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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: ENSG00000267383

Summary for CTC-260E6.6

check button Gene summary

Gene informationEnsembl ID

ENSG00000267383

Gene symbol

CTC-260E6.6

Gene name
HGNC
Entrez ID
Gene typeantisense
Synonyms
UniProtAcc

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Structure and expression level for CTC-260E6.6

check buttonAS events and RNA A-to-I editing events of lncRNA in TCGA based on Genvode V22 structure.
UCSC result

check buttonDifferentially expressed gene analysis between cancer and normal samples.
Ensembl IDBase meanlog2FC(AD/control)lfcSEStatP-valueAdjc.p-valueDEG direction Cancer type

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value

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lncRNA-Protein interaction for CTC-260E6.6

lncrna_protein
check buttonlncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source

check buttonlncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source

check buttonlncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source

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lncRNA-DNA interaction for CTC-260E6.6

lncrna_DNA
check buttonlncRNA targets the enhancer region and positively regulates the gene expression.

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

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

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lncRNA-RNA interaction for CTC-260E6.6

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 Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonLOF

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

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Variants for CTC-260E6.6

check buttonRNA A-to-I editing events in lncRNA.
LncRNAediting IDLncRNA Ensembl IDChromosomeEditing PositionStrandGene TypeGene NameTranscript IDTranscript TypeTranscript Name
LncEditing_347879ENSG00000267383.5chr1920202056-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_347882ENSG00000267383.5chr1920202060-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_347885ENSG00000267383.5chr1920202066-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348552ENSG00000267383.5chr1920225224-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348588ENSG00000267383.5chr1920225295-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348651ENSG00000267383.5chr1920225956-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348657ENSG00000267383.5chr1920225973-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348681ENSG00000267383.5chr1920226039-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348684ENSG00000267383.5chr1920226044-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348690ENSG00000267383.5chr1920227192-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348714ENSG00000267383.5chr1920227241-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006
LncEditing_348732ENSG00000267383.5chr1920227294-antisenseCTC-260E6.6ENST00000593655.4antisenseCTC-260E6.6-006

check buttonEdited-associated DElncRNAs in cancer.
Differentially expressed gene
LncRNA Ensembl IDLncRNA IndexCancer TypeChr_Postion_StrandAVE1AVE2log2FCW-valueP-valueAdjc.p-valueChange
ENSG00000267383LncEditing_348681LAMLchr19_20226039_-2.048819e+001.029100e+001.006635e+006.519877e+007.036497e-114.388926e-10UP
ENSG00000267383LncEditing_347879TGCTchr19_20202056_-5.036162e+002.688979e+001.104648e+003.487315e+004.878972e-046.178017e-04UP
ENSG00000267383LncEditing_347882TGCTchr19_20202060_-5.008588e+002.588409e+001.050047e+004.139688e+003.477786e-055.044023e-05UP
ENSG00000267383LncEditing_347885TGCTchr19_20202066_-4.433230e+002.769768e+001.473637e+002.864498e+004.176709e-034.705988e-03UP
ENSG00000267383LncEditing_348552TGCTchr19_20225224_-4.220167e+002.583498e+001.412480e+003.751425e+001.758324e-042.350177e-04UP
ENSG00000267383LncEditing_348588TGCTchr19_20225295_-4.124368e+002.314992e+001.200241e+004.974765e+006.532676e-071.166753e-06UP
ENSG00000267383LncEditing_348651TGCTchr19_20225956_-4.626783e+002.056468e+008.548174e-016.445305e+001.153681e-104.369033e-10UP
ENSG00000267383LncEditing_348657TGCTchr19_20225973_-4.495925e+002.274756e+001.017391e+005.460619e+004.744778e-081.026780e-07UP
ENSG00000267383LncEditing_348684TGCTchr19_20226044_-4.545447e+002.233025e+009.752074e-015.737878e+009.587039e-092.362108e-08UP
ENSG00000267383LncEditing_348690TGCTchr19_20227192_-5.316052e+002.430251e+008.855434e-015.684651e+001.310797e-083.130516e-08UP
ENSG00000267383LncEditing_348714TGCTchr19_20227241_-4.864897e+002.723846e+001.195080e+003.333398e+008.579214e-041.035073e-03UP

check buttonCorrelation between RNA A-to-I editing events's frequecy and lncRNA expression.
LncRNA Ensembl IDLncRNA IndexCorrelationP-valueAdjc.p-value
ENSG00000267383LncEditing_348588-3.128206e-012.257023e-023.253018e-02
ENSG00000267383LncEditing_348732-3.050162e-013.125154e-023.614636e-02

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

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
ENSG00000267383.5ENST00000590606.412441036
ENSG00000267383.5ENST00000593655.46425965
ENSG00000267383.5ENST00000586657.110234335
ENSG00000267383.5ENST00000585498.1792360
ENSG00000267383.5ENST00000592022.1161400882
ENSG00000267383.5ENST00000585816.16756259