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lncRNA: ENSG00000273568

Summary for RP11-417L19.6

Gene summary

Gene information	Ensembl ID	ENSG00000273568
	Gene symbol	RP11-417L19.6
	Gene name
	HGNC
	Entrez ID
	Gene type	sense_intronic
	Synonyms
	UniProtAcc

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Structure and expression level for RP11-417L19.6

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
ENSG00000273568	1.901173e+01	1.358950e+00	1.251739e-01	1.085649e+01	1.860000e-27	1.670000e-26	UP	KIRC
ENSG00000273568	3.062434e+01	1.493286e+00	2.453136e-01	6.087251e+00	1.150000e-09	1.960000e-08	UP	BLCA
ENSG00000273568	2.672843e+01	2.369057e+00	6.534700e-01	3.625349e+00	2.885710e-04	2.912182e-03	UP	CESC
ENSG00000273568	2.216600e+01	1.239694e+00	1.880148e-01	6.593596e+00	4.290000e-11	3.530000e-10	UP	HNSC
ENSG00000273568	1.630985e+01	1.058184e+00	1.842415e-01	5.743462e+00	9.280000e-09	5.600000e-08	UP	KIRP
ENSG00000273568	1.575516e+01	1.683347e+00	1.904017e-01	8.841029e+00	9.480000e-19	1.390000e-17	UP	UCEC
ENSG00000273568	2.110807e+01	1.422584e+00	1.409039e-01	1.009613e+01	5.750000e-24	2.480000e-22	UP	PRAD
ENSG00000273568	2.918714e+01	1.345992e+00	1.337690e-01	1.006206e+01	8.130000e-24	6.460000e-23	UP	LUSC
ENSG00000273568	1.967111e+01	1.303938e+00	1.435598e-01	9.082892e+00	1.060000e-19	1.040000e-18	UP	LUAD
ENSG00000273568	3.256911e+01	1.530745e+00	1.516804e-01	1.009191e+01	6.000000e-24	1.060000e-22	UP	COAD
ENSG00000273568	3.350544e+01	1.839663e+00	1.917329e-01	9.594927e+00	8.400000e-22	7.540000e-20	UP	STAD
ENSG00000273568	3.611371e+01	1.859714e+00	3.465342e-01	5.366610e+00	8.020000e-08	1.330000e-06	UP	READ

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000273568	4.093179e-01	5.238443e-03	CHOL	6.767328e-03
ENSG00000273568	3.279717e-01	1.031805e-16	KIRC	5.367772e-16
ENSG00000273568	3.867387e-01	4.230591e-21	PRAD	1.186983e-19
ENSG00000273568	3.039923e-01	5.138994e-14	UCEC	3.791879e-13

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lncRNA-Protein interaction for RP11-417L19.6

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
ENSG00000273568	ENST00000621809	RP11-417L19.6	ENSG00000183495	EP400	10.44	91.1553	Q96L91	Epi	NA
ENSG00000273568	ENST00000621809	RP11-417L19.6	ENSG00000118058	KMT2A	17.88	92.4368	Q03164	TF,Epi	NA
ENSG00000273568	ENST00000621809	RP11-417L19.6	ENSG00000171316	CHD7	13.7	90.7478	Q9P2D1	Epi	NA

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
ENSG00000273568	ENST00000621809	RP11-417L19.6	ENSG00000118058	KMT2A	17.88	92.087	Q03164	TF,Epi	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 RP11-417L19.6

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

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 RP11-417L19.6

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

Only predicted by lncTar

CPQ,SH3GLB1,TOR1AIP1,SMPD1,SOS2,PRKACA,ILK,TMEM127,SDHD,SEC31A,APP,SNX6,SCP2,LRP10,YIPF5,PDK2,RALB,BTD,ANXA5,LMBRD1,WBP1L,KIAA1191,OS9,SEC24B,PLSCR4,FTO

Exist in public source

lncRNA targets the skipped exon region.

-lncRNA and exonskipping events are positively correlated.

lncRNA and exonskipping events positive correlated

LncRNA Ensembl ID	LncRNA ENST ID	Exon ID	Skipped Exon	dG	ndG	Gene name with skipped exon	TransID with skipped exon	ORF mutation
ENSG00000273568	ENST00000621809	exon_skip_114200	chr14:73279280-73279424	-17.12	-0.2038	NUMB	ENST00000355058,ENST00000555238	In-frame

-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
ENSG00000273568	ENST00000621809	exon_skip_353131	chr20:58669290-58669453	-16.30	-0.1148	STX16	ENST00000371141	Frame-shift
ENSG00000273568	ENST00000621809	exon_skip_52891	chr10:98429790-98429889	-17.58	-0.2225	HPS1	ENST00000325103,ENST00000361490	In-frame
ENSG00000273568	ENST00000621809	exon_skip_140283	chr16:635611-635774	-21.21	-0.1405	METTL26	ENST00000301686	Frame-shift
ENSG00000273568	ENST00000621809	exon_skip_140339	chr16:635611-635774	-21.21	-0.1405	METTL26	ENST00000301686	Frame-shift
ENSG00000273568	ENST00000621809	exon_skip_305660	chr19:35269802-35270003	-25.56	-0.1852	USF2	ENST00000222305	In-frame
ENSG00000273568	ENST00000621809	exon_skip_322579	chr19:55455635-55455845	-25.98	-0.1353	ISOC2	ENST00000425675	In-frame
ENSG00000273568	ENST00000621809	exon_skip_380242	chr3:186784961-186785101	-11.53	-0.1441	EIF4A2	ENST00000323963	Frame-shift
ENSG00000273568	ENST00000621809	exon_skip_382458	chr3:38131595-38131638	-8.06	-0.2239	ACAA1	ENST00000333167	Frame-shift
ENSG00000273568	ENST00000621809	exon_skip_132563	chr16:2527560-2527615	-9.15	-0.2691	AMDHD2	ENST00000293971	Frame-shift
ENSG00000273568	ENST00000621809	exon_skip_370518	chr22:50247691-50247776	-15.11	-0.1988	HDAC10	ENST00000216271	Frame-shift
ENSG00000273568	ENST00000621809	exon_skip_60654	chr11:64288064-64288214	-17.42	-0.1281	GPR137	ENST00000313074	In-frame
ENSG00000273568	ENST00000621809	exon_skip_382439	chr3:38126161-38126341	-15.81	-0.1630	ACAA1	ENST00000333167	In-frame
ENSG00000273568	ENST00000621809	exon_skip_124988	chr15:90890981-90891191	-22.14	-0.1326	FES	ENST00000328850	In-frame

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 RP11-417L19.6

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

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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	dG	nDG	Cancer with PC gene up-regulation	Cancer with PC gene Down-regulation
ENSG00000273568	ENST00000621809	PLSCR4	ENSG00000114698	ENST00000493382	-0.1648	170	-	BLCA,UCEC,LUSC,LUAD,COAD,READ
ENSG00000273568	ENST00000621809	SCP2	ENSG00000116171	ENST00000478631	-0.1066	1	-	COAD,READ
ENSG00000273568	ENST00000621809	SCP2	ENSG00000116171	ENST00000528311	-0.1382	1	-	COAD,READ
ENSG00000273568	ENST00000621809	BTD	ENSG00000169814	ENST00000417015	-0.1079	1	-	CESC,LUSC,COAD,STAD
ENSG00000273568	ENST00000621809	BTD	ENSG00000169814	ENST00000449107	-0.1681	65	-	CESC,LUSC,COAD,STAD
ENSG00000273568	ENST00000621809	SDHD	ENSG00000204370	ENST00000528182	-0.1033	1	-	COAD,READ
ENSG00000273568	ENST00000621809	SDHD	ENSG00000204370	ENST00000528048	-0.1033	1	-	COAD,READ
ENSG00000273568	ENST00000621809	SDHD	ENSG00000204370	ENST00000526592	-0.1223	1	-	COAD,READ
ENSG00000273568	ENST00000621809	SDHD	ENSG00000204370	ENST00000534010	-0.1062	41	-	COAD,READ
ENSG00000273568	ENST00000621809	CPQ	ENSG00000104324	ENST00000522617	-0.1351	41	-	BLCA,CESC,UCEC,LUSC,COAD,READ
ENSG00000273568	ENST00000621809	ILK	ENSG00000166333	ENST00000532063	-0.1074	1	-	BLCA,CESC,UCEC,PRAD,LUSC,COAD,STAD,READ
ENSG00000273568	ENST00000621809	ILK	ENSG00000166333	ENST00000299421	-0.1074	1	-	BLCA,CESC,UCEC,PRAD,LUSC,COAD,STAD,READ
ENSG00000273568	ENST00000621809	ILK	ENSG00000166333	ENST00000537806	-0.1074	1	-	BLCA,CESC,UCEC,PRAD,LUSC,COAD,STAD,READ
ENSG00000273568	ENST00000621809	ILK	ENSG00000166333	ENST00000420936	-0.1074	1	-	BLCA,CESC,UCEC,PRAD,LUSC,COAD,STAD,READ
ENSG00000273568	ENST00000621809	ILK	ENSG00000166333	ENST00000528995	-0.1074	1	-	BLCA,CESC,UCEC,PRAD,LUSC,COAD,STAD,READ
ENSG00000273568	ENST00000621809	ILK	ENSG00000166333	ENST00000396751	-0.1074	1	-	BLCA,CESC,UCEC,PRAD,LUSC,COAD,STAD,READ
ENSG00000273568	ENST00000621809	ILK	ENSG00000166333	ENST00000526318	-0.1074	1	-	BLCA,CESC,UCEC,PRAD,LUSC,COAD,STAD,READ
ENSG00000273568	ENST00000621809	KIAA1191	ENSG00000122203	ENST00000298569	-0.1016	1	-	KIRP
ENSG00000273568	ENST00000621809	KIAA1191	ENSG00000122203	ENST00000393725	-0.1016	1	-	KIRP
ENSG00000273568	ENST00000621809	KIAA1191	ENSG00000122203	ENST00000614420	-0.1016	1	-	KIRP
ENSG00000273568	ENST00000621809	KIAA1191	ENSG00000122203	ENST00000620366	-0.1016	1	-	KIRP
ENSG00000273568	ENST00000621809	KIAA1191	ENSG00000122203	ENST00000510164	-0.1162	74	-	KIRP
ENSG00000273568	ENST00000621809	KIAA1191	ENSG00000122203	ENST00000533553	-0.1501	117	-	KIRP
ENSG00000273568	ENST00000621809	ANXA5	ENSG00000164111	ENST00000513728	-0.1047	74	-	LUSC
ENSG00000273568	ENST00000621809	SOS2	ENSG00000100485	ENST00000543680	-0.4247	112	-	COAD,READ
ENSG00000273568	ENST00000621809	SOS2	ENSG00000100485	ENST00000556452	-0.1314	72	-	COAD,READ

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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
ENSG00000273568.1	ENST00000621809.1	117	74	424

	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