ATXN7L2,PPP1R12C,C1orf159,RNF166,NICN1,MZF1,UBE2G2,CDPF1,MAPK8IP3,FBXO41,INTS3,SUGP2,N4BP2L2,PPWD1,DMTF1,PIGL,UNKL,CEP95,CSAD,KIAA0895L,INO80D,ATAD3B,TRAPPC12,DCAF8,KIF21B,ULK3,KLHDC4,KMT2B,TMEM259,POFUT2,CCNL2,ARFGAP1,CAPN10,AP1G2,CENATAC,NPEPL1,CLK3,RNPC3,TENT4A,SAFB2,KCTD13,VPS9D1,MSANTD2,IFT27,TUBGCP6,THOC1,PAN3,PHKG2,MNT,GABBR1,ARHGAP4,TMEM175,LRRC75B,ZDHHC8,INTS11,DDTL,SGSM3,REXO1,IZUMO4,TM2D3,CENPT,PACS2,MC1R,SLC2A11,CFAP410,OSBPL7,RC3H1,CACNB1,TAZ,SPG7,NAA80,ZNF44,NECAB3,KAT2A,C2CD2L,ACBD4,PKD1,TSC2,CLCN6,EXOG,ECHDC2,OGT,PCNT,RBM26,PLA2G6,TAF1C,PCSK7,CLK2,BRSK1,RBM25,ENDOV,CHKB,METTL17,FBXO44,CAPN15,CTC1,PRPF39,NFKBID,LRIG2,EZH1,NCDN,RABL2A,SS18L1,ELMOD3,DDX17,ABTB1,OFD1,SRRM2,SLC25A29,MIB2,SLX4,BRF1,ACIN1,HDAC10,HGS,GOLGA3,PPP1R3F,HSF4,NAPB,ANKS3,ARGLU1,YJEFN3,C3orf62,PAXBP1,CCNL1,PDE1B,WSB1,SGSM2,DENND6B,SULT4A1,FAM228B,RSRP1,KLC1,DDX51,CHD2,GPS2,TRIM52,NCBP3,FLCN,DEPDC5,NOL12,CLASRP,MCOLN2,TTC13,CDK11A,STK36,TTC32,MICAL1,KIFC2,HOOK2,ATG4B,GOLGA8B,HEMK1,NSUN6,STRADA,OGFR,NR2C2,TRIM46,DIDO1,DPH1,GOLGA8A,SPIRE2,NEIL1,RBM6,SZT2,ADAMTS13,DDX5,FAM193B,GRIPAP1,SBF1,AARSD1,ABCA7,TLE5,MAPK11,NAT9,RBM5,NKTR,ZFC3H1,CRAMP1,LUC7L,KLHL17,ARHGAP33,MYL5,PNN,DNASE1,C19orf71,TTLL3,DOT1L,EPM2AIP1,HEXD,VCPKMT,PARP6,SCNN1D,EIF4A1,CCDC24,POU6F1,UBXN11,HECTD4,EME2,NEURL4,KHDC4,LRP5L,CROCC,PLXNB1,OTUD5,APBB3,ERCC5,DENND4B,MAN2C1,AMT,ACAP3,ANKRD13D,MRPL38,WBP1,CCDC57,RABL2B,TEPSIN,RBM33

Exist in public source

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

Only predicted by TDF

DCAF8,CLASRP,DPH1,MAPK8IP3,SGSM3,PCNT,HEMK1,SIN3B,MZF1,DNASE1,MAST3,OTUD5,C3orf62,FAM160B2,ING5,E4F1,RBM5,VAMP1,GGA3,NCBP3,QTRT1,CCNL1,PLXNA3,MYL5,TAZ,SRSF5,KIAA0907,STRADA,DGCR8,PRR14,SULT4A1,AARSD1,IZUMO4,SLX4,PPP1R12C,EVL,RBM6,INTS3,GRIPAP1,CTC1,PDE1B,AP4B1,GGA1,WSB1,MDM4,INO80D,CCDC130,STX16

Exist in public source

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

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lncRNA-RNA interaction for RP3-402G11.25

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

Only predicted by lncTar

TM7SF3,COPB2

Exist in public source

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 RP3-402G11.25

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

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

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
ENSG00000273188	ENSG00000008710	PKD1	DLBC,GBM,LGG,LUAD,LUSC,PAAD,SARC,THYM		GBM
ENSG00000273188	ENSG00000010322	NISCH	DLBC,GBM,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000011021	CLCN6	DLBC,GBM,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000020129	NCDN	DLBC,GBM,LGG,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000079313	REXO1	DLBC,GBM,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000090615	GOLGA3	DLBC,GBM,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000099308	MAST3	DLBC,ESCA,GBM,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000100150	DEPDC5	DLBC,GBM,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000100241	SBF1	DLBC,GBM,LUAD,LUSC,PAAD,SARC		GBM
ENSG00000273188	ENSG00000100359	SGSM3	DLBC,GBM,LGG,LUAD,LUSC,SARC,THYM		GBM
ENSG00000273188	ENSG00000100483	VCPKMT	DLBC,ESCA,GBM,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000108799	EZH1	DLBC,GBM,LUAD,LUSC,PAAD,SARC		GBM
ENSG00000273188	ENSG00000116852	KIF21B	DLBC,ESCA,GBM,LUAD,PAAD		GBM
ENSG00000273188	ENSG00000123360	PDE1B	DLBC,GBM,LAML,LGG,PAAD		GBM
ENSG00000273188	ENSG00000138834	MAPK8IP3	DLBC,ESCA,GBM,LAML,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000139190	VAMP1	DLBC,ESCA,GBM,LUAD,LUSC,PAAD,SARC		GBM
ENSG00000273188	ENSG00000160299	PCNT	DLBC,GBM,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000162065	TBC1D24	DLBC,GBM,LGG,LUAD,PAAD		GBM
ENSG00000273188	ENSG00000163013	FBXO41	DLBC,GBM,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000167702	KIFC2	DLBC,GBM,LAML,LGG,PAAD,SARC		GBM
ENSG00000273188	ENSG00000173064	HECTD4	DLBC,GBM,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000174943	KCTD13	DLBC,ESCA,GBM,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000184271	POU6F1	DLBC,GBM,LUAD,LUSC,PAAD,PCPG,SARC		GBM
ENSG00000273188	ENSG00000184402	SS18L1	DLBC,GBM,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000204681	GABBR1	DLBC,ESCA,GBM,PAAD,SARC		GBM
ENSG00000273188	ENSG00000215041	NEURL4	DLBC,GBM,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000250067	YJEFN3	DLBC,ESCA,GBM,LGG,LUSC,PAAD,SARC,THYM		GBM
ENSG00000273188	ENSG00000068400	GRIPAP1	ESCA,GBM,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000114626	ABTB1	ESCA,GBM,LGG,LUAD,LUSC,PAAD,SARC		GBM
ENSG00000273188	ENSG00000184277	TM2D3	ESCA,GBM,LGG,PAAD,SARC		GBM
ENSG00000273188	ENSG00000204991	SPIRE2	ESCA,GBM,LGG,LUAD,THYM		GBM
ENSG00000273188	ENSG00000205593	DENND6B	ESCA,GBM,LGG,LUAD,LUSC,PAAD,PCPG,SARC,THYM		GBM
ENSG00000273188	ENSG00000049769	PPP1R3F	GBM,LGG,PAAD,SARC,THYM		GBM
ENSG00000273188	ENSG00000068308	OTUD5	GBM,LAML,LGG,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000125503	PPP1R12C	GBM,LGG,LUAD,LUSC,PAAD,THYM		GBM
ENSG00000273188	ENSG00000125967	NECAB3	GBM,LGG,PAAD,SARC,THYM		GBM
ENSG00000273188	ENSG00000130540	SULT4A1	GBM,LGG,PAAD,PCPG,THYM		GBM
ENSG00000273188	ENSG00000132879	FBXO44	GBM,LGG,LUAD,PAAD,PCPG,THYM		GBM
ENSG00000273188	ENSG00000133460	SLC2A11	GBM,LGG,LUAD,LUSC,PAAD,SARC		GBM
ENSG00000273188	ENSG00000145029	NICN1	GBM,LGG,LUAD,LUSC,PAAD,SARC		GBM
ENSG00000273188	ENSG00000172375	C2CD2L	GBM,LGG,LUAD,LUSC,PAAD		GBM
ENSG00000273188	ENSG00000179364	PACS2	GBM,LAML,LUAD,PAAD,THYM		GBM
ENSG00000273188	ENSG00000184205	TSPYL2	GBM,LAML,LUAD,LUSC,PAAD,SARC,THYM		GBM
ENSG00000273188	ENSG00000185386	MAPK11	GBM,LGG,LUSC,PAAD,THYM		GBM

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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
ENSG00000273188	ENSG00000102878	HSF4	ENSG00000132716	DCAF8	6	DLBC,ESCA,LGG,LUAD,LUSC,PAAD
ENSG00000273188	ENSG00000102878	HSF4	ENSG00000104859	CLASRP	6	DLBC,ESCA,LGG,LUAD,LUSC,PAAD
ENSG00000273188	ENSG00000102878	HSF4	ENSG00000138834	MAPK8IP3	6	DLBC,ESCA,LGG,LUAD,LUSC,PAAD
ENSG00000273188	ENSG00000102878	HSF4	ENSG00000266967	AARSD1	6	DLBC,ESCA,LGG,LUAD,LUSC,PAAD
ENSG00000273188	ENSG00000102878	HSF4	ENSG00000004534	RBM6	5	DLBC,LGG,LUAD,LUSC,PAAD
ENSG00000273188	ENSG00000102878	HSF4	ENSG00000104957	CCDC130	5	DLBC,LGG,LUAD,LUSC,PAAD

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
ENSG00000273188.1	ENST00000607943.1	168	1717	1211

	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