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lncRNA: ENSG00000274427

Summary for RP11-972P1.10

Gene summary

Gene information	Ensembl ID	ENSG00000274427
	Gene symbol	RP11-972P1.10
	Gene name
	HGNC
	Entrez ID
	Gene type	sense_intronic
	Synonyms
	UniProtAcc

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Structure and expression level for RP11-972P1.10

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
ENSG00000274427	1.130251e+01	3.104452e+00	6.719472e-01	4.620083e+00	3.840000e-06	2.250000e-05	UP	CHOL
ENSG00000274427	1.479414e+01	1.359052e+00	3.102244e-01	4.380866e+00	1.180000e-05	8.050000e-05	UP	BLCA
ENSG00000274427	2.004404e+01	1.120170e+00	2.530403e-01	4.426843e+00	9.560000e-06	3.540000e-05	UP	KIRP

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000274427	5.270757e-01	1.993030e-04	CHOL	5.079206e-04

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lncRNA-Protein interaction for RP11-972P1.10

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 RP11-972P1.10

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

Only predicted by TDF

TRIR,AGAP6,BLOC1S1,ARL16,SLIRP,NDUFS3,GEMIN8,BOLA3,ZBTB8OS,GLI4,DNAJC4,TRMU,MRPL55,EMG1,MRPS26,NMRAL1,NDUFB8,SH2B1,COX6B1,SEM1,C1orf159,DDX56,PET100,MZF1,NDUFA13,CDPF1,GADD45GIP1,SNRPD2,PPP2R3B,BCS1L,UBE2J2,C1orf35,KIAA0895L,C19orf53,MTIF3,ATAD3B,TRAPPC12,BCL7C,NDUFA11,KLHDC4,CCNL2,ARFGAP1,MIX23,CAPN10,PEDS1,PFDN2,CENATAC,NPEPL1,CLK3,SNRPA,SMUG1,TRAPPC2L,ZNHIT1,PHKG2,SARS2,FAAP20,POLR2J,NUTF2,PPP1R16A,C6orf136,LRRC75B,RFNG,INTS11,SURF2,DDTL,NDUFA3,TP53I13,PA2G4,CENPT,ZNF10,RECQL4,COQ4,MRPL24,SPRN,MICOS13,TAZ,SUGP1,SPG7,ANAPC7,KAT2A,ECI1,NAA38,BRICD5,TMEM223,PLA2G6,RAB4B,TAF1C,TMEM86B,UQCC2,CEBPZOS,DHX34,PSENEN,CHKB,UBL5,ITPA,NAA10,FBXO44,WDR83,ERMARD,ANKRD39,PCED1A,GEMIN7,HSPE1,GEMIN6,SLC25A29,MZT2B,PGP,MRPS15,CFAP298,DERL2,HDAC10,PFDN6,HSF4,INO80E,THOC6,ANKS3,ATP5MK,UCK1,C3orf62,YJU2,FBXL6,ALKBH2,RPL35,NDUFA2,AUP1,POLL,TAF10,FAM228B,ORMDL1,MIIP,RNF25,COX4I1,WASHC1,CHCHD10,PTRH2,FDX2,SGF29,TIGD1,KLC1,CRYGS,C12orf73,DDX51,YAE1,AGER,GPS2,MBD3,RPL36A,ESS2,COA8,DYRK4,THAP3,NOL12,SERF2,CLASRP,MZT2A,PSMG4,VPS28,MTLN,TRPT1,STAC3,ZNF593,ATG4B,GOLGA8B,MRPL57,RABEP2,MCRIP2,PTOV1,ZNF18,TMA7,GOLGA8A,FAM229A,PFDN5,BRAT1,PAM16,CCS,PELP1,MRPL27,UQCR10,COX6C,SETD4,NEIL1,FAM234A,KRTCAP2,FAM193B,MTG2,RNF215,NDUFB1,IDUA,DUSP28,SLC25A28,SREK1IP1,NAT9,POP5,NDUFA1,YPEL3,RNASEH2C,MYL5,LUC7L,KLHL17,METTL26,HEXD,SDHAF2,SCAND1,PPAN,DPH7,ANAPC11,CCDC24,TRA2A,ATP5F1D,UBXN11,APRT,CCDC12,DUS1L,PTCD1,PTRHD1,PPCDC,LRP5L,ERCC5,FASTK,SIRT6,MCRIP1,SDF2L1,ANKRD13D,CCDC57,TEPSIN,FAM174C,SRA1,NDUFAF8,ENKD1,FKBP2

Exist in public source

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

Only predicted by TDF

ANKRD39,LUC7L,MIIP,YDJC,MZF1,PTCD1,KLHDC4,UCK1,TMEM120B,DYRK4,DERL2,GADD45GIP1,PPCDC,ACCS,ITPA,COX6A1,NT5C,OXLD1,NDUFB1,NDUFS5,NMRAL1,FAM234A

Exist in public source

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

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lncRNA-RNA interaction for RP11-972P1.10

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

Only predicted by lncTar

CNOT1,SMAD1,CNIH1,ERGIC1,SEC24A,CTNNB1,TGOLN2,HBP1,RGP1,CSNK1A1,RNF123,CDK4,BECN1,KBTBD4,TAB2,RASA1,LRP10,ARL2BP,IQGAP1,DYNC1I2,PIP4K2C,SUN2,TOX4,ITFG1,STAT3,SMG6,TINF2,SF3A1,EIF4G1,ZFPL1,STK24,BCL9L,PSMC1,CLTC,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
ENSG00000274427	ENST00000610631	exon_skip_382458	chr3:38131595-38131638	-5.67	-0.2181	ACAA1	ENST00000333167	Frame-shift
ENSG00000274427	ENST00000610631	exon_skip_470226	chr7:103307595-103307708	-5.18	-0.1439	PMPCB	ENST00000249269	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 RP11-972P1.10

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
ENSG00000274427	ENSG00000005075	POLR2J	BLCA,CHOL,KIRP,OV,SKCM,TGCT,THCA,UCEC,UVM	KIRP
ENSG00000274427	ENSG00000007392	LUC7L	BLCA,CHOL,KIRP,SKCM,TGCT,THCA,UCEC,UVM	KIRP
ENSG00000274427	ENSG00000046647	GEMIN8	BLCA,CHOL,KIRP,THCA,UVM	CHOL
ENSG00000274427	ENSG00000077463	SIRT6	BLCA,CHOL,KIRP,TGCT,UCEC	CHOL
ENSG00000274427	ENSG00000100429	HDAC10	BLCA,CHOL,KIRP,SKCM,TGCT,THCA,UCEC,UCS	KIRP
ENSG00000274427	ENSG00000104835	SARS2	BLCA,CHOL,KIRP,SKCM,TGCT,THCA	BLCA
ENSG00000274427	ENSG00000108773	KAT2A	BLCA,CHOL,KIRP,SKCM,TGCT,THCA,UCEC,UVM	BLCA,KIRP
ENSG00000274427	ENSG00000116691	MIIP	BLCA,CHOL,KIRP,THCA,UCEC,UCS	BLCA
ENSG00000274427	ENSG00000123415	SMUG1	BLCA,KIRP,SKCM,THCA,UCS,UVM	BLCA
ENSG00000274427	ENSG00000124074	ENKD1	BLCA,CHOL,KIRP,THCA,UCEC,UCS	KIRP
ENSG00000274427	ENSG00000127415	IDUA	BLCA,CHOL,KIRP,THCA,UCEC	CHOL,KIRP
ENSG00000274427	ENSG00000127922	SEM1	BLCA,CHOL,KIRP,SKCM,TGCT,THCA,UCEC,UVM	KIRP
ENSG00000274427	ENSG00000128228	SDF2L1	BLCA,CHOL,KIRP,THCA,UVM	BLCA
ENSG00000274427	ENSG00000130731	METTL26	BLCA,CHOL,KIRP,SKCM,TGCT,THCA,UCEC,UCS	KIRP
ENSG00000274427	ENSG00000132522	GPS2	BLCA,CHOL,KIRP,SKCM,TGCT,THCA,UCEC,UCS,UVM	KIRP
ENSG00000274427	ENSG00000142330	CAPN10	BLCA,CHOL,KIRP,UCEC,UCS,UVM	CHOL
ENSG00000274427	ENSG00000143793	C1orf35	BLCA,CHOL,KIRP,OV,TGCT,UCS,UVM	BLCA
ENSG00000274427	ENSG00000158062	UBXN11	BLCA,CHOL,KIRP,THCA,UCS	BLCA,CHOL,KIRP
ENSG00000274427	ENSG00000160972	PPP1R16A	BLCA,CHOL,KIRP,THCA,UCS	BLCA
ENSG00000274427	ENSG00000167543	TP53I13	BLCA,CHOL,KIRP,UCEC,UCS	KIRP
ENSG00000274427	ENSG00000167930	FAM234A	BLCA,CHOL,KIRP,THCA,UCS	KIRP
ENSG00000274427	ENSG00000168096	ANKS3	BLCA,CHOL,KIRP,THCA,UCEC,UCS,UVM	CHOL,KIRP
ENSG00000274427	ENSG00000168569	TMEM223	BLCA,CHOL,KIRP,SKCM,THCA,UCS,UVM	BLCA
ENSG00000274427	ENSG00000173272	MZT2A	BLCA,CHOL,KIRP,SKCM,THCA,UCEC,UCS,UVM	KIRP
ENSG00000274427	ENSG00000175265	GOLGA8A	BLCA,KIRP,TGCT,UCEC,UCS	BLCA,KIRP
ENSG00000274427	ENSG00000177548	RABEP2	BLCA,CHOL,KIRP,UCEC,UCS	CHOL
ENSG00000274427	ENSG00000180089	TMEM86B	BLCA,CHOL,KIRP,TGCT,THCA,UCEC,UCS	KIRP
ENSG00000274427	ENSG00000182325	FBXL6	BLCA,KIRP,SKCM,TGCT,THCA,UCEC,UCS	BLCA
ENSG00000274427	ENSG00000182685	BRICD5	BLCA,CHOL,KIRP,TGCT,THCA,UCEC	BLCA
ENSG00000274427	ENSG00000185482	STAC3	BLCA,CHOL,KIRP,TGCT,UCEC	BLCA,KIRP
ENSG00000274427	ENSG00000185917	SETD4	BLCA,CHOL,KIRP,THCA,UCEC,UVM	CHOL
ENSG00000274427	ENSG00000186166	CENATAC	BLCA,KIRP,TGCT,THCA,UCEC,UCS,UVM	KIRP
ENSG00000274427	ENSG00000187961	KLHL17	BLCA,KIRP,UCEC,UCS,UVM	BLCA
ENSG00000274427	ENSG00000196123	KIAA0895L	BLCA,KIRP,THCA,UCEC,UVM	KIRP
ENSG00000274427	ENSG00000197119	SLC25A29	BLCA,CHOL,KIRP,TGCT,THCA	CHOL
ENSG00000274427	ENSG00000198931	APRT	BLCA,CHOL,KIRP,UCEC,UCS	KIRP
ENSG00000274427	ENSG00000203772	SPRN	BLCA,CHOL,KIRP,TGCT,THCA,UCEC,UCS	BLCA
ENSG00000274427	ENSG00000204149	AGAP6	BLCA,KIRP,SKCM,TGCT,THCA,UCEC,UVM	KIRP
ENSG00000274427	ENSG00000204305	AGER	BLCA,CHOL,KIRP,TGCT,UCEC,UCS,UVM	CHOL,KIRP
ENSG00000274427	ENSG00000213139	CRYGS	BLCA,CHOL,KIRP,TGCT,UCEC	BLCA,CHOL,KIRP
ENSG00000274427	ENSG00000215252	GOLGA8B	BLCA,KIRP,SKCM,TGCT,UCEC,UVM	BLCA,KIRP
ENSG00000274427	ENSG00000215375	MYL5	BLCA,CHOL,KIRP,THCA,UCEC	KIRP
ENSG00000274427	ENSG00000215440	NPEPL1	BLCA,CHOL,KIRP,THCA,UCEC,UCS,UVM	CHOL
ENSG00000274427	ENSG00000221978	CCNL2	BLCA,KIRP,TGCT,UCEC,UCS	BLCA,KIRP
ENSG00000274427	ENSG00000241343	RPL36A	BLCA,CHOL,KIRP,SKCM,TGCT,UCEC,UCS	CHOL,KIRP
ENSG00000274427	ENSG00000273899	NOL12	BLCA,CHOL,KIRP,OV,TGCT,THCA,UCEC,UVM	CHOL
ENSG00000274427	ENSG00000102125	TAZ	CHOL,KIRP,THCA,UCEC,UVM	KIRP
ENSG00000274427	ENSG00000102898	NUTF2	CHOL,KIRP,SKCM,THCA,UCS,UVM	KIRP
ENSG00000274427	ENSG00000141378	PTRH2	CHOL,KIRP,OV,UCS,UVM	KIRP
ENSG00000274427	ENSG00000178026	LRRC75B	KIRP,THCA,UCEC,UCS,UVM	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	dG	nDG	Cancer with PC gene up-regulation	Cancer with PC gene Down-regulation
ENSG00000274427	ENST00000610631	CNIH1	ENSG00000100528	ENST00000556113	-0.1840	1	-	CHOL
ENSG00000274427	ENST00000610631	SEC24A	ENSG00000113615	ENST00000322887	-0.3094	1	-	CHOL
ENSG00000274427	ENST00000610631	RNF123	ENSG00000164068	ENST00000327697	-0.1921	1	-	CHOL
ENSG00000274427	ENST00000610631	RNF123	ENSG00000164068	ENST00000432042	-0.1391	83	-	CHOL
ENSG00000274427	ENST00000610631	RNF123	ENSG00000164068	ENST00000433785	-0.1921	1	-	CHOL

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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
ENSG00000274427.1	ENST00000610631.1	152	3624	3166

	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