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lncRNA: ENSG00000130600

Summary for H19

Gene summary

Gene information	Ensembl ID	ENSG00000130600
	Gene symbol	H19
	Gene name	H19 imprinted maternally expressed transcript
	HGNC	4713
	Entrez ID	283120
	Gene type	processed_transcript
	Synonyms	H19\|11p15.5
	UniProtAcc

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Structure and expression level for H19

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
ENSG00000130600	2.086856e+03	7.253854e+00	1.069760e+00	6.780826e+00	1.190000e-11	2.870000e-10	UP	GBM
ENSG00000130600	5.746682e+03	-3.486678e+00	7.449678e-01	-4.680307e+00	2.860000e-06	1.730000e-05	DOWN	CHOL
ENSG00000130600	2.767926e+03	1.212772e+00	2.425505e-01	5.000082e+00	5.730000e-07	1.390000e-06	UP	KIRC
ENSG00000130600	3.282605e+04	2.705507e+00	5.814362e-01	4.653144e+00	3.270000e-06	2.560000e-05	UP	BLCA
ENSG00000130600	1.193055e+04	-1.371839e+00	3.306560e-01	-4.148840e+00	3.340000e-05	1.182940e-04	DOWN	HNSC
ENSG00000130600	5.358229e+02	-1.062471e+00	2.719067e-01	-3.907485e+00	9.330000e-05	2.883750e-04	DOWN	KIRP
ENSG00000130600	6.867007e+03	2.746787e+00	6.524008e-01	4.210276e+00	2.550000e-05	4.190360e-04	UP	ESCA
ENSG00000130600	2.977776e+02	-1.074769e+00	3.232046e-01	-3.325352e+00	8.830710e-04	2.281904e-03	DOWN	PRAD
ENSG00000130600	4.829687e+03	2.907213e+00	3.584517e-01	8.110473e+00	5.040000e-16	2.620000e-15	UP	LUSC
ENSG00000130600	2.042198e+03	2.228070e+00	3.229803e-01	6.898471e+00	5.260000e-12	2.890000e-11	UP	LUAD
ENSG00000130600	1.465767e+03	3.613439e+00	3.470987e-01	1.041041e+01	2.220000e-25	4.370000e-24	UP	COAD
ENSG00000130600	5.770837e+03	2.270540e+00	4.181849e-01	5.429512e+00	5.650000e-08	4.790000e-07	UP	STAD
ENSG00000130600	2.575718e+03	4.298961e+00	7.576978e-01	5.673715e+00	1.400000e-08	2.780000e-07	UP	READ

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID

Correlation

P-value

Cancer Type

Adjc.p-value

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lncRNA-Protein interaction for H19

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

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

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lncRNA-DNA interaction for H19

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

Only predicted by TDF

LOXL2,TBX3,LUM,SOCS3,ARHGEF19,POGLUT2,MFAP2,CFI,IGFBP4,COL9A3,ANKRD65,MEST,PACSIN3,PTGIS,C1QTNF6,NES,CDC42EP5,CDKN1C,OBSL1,BGN,APOD,PCOLCE

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 H19

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
ENSG00000130600	ENST00000447298	exon_skip_376144	chr3:100311832-100311877	-6.71	-0.2314	TBC1D23	ENST00000394144	In-frame
ENSG00000130600	ENST00000447298	exon_skip_382356	chr3:37091466-37091538	-10.30	-0.2711	LRRFIP2	ENST00000336686	In-frame
ENSG00000130600	ENST00000447298	exon_skip_508298	chr9:136445051-136445111	-7.50	-1.2500	SEC16A	ENST00000313050	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
ENSG00000130600	ENST00000431095	exon_skip_430601	chr4:82842139-82842481	-49.82	-0.1519	SEC31A	ENST00000355196,ENST00000395310,ENST00000448323	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 H19

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
ENSG00000130600	ENSG00000092758	COL9A3	BRCA,CHOL,DLBC,LGG,PAAD,STAD,TGCT	STAD
ENSG00000130600	ENSG00000106333	PCOLCE	CHOL,GBM,TGCT,THCA,THYM	GBM	CHOL
ENSG00000130600	ENSG00000141753	IGFBP4	CHOL,GBM,KICH,TGCT,THYM,UCS	GBM	CHOL
ENSG00000130600	ENSG00000184557	SOCS3	CHOL,KICH,TGCT,THYM,UCS		CHOL
ENSG00000130600	ENSG00000205403	CFI	CHOL,DLBC,TGCT,THYM,UCS		CHOL
ENSG00000130600	ENSG00000134013	LOXL2	DLBC,GBM,KIRC,THCA,THYM	GBM,KIRC
ENSG00000130600	ENSG00000133466	C1QTNF6	ESCA,GBM,TGCT,THCA,THYM	ESCA,GBM
ENSG00000130600	ENSG00000106484	MEST	GBM,KIRC,PAAD,READ,STAD,TGCT,THYM	GBM,READ,STAD
ENSG00000130600	ENSG00000117122	MFAP2	GBM,STAD,TGCT,THCA,THYM	GBM,STAD
ENSG00000130600	ENSG00000134901	POGLUT2	GBM,KICH,STAD,TGCT,THCA,UCEC	GBM
ENSG00000130600	ENSG00000139329	LUM	GBM,KICH,TGCT,THCA,THYM	GBM
ENSG00000130600	ENSG00000142632	ARHGEF19	GBM,KICH,KIRP,PAAD,STAD,TGCT	GBM
ENSG00000130600	ENSG00000167617	CDC42EP5	GBM,KICH,KIRP,TGCT,THCA,THYM	GBM
ENSG00000130600	ENSG00000182492	BGN	GBM,KICH,TGCT,THCA,THYM	GBM
ENSG00000130600	ENSG00000235098	ANKRD65	KICH,KIRC,KIRP,LGG,STAD,TGCT,THCA		KIRP

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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
ENSG00000130600.14	ENST00000414790.4	114	158	502
ENSG00000130600.14	ENST00000442037.4	256	658	1428
ENSG00000130600.14	ENST00000411861.4	152	779	321
ENSG00000130600.14	ENST00000439725.4	256	0	770
ENSG00000130600.14	ENST00000412788.4	356	243	1313
ENSG00000130600.14	ENST00000422826.1	256	597	1367
ENSG00000130600.14	ENST00000446406.4	180	580	1122
ENSG00000130600.14	ENST00000417089.4	144	1609	1175
ENSG00000130600.14	ENST00000411754.4	173	75	596
ENSG00000130600.14	ENST00000431095.4	297	36	929
ENSG00000130600.14	ENST00000436715.4	201	17	622
ENSG00000130600.14	ENST00000428066.4	88	471	737
ENSG00000130600.14	ENST00000447298.1	173	106	627

	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