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lncRNA: ENSG00000274460

Summary for CTD-2649C14.2

Gene summary

Gene information	Ensembl ID	ENSG00000274460
	Gene symbol	CTD-2649C14.2
	Gene name
	HGNC
	Entrez ID
	Gene type	processed_transcript
	Synonyms
	UniProtAcc

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Structure and expression level for CTD-2649C14.2

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
ENSG00000274460	5.773011e+01	2.632528e+00	4.083305e-01	6.447051e+00	1.140000e-10	1.480000e-09	UP	CHOL
ENSG00000274460	7.737346e+01	2.058924e+00	2.569535e-01	8.012825e+00	1.120000e-15	1.690000e-14	UP	KIRP
ENSG00000274460	4.762987e+01	1.022494e+00	1.708215e-01	5.985748e+00	2.150000e-09	1.120000e-08	UP	COAD
ENSG00000274460	4.991065e+01	1.617222e+00	3.060738e-01	5.283766e+00	1.270000e-07	1.990000e-06	UP	READ

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000274460	6.203896e-01	5.474038e-06	CHOL	5.480555e-05

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lncRNA-Protein interaction for CTD-2649C14.2

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
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000168137	SETD5	100.44	95.1822	Q9C0A6	Epi	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000087206	UIMC1	56.66	92.706	Q96RL1	Epi	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000011258	MBTD1	18.53	90.4944	Q05BQ5	Epi	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000108799	EZH1	62.65	93.2473	Q92800	Epi	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000120071	KANSL1	39.81	95.134	Q7Z3B3	Epi	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000103510	KAT8	7.52	90.3796	Q9H7Z6	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
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000130254	SAFB2	86.32	94.9833	Q14151	TF,RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000099326	MZF1	75.76	94.0357	P28698	TF	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000196670	ZFP62	52.35	93.5927	Q8NB50	TF	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000167766	ZNF83	7.94	90.5072	P51522	TF	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000221944	TIGD1	7.84	91.1404	Q96MW7	TF	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000187815	ZFP69	6.44	93.6294	Q49AA0	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
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000130254	SAFB2	86.32	94.9437	Q14151	TF,RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000004534	RBM6	84.79	95.3232	P78332	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000163728	TTC14	83.88	94.4152	Q96N46	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000064607	SUGP2	83.81	94.7448	Q8IX01	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000003756	RBM5	82.33	95.1455	P52756	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000100201	DDX17	56.29	92.2827	Q92841	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000135870	RC3H1	53.27	95.0315	Q5TC82	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000129351	ILF3	38.95	96.3212	Q12906	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000127993	RBM48	16.44	91.7633	Q5RL73	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000162231	NXF1	9.74	94.0347	Q9UBU9	RBP	NA
ENSG00000274460	ENST00000616774	CTD-2649C14.2	ENSG00000185946	RNPC3	9.65	90.2673	Q96LT9	RBP	NA

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lncRNA-DNA interaction for CTD-2649C14.2

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

Only predicted by TDF

AGAP6,ARHGEF1,ATAT1,VAMP1,GABPB2,PLCG1,ILF3,TRIM66,TTC17,RBM39,LENG8,SH2B1,TMEM267,PRR3,NICN1,MZF1,UBE2G2,NRF1,IP6K2,ZXDC,MAPK8IP3,ARIH2,KAT8,INTS3,TRIM39,SUGP2,N4BP2L2,PPWD1,DMTF1,PIGL,UIMC1,TAF1D,UNKL,ATG12,CSAD,KIAA0895L,CDK5RAP1,DCAF8,SLX4IP,KLHDC4,PHYKPL,SF3B1,GATAD1,CCNL2,CAPN10,CENATAC,NPEPL1,FAM111A,RNPC3,OGA,ZFP69,ANKRD10,WDR5B,SAFB2,NUP42,MSANTD2,TUBGCP6,PAN3,ANKMY1,CCDC14,WDR59,TFAP4,CLK4,KANSL3,PHF12,SUPT7L,ZBED5,ZMYM5,TAMM41,CENPT,TTC14,KNTC1,S100PBP,RANBP6,CCNT2,SNRNP48,OSBPL7,RC3H1,TAZ,SPG7,POGZ,USP7,LTO1,RBM4B,EXOG,OGT,RBM26,PLA2G6,TAF1C,CLK2,NCOA5,RBM25,TEFM,POLG2,IFT80,CEP83,GGNBP2,BBIP1,CLK1,PRPF39,EZH1,GABPB1,ERMARD,ELMOD3,DDX17,OFD1,ACYP1,SRRM2,SLX4,FCHSD1,TMEM243,MTRF1,PABIR2,DYNLT2,ZC3H8,CEP44,HSF4,INO80E,FANCF,ARGLU1,ANKS3,ANKRD49,C3orf62,CCNL1,SETD5,ZFP62,TADA2A,FNBP4,C12orf76,INPP5E,ORMDL1,KRI1,PHF11,RSRP1,SSH2,TIGD1,RBM45,HSPBAP1,TRIM52,AGER,FAM149B1,NOL12,CLASRP,SRSF2,TTC13,CDK11A,CWC25,TTC32,MICAL1,TIA1,ZNF83,GOLGA8B,HEMK1,SUPT20H,KANSL1,SPATA33,NXF1,DCUN1D2,NR2C2,PAN2,DIDO1,DDX11,CYP2R1,PAM16,C2orf68,NEIL1,RBM6,GIGYF1,TRMT13,ZNF862,RBM48,FAM193B,AARSD1,DUSP28,RBM5,AXIN1,NKTR,ZFC3H1,CRAMP1,LUC7L,ARHGAP33,MBTD1,PNN,COA5,LUC7L2,BRD8,TTLL3,EPM2AIP1,ARHGEF7,CENPJ,PARP6,PSME3IP1,WDR27,WDR33,EME2,POLM,KHDC4,KATNIP,ASXL1,ERCC5,HPS4,PNISR,GEN1,DXO,USPL1,CARD8,TRAPPC2,TEPSIN,RBM33,HERC4,NOL8

Exist in public source

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

Only predicted by TDF

DCAF8,MAPK8IP3,ZC3H11A,HEMK1,MZF1,ING5,FAM122B,WDR60,S100PBP,KIAA0907,AARSD1,SUN1,CBFB,ACCS,C2orf68,MDM4,STX16

Exist in public source

lncRNA targets the promoter region and negatively regulates the gene expression.

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lncRNA-RNA interaction for CTD-2649C14.2

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 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
ENSG00000274460	ENST00000616774	exon_skip_382458	chr3:38131595-38131638	-7.94	-0.2561	ACAA1	ENST00000333167	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 CTD-2649C14.2

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
ENSG00000274460	ENSG00000004777	ARHGAP33	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL,READ
ENSG00000274460	ENSG00000006025	OSBPL7	CHOL,DLBC,KIRP,READ,THYM	CHOL,KIRP
ENSG00000274460	ENSG00000007545	CRAMP1	CHOL,COAD,DLBC,KIRP,READ	CHOL
ENSG00000274460	ENSG00000046651	OFD1	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL
ENSG00000274460	ENSG00000047578	KATNIP	CHOL,COAD,DLBC,KIRP,READ	CHOL
ENSG00000274460	ENSG00000068885	IFT80	CHOL,COAD,DLBC,KIRP,THYM	CHOL
ENSG00000274460	ENSG00000076928	ARHGEF1	CHOL,DLBC,KIRP,READ,THYM	CHOL
ENSG00000274460	ENSG00000101391	CDK5RAP1	CHOL,COAD,KIRP,READ,THYM	COAD,READ
ENSG00000274460	ENSG00000102125	TAZ	CHOL,COAD,DLBC,KIRP,THYM	KIRP
ENSG00000274460	ENSG00000103126	AXIN1	CHOL,DLBC,KIRP,READ,THYM	KIRP
ENSG00000274460	ENSG00000103168	TAF1C	CHOL,COAD,DLBC,KIRP,READ,THYM	READ
ENSG00000274460	ENSG00000119640	ACYP1	CHOL,COAD,KIRP,READ,THYM	CHOL
ENSG00000274460	ENSG00000122678	POLM	CHOL,DLBC,KIRP,READ,THYM	READ
ENSG00000274460	ENSG00000124181	PLCG1	CHOL,COAD,DLBC,KIRP,READ,THYM	READ
ENSG00000274460	ENSG00000132680	KHDC4	CHOL,COAD,DLBC,KIRP,READ	CHOL,READ
ENSG00000274460	ENSG00000135596	MICAL1	CHOL,DLBC,KIRP,READ,THYM	CHOL,KIRP
ENSG00000274460	ENSG00000137343	ATAT1	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL,COAD,READ
ENSG00000274460	ENSG00000138834	MAPK8IP3	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL,KIRP,READ
ENSG00000274460	ENSG00000141298	SSH2	CHOL,COAD,DLBC,KIRP,THYM	KIRP
ENSG00000274460	ENSG00000142330	CAPN10	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL,READ
ENSG00000274460	ENSG00000143643	TTC13	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL
ENSG00000274460	ENSG00000144559	TAMM41	CHOL,COAD,KIRP,READ,THYM	READ
ENSG00000274460	ENSG00000146830	GIGYF1	CHOL,COAD,DLBC,KIRP,READ	READ
ENSG00000274460	ENSG00000147162	OGT	CHOL,COAD,DLBC,KIRP,READ	READ
ENSG00000274460	ENSG00000148384	INPP5E	CHOL,DLBC,KIRP,READ,THYM	READ
ENSG00000274460	ENSG00000149716	LTO1	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL
ENSG00000274460	ENSG00000151849	CENPJ	CHOL,COAD,KIRP,READ,THYM	CHOL,COAD,READ
ENSG00000274460	ENSG00000151881	TMEM267	CHOL,COAD,DLBC,KIRP,THYM	CHOL
ENSG00000274460	ENSG00000152520	PAN3	CHOL,COAD,DLBC,KIRP,THYM	COAD
ENSG00000274460	ENSG00000166012	TAF1D	CHOL,COAD,KIRP,READ,THYM	CHOL,COAD,KIRP,READ
ENSG00000274460	ENSG00000167523	SPATA33	CHOL,COAD,KIRP,READ,THYM	CHOL,COAD,READ
ENSG00000274460	ENSG00000167615	LENG8	CHOL,COAD,DLBC,KIRP,READ	CHOL,READ
ENSG00000274460	ENSG00000168096	ANKS3	CHOL,COAD,DLBC,KIRP,READ	CHOL,KIRP,READ
ENSG00000274460	ENSG00000171456	ASXL1	CHOL,COAD,KIRP,READ,THYM	READ
ENSG00000274460	ENSG00000175455	CCDC14	CHOL,COAD,DLBC,KIRP,READ,THYM	KIRP
ENSG00000274460	ENSG00000184445	KNTC1	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL,COAD,KIRP,READ
ENSG00000274460	ENSG00000184465	WDR27	CHOL,COAD,DLBC,KIRP,READ	COAD,KIRP,READ
ENSG00000274460	ENSG00000184786	DYNLT2	CHOL,COAD,DLBC,READ,THYM	COAD,READ
ENSG00000274460	ENSG00000186166	CENATAC	CHOL,COAD,DLBC,KIRP,READ,THYM	KIRP,READ
ENSG00000274460	ENSG00000196123	KIAA0895L	CHOL,COAD,DLBC,KIRP,READ,THYM	KIRP,READ
ENSG00000274460	ENSG00000197774	EME2	CHOL,COAD,DLBC,KIRP,READ	CHOL,COAD,KIRP,READ
ENSG00000274460	ENSG00000197948	FCHSD1	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL,KIRP
ENSG00000274460	ENSG00000204149	AGAP6	CHOL,COAD,DLBC,KIRP,READ,THYM	KIRP,READ
ENSG00000274460	ENSG00000204305	AGER	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL,KIRP
ENSG00000274460	ENSG00000204348	DXO	CHOL,COAD,DLBC,KIRP,READ,THYM	READ
ENSG00000274460	ENSG00000214021	TTLL3	CHOL,COAD,KIRP,READ,THYM	CHOL,KIRP,READ
ENSG00000274460	ENSG00000215252	GOLGA8B	CHOL,COAD,DLBC,KIRP,READ,THYM	COAD,KIRP,READ
ENSG00000274460	ENSG00000215440	NPEPL1	CHOL,COAD,DLBC,KIRP,READ	CHOL,COAD,READ
ENSG00000274460	ENSG00000221978	CCNL2	CHOL,COAD,DLBC,KIRP,READ,THYM	KIRP,READ
ENSG00000274460	ENSG00000256525	POLG2	CHOL,COAD,DLBC,KIRP,READ,THYM	KIRP,READ
ENSG00000274460	ENSG00000273899	NOL12	CHOL,COAD,DLBC,KIRP,READ,THYM	CHOL

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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
ENSG00000274460	ENSG00000221944	TIGD1	ENSG00000132716	DCAF8	5	CHOL,COAD,DLBC,KIRP,READ
ENSG00000274460	ENSG00000221944	TIGD1	ENSG00000132680	KHDC4	5	CHOL,COAD,DLBC,KIRP,READ
ENSG00000274460	ENSG00000221944	TIGD1	ENSG00000266967	AARSD1	5	CHOL,COAD,DLBC,KIRP,READ

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
ENSG00000274460.1	ENST00000616774.1	94	785	1069

	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