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lncRNA: ENSG00000182648

Summary for LINC01006

Gene summary

Gene information	Ensembl ID	ENSG00000182648
	Gene symbol	LINC01006
	Gene name	long intergenic non-protein coding RNA 1006
	HGNC	48971
	Entrez ID	100506380
	Gene type	lincRNA
	Synonyms	LINC01006\|07q36.3
	UniProtAcc	Q8NI28

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Structure and expression level for LINC01006

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
ENSG00000182648	4.807987e+02	1.045837e+00	2.513927e-01	4.160172e+00	3.180000e-05	2.743830e-04	UP	READ

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000182648	-5.553231e-01	1.622486e-08	KICH	8.382846e-08
ENSG00000182648	3.209596e-01	4.903790e-11	LIHC	2.016002e-10

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lncRNA-Protein interaction for LINC01006

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
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000167967	E4F1	78.46	90.3077	Q66K89	TF	NA
ENSG00000182648	ENST00000333319	LINC01006	ENSG00000135164	DMTF1	66.15	93.5361	Q9Y222	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000196670	ZFP62	46.97	92.1057	Q8NB50	TF	NA
ENSG00000182648	ENST00000333319	LINC01006	ENSG00000204231	RXRB	40.87	93.0714	P28702	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000198040	ZNF84	40.68	92.3406	P51523	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000164631	ZNF12	28.77	90.8965	P17014	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000198815	FOXJ3	28.29	91.2615	Q9UPW0	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000065029	ZNF76	17.79	90.5542	P36508	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000166526	ZNF3	15.16	90.4858	P17036	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000168661	ZNF30	13.76	92.5102	P17039	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000184939	ZFP90	13.47	90.6223	Q8TF47	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000177508	IRX3	13.23	90.3759	P78415	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000142065	ZFP14	9.13	91.1013	Q9HCL3	TF	NA
ENSG00000182648	ENST00000418309	LINC01006	ENSG00000196378	ZNF34	6.66	91.7298	Q8IZ26	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
ENSG00000182648	ENST00000333319	LINC01006	ENSG00000185163	DDX51	50.7	91.0557	Q8N8A6	RBP	NA
ENSG00000182648	ENST00000458645	LINC01006	ENSG00000106344	RBM28	56.8	90.9167	Q9NW13	RBP	NA

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lncRNA-DNA interaction for LINC01006

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

Only predicted by TDF

CNOT4,ZNF30,E2F6,CHTOP,TFAP4,ZNF22,SOX12,FOXJ3,RFX1,RBM48,TGIF2,PBX2,RBM39,EDC3,CENPT,GMEB2,NOL3,DZIP3,TEAD3,CIRBP,MEX3A,THAP8,OVOL2,ZFP62,CSTF1,ZXDC,IRX3,ZNF84,DMTF1,RXRB,TIGD6,TIGD1,TCFL5,RBM14,ERAL1,DDX51,RPP25,ADNP,IRX5,NFYC,MYCL,DHX34,RBM28,ZNF74,RARA,ZGPAT,CPSF4,FIZ1,RARG,PPIE,KLF11,XPO5,ZFP14,ZNF3,BARD1,ZNF34,MNX1,TDRKH,PATZ1,TEAD2

Exist in public source

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 LINC01006

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 Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

LOF

lncRNA targets by miRNA.

LncRNA Ensembl ID	miRNA ID	LncRNA ENST ID	Binding site in lncRNA	Score	Energy	Align Len	Public source
ENSG00000182648	hsa-mir-15a	ENST00000425712	chr7:156472428-156472514	172.00	-60.71	74	NA
ENSG00000182648	hsa-mir-15a	ENST00000425712	chr7:156472287-156472374	166.00	-57.63	85	NA
ENSG00000182648	hsa-mir-15a	ENST00000425712	chr7:156472782-156472857	155.00	-60.49	71	NA
ENSG00000182648	hsa-mir-15a	ENST00000425712	chr7:156472634-156472721	152.00	-62.16	82	NA
ENSG00000182648	hsa-mir-15a	ENST00000447933	chr7:156472264-156472340	182.00	-69.76	68	NA
ENSG00000182648	hsa-mir-15a	ENST00000447933	chr7:156472633-156472719	172.00	-60.71	74	NA
ENSG00000182648	hsa-mir-15a	ENST00000447933	chr7:156472324-156472417	155.00	-77.40	83	NA
ENSG00000182648	hsa-mir-15a	ENST00000447933	chr7:156472839-156472926	152.00	-62.16	82	NA
ENSG00000182648	hsa-mir-15a	ENST00000447933	chr7:156472461-156472545	143.00	-56.76	75	NA
ENSG00000182648	hsa-mir-15a	ENST00000458645	chr7:156584393-156584466	167.00	-66.07	75	NA
ENSG00000182648	hsa-mir-15a	ENST00000458645	chr7:156584699-156584782	167.00	-60.37	83	NA
ENSG00000182648	hsa-mir-15a	ENST00000458645	chr7:156584599-156584687	152.00	-57.59	87	NA
ENSG00000182648	hsa-mir-15a	ENST00000458645	chr7:156584193-156584281	147.00	-71.62	76	NA
ENSG00000182648	hsa-mir-15a	ENST00000418309	chr7:156603682-156603758	182.00	-69.76	68	NA
ENSG00000182648	hsa-mir-15a	ENST00000418309	chr7:156604122-156604203	174.00	-53.46	79	NA
ENSG00000182648	hsa-mir-15a	ENST00000418309	chr7:156603947-156604020	167.00	-66.07	75	NA
ENSG00000182648	hsa-mir-15a	ENST00000418309	chr7:156603742-156603835	155.00	-77.40	83	NA
ENSG00000182648	hsa-mir-15a	ENST00000440711	chr7:156605133-156605206	182.00	-69.76	68	NA
ENSG00000182648	hsa-mir-15a	ENST00000440711	chr7:156605190-156605283	155.00	-77.40	83	NA
ENSG00000182648	hsa-mir-15a	ENST00000440711	chr7:156605327-156605411	143.00	-56.76	75	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156639867-156639960	192.00	-56.75	88	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156640445-156640535	186.00	-57.08	89	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156639466-156639546	181.00	-56.29	66	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156639355-156639439	172.00	-57.56	82	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156639080-156639158	168.00	-61.25	83	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156640168-156640251	158.00	-64.70	86	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156638700-156638782	155.00	-72.84	85	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156640057-156640135	155.00	-53.07	81	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156640258-156640341	154.00	-65.99	73	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156639156-156639236	151.00	-65.78	71	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156638586-156638672	148.00	-77.22	82	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156638822-156638911	143.00	-78.06	82	NA
ENSG00000182648	hsa-mir-15a	ENST00000333319	chr7:156638956-156639042	142.00	-71.18	75	NA
ENSG00000182648	hsa-mir-15a	ENST00000435354	chr7:156639857-156639937	181.00	-56.29	66	NA
ENSG00000182648	hsa-mir-15a	ENST00000435354	chr7:156639746-156639830	172.00	-57.56	82	NA
ENSG00000182648	hsa-mir-15a	ENST00000435354	chr7:156639471-156639549	168.00	-61.25	83	NA
ENSG00000182648	hsa-mir-15a	ENST00000435354	chr7:156639547-156639627	151.00	-65.78	71	NA
ENSG00000182648	hsa-mir-15a	ENST00000624071	chr7:156640341-156640423	155.00	-72.84	85	NA
ENSG00000182648	hsa-mir-15a	ENST00000624071	chr7:156640227-156640313	148.00	-77.22	82	NA
ENSG00000182648	hsa-mir-15a	ENST00000624071	chr7:156640463-156640552	143.00	-78.06	82	NA

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Variants for LINC01006

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
ENSG00000182648.10	ENST00000425712.1	145	1312	1749
ENSG00000182648.10	ENST00000447933.4	88	272	6
ENSG00000182648.10	ENST00000458645.4	98	153	449
ENSG00000182648.10	ENST00000418309.1	104	103	417
ENSG00000182648.10	ENST00000440711.1	100	199	501
ENSG00000182648.10	ENST00000333319.6	90	26	298
ENSG00000182648.10	ENST00000435354.1	216	0	650
ENSG00000182648.10	ENST00000624071.1	112	119	457

	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