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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: ENSG00000274213

Summary for RP11-670E13.6

check button Gene summary

Gene informationEnsembl ID

ENSG00000274213

Gene symbol

RP11-670E13.6

Gene name
HGNC
Entrez ID
Gene typelincRNA
Synonyms
UniProtAcc

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Structure and expression level for RP11-670E13.6

check buttonDifferentially expressed gene analysis between cancer and normal samples.
DEG result
Ensembl IDBase meanlog2FC(AD/control)lfcSEStatP-valueAdjc.p-valueDEG direction Cancer type
ENSG000002742131.975771e+012.613797e+005.825174e-014.487072e+007.220000e-064.810000e-05UPGBM
ENSG000002742132.266299e+011.445972e+004.219402e-013.426960e+006.103800e-042.231872e-03UPCHOL
ENSG000002742131.554672e+01-1.259456e+003.331811e-01-3.780094e+001.567690e-044.336670e-04DOWNKICH
ENSG000002742139.480838e+011.307624e+003.079989e-014.245548e+002.180000e-051.380330e-04UPBLCA
ENSG000002742132.799482e+011.879637e+002.641954e-017.114574e+001.120000e-121.160000e-11UPKIRP
ENSG000002742135.556468e+011.504599e+002.367228e-016.355953e+002.070000e-101.360000e-09UPUCEC
ENSG000002742138.091513e+011.090896e+003.033314e-013.596385e+003.226700e-043.255534e-03UPESCA
ENSG000002742133.650682e+011.559226e+001.890084e-018.249509e+001.590000e-162.560000e-15UPPRAD
ENSG000002742134.036469e+011.187815e+001.841215e-016.451260e+001.110000e-104.080000e-10UPLUSC
ENSG000002742132.695528e+011.927575e+001.549434e-011.244051e+011.580000e-351.990000e-34UPBRCA
ENSG000002742132.023473e+011.226199e+002.207762e-015.554038e+002.790000e-081.340000e-07UPLIHC

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value
ENSG000002742133.696508e-011.244977e-02CHOL1.424525e-02
ENSG00000274213-4.343998e-012.105819e-05KICH4.243225e-05
ENSG000002742133.340433e-016.986140e-12LIHC3.401147e-11

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lncRNA-Protein interaction for RP11-670E13.6

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 RP11-670E13.6

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 RP11-670E13.6

lncrna_RNA
check buttonlncRNA targets the 3'UTR region and negatively regulates the mRNA.
Only predicted by lncTar
RBMS3,UBR5,SMAD1,ZFP1,NFAT5,SON,BAZ2A,QKI,REST,SYNJ1,HBP1,BBX,CPEB4,ELF1,ZFR,FOXN3,NOP9,G3BP1,IREB2,MEF2D,XRN1,MBNL2,ARNT,PRDM2,DDX6,THAP5,ZBTB4,NCOA2,ATF1,FOXK1,PBX1,NFIC,GLYR1,DDX3X,PUM1,ZHX1,NR2C2,ZMAT3,PPARA,AQR,KLF13
Exist in public source
NA

check buttonlncRNA targets the skipped exon region.
-lncRNA and exonskipping events are positively correlated.
lncRNA and exonskipping events positive correlated
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonORF mutation
ENSG00000274213ENST00000619432exon_skip_48713chr10:34336198-34336243-9.02-0.2653PARD3ENST00000374789In-frame

-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
ENSG00000274213ENST00000619432exon_skip_110809chr14:105449358-105449409-11.43-0.2381MTA1ENST00000331320In-frame
ENSG00000274213ENST00000619432exon_skip_140339chr16:635611-635774-26.24-0.1693METTL26ENST00000301686Frame-shift
ENSG00000274213ENST00000619432exon_skip_287874chr17:29085603-29085648-5.56-0.2224MYO18AENST00000527372In-frame
ENSG00000274213ENST00000619432exon_skip_356108chr20:34740362-34743341-34.33-0.1137NCOA6ENST00000359003,ENST00000374796In-frame
ENSG00000274213ENST00000619432exon_skip_358606chr20:63202286-63203807-39.52-0.1142YTHDF1ENST00000370339In-frame
ENSG00000274213ENST00000619432exon_skip_390412chr3:183833723-183833825-15.13-0.1845PARLENST00000317096In-frame
ENSG00000274213ENST00000619432exon_skip_460899chr6:85538837-85538864-7.58-0.3790SNX14ENST00000314673In-frame
ENSG00000274213ENST00000619432exon_skip_484062chr8:73030335-73030395-11.15-0.2144TERF1ENST00000276603In-frame
ENSG00000274213ENST00000619432exon_skip_514339chrX:23713134-23713208-9.20-0.1878ACOT9ENST00000336430Frame-shift
ENSG00000274213ENST00000619432exon_skip_1717chr1:15721328-15721388-8.91-0.1856PLEKHM2ENST00000375799In-frame
ENSG00000274213ENST00000619432exon_skip_5818chr1:45568484-45568684-18.35-0.1079AKR1A1ENST00000351829,ENST00000372070Frame-shift
ENSG00000274213ENST00000619432exon_skip_43507chr10:84499874-84499959-16.27-0.2199CCSER2ENST00000224756Frame-shift
ENSG00000274213ENST00000619432exon_skip_90104chr12:10709907-10710114-29.58-0.1590YBX3ENST00000228251In-frame
ENSG00000274213ENST00000619432exon_skip_374552chr3:50104247-50104308-8.05-0.1578RBM5ENST00000347869Frame-shift
ENSG00000274213ENST00000619432exon_skip_380242chr3:186784961-186785101-16.38-0.1820EIF4A2ENST00000323963Frame-shift
ENSG00000274213ENST00000619432exon_skip_445390chr5:150403120-150403312-29.85-0.1640CD74ENST00000009530In-frame
ENSG00000274213ENST00000619432exon_skip_451515chr6:41080810-41080897-13.67-0.2680NFYAENST00000341376In-frame
ENSG00000274213ENST00000619432exon_skip_92074chr12:50142052-50142110-5.65-0.1284CERS5ENST00000317551Frame-shift
ENSG00000274213ENST00000619432exon_skip_95407chr12:95040475-95040597-12.63-0.1579NR2C1ENST00000333003Frame-shift
ENSG00000274213ENST00000619432exon_skip_137312chr16:66563121-66563217-11.16-0.2657CKLFENST00000264001In-frame
ENSG00000274213ENST00000619432exon_skip_358821chr20:63943652-63943669-5.04-0.6300UCKL1ENST00000354216Frame-shift
ENSG00000274213ENST00000619432exon_skip_442657chr5:74730259-74730398-12.02-0.1382GFM2ENST00000296805,ENST00000509430Frame-shift
ENSG00000274213ENST00000619432exon_skip_466113chr7:48099669-48099787-11.91-0.1054UPP1ENST00000331803,ENST00000395564Frame-shift
ENSG00000274213ENST00000619432exon_skip_466137chr7:48103296-48103411-15.41-0.1388UPP1ENST00000331803,ENST00000395564Frame-shift
ENSG00000274213ENST00000619432exon_skip_470226chr7:103307595-103307708-11.21-0.1218PMPCBENST00000249269Frame-shift
ENSG00000274213ENST00000619432exon_skip_390418chr3:183842297-183842447-13.23-0.1150PARLENST00000317096In-frame
ENSG00000274213ENST00000619432exon_skip_424741chr4:83458345-83458429-5.25-0.1810MRPS18CENST00000295491In-frame
ENSG00000274213ENST00000619432exon_skip_24749chr1:33021366-33021461-8.63-0.1040AK2ENST00000354858Frame-shift
ENSG00000274213ENST00000619432exon_skip_494079chr8:144099080-144099205-28.58-0.2802SHARPINENST00000398712Frame-shift
ENSG00000274213ENST00000619432exon_skip_489166chr8:38169801-38169917-9.97-0.1084LSM1ENST00000311351Frame-shift

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

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Variants for RP11-670E13.6

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

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
ENSG00000274213.1ENST00000619432.116930536