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lncRNA: ENSG00000274173

Summary for RP4-568C11.4

Gene summary

Gene information	Ensembl ID	ENSG00000274173
	Gene symbol	RP4-568C11.4
	Gene name
	HGNC
	Entrez ID
	Gene type	lincRNA
	Synonyms
	UniProtAcc

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Structure and expression level for RP4-568C11.4

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
ENSG00000274173	4.269262e+02	-3.114178e+00	3.869088e-01	-8.048868e+00	8.360000e-16	3.910000e-15	DOWN	KIRC
ENSG00000274173	4.089769e+02	-1.303090e+00	2.188595e-01	-5.954005e+00	2.620000e-09	1.720000e-08	DOWN	HNSC
ENSG00000274173	2.009224e+02	-4.017577e+00	6.288761e-01	-6.388504e+00	1.680000e-10	1.300000e-09	DOWN	KIRP
ENSG00000274173	1.669754e+02	-1.230807e+00	3.223314e-01	-3.818452e+00	1.342920e-04	3.671600e-04	DOWN	LIHC

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000274173	-3.384142e-01	2.956067e-09	KIRP	2.866916e-08

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lncRNA-Protein interaction for RP4-568C11.4

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 RP4-568C11.4

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 RP4-568C11.4

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

Only predicted by lncTar

QKI,MLXIP

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
ENSG00000274173	ENST00000620459	exon_skip_11286	chr1:155061903-155061975	-11.90	-0.1725	ADAM15	ENST00000356955	In-frame
ENSG00000274173	ENST00000620459	exon_skip_44998	chr10:110132304-110132400	-7.58	-0.1486	ADD3	ENST00000356080	In-frame
ENSG00000274173	ENST00000620459	exon_skip_59476	chr11:57815914-57816001	-13.48	-0.2365	CTNND1	ENST00000399050	In-frame
ENSG00000274173	ENST00000620459	exon_skip_64939	chr11:112230207-112230230	-6.36	-0.3975	PTS	ENST00000280362	Frame-shift
ENSG00000274173	ENST00000620459	exon_skip_114200	chr14:73279280-73279424	-20.25	-0.1523	NUMB	ENST00000355058,ENST00000555238	In-frame
ENSG00000274173	ENST00000620459	exon_skip_148110	chr17:4892401-4892512	-17.92	-0.1629	MINK1	ENST00000355280	In-frame
ENSG00000274173	ENST00000620459	exon_skip_296984	chr18:58335477-58335537	-12.97	-0.2647	NEDD4L	ENST00000400345	In-frame
ENSG00000274173	ENST00000620459	exon_skip_373783	chr3:46992474-46992555	-12.86	-0.1948	NBEAL2	ENST00000450053	In-frame
ENSG00000274173	ENST00000620459	exon_skip_386291	chr3:108050577-108050602	-8.22	-0.3425	CD47	ENST00000361309	Frame-shift
ENSG00000274173	ENST00000620459	exon_skip_423795	chr4:55888887-55888932	-9.47	-0.4510	EXOC1	ENST00000346134,ENST00000381295	In-frame
ENSG00000274173	ENST00000620459	exon_skip_461111	chr6:90544551-90544632	-10.90	-0.1363	MAP3K7	ENST00000369329	In-frame
ENSG00000274173	ENST00000620459	exon_skip_2091	chr1:17634547-17634562	-6.13	-1.2260	ARHGEF10L	ENST00000361221	In-frame
ENSG00000274173	ENST00000620459	exon_skip_13507	chr1:162592731-162592782	-7.74	-0.4553	UAP1	ENST00000271469,ENST00000367925	In-frame
ENSG00000274173	ENST00000620459	exon_skip_302276	chr19:10808568-10808580	-6.89	-0.7656	DNM2	ENST00000355667	In-frame
ENSG00000274173	ENST00000620459	exon_skip_499771	chr9:128592982-128593042	-7.56	-0.3024	SPTAN1	ENST00000372731	In-frame
ENSG00000274173	ENST00000620459	exon_skip_37475	chr1:225504990-225505053	-6.14	-0.1059	ENAH	ENST00000366844	In-frame
ENSG00000274173	ENST00000620459	exon_skip_44853	chr10:104010815-104010908	-8.40	-0.1826	SLK	ENST00000369755	In-frame
ENSG00000274173	ENST00000620459	exon_skip_456460	chr6:17771113-17771218	-11.87	-0.1364	KIF13A	ENST00000259711	In-frame
ENSG00000274173	ENST00000620459	exon_skip_375623	chr3:58141857-58141929	-10.29	-0.1536	FLNB	ENST00000295956	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
ENSG00000274173	ENST00000620459	exon_skip_21610	chr1:9737497-9737554	-9.07	-0.2748	CLSTN1	ENST00000377298	In-frame
ENSG00000274173	ENST00000620459	exon_skip_21628	chr1:9756480-9756510	-6.48	-0.2945	CLSTN1	ENST00000377298	In-frame
ENSG00000274173	ENST00000620459	exon_skip_33516	chr1:156938417-156938513	-11.82	-0.1738	ARHGEF11	ENST00000361409	In-frame
ENSG00000274173	ENST00000620459	exon_skip_48327	chr10:26771074-26771089	-6.26	-0.5217	ABI1	ENST00000376142	In-frame
ENSG00000274173	ENST00000620459	exon_skip_52231	chr10:93392916-93392955	-7.14	-0.4462	MYOF	ENST00000359263	In-frame
ENSG00000274173	ENST00000620459	exon_skip_287874	chr17:29085603-29085648	-6.85	-0.2283	MYO18A	ENST00000527372	In-frame
ENSG00000274173	ENST00000620459	exon_skip_293641	chr17:76091142-76091235	-13.28	-0.1562	EXOC7	ENST00000589210	In-frame
ENSG00000274173	ENST00000620459	exon_skip_368285	chr22:29329711-29329720	-3.45	-0.4929	AP1B1	ENST00000357586,ENST00000405198	In-frame
ENSG00000274173	ENST00000620459	exon_skip_376144	chr3:100311832-100311877	-6.55	-0.2183	TBC1D23	ENST00000394144	In-frame
ENSG00000274173	ENST00000620459	exon_skip_382356	chr3:37091466-37091538	-7.27	-0.1965	LRRFIP2	ENST00000336686	In-frame
ENSG00000274173	ENST00000620459	exon_skip_515330	chrX:65524563-65524614	-8.26	-0.4130	LAS1L	ENST00000374811	In-frame
ENSG00000274173	ENST00000620459	exon_skip_337919	chr2:27445744-27445843	-10.10	-0.1329	IFT172	ENST00000260570	In-frame
ENSG00000274173	ENST00000620459	exon_skip_353395	chr20:62130218-62130296	-9.69	-0.1730	LSM14B	ENST00000279068	In-frame
ENSG00000274173	ENST00000620459	exon_skip_514511	chrX:41555599-41555635	-8.62	-0.2394	CASK	ENST00000378163	In-frame
ENSG00000274173	ENST00000620459	exon_skip_80777	chr12:26960514-26960628	-12.38	-0.1290	FGFR1OP2	ENST00000229395	In-frame
ENSG00000274173	ENST00000620459	exon_skip_361434	chr21:25997359-25997416	-7.59	-0.1765	APP	ENST00000346798	In-frame
ENSG00000274173	ENST00000620459	exon_skip_445633	chr5:151110626-151110644	-4.49	-0.2993	ANXA6	ENST00000354546	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 RP4-568C11.4

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

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
ENSG00000274173.1	ENST00000620459.1	83	750	499

	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