 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | ZNF30,SLIRP,GLI4,MYPOP,IRF3,ETV4,JMJD6,CIRBP,DDX56,IMP3,TIGD5,OVOL2,MZF1,NRF1,CENPB,SAFB2,THOC1,LSM3,CHTOP,TFAP4,LSM5,ZBED5,PA2G4,CENPT,ZGLP1,LSM4,RBMX,RBM4B,CSTF3,RBM26,RNPS1,ERAL1,NR2F6,ZBTB3,CWC15,SURF6,DHX34,CPSF4,PPIE,SF3B6,NELFE,IRF7,USF1,E2F6,ZNF22,THYN1,DEAF1,TGIF2,DDX49,HSF4,THOC6,RBM42,ATF4,PSPC1,RBM45,TIGD1,RBM10,DDX51,MBD3,PCBP4,THAP3,SRSF2,EIF3B,ZNF83,ZNF18,PCGF2,C1D,SOX12,HMGN3,CPSF3,NOP2,E2F1,THAP8,LSM2,ZNF84,PIN1,TRA2A,RBM8A,RRP7A,SMYD3,ZNF69,XPA,NR2C1,THOC7,SFPQ,RALY,SRSF7 | | Exist in public source | | NA |
| lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | OVOL2,HSF4,MZF1,RRP7A,LSM2,CENPB,ZNF18,E4F1,TIGD1,DDX49,JMJD6,RBM10,ZNF69,ZNF83,RBMX2,RBM42,RBM6,ZNF30,CIRBP,SRP14 | | Exist in public source | | NA |
| lncRNA targets the promoter region and negatively regulates the gene expression. |
| Only predicted by TDF | | EEA1,GLMP,GTF2I,ASH1L,SMAD1,ADAT1,SF3A1,PATL1,NFX1,STAU1 | | Exist in public source | | NA |
| lncRNA targets the 3'UTR region and negatively regulates the mRNA. |
| Only predicted by lncTar | | NOP9,GLMP,SMAD1,BBX,ADAT1,ASH1L,SON,NFX1,ZHX1,PUM1,ARNT,STAT3,NR2C2,HBP1,SYNJ1,ZNF28,FOXN3 | | Exist in public source | | NA |
| 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 | | ENSG00000269973 | ENST00000602458 | exon_skip_517627 | chrX:154357250-154357274 | -9.49 | -0.4519 | FLNA | ENST00000369850 | 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 | | ENSG00000269973 | ENST00000602458 | exon_skip_371367 | chr3:9697710-9697866 | -17.05 | -0.1272 | MTMR14 | ENST00000296003 | In-frame | | ENSG00000269973 | ENST00000602458 | exon_skip_380242 | chr3:186784961-186785101 | -16.49 | -0.1374 | EIF4A2 | ENST00000323963 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_445390 | chr5:150403120-150403312 | -20.25 | -0.1119 | CD74 | ENST00000009530 | In-frame | | ENSG00000269973 | ENST00000602458 | exon_skip_382458 | chr3:38131595-38131638 | -7.85 | -0.3140 | ACAA1 | ENST00000333167 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_29583 | chr1:114780109-114780215 | -10.75 | -0.1280 | SIKE1 | ENST00000060969 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_41813 | chr10:68337857-68337996 | -20.32 | -0.1679 | HNRNPH3 | ENST00000265866 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_41841 | chr10:68756272-68756483 | -23.14 | -0.1169 | CCAR1 | ENST00000265872 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_123601 | chr15:74897010-74897219 | -19.04 | -0.1286 | MPI | ENST00000352410 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_152672 | chr17:42540949-42541206 | -23.90 | -0.1039 | NAGLU | ENST00000225927 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_319223 | chr19:43526200-43526349 | -19.82 | -0.1376 | ETHE1 | ENST00000292147 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_361485 | chr21:29008239-29008307 | -10.93 | -0.1952 | RWDD2B | ENST00000493196 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_363747 | chr22:23877720-23877869 | -23.98 | -0.1642 | SLC2A11 | ENST00000345044 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_374497 | chr3:49999439-49999513 | -12.57 | -0.2285 | RBM6 | ENST00000266022 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_430434 | chr4:82356536-82356683 | -11.74 | -0.1654 | HNRNPD | ENST00000313899 | In-frame | | ENSG00000269973 | ENST00000602458 | exon_skip_470226 | chr7:103307595-103307708 | -13.93 | -0.1531 | PMPCB | ENST00000249269 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_446770 | chr5:178215275-178215430 | -19.56 | -0.1304 | PHYKPL | ENST00000308158 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_5818 | chr1:45568484-45568684 | -18.66 | -0.1098 | AKR1A1 | ENST00000351829,ENST00000372070 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_315468 | chr19:12677107-12677211 | -14.63 | -0.1626 | DHPS | ENST00000210060 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_481699 | chr8:19824802-19824972 | -18.09 | -0.1320 | INTS10 | ENST00000397977 | Frame-shift | | ENSG00000269973 | ENST00000602458 | exon_skip_11029 | chr1:154989559-154989707 | -21.95 | -0.1591 | FLAD1 | ENST00000292180 | Frame-shift |
| lncRNA targets by miRNA. |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source |
| 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 | | LncEditing_23712 | ENSG00000269973.1 | chr2 | 9936699 | + | lincRNA | RP11-95D17.1 | ENST00000602458.1 | lincRNA | RP11-95D17.1-001 | | LncEditing_23715 | ENSG00000269973.1 | chr2 | 9936711 | + | lincRNA | RP11-95D17.1 | ENST00000602458.1 | lincRNA | RP11-95D17.1-001 |
| 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 | | ENSG00000269973 | LncEditing_23712 | UCEC | chr2_9936699_+ | 2.464650e+00 | 1.890779e+00 | 2.615047e+00 | 6.837836e+00 | 8.039816e-12 | 1.668262e-11 | UP | | ENSG00000269973 | LncEditing_23715 | UCEC | chr2_9936711_+ | 2.551033e+00 | 2.109578e+00 | 3.647939e+00 | 3.369658e+00 | 7.526161e-04 | 8.366135e-04 | UP | | ENSG00000269973 | LncEditing_23712 | SARC | chr2_9936699_+ | 2.106141e+00 | 1.386759e+00 | 1.658692e+00 | 6.923709e+00 | 4.399702e-12 | 9.663631e-12 | UP | | ENSG00000269973 | LncEditing_23715 | SARC | chr2_9936711_+ | 2.185292e+00 | 1.733492e+00 | 2.992717e+00 | 3.322373e+00 | 8.925516e-04 | 9.518831e-04 | UP | | ENSG00000269973 | LncEditing_23712 | LIHC | chr2_9936699_+ | 1.515759e+00 | 9.047867e-01 | 1.343380e+00 | 9.453800e+00 | 3.267497e-21 | 1.744843e-20 | UP | | ENSG00000269973 | LncEditing_23715 | LIHC | chr2_9936711_+ | 1.690468e+00 | 1.132802e+00 | 1.731522e+00 | 4.780391e+00 | 1.749549e-06 | 2.245815e-06 | UP | | ENSG00000269973 | LncEditing_23712 | KIRC | chr2_9936699_+ | 1.718509e+00 | 1.286291e+00 | 2.392686e+00 | 6.652327e+00 | 2.884954e-11 | 4.474992e-11 | UP | | ENSG00000269973 | LncEditing_23715 | KIRC | chr2_9936711_+ | 1.748804e+00 | 1.589944e+00 | 7.278420e+00 | 2.254120e+00 | 2.418865e-02 | 2.465317e-02 | UP | | ENSG00000269973 | LncEditing_23712 | GBM | chr2_9936699_+ | 1.583218e+00 | 1.376788e+00 | 4.961441e+00 | 2.861255e+00 | 4.219676e-03 | 4.801291e-03 | UP | | ENSG00000269973 | LncEditing_23715 | GBM | chr2_9936711_+ | 1.654493e+00 | 1.455171e+00 | 5.399562e+00 | 2.623529e+00 | 8.702393e-03 | 9.552559e-03 | UP | | ENSG00000269973 | LncEditing_23712 | MESO | chr2_9936699_+ | 2.187471e+00 | 1.627103e+00 | 2.342149e+00 | 2.576435e+00 | 9.982485e-03 | 1.189484e-02 | UP | | ENSG00000269973 | LncEditing_23712 | UVM | chr2_9936699_+ | 2.045301e+00 | 1.386420e+00 | 1.782695e+00 | 3.738972e+00 | 1.847741e-04 | 3.680580e-04 | UP | | ENSG00000269973 | LncEditing_23712 | BLCA | chr2_9936699_+ | 2.496947e+00 | 2.127873e+00 | 4.333642e+00 | 2.554928e+00 | 1.062098e-02 | 1.115408e-02 | UP | | ENSG00000269973 | LncEditing_23715 | BLCA | chr2_9936711_+ | 2.533520e+00 | 2.348956e+00 | 9.163905e+00 | 2.929531e+00 | 3.394736e-03 | 3.723259e-03 | UP | | ENSG00000269973 | LncEditing_23712 | LGG | chr2_9936699_+ | 1.706232e+00 | 1.470029e+00 | 4.651816e+00 | 4.086916e+00 | 4.371448e-05 | 5.018280e-05 | UP | | ENSG00000269973 | LncEditing_23712 | ACC | chr2_9936699_+ | 1.730535e+00 | 1.052046e+00 | 1.392718e+00 | 3.826953e+00 | 1.297393e-04 | 3.525344e-04 | UP | | ENSG00000269973 | LncEditing_23712 | COAD | chr2_9936699_+ | 1.286495e+00 | 1.031233e+00 | 3.134047e+00 | 4.538286e+00 | 5.671332e-06 | 6.824823e-06 | UP | | ENSG00000269973 | LncEditing_23712 | LUSC | chr2_9936699_+ | 1.531511e+00 | 1.158405e+00 | 2.482519e+00 | 7.286501e+00 | 3.181096e-13 | 4.892828e-13 | UP | | ENSG00000269973 | LncEditing_23715 | LUSC | chr2_9936711_+ | 1.573714e+00 | 1.381082e+00 | 5.308582e+00 | 2.771523e+00 | 5.579478e-03 | 5.757736e-03 | UP | | ENSG00000269973 | LncEditing_23712 | HNSC | chr2_9936699_+ | 1.532770e+00 | 1.172979e+00 | 2.590911e+00 | 6.399328e+00 | 1.560619e-10 | 2.108945e-10 | UP | | ENSG00000269973 | LncEditing_23712 | SKCM | chr2_9936699_+ | 1.771848e+00 | 1.384815e+00 | 2.812452e+00 | 5.394026e+00 | 6.889642e-08 | 8.158786e-08 | UP | | ENSG00000269973 | LncEditing_23715 | SKCM | chr2_9936711_+ | 1.905828e+00 | 1.566415e+00 | 3.534177e+00 | 3.934921e+00 | 8.322417e-05 | 9.060696e-05 | UP | | ENSG00000269973 | LncEditing_23712 | LAML | chr2_9936699_+ | 1.963965e+00 | 1.524128e+00 | 2.733846e+00 | 2.326619e+00 | 1.998553e-02 | 2.125937e-02 | UP | | ENSG00000269973 | LncEditing_23712 | PCPG | chr2_9936699_+ | 2.273239e+00 | 1.658428e+00 | 2.198127e+00 | 4.119491e+00 | 3.797107e-05 | 6.130878e-05 | UP | | ENSG00000269973 | LncEditing_23715 | PCPG | chr2_9936711_+ | 2.358492e+00 | 2.069329e+00 | 5.299364e+00 | 2.282575e+00 | 2.245539e-02 | 2.372460e-02 | UP | | ENSG00000269973 | LncEditing_23712 | KIRP | chr2_9936699_+ | 2.313987e+00 | 1.938231e+00 | 3.911749e+00 | 3.195166e+00 | 1.397504e-03 | 1.638327e-03 | UP | | ENSG00000269973 | LncEditing_23712 | CHOL | chr2_9936699_+ | 1.848713e+00 | 1.222693e+00 | 1.676562e+00 | 2.833380e+00 | 4.605864e-03 | 9.677728e-03 | UP | | ENSG00000269973 | LncEditing_23715 | TGCT | chr2_9936711_+ | 2.670074e+00 | 2.137971e+00 | 3.118789e+00 | 2.611853e+00 | 9.005300e-03 | 9.667107e-03 | UP | | ENSG00000269973 | LncEditing_23712 | READ | chr2_9936699_+ | 1.320254e+00 | 1.061608e+00 | 3.178998e+00 | 4.151709e+00 | 3.300013e-05 | 5.354738e-05 | UP | | ENSG00000269973 | LncEditing_23712 | LUAD | chr2_9936699_+ | 1.559099e+00 | 1.221571e+00 | 2.841117e+00 | 6.166514e+00 | 6.981202e-10 | 9.814482e-10 | UP | | ENSG00000269973 | LncEditing_23715 | LUAD | chr2_9936711_+ | 1.730218e+00 | 1.378035e+00 | 3.045609e+00 | 4.379097e+00 | 1.191722e-05 | 1.402216e-05 | UP | | ENSG00000269973 | LncEditing_23712 | STAD | chr2_9936699_+ | 1.408307e+00 | 1.029557e+00 | 2.212690e+00 | 5.986273e+00 | 2.147035e-09 | 3.232969e-09 | UP | | ENSG00000269973 | LncEditing_23712 | CESC | chr2_9936699_+ | 2.627978e+00 | 1.816380e+00 | 1.876568e+00 | 5.031921e+00 | 4.855885e-07 | 7.248296e-07 | UP | | ENSG00000269973 | LncEditing_23715 | CESC | chr2_9936711_+ | 2.866240e+00 | 2.351232e+00 | 3.499656e+00 | 3.105545e+00 | 1.899288e-03 | 2.090584e-03 | UP | | ENSG00000269973 | LncEditing_23712 | PRAD | chr2_9936699_+ | 1.793397e+00 | 1.667277e+00 | 9.505592e+00 | 2.205890e+00 | 2.739172e-02 | 2.835115e-02 | UP | | ENSG00000269973 | LncEditing_23712 | BRCA | chr2_9936699_+ | 1.538063e+00 | 1.252887e+00 | 3.379999e+00 | 7.789301e+00 | 6.738098e-15 | 8.489770e-15 | UP | | ENSG00000269973 | LncEditing_23715 | BRCA | chr2_9936711_+ | 1.645402e+00 | 1.422524e+00 | 4.762212e+00 | 5.042112e+00 | 4.604214e-07 | 5.087027e-07 | UP | | ENSG00000269973 | LncEditing_23712 | PAAD | chr2_9936699_+ | 1.462472e+00 | 1.144951e+00 | 2.831880e+00 | 3.972067e+00 | 7.125167e-05 | 1.068775e-04 | UP | | ENSG00000269973 | LncEditing_23715 | PAAD | chr2_9936711_+ | 1.605065e+00 | 1.308566e+00 | 3.393910e+00 | 2.775975e+00 | 5.503646e-03 | 6.164083e-03 | UP |
| Correlation between RNA A-to-I editing events's frequecy and lncRNA expression. |
| LncRNA Ensembl ID | LncRNA Index | Correlation | P-value | Adjc.p-value | | ENSG00000269973 | LncEditing_23715 | -4.585385e-01 | 2.568776e-03 | 4.138583e-03 | | ENSG00000269973 | LncEditing_23715 | -5.010479e-01 | 9.768343e-05 | 5.861006e-04 | | ENSG00000269973 | LncEditing_23715 | -4.497089e-01 | 1.711327e-04 | 4.192751e-04 |
| 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 |
| 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 | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000102878 | HSF4 | 6 | CHOL,HNSC,KIRP,MESO,PCPG,PRAD | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000099326 | MZF1 | 7 | CHOL,HNSC,KIRC,KIRP,MESO,PAAD,PCPG | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000189306 | RRP7A | 5 | CHOL,MESO,PAAD,PRAD,THCA | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000204392 | LSM2 | 6 | CHOL,HNSC,LGG,PCPG,PRAD,THCA | | ENSG00000269973 | ENSG00000170515 | PA2G4 | ENSG00000204392 | LSM2 | 6 | CHOL,LIHC,PCPG,THCA,THYM,UCS | | ENSG00000269973 | ENSG00000185670 | ZBTB3 | ENSG00000167967 | E4F1 | 6 | CHOL,HNSC,KIRP,MESO,PAAD,THYM | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000105671 | DDX49 | 10 | CHOL,HNSC,KIRC,KIRP,MESO,PAAD,PCPG,PRAD,TGCT,THCA | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000182872 | RBM10 | 8 | CESC,CHOL,HNSC,MESO,PAAD,PCPG,PRAD,THCA | | ENSG00000269973 | ENSG00000170515 | PA2G4 | ENSG00000182872 | RBM10 | 6 | ACC,CHOL,LIHC,PCPG,THCA,THYM | | ENSG00000269973 | ENSG00000185670 | ZBTB3 | ENSG00000182872 | RBM10 | 7 | CHOL,HNSC,LIHC,MESO,PAAD,THCA,THYM | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000126254 | RBM42 | 11 | CHOL,HNSC,KIRC,KIRP,LGG,MESO,PAAD,PCPG,PRAD,TGCT,THCA | | ENSG00000269973 | ENSG00000170515 | PA2G4 | ENSG00000126254 | RBM42 | 5 | CHOL,LIHC,PCPG,THCA,THYM | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000004534 | RBM6 | 6 | CHOL,HNSC,KIRP,PAAD,TGCT,THCA | | ENSG00000269973 | ENSG00000185670 | ZBTB3 | ENSG00000004534 | RBM6 | 5 | CHOL,HNSC,KIRP,LIHC,PAAD | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000099622 | CIRBP | 6 | CHOL,HNSC,KIRP,PAAD,PRAD,THCA | | ENSG00000269973 | ENSG00000185670 | ZBTB3 | ENSG00000099622 | CIRBP | 6 | CHOL,HNSC,KIRP,MESO,PAAD,THCA | | ENSG00000269973 | ENSG00000170515 | PA2G4 | ENSG00000140319 | SRP14 | 6 | CHOL,LIHC,PCPG,THCA,THYM,UCS |
| 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 | | ENSG00000269973 | ENSG00000167967 | E4F1 | ENSG00000170365 | SMAD1 | 6 | KIRC,KIRP,MESO,PAAD,PRAD,THCA |
| 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 |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000269973.1 | ENST00000602458.1 | 100 | 230 | 532 |
|
