lncRNA targets the enhancer region and positively regulates the gene expression. |
Only predicted by TDF | SKA2,CTNNBIP1,PELI2,DET1,C11orf1,RTRAF,ADSS1,HELQ,DNAAF2,TINF2,USP27X,RBBP7,RALGAPA1,BOD1,EFNA5,CTF1,SCFD1,HDDC3,WDR25,WDR89,IFT52,CIRBP,EIF5,STMP1,FAM98C,PNPLA4,C1orf56,MFAP1,RBM23,YTHDF1,COQ8B,BBOF1,SIRT3,RRNAD1,LYSMD4,KAT8,TTC5,RARB,TXNDC16,DTD2,AP4S1,ERH,MKS1,RDH11,ARV1,PIGH,PIP4P1,COX16,C14orf119,PIGC,PIGP,ZBTB1,C20orf96,DDX24,SLC25A12,POFUT2,GATAD1,PSMD10,TTC30B,RABGGTA,DHFR2,GID8,CCDC115,PPM1A,EFS,C14orf28,TTLL5,VTI1B,SNX12,KLHL28,INCA1,SNAPC1,MSANTD2,GORASP1,FAM200A,HIRIP3,PIGM,TIMM9,BCL2L2,LSM5,USP11,NUMB,C9orf85,TERF2IP,GMPR2,EXTL2,GALC,TM2D3,PACS2,TMED8,CHST14,HECTD1,SPPL3,GPRASP2,DMKN,SOS2,PPP1R3E,TOGARAM1,BEX5,SUPT16H,SIRT2,CDK20,NAP1L2,SAV1,FAM104B,TMCO4,FBXO34,STRN3,CTPS2,RBM4B,LRRC23,TECPR2,U2AF2,PPIP5K1,PJA1,TMEM99,GLRX5,CYB5D2,LAMB3,TIGD6,BEND5,BCLAF3,SVIL,TCTA,TMEM251,CA11,RPL36AL,MED6,SLC39A9,AFAP1L2,NFIA,DCAF5,BLCAP,MLH3,TMEM242,CEP89,METTL17,SETD6,MBIP,SRP54,NEK9,TTC30A,PTTG1IP,GLT8D1,PRPF39,TMEM231,C17orf75,WDR20,RAB22A,FAM174B,ZNF34,TRAM1L1,TMEM79,THAP6,MPZL2,ELMOD3,SLC5A3,ACYP1,TMED10,MAP3K13,WHRN,SETD3,SNW1,TMEM9B,PARP3,SNX7,MRPS33,CETN2,MAP4K5,TARS3,RPRD1B,BRF1,CBX1,GNPDA2,STPG1,PPP1R3F,GET1,TRAPPC6B,RAB2B,TTC8,GON7,LIN52,IFT46,ZADH2,EID1,CBX7,HAUS4,H2BC21,TSPAN2,BMP4,TADA2A,POMT2,GTF2A1,ZBED8,CPSF2,NUBPL,TMEM139,YTHDC1,FRMD6,ZFYVE21,RWDD2B,CCDC121,TOX4,TLE2,NKAP,TIGD1,CETN3,COQ6,BHLHB9,PPP1R21,G2E3,SSBP2,HOMEZ,MTFR1L,CRYZL1,ATG14,CDKN1C,APEX1,GEMIN2,VIPAS39,METTL6,BAG5,SALL2,DAD1,PRKD1,TMUB2,UPF3B,FCF1,POMGNT2,TMEM230,BTBD7,FAM161B,ACP6,ZNF18,UQCC1,PNMA1,EMC9,LRTOMT,TRIM4,KCTD11,GPBP1,CLDN11,RIOX1,FAM120C,APMAP,STEEP1,MOAP1,VPS33B,MANSC1,DTX3,NEDD8,GIN1,ARHGEF19,HMGN5,NDUFA5,CCL28,CNIH1,BCDIN3D,SYNE2,PFN2,TMEM25,LNP1,LUC7L2,GGT7,EPM2AIP1,TTC12,FKBP3,GSTA4,ERO1A,ARHGAP5,BBS4,VCPKMT,C14orf93,ANKMY2,EIF1B,SKP1,NUDT17,EAPP,PRPF40B,TMEM248,MRPS14,OXA1L,RCBTB2,PPP1R26,JKAMP,THTPA,B3GNT9,WBP1,PPME1,TRAPPC2,MRFAP1L1,ISCA2,TMEM237,IQCC,FBXO4 | Exist in public source | NA |
lncRNA targets the promoter region and positively regulates the gene expression. |
Only predicted by TDF | C14orf93,SIRT4,C14orf119,DNAAF2,ARV1,FAM174B,LSM5,PSMB5,PLXNA3,CA11,VIPAS39,STRN3,SETD3,DTX3,KLHL28,METTL6,EID2B,FAM120C,ACP6,GLT8D1,GMPR2,UBR7,CTPS2,PARP2,TIGD1,PRPF40B,SETD6,PIGM,ARHGEF19,HOMEZ,PPP2R5C,VSTM2L,BEND5,CRYZL1,TLE2,SYNGR1,CCNB1IP1,CEP89,FAM179B,TCEAL2,ARMCX5,GSTA4,TMEM203,VPS33B,C14orf79,MAGED2,DMKN,KLHDC2,SLC25A14,GGT7,EXD2,C17orf75,U2AF2,ZADH2,TMCO4,TXNDC16,MANBAL,DCAF5,GRAMD3,IQCC,TMEM79,ELAC1,FAM200A,RALGAPA1,NEDD8,RPRD1B,C14orf142,LNP1,MAGEF1,NELFCD,RWDD2B,EFS,ZDHHC4,PIGV,ARHGAP5,TINF2,NAA30,PRMT6,NAA20,USP27X,NFIA,TUBG2,MED6,BAMBI,CIRBP | Exist in public source | NA |
lncRNA targets the promoter region and negatively regulates the gene expression. |
lncRNA targets the 3'UTR region and negatively regulates the mRNA. |
lncRNA targets the skipped exon region. | -lncRNA and exonskipping events are positively correlated. |
LncRNA Ensembl ID | LncRNA ENST ID | Exon ID | Skipped Exon | dG | ndG | Gene name with skipped exon | TransID with skipped exon | ORF mutation | ENSG00000258655 | ENST00000553596 | exon_skip_334375 | chr2:227347225-227347384 | -19.49 | -0.1454 | MFF | ENST00000353339 | In-frame | ENSG00000258655 | ENST00000553596 | exon_skip_482403 | chr8:27445793-27445919 | -13.74 | -0.1164 | PTK2B | ENST00000346049,ENST00000397501 | In-frame |
-lncRNA and exonskipping events are negatively correlated. |
LncRNA Ensembl ID | LncRNA ENST ID | Exon ID | Skipped Exon | dG | ndG | Gene name with skipped exon | TransID with skipped exon | LOF | ENSG00000258655 | ENST00000553596 | exon_skip_462144 | chr6:125298713-125298816 | -13.67 | -0.1847 | HDDC2 | ENST00000398153 | Frame-shift |
lncRNA targets by miRNA. |
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LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32075509-32075591 | 183.00 | -82.50 | 82 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32075755-32075853 | 183.00 | -80.66 | 94 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32076666-32076756 | 171.00 | -79.66 | 87 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32076084-32076174 | 168.00 | -69.83 | 92 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32075364-32075445 | 166.00 | -81.56 | 87 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32075845-32075929 | 161.00 | -79.13 | 90 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32076009-32076092 | 159.00 | -71.81 | 83 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32076284-32076360 | 153.00 | -64.41 | 79 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32076481-32076562 | 152.00 | -74.89 | 86 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32075196-32075287 | 151.00 | -70.54 | 88 | NA | ENSG00000258655 | hsa-mir-142 | ENST00000553596 | chr14:32076369-32076451 | 143.00 | -64.87 | 83 | NA | ENSG00000258655 | hsa-mir-155 | ENST00000553596 | chr14:32075846-32075914 | 184.00 | -57.24 | 63 | NA |
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 |
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 | ENSG00000258655 | ENSG00000151882 | CCL28 | ACC,BRCA,CHOL,PRAD,THYM | | BRCA | ENSG00000258655 | ENSG00000158301 | GPRASP2 | ACC,BRCA,TGCT,THYM,UVM | | BRCA | ENSG00000258655 | ENSG00000013297 | CLDN11 | BRCA,CHOL,GBM,LGG,PRAD,TGCT | | BRCA | ENSG00000258655 | ENSG00000100307 | CBX7 | BRCA,KICH,MESO,PRAD,THYM,UVM | | BRCA | ENSG00000258655 | ENSG00000139946 | PELI2 | BRCA,CHOL,GBM,TGCT,UVM | | BRCA | ENSG00000258655 | ENSG00000186462 | NAP1L2 | BRCA,KICH,PCPG,THCA,THYM,UVM | | BRCA | ENSG00000258655 | ENSG00000196878 | LAMB3 | BRCA,CHOL,PRAD,TGCT,UCS | | BRCA |
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 |
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 |
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 |
lncRNA regulates mRNA by competing the miRNA binding site with mRNA. |
LncRNA Ensembl ID | lncRNA-miRNA-mRNA | Cancer Types | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,AMIGO1 | THCA,UVM,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,DYNC2LI1 | TGCT,THCA,MESO,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,FBXL2 | THCA,UVM,MESO,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,IFT140 | TGCT,THCA,MESO,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,KLHDC10 | THCA,MESO,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,HOOK1 | TGCT,THCA,UVM,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,RAB40B | TGCT,THCA,MESO,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,OBSL1 | TGCT,THCA,MESO,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,EFHC1 | TGCT,THCA,MESO,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,NGRN | TGCT,THCA,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,VAPB | TGCT,THCA,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,SALL2 | TGCT,THCA,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,MEGF8 | TGCT,THCA,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,BEX4 | TGCT,THCA,UVM,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,B4GAT1 | TGCT,THCA,MESO,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,PLA2G12A | TGCT,THCA,MESO,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,WASF3 | TGCT,THCA,UVM,UCS,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,HDAC11 | TGCT,THCA,UVM,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,PLXNB1 | TGCT,UVM,MESO,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,SLC25A23 | TGCT,THCA,UVM,MESO,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-155,PDK2 | TGCT,MESO,UCS,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,LRFN3 | TGCT,UCS,PAAD,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,MAPK10 | UCEC,THCA,PAAD,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,INPP5A | UCEC,TGCT,THCA,UCS,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,INCA1 | UCEC,TGCT,THCA,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,PNMA8A | UCEC,THCA,UCS,PAAD,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,PRDM11 | UCEC,TGCT,THCA,UCS,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,IFT140 | TGCT,THCA,PAAD,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,SALL2 | UCEC,TGCT,THCA,PAAD,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,NGRN | TGCT,THCA,UCS,PAAD,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,B4GAT1 | UCEC,TGCT,THCA,PAAD,THYM | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,BTBD3 | TGCT,THCA,PAAD,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,GSTM2 | UCEC,TGCT,UCS,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,TMEM8B | TGCT,UCS,PAAD,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,ZBTB4 | UCEC,TGCT,THCA,THYM,KIRP | ENSG00000258655 | ARHGAP5-AS1,hsa-mir-142,PIP4K2B | TGCT,THCA,UCS,THYM,KIRP |
ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | ENSG00000258655.2 | ENST00000553596.2 | 45 | 49 | 186 |
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