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Center for Computational Systems Medicine
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lncRNA summary

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lncRNA structure and expression level

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lncRNA-Protein interaction

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lncRNA-DNA interaction

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lncRNA-RNA interaction

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Variants in lncRNA

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lncRNAs regulate the target genes through functioning as enhancers

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lncRNAs regulate the target genes through recruiting transcript factors

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lncRNAs regulate the alternative splicing events through interacting with splicing factor

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lncRNAs regulate mRNA through targeting the 3'-UTR region

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lncRNAs regulate mRNA by competing with miRNA

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lncRNA coding potential

lncRNA: ENSG00000277476

Summary for RP11-147L13.13

check button Gene summary

Gene informationEnsembl ID

ENSG00000277476

Gene symbol

RP11-147L13.13

Gene name
HGNC
Entrez ID
Gene typelincRNA
Synonyms
UniProtAcc

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Structure and expression level for RP11-147L13.13

check buttonDifferentially expressed gene analysis between cancer and normal samples.
DEG result
Ensembl IDBase meanlog2FC(AD/control)lfcSEStatP-valueAdjc.p-valueDEG direction Cancer type
ENSG000002774762.767841e+021.331386e+002.418144e-015.505817e+003.670000e-083.150000e-07UPCHOL
ENSG000002774762.783138e+021.236967e+009.132685e-021.354439e+018.550000e-421.470000e-40UPKIRC
ENSG000002774763.529554e+021.148724e+001.526739e-017.524040e+005.310000e-146.480000e-13UPKIRP
ENSG000002774761.970138e+021.586421e+001.221028e-011.299250e+011.350000e-381.320000e-36UPLIHC

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value
ENSG000002774765.247258e-012.153317e-04CHOL5.354124e-04
ENSG000002774763.225415e-013.471091e-16KIRC1.695685e-15
ENSG000002774764.512113e-011.858754e-21LIHC3.438695e-19

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lncRNA-Protein interaction for RP11-147L13.13

lncrna_protein
check buttonlncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).
Epi result
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000155363MOV1075.8691.848Q9HCE1RBP,EpiNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000173120KDM2A48.3693.2912Q9Y2K7TF,EpiNA

check buttonlncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).
TF result
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000236287ZBED568.2293.5792Q49AG3TFNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000175727MLXIP64.6894.7449Q9HAP2TFNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000166888STAT659.8992.0076P42226TFNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000170581STAT255.9195.0702P52630TFNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000173120KDM2A48.3693.2705Q9Y2K7TF,EpiNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000141258SGSM248.3494.4306O43147TFNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000143157POGK44.6991.0691Q9P215TFNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000102878HSF428.3691.567Q9ULV5TFNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000074219TEAD214.7892.2468Q15562TFNA

check buttonlncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).
RBP result
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000155363MOV1075.8691.5817Q9HCE1RBP,EpiNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000155636RBM4534.8990.6241Q8IUH3RBPNA
ENSG00000277476ENST00000622750RP11-147L13.13ENSG00000185946RNPC326.9990.6154Q96LT9RBPNA

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lncRNA-DNA interaction for RP11-147L13.13

lncrna_DNA
check buttonlncRNA targets the enhancer region and positively regulates the gene expression.
Only predicted by TDF
ZNF30,ILF3,GLI4,PBX2,RBM39,JMJD6,CIRBP,TIGD5,MZF1,MYSM1,NRF1,ZXDC,SUGP2,DMTF1,ZNF70,CENPB,RBM28,ZNF74,STAT2,TET3,ZFP14,RNPC3,TFE3,SAFB2,THOC1,MNT,TFAP4,ZBED5,CENPT,TTC14,ZGLP1,ZBED3,RC3H1,ZNF44,SRSF4,AGO2,RBM4B,CPSF1,PURB,MYEF2,MBD1,IKZF4,RARA,CPSF4,CPSF7,CXXC1,ZNF34,MOV10,DDX17,SRRM2,E2F6,PRR12,MECP2,PHF1,FOXJ3,ZC3H8,DEAF1,RBM41,HSF4,MEX3A,ZFP62,MEX3D,SGSM2,WIZ,SCMH1,RBM45,TIGD1,AGO3,PCBP4,MBD6,ZGPAT,FIZ1,ZMAT1,ZNF83,NXF1,ZNF8,ZNF18,HNF1B,NR2C2,PCGF2,SIX5,TEAD2,STAT6,DDX11,SOX12,ARNT,RBM6,HMGN3,RFX1,NOL3,RBM5,SRCAP,DOT1L,ZNF84,DDX42,RXRB,TRA2A,AHDC1,ZNF69,HINFP,NR2C1,ZFP3,SFPQ,RBM33
Exist in public source
NA

check buttonlncRNA targets the promoter region and positively regulates the gene expression.
Only predicted by TDF
DOT1L,SRSF4,ZGLP1,DDX17,HSF4,MZF1,MLXIP,GLI4,NOL3,AGO2,RBM5,CXXC1,ZMAT1,RBM33,FOXO4,RBMS2,JMJD6,TFAP4,RARA,ZNF69,CPSF7,FOXK1,MEX3A,ILF3,RBM6,WIZ,PBX2,ZFP3,ZNF70,AGO4,RBM39,PCGF2,FOXJ2,FOXK2,BPTF,CIRBP,MEX3D
Exist in public source
NA

check buttonlncRNA targets the promoter region and negatively regulates the gene expression.

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lncRNA-RNA interaction for RP11-147L13.13

lncrna_RNA
check buttonlncRNA targets the 3'UTR region and negatively regulates the mRNA.

check buttonlncRNA targets the skipped exon region.
-lncRNA and exonskipping events are positively correlated.
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonORF mutation

-lncRNA and exonskipping events are negatively correlated.
lncRNA and exonskipping events negative correlated
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonLOF
ENSG00000277476ENST00000622750exon_skip_470226chr7:103307595-103307708-14.98-0.1400PMPCBENST00000249269Frame-shift
ENSG00000277476ENST00000622750exon_skip_382458chr3:38131595-38131638-11.33-0.3062ACAA1ENST00000333167Frame-shift
ENSG00000277476ENST00000622750exon_skip_9446chr1:147270931-147271005-12.43-0.1883CHD1LENST00000369258Frame-shift
ENSG00000277476ENST00000622750exon_skip_38175chr1:234398381-234398553-18.58-0.1408TARBP1ENST00000040877Frame-shift
ENSG00000277476ENST00000622750exon_skip_111863chr14:23565815-23565892-22.72-0.3725AP1G2ENST00000308724,ENST00000397120Frame-shift
ENSG00000277476ENST00000622750exon_skip_114365chr14:74290026-74290118-21.42-0.3060ABCD4ENST00000356924Frame-shift
ENSG00000277476ENST00000622750exon_skip_139422chr16:89114338-89114487-28.27-0.2209ACSF3ENST00000317447,ENST00000406948Frame-shift
ENSG00000277476ENST00000622750exon_skip_290158chr17:42953723-42953778-11.98-0.2662AARSD1ENST00000427569Frame-shift
ENSG00000277476ENST00000622750exon_skip_302168chr19:10680345-10680443-14.17-0.1749ILF3ENST00000590261Frame-shift
ENSG00000277476ENST00000622750exon_skip_327748chr2:95410863-95411026-31.88-0.2070FAHD2AENST00000233379,ENST00000447036Frame-shift
ENSG00000277476ENST00000622750exon_skip_370518chr22:50247691-50247776-23.46-0.2861HDAC10ENST00000216271Frame-shift
ENSG00000277476ENST00000622750exon_skip_380242chr3:186784961-186785101-19.89-0.2801EIF4A2ENST00000323963Frame-shift
ENSG00000277476ENST00000622750exon_skip_436035chr5:79656957-79657001-12.16-0.2764TENT2ENST00000296783,ENST00000428308,ENST00000453514Frame-shift
ENSG00000277476ENST00000622750exon_skip_442657chr5:74730259-74730398-16.37-0.1289GFM2ENST00000296805,ENST00000509430Frame-shift
ENSG00000277476ENST00000622750exon_skip_446770chr5:178215275-178215430-28.26-0.2019PHYKPLENST00000308158Frame-shift
ENSG00000277476ENST00000622750exon_skip_462144chr6:125298713-125298816-17.14-0.1785HDDC2ENST00000398153Frame-shift
ENSG00000277476ENST00000622750exon_skip_462160chr6:127316449-127316502-10.61-0.4613ECHDC1ENST00000531967Frame-shift
ENSG00000277476ENST00000622750exon_skip_511212chrX:71555189-71555385-26.97-0.1586OGTENST00000373719Frame-shift

check buttonlncRNA targets by miRNA.
LncRNA Ensembl IDmiRNA IDLncRNA ENST IDBinding site in lncRNAScoreEnergyAlign LenPublic source

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Variants for RP11-147L13.13

check buttonRNA A-to-I editing events in lncRNA.
LncRNAediting IDLncRNA Ensembl IDChromosomeEditing PositionStrandGene TypeGene NameTranscript IDTranscript TypeTranscript Name

check buttonEdited-associated DElncRNAs in cancer.
LncRNA Ensembl IDLncRNA IndexCancer TypeChr_Postion_StrandAVE1AVE2log2FCW-valueP-valueAdjc.p-valueChange

check buttonCorrelation between RNA A-to-I editing events's frequecy and lncRNA expression.
LncRNA Ensembl IDLncRNA IndexCorrelationP-valueAdjc.p-value

check buttonCis-expression quantitative trait loci(cis-eQTL) of lncRNA.
LncRNA Ensembl IDLncRNA NameSNP infoNumber of Positive corelated CancerPositive corelated CancerNumber of Negative corelated CancerNegative corelated Cancer

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lncRNAs regulate the target genes through functioning as enhancers

lncrna_enhancer
check buttonlncRNA regulates differentially expressed genes by function as enhancer.
LncRNA Ensembl IDPC Gene IDPC Gene NamePositive correlated cancersCancer with PC gene up-regulationCancer with PC gene down-regulation

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lncRNAs regulate the target genes through recruiting transcript factors

lncrna_TF
check buttonLncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5).
lncRNA IDTF IDTF NamePCgene IDPCgene NameNumber of CancerCanaer Types
ENSG00000277476ENSG00000141258SGSM2ENSG00000104885DOT1L8CHOL,GBM,KIRC,KIRP,LIHC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000116350SRSF45KIRC,KIRP,LUAD,LUSC,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000100201DDX177CESC,CHOL,KIRC,KIRP,LIHC,PAAD,PRAD
ENSG00000277476ENSG00000141258SGSM2ENSG00000102878HSF410BLCA,CESC,CHOL,KIRC,KIRP,LAML,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000102878HSF4ENSG00000099326MZF111BLCA,BRCA,CESC,CHOL,KIRC,KIRP,LIHC,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000099326MZF115BLCA,CESC,CHOL,GBM,KIRC,KIRP,LAML,LGG,LIHC,LUAD,LUSC,PAAD,PRAD,TGCT,THCA
ENSG00000277476ENSG00000236287ZBED5ENSG00000099326MZF16BLCA,CHOL,KIRC,KIRP,LIHC,SKCM
ENSG00000277476ENSG00000102878HSF4ENSG00000250571GLI410BLCA,BRCA,CHOL,KIRC,KIRP,LIHC,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000250571GLI412ACC,BLCA,CHOL,GBM,KIRC,KIRP,LGG,LIHC,LUAD,LUSC,PRAD,THCA
ENSG00000277476ENSG00000102878HSF4ENSG00000140939NOL36BRCA,CHOL,KIRC,KIRP,PAAD,THCA
ENSG00000277476ENSG00000102878HSF4ENSG00000003756RBM57BLCA,KIRC,KIRP,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000003756RBM513BLCA,CESC,CHOL,GBM,KIRC,KIRP,LAML,LGG,LIHC,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000236287ZBED5ENSG00000003756RBM56BLCA,CHOL,KIRC,KIRP,LIHC,SKCM
ENSG00000277476ENSG00000102878HSF4ENSG00000154832CXXC19CHOL,KIRC,KIRP,LAML,LIHC,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000154832CXXC111BLCA,CHOL,GBM,KIRC,KIRP,LAML,LIHC,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000166432ZMAT17CHOL,GBM,KIRC,KIRP,PAAD,PRAD,THCA
ENSG00000277476ENSG00000102878HSF4ENSG00000184863RBM336CHOL,KIRC,KIRP,LIHC,LUSC,PAAD
ENSG00000277476ENSG00000141258SGSM2ENSG00000184863RBM3312BLCA,CESC,CHOL,GBM,KIRC,KIRP,LGG,LIHC,LUAD,LUSC,PAAD,THCA
ENSG00000277476ENSG00000236287ZBED5ENSG00000184863RBM337BLCA,CHOL,ESCA,KIRC,KIRP,LIHC,SKCM
ENSG00000277476ENSG00000141258SGSM2ENSG00000149532CPSF76ACC,CHOL,GBM,KIRC,KIRP,LIHC
ENSG00000277476ENSG00000236287ZBED5ENSG00000149532CPSF75ACC,CHOL,KIRC,KIRP,LIHC
ENSG00000277476ENSG00000141258SGSM2ENSG00000129351ILF311ACC,BLCA,CHOL,GBM,KIRC,KIRP,LAML,LIHC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000236287ZBED5ENSG00000129351ILF35BLCA,CHOL,KIRC,KIRP,LIHC
ENSG00000277476ENSG00000102878HSF4ENSG00000004534RBM69BLCA,CHOL,KIRC,KIRP,LIHC,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000004534RBM614ACC,BLCA,CESC,CHOL,GBM,KIRC,KIRP,LGG,LIHC,LUAD,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000236287ZBED5ENSG00000004534RBM67ACC,BLCA,CHOL,KIRC,KIRP,LIHC,SKCM
ENSG00000277476ENSG00000141258SGSM2ENSG00000134698AGO46BLCA,CESC,CHOL,GBM,KIRC,KIRP
ENSG00000277476ENSG00000102878HSF4ENSG00000131051RBM399BLCA,CESC,CHOL,KIRC,KIRP,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000141258SGSM2ENSG00000131051RBM3911BLCA,CESC,CHOL,GBM,KIRC,KIRP,LIHC,LUSC,PAAD,PRAD,THCA
ENSG00000277476ENSG00000236287ZBED5ENSG00000131051RBM396BLCA,CHOL,KIRC,KIRP,LIHC,SKCM
ENSG00000277476ENSG00000141258SGSM2ENSG00000099622CIRBP6CHOL,KIRP,PAAD,PRAD,TGCT,THCA

check buttonLncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5).
lncRNA IDTF IDTF NamePCgene IDPCgene NameNumber of CancerCanaer Types

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lncRNAs regulate the alternative splicing event through interacting with splicing factor

lncrna_AS
check buttonLncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region.
LncRNA Ensembl IDRBP IDRBP Gene NameExon Skipping IDSkipped ExonEX Gene NameEX Affected TransIDORF_annoCancer Type

check buttonLncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region.
LncRNA Ensembl IDRBP IDRBP Gene NameExon Skipping IDSkipped ExonEX Gene NameEX Affected TransIDORF_annoCancer Type

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lncRNAs regulate mRNA through targeting the 3'-UTR region

lncrna_mRNA
check buttonlncRNA regulates differential expressed mRNA by directly targeting 3' UTR region.
LncRNA Ensembl IDLncRNA ENST IDPC Gene NamePC Gene IDPC ENST IDdGnDGCancer with PC gene up-regulationCancer with PC gene Down-regulation

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lncRNAs regulate mRNA by competing with miRNA

lncrna_miRNA
check buttonlncRNA regulates mRNA by competing the miRNA binding site with mRNA.
LncRNA Ensembl IDlncRNA-miRNA-mRNACancer Types

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lncRNA coding potential

check buttonORFfinder result for the gencode.v22.lncRNA.transcript.fa.
lncRNA Ensembl IDlncRNA ENST IDlength(AA)start at transcriptend at transcript
ENSG00000277476.1ENST00000622750.16320514