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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: ENSG00000261087

Summary for ZNNT1

check button Gene summary

Gene informationEnsembl ID

ENSG00000261087

Gene symbol

ZNNT1

Gene nameZNF706 neighboring transcript 1
HGNC

54438

Entrez ID

115830329

Gene typelincRNA
SynonymsKB-1460A1.5|ZNNT1|08q22.3
UniProtAcc

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Structure and expression level for ZNNT1

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.
DEG result
Ensembl IDBase meanlog2FC(AD/control)lfcSEStatP-valueAdjc.p-valueDEG direction Cancer type
ENSG000002610872.253648e+02-2.673385e+003.595261e-01-7.435857e+001.040000e-133.550000e-12DOWNGBM
ENSG000002610873.254382e+021.691340e+003.108306e-015.441356e+005.290000e-084.420000e-07UPCHOL
ENSG000002610873.323626e+021.258566e+001.020830e-011.232886e+016.330000e-358.160000e-34UPKIRC
ENSG000002610872.914994e+021.209747e+001.614791e-017.491661e+006.800000e-148.170000e-13UPKIRP
ENSG000002610871.957948e+021.475852e+001.618078e-019.121019e+007.440000e-201.400000e-18UPLIHC

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value
ENSG000002610874.704081e-011.110903e-03CHOL1.861094e-03
ENSG000002610873.772133e-015.394084e-22KIRC5.644971e-21
ENSG000002610873.745691e-019.049264e-15LIHC1.006223e-13

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lncRNA-Protein interaction for ZNNT1

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
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000010803SCMH151.2695.2408Q96GD3TF,EpiNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000143033MTF212.7894.7337Q9Y483TF,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
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000168152THAP997.6394.8072Q9H5L6TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000135164DMTF181.0794.6709Q9Y222TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000010803SCMH151.2695.4551Q96GD3TF,EpiNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000186272ZNF1744.993.6573P17021TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000166432ZMAT138.1795.7827Q5H9K5TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000179886TIGD532.2495.0711Q53EQ6TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000221944TIGD122.0195.4783Q96MW7TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000119950MXI120.7891.4183P50539TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000090447TFAP420.7794.2891Q01664TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000109381ELF216.0691.5836Q15723TFNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000143033MTF212.7895.0239Q9Y483TF,EpiNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000196378ZNF3410.393.7876Q8IZ26TFNA

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
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000198231DDX4279.7896.2887Q86XP3RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000079134THOC179.4995.9556Q96FV9RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000134698AGO479.3493.7501Q9HCK5RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000176102CSTF377.5496.1233Q12996RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000125676THOC272.1697.7635Q8NI27RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000071894CPSF163.3795.242Q10570RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000139746RBM2660.890.375Q5T8P6RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000100201DDX1748.6993.9348Q92841RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000123908AGO247.2494.2825Q9UKV8RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000135870RC3H144.9796.5196Q5TC82RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000162231NXF138.892.4566Q9UBU9RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000102081FMR130.2296.4473Q06787RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000130332LSM728.2892.0697Q9UK45RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000117569PTBP218.0391.3118Q9UKA9RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000136271DDX5617.4494.8669Q9NY93RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000172795DCP213.494.9749Q8IU60RBPNA
ENSG00000261087ENST00000565617KB-1460A1.5ENSG00000113300CNOT612.0795.4884Q9ULM6RBPNA

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lncRNA-DNA interaction for ZNNT1

lncrna_DNA
check buttonlncRNA targets the enhancer region and positively regulates the gene expression.
Only predicted by TDF
CNOT4,ZNF30,RFX7,CHTOP,TFAP4,NCOA2,GPBP1,FMR1,MECP2,PHF1,RBM6,PURA,HMGN3,ZBED5,ZC3H8,GLI4,RBM39,CENPT,LSM11,TTC14,NOL3,MYPOP,HSF4,PUM2,RBM5,SRRM2,RC3H1,ELF2,LCORL,SMAD4,SUGP1,DDX56,TIGD5,ZFP62,ZNF44,MZF1,MYSM1,SGSM2,NRF1,ZNF17,ZNF91,ZNF84,SUGP2,AGO2,CELF1,SCMH1,DDX42,DMTF1,CSTF3,TIGD1,RBM26,RBM45,CPSF1,RNPS1,RBM27,DDX51,TRA2A,PURB,MYEF2,THAP3,KMT2A,ASH1L,DHX34,ZNF74,HINFP,IKZF5,NR2C1,DDX17,ZFP3,TET3,ZMAT1,ZNF83,SFPQ,UBR5,THAP9,ZFP14,THOC2,RNPC3,ZFP69,ZNF34,NXF1,SAFB2,THAP6,ZNF8,THOC1,RBM33,ZNF18,ZNF16,ZNF25,E2F5,NOL8,NR2C2,ZNF10
Exist in public source
NA

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 ZNNT1

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
ENSG00000261087ENST00000565617exon_skip_111863chr14:23565815-23565892-13.48-0.2996AP1G2ENST00000308724,ENST00000397120Frame-shift
ENSG00000261087ENST00000565617exon_skip_300663chr19:1425877-1425960-12.05-0.1565DAZAP1ENST00000233078Frame-shift
ENSG00000261087ENST00000565617exon_skip_377198chr3:123130479-123130616-17.72-0.1384PDIA5ENST00000316218Frame-shift
ENSG00000261087ENST00000565617exon_skip_382458chr3:38131595-38131638-7.75-0.2153ACAA1ENST00000333167Frame-shift
ENSG00000261087ENST00000565617exon_skip_442657chr5:74730259-74730398-13.42-0.1508GFM2ENST00000296805,ENST00000509430Frame-shift
ENSG00000261087ENST00000565617exon_skip_470226chr7:103307595-103307708-16.89-0.1877PMPCBENST00000249269Frame-shift

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

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Variants for ZNNT1

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
ENSG00000261087.1ENST00000565617.1980296