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lncRNA: ENSG00000273759

Summary for RP4-563E14.1

Gene summary

Gene information	Ensembl ID	ENSG00000273759
	Gene symbol	RP4-563E14.1
	Gene name
	HGNC
	Entrez ID
	Gene type	lincRNA
	Synonyms
	UniProtAcc

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Structure and expression level for RP4-563E14.1

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
ENSG00000273759	4.908382e+01	2.652186e+00	4.041267e-01	6.562757e+00	5.280000e-11	7.210000e-10	UP	CHOL
ENSG00000273759	3.922807e+01	1.553374e+00	1.514265e-01	1.025827e+01	1.090000e-24	8.440000e-24	UP	KIRC
ENSG00000273759	5.259577e+01	1.392972e+00	2.565103e-01	5.430471e+00	5.620000e-08	6.670000e-07	UP	BLCA
ENSG00000273759	5.154754e+01	1.468292e+00	2.456868e-01	5.976277e+00	2.280000e-09	1.510000e-08	UP	KIRP
ENSG00000273759	4.549611e+01	1.045005e+00	1.418830e-01	7.365255e+00	1.770000e-13	1.920000e-12	UP	PRAD
ENSG00000273759	3.869113e+01	1.322382e+00	1.727155e-01	7.656417e+00	1.910000e-14	9.040000e-14	UP	LUSC
ENSG00000273759	3.547878e+01	1.582508e+00	1.574526e-01	1.005069e+01	9.120000e-24	1.210000e-22	UP	LUAD
ENSG00000273759	3.259055e+01	1.597903e+00	2.056409e-01	7.770352e+00	7.830000e-15	6.980000e-14	UP	COAD
ENSG00000273759	3.240312e+01	1.895251e+00	3.406250e-01	5.564039e+00	2.640000e-08	4.920000e-07	UP	READ

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000273759	6.520200e-01	1.221632e-06	CHOL	2.283094e-05

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lncRNA-Protein interaction for RP4-563E14.1

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
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000154832	CXXC1	27.34	90.3527	Q9P0U4	TF,Epi	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000083544	TDRD3	14.38	92.5234	Q9H7E2	RBP,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
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000154832	CXXC1	27.34	90.3939	Q9P0U4	TF,Epi	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000236287	ZBED5	26.26	91.6002	Q49AG3	TF	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000198521	ZNF43	24.65	92.9436	P17038	TF	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000198040	ZNF84	19.47	92.3198	P51523	TF	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000197857	ZNF44	14.72	92.3342	P15621	TF	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000256223	ZNF10	14.08	90.1906	P21506	TF	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000196378	ZNF34	7.68	91.5347	Q8IZ26	TF	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000126456	IRF3	2.55	90.9247	Q14653	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
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000013573	DDX11	40.36	93.5893	Q96FC9	RBP	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000122965	RBM19	35.98	92.896	Q9Y4C8	RBP	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000139746	RBM26	30.16	92.032	Q5T8P6	RBP	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000124193	SRSF6	21.89	93.5549	Q13247	RBP	NA
ENSG00000273759	ENST00000619319	RP4-563E14.1	ENSG00000083544	TDRD3	14.38	91.1688	Q9H7E2	RBP,Epi	NA

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lncRNA-DNA interaction for RP4-563E14.1

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 RP4-563E14.1

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 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
ENSG00000273759	ENST00000619319	exon_skip_1234	chr1:11658532-11658628	-14.31	-0.1590	FBXO44	ENST00000251547,ENST00000376770	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
ENSG00000273759	ENST00000619319	exon_skip_290158	chr17:42953723-42953778	-8.28	-0.1690	AARSD1	ENST00000427569	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_327433	chr2:86125794-86125880	-7.56	-0.2043	PTCD3	ENST00000254630	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_370518	chr22:50247691-50247776	-15.59	-0.2998	HDAC10	ENST00000216271	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_377198	chr3:123130479-123130616	-14.16	-0.1073	PDIA5	ENST00000316218	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_382458	chr3:38131595-38131638	-8.76	-0.6257	ACAA1	ENST00000333167	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_436035	chr5:79656957-79657001	-6.41	-0.3052	TENT2	ENST00000296783,ENST00000428308,ENST00000453514	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_9446	chr1:147270931-147271005	-10.54	-0.1444	CHD1L	ENST00000369258	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_41813	chr10:68337857-68337996	-15.95	-0.1549	HNRNPH3	ENST00000265866	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_53559	chr10:101793912-101793998	-10.37	-0.1788	OGA	ENST00000361464	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_87733	chr12:120571190-120571291	-12.43	-0.1397	RNF10	ENST00000325954	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_92074	chr12:50142052-50142110	-9.56	-0.2390	CERS5	ENST00000317551	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_95407	chr12:95040475-95040597	-12.56	-0.1532	NR2C1	ENST00000333003	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_114365	chr14:74290026-74290118	-12.23	-0.1588	ABCD4	ENST00000356924	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_138351	chr16:70469151-70469323	-19.82	-0.1254	FUK	ENST00000288078	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_292904	chr17:69251746-69251866	-10.24	-0.1101	ABCA5	ENST00000392676,ENST00000588877	In-frame
ENSG00000273759	ENST00000619319	exon_skip_309204	chr19:49181348-49181461	-15.82	-0.1536	TRPM4	ENST00000252826	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_319223	chr19:43526200-43526349	-21.63	-0.1897	ETHE1	ENST00000292147	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_324294	chr2:27774423-27774530	-14.53	-0.1529	MRPL33	ENST00000296102	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_353131	chr20:58669290-58669453	-23.30	-0.1701	STX16	ENST00000371141	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_358821	chr20:63943652-63943669	-5.37	-0.4475	UCKL1	ENST00000354216	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_365497	chr22:38067703-38067770	-10.74	-0.1705	PICK1	ENST00000356976,ENST00000404072	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_374497	chr3:49999439-49999513	-10.00	-0.1887	RBM6	ENST00000266022	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_387016	chr3:121788283-121788432	-10.06	-0.1156	IQCB1	ENST00000310864	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_438188	chr5:141638954-141639021	-14.31	-0.2308	RELL2	ENST00000297164,ENST00000444782	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_442657	chr5:74730259-74730398	-13.70	-0.1317	GFM2	ENST00000296805,ENST00000509430	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_444499	chr5:138164086-138164133	-5.40	-0.2842	BRD8	ENST00000254900	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_445390	chr5:150403120-150403312	-22.07	-0.1291	CD74	ENST00000009530	In-frame
ENSG00000273759	ENST00000619319	exon_skip_509943	chrX:47175018-47175092	-11.70	-0.1800	RBM10	ENST00000377604	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_340759	chr2:85552415-85552567	-13.89	-0.1543	GGCX	ENST00000233838	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_514339	chrX:23713134-23713208	-8.52	-0.1549	ACOT9	ENST00000336430	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_5818	chr1:45568484-45568684	-18.17	-0.1289	AKR1A1	ENST00000351829,ENST00000372070	Frame-shift
ENSG00000273759	ENST00000619319	exon_skip_11029	chr1:154989559-154989707	-15.42	-0.1078	FLAD1	ENST00000292180	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 RP4-563E14.1

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
ENSG00000273759.1	ENST00000619319.1	101	237	542

	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