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lncRNA: ENSG00000273437

Summary for RP11-434H6.7

Gene summary

Gene information	Ensembl ID	ENSG00000273437
	Gene symbol	RP11-434H6.7
	Gene name
	HGNC
	Entrez ID
	Gene type	lincRNA
	Synonyms
	UniProtAcc

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Structure and expression level for RP11-434H6.7

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
ENSG00000273437	5.289890e+01	-1.262982e+00	3.059369e-01	-4.128245e+00	3.660000e-05	2.043650e-04	DOWN	GBM
ENSG00000273437	4.385360e+01	1.044614e+00	1.349737e-01	7.739391e+00	9.990000e-15	4.360000e-14	UP	KIRC
ENSG00000273437	4.494248e+01	-1.788181e+00	5.163890e-01	-3.462856e+00	5.344740e-04	4.791464e-03	DOWN	CESC
ENSG00000273437	7.292453e+01	1.405179e+00	2.209196e-01	6.360592e+00	2.010000e-10	1.550000e-09	UP	KIRP
ENSG00000273437	2.903842e+01	-1.023150e+00	1.525225e-01	-6.708188e+00	1.970000e-11	1.450000e-10	DOWN	UCEC

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000273437	-3.039834e-01	5.408374e-14	LUAD	5.850877e-13
ENSG00000273437	-3.110402e-01	1.239084e-14	UCEC	1.107887e-13

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lncRNA-Protein interaction for RP11-434H6.7

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
ENSG00000273437	ENST00000609183	RP11-434H6.7	ENSG00000083544	TDRD3	31.49	90.7516	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
ENSG00000273437	ENST00000609183	RP11-434H6.7	ENSG00000065029	ZNF76	7.75	90.4526	P36508	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
ENSG00000273437	ENST00000609183	RP11-434H6.7	ENSG00000083544	TDRD3	31.49	91.2111	Q9H7E2	RBP,Epi	NA

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lncRNA-DNA interaction for RP11-434H6.7

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 RP11-434H6.7

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

Only predicted by lncTar

SMAD1,SON,AGFG1,BAZ2A,QKI,PLS1,MAZ,HBP1,HELZ2,BBX,TEP1,BRF2,ZNF28,PHF20,PPARA,EHF,NOP9,G3BP1,PUM2,PNPT1,TFCP2,SART3,STAT3,SF3A1,RBM41,KLF7,ADNP2,THOC2,RFX5,BPTF,ATF2,NCOA2,ATF1,DDX60,OAS3,GLYR1,DDX3X,PUM1,TRPS1,NCOA3,SYNJ1,RBM7

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 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
ENSG00000273437	ENST00000609183	exon_skip_29583	chr1:114780109-114780215	-9.51	-0.1486	SIKE1	ENST00000060969	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_66482	chr11:126274926-126275021	-14.27	-0.2130	FOXRED1	ENST00000263578	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_74009	chr11:64773429-64773505	-10.21	-0.1418	SF1	ENST00000377390	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_111863	chr14:23565815-23565892	-12.88	-0.2111	AP1G2	ENST00000308724,ENST00000397120	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_114365	chr14:74290026-74290118	-13.38	-0.2230	ABCD4	ENST00000356924	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_114376	chr14:74293153-74293248	-10.74	-0.1471	ABCD4	ENST00000356924	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_309204	chr19:49181348-49181461	-12.13	-0.1103	TRPM4	ENST00000252826	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_319223	chr19:43526200-43526349	-14.88	-0.1063	ETHE1	ENST00000292147	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_370518	chr22:50247691-50247776	-8.60	-0.1147	HDAC10	ENST00000216271	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_374497	chr3:49999439-49999513	-11.37	-0.2274	RBM6	ENST00000266022	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_374551	chr3:50100531-50100605	-10.90	-0.1514	RBM5	ENST00000347869	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_378467	chr3:143023974-143024018	-5.38	-0.2562	U2SURP	ENST00000473835	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_382458	chr3:38131595-38131638	-11.97	-0.3069	ACAA1	ENST00000333167	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_7523	chr1:78660553-78660654	-7.66	-0.1008	IFI44	ENST00000370747	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_52701	chr10:97468965-97469104	-10.74	-0.1119	MMS19	ENST00000370782,ENST00000438925	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_53559	chr10:101793912-101793998	-7.14	-0.1519	OGA	ENST00000361464	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_62623	chr11:69079833-69079883	-7.12	-0.4188	TPCN2	ENST00000294309	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_87733	chr12:120571190-120571291	-8.32	-0.1280	RNF10	ENST00000325954	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_92074	chr12:50142052-50142110	-5.50	-0.2750	CERS5	ENST00000317551	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_95500	chr12:96003837-96003920	-9.13	-0.1383	LTA4H	ENST00000228740	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_152672	chr17:42540949-42541206	-21.78	-0.1140	NAGLU	ENST00000225927	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_290158	chr17:42953723-42953778	-6.17	-0.1285	AARSD1	ENST00000427569	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_292904	chr17:69251746-69251866	-9.50	-0.1377	ABCA5	ENST00000392676,ENST00000588877	In-frame
ENSG00000273437	ENST00000609183	exon_skip_296625	chr18:42057882-42058051	-11.42	-0.1109	PIK3C3	ENST00000262039	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_300663	chr19:1425877-1425960	-8.74	-0.1986	DAZAP1	ENST00000233078	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_302168	chr19:10680345-10680443	-9.75	-0.1318	ILF3	ENST00000590261	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_324294	chr2:27774423-27774530	-9.05	-0.1437	MRPL33	ENST00000296102	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_339830	chr2:69423581-69423717	-9.84	-0.1426	NFU1	ENST00000410022	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_363747	chr22:23877720-23877869	-17.12	-0.1181	SLC2A11	ENST00000345044	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_374375	chr3:49675182-49675309	-19.55	-0.1730	APEH	ENST00000296456	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_377198	chr3:123130479-123130616	-14.96	-0.1169	PDIA5	ENST00000316218	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_380242	chr3:186784961-186785101	-11.28	-0.1267	EIF4A2	ENST00000323963	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_436035	chr5:79656957-79657001	-5.21	-0.1489	TENT2	ENST00000296783,ENST00000428308,ENST00000453514	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_442657	chr5:74730259-74730398	-11.19	-0.1027	GFM2	ENST00000296805,ENST00000509430	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_445390	chr5:150403120-150403312	-17.35	-0.1295	CD74	ENST00000009530	In-frame
ENSG00000273437	ENST00000609183	exon_skip_509943	chrX:47175018-47175092	-8.49	-0.1267	RBM10	ENST00000377604	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_390306	chr3:180986942-180987022	-7.91	-0.1014	DNAJC19	ENST00000382564	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_332658	chr2:203272669-203272748	-8.34	-0.2979	CYP20A1	ENST00000356079	Frame-shift
ENSG00000273437	ENST00000609183	exon_skip_29546	chr1:114737470-114737563	-11.26	-0.2011	CSDE1	ENST00000358528,ENST00000534699	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 RP11-434H6.7

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
ENSG00000273437	ENST00000609183	PLS1	ENSG00000120756	ENST00000497002	-0.2233	37	CESC,UCEC	-

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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
ENSG00000273437.1	ENST00000609183.1	51	152	0

	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