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lncRNA: ENSG00000265666

Summary for RARA-AS1

Gene summary

Gene information	Ensembl ID	ENSG00000265666
	Gene symbol	RARA-AS1
	Gene name	RARA antisense RNA 1
	HGNC	49577
	Entrez ID	101929693
	Gene type	antisense
	Synonyms	17q21.2\|RARA-AS1
	UniProtAcc

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Structure and expression level for RARA-AS1

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
ENSG00000265666	3.673084e+02	1.460764e+00	1.011249e-01	1.444515e+01	2.690000e-47	2.180000e-45	UP	THCA
ENSG00000265666	1.102550e+02	-1.621452e+00	1.054409e-01	-1.537783e+01	2.310000e-53	6.290000e-52	DOWN	LUSC

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000265666	3.580409e-01	1.574030e-02	CHOL	1.755649e-02
ENSG00000265666	-4.940628e-01	8.637662e-07	KICH	2.468779e-06
ENSG00000265666	-3.355296e-01	7.361331e-16	LUSC	5.071957e-14

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lncRNA-Protein interaction for RARA-AS1

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
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000174744	BRMS1	7.01	92.9111	Q9HCU9	Epi	NA
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000094804	CDC6	4.7	94.2946	Q99741	Epi	NA
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000111725	PRKAB1	55.22	92.4673	Q9Y478	Epi	NA
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000099956	SMARCB1	28.16	90.4803	Q12824	Epi	ChIP-seq
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000061273	HDAC7	25.93	94.0201	Q8WUI4	Epi	NA
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000103510	KAT8	18.47	93.1631	Q9H7Z6	Epi	ChIP-seq
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000187778	MCRS1	7.99	91.2734	Q96EZ8	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
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000188290	HES4	42.64	91.8265	Q9HCC6	TF	ChIP-seq
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000104856	RELB	25.34	91.0823	Q01201	TF	NA
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000197905	TEAD4	22.23	91.4456	Q15561	TF	ChIP-seq
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000160113	NR2F6	9.79	92.7538	P10588	TF	NA
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000126456	IRF3	4.72	93.8366	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
ENSG00000265666	ENST00000581080	RARA-AS1	ENSG00000141738	GRB7	16.08	90.7541	Q14451	RBP	NA

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lncRNA-DNA interaction for RARA-AS1

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 RARA-AS1

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

Only predicted by lncTar

CNOT1,ASB8,PARP1,IDH3A,PHF6,CMTM4,PNPO,HEATR1,UHRF1BP1L,NUP155,UCHL5,DNAJC16,PIK3CB,PUS7,TNPO3,EPB41,GNL3L,POLR1B,ENTPD5,TSR1,PTPN11,TUBA1C,IARS1,SMG7,PPAT,CTH,DNAJC11,PALB2,SCFD2,CLTC,MAN1A2,L2HGDH,SDHC,MRPL19,CSNK1G1,ATP2C1,MCCC2,RIOX2,ABCB7,TUBGCP4,LYRM7,G3BP1,PCCB,GIGYF2,IREB2,DKC1,CDC27,GTF2H3,ETFDH,TRPM7,UBE3C,SLC25A15,ESF1,PRKAR2A,LPCAT3,R3HDM1,USP9X,HSPA9,NADK2,C1orf109,UBE4B,GNPTAB,GTF3C3,ZNF525,OSBPL8,USP46,GPHN,ADH5,COG6,TTF2,UBAP2L,SLC39A14,VAMP7,GFM2,MTHFD1,ALDH5A1,TNPO1,MTIF2,GTF2I,EIF3L,G2E3,LARS2,NCAPD3,NAA50,HUWE1,TTC37,ACADM,PPP1CC,DCAF17,MIEF1,BLOC1S6,ABCE1,GCC2,TEX2,DNAJA3,CANX,CPSF2,TAF1A,ZFYVE9,NOMO2

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
ENSG00000265666	ENST00000581080	exon_skip_371367	chr3:9697710-9697866	-26.21	-0.1808	MTMR14	ENST00000296003	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 RARA-AS1

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
ENSG00000265666	ENST00000581080	TUBA1C	ENSG00000167553	ENST00000541364	-0.1450	1159	LUSC	-
ENSG00000265666	ENST00000581080	TUBA1C	ENSG00000167553	ENST00000549818	-0.1100	1031	LUSC	-
ENSG00000265666	ENST00000581080	TUBA1C	ENSG00000167553	ENST00000552125	-0.1473	685	LUSC	-
ENSG00000265666	ENST00000581080	SLC25A15	ENSG00000102743	ENST00000470509	-0.1134	693	-	THCA
ENSG00000265666	ENST00000581080	SLC39A14	ENSG00000104635	ENST00000240095	-0.1291	1191	-	THCA
ENSG00000265666	ENST00000581080	PCCB	ENSG00000114054	ENST00000469217	-0.1052	47	LUSC	-
ENSG00000265666	ENST00000581080	CTH	ENSG00000116761	ENST00000346806	-0.1912	282	-	THCA
ENSG00000265666	ENST00000581080	PALB2	ENSG00000083093	ENST00000565038	-0.1179	259	LUSC	-
ENSG00000265666	ENST00000581080	L2HGDH	ENSG00000087299	ENST00000261699	-0.5863	30	LUSC	-
ENSG00000265666	ENST00000581080	L2HGDH	ENSG00000087299	ENST00000555423	-0.1419	1029	LUSC	-
ENSG00000265666	ENST00000581080	L2HGDH	ENSG00000087299	ENST00000555610	-0.1068	167	LUSC	-
ENSG00000265666	ENST00000581080	HEATR1	ENSG00000119285	ENST00000366581	-0.1101	1034	LUSC	-
ENSG00000265666	ENST00000581080	NAA50	ENSG00000121579	ENST00000493900	-0.2443	441	LUSC	-
ENSG00000265666	ENST00000581080	PPAT	ENSG00000128059	ENST00000510643	-0.1072	599	LUSC	-
ENSG00000265666	ENST00000581080	PPAT	ENSG00000128059	ENST00000507724	-0.1101	323	LUSC	-
ENSG00000265666	ENST00000581080	PARP1	ENSG00000143799	ENST00000366792	-0.2569	682	LUSC	-
ENSG00000265666	ENST00000581080	PARP1	ENSG00000143799	ENST00000366790	-0.3490	478	LUSC	-
ENSG00000265666	ENST00000581080	R3HDM1	ENSG00000048991	ENST00000409606	-0.3467	892	LUSC	-
ENSG00000265666	ENST00000581080	MTIF2	ENSG00000085760	ENST00000403721	-0.2147	61	LUSC	-
ENSG00000265666	ENST00000581080	MTIF2	ENSG00000085760	ENST00000263629	-0.1013	5	LUSC	-
ENSG00000265666	ENST00000581080	MTIF2	ENSG00000085760	ENST00000394600	-0.1013	6	LUSC	-
ENSG00000265666	ENST00000581080	NUP155	ENSG00000113569	ENST00000381843	-0.1667	1508	LUSC	-
ENSG00000265666	ENST00000581080	NUP155	ENSG00000113569	ENST00000507675	-0.1045	333	LUSC	-
ENSG00000265666	ENST00000581080	TTF2	ENSG00000116830	ENST00000427271	-0.1165	1298	LUSC	-
ENSG00000265666	ENST00000581080	TAF1A	ENSG00000143498	ENST00000366890	-0.1180	434	LUSC	-
ENSG00000265666	ENST00000581080	TAF1A	ENSG00000143498	ENST00000350027	-0.1180	434	LUSC	-
ENSG00000265666	ENST00000581080	PHF6	ENSG00000156531	ENST00000370800	-0.1193	1677	LUSC	-

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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
ENSG00000265666.1	ENST00000581080.1	104	1855	1541

	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