lncRNA targets the enhancer region and positively regulates the gene expression. |
lncRNA targets the promoter region and positively regulates the gene expression. |
lncRNA targets the promoter region and negatively regulates the gene expression. |
lncRNA targets the 3'UTR region and negatively regulates the mRNA. |
Only predicted by lncTar | SMAD1,GNA11,SEC23B,FBXL14,CTNNB1,PSMD2,EIF3L,ATP6V0D1,M6PR,MYOF,MYH9,MYL6,RNF123,CAPN1,UQCRC1,MFSD1,LRP10,PKM,CYB5R3,DAZAP2,EIF4G1,CRB3,GRHPR,TMED1,ZFPL1,DDB1,UBC,PRMT5,ABHD5,ATP6V0C,CLTC,ALAS1 | 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 | ENSG00000230177 | ENST00000444259 | exon_skip_1234 | chr1:11658532-11658628 | -10.00 | -0.1562 | FBXO44 | ENST00000251547,ENST00000376770 | In-frame | ENSG00000230177 | ENST00000444259 | exon_skip_470077 | chr7:102397619-102397698 | -9.88 | -0.1372 | PRKRIP1 | ENST00000397912,ENST00000496391 | Frame-shift |
-lncRNA and exonskipping events are negatively correlated. |
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LncRNA Ensembl ID | LncRNA ENST ID | Exon ID | Skipped Exon | dG | ndG | Gene name with skipped exon | TransID with skipped exon | LOF | ENSG00000230177 | ENST00000444259 | exon_skip_111863 | chr14:23565815-23565892 | -10.80 | -0.1929 | AP1G2 | ENST00000308724,ENST00000397120 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_309204 | chr19:49181348-49181461 | -13.14 | -0.2796 | TRPM4 | ENST00000252826 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_353131 | chr20:58669290-58669453 | -18.57 | -0.1214 | STX16 | ENST00000371141 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_382458 | chr3:38131595-38131638 | -6.18 | -0.3433 | ACAA1 | ENST00000333167 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_436035 | chr5:79656957-79657001 | -6.72 | -0.1976 | TENT2 | ENST00000296783,ENST00000428308,ENST00000453514 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_16568 | chr1:201989382-201989531 | -12.63 | -0.1640 | RNPEP | ENST00000295640 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_41813 | chr10:68337857-68337996 | -13.99 | -0.1147 | HNRNPH3 | ENST00000265866 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_53559 | chr10:101793912-101793998 | -9.67 | -0.1307 | OGA | ENST00000361464 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_92074 | chr12:50142052-50142110 | -5.86 | -0.1274 | CERS5 | ENST00000317551 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_290158 | chr17:42953723-42953778 | -9.55 | -0.2653 | AARSD1 | ENST00000427569 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_377198 | chr3:123130479-123130616 | -14.25 | -0.1370 | PDIA5 | ENST00000316218 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_387016 | chr3:121788283-121788432 | -8.82 | -0.1038 | IQCB1 | ENST00000310864 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_445390 | chr5:150403120-150403312 | -16.35 | -0.1202 | CD74 | ENST00000009530 | In-frame | ENSG00000230177 | ENST00000444259 | exon_skip_462160 | chr6:127316449-127316502 | -5.06 | -0.1581 | ECHDC1 | ENST00000531967 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_114365 | chr14:74290026-74290118 | -12.31 | -0.2052 | ABCD4 | ENST00000356924 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_446758 | chr5:178212972-178213103 | -12.86 | -0.1837 | PHYKPL | ENST00000308158 | Frame-shift | ENSG00000230177 | ENST00000444259 | exon_skip_324294 | chr2:27774423-27774530 | -11.96 | -0.1161 | MRPL33 | ENST00000296102 | 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_171978 | ENSG00000230177.1 | chr6 | 111278447 | + | antisense | RP5-1112D6.4 | ENST00000444259.1 | antisense | RP5-1112D6.4-001 | LncEditing_171979 | ENSG00000230177.1 | chr6 | 111278449 | + | antisense | RP5-1112D6.4 | ENST00000444259.1 | antisense | RP5-1112D6.4-001 | LncEditing_171982 | ENSG00000230177.1 | chr6 | 111278524 | + | antisense | RP5-1112D6.4 | ENST00000444259.1 | antisense | RP5-1112D6.4-001 | LncEditing_171990 | ENSG00000230177.1 | chr6 | 111278682 | + | antisense | RP5-1112D6.4 | ENST00000444259.1 | antisense | RP5-1112D6.4-001 |
Edited-associated DElncRNAs in cancer. |
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LncRNA Ensembl ID | LncRNA Index | Cancer Type | Chr_Postion_Strand | AVE1 | AVE2 | log2FC | W-value | P-value | Adjc.p-value | Change | ENSG00000230177 | LncEditing_171979 | UCEC | chr6_111278449_+ | 1.101833e+01 | 1.270893e+01 | -4.855851e+00 | 4.333874e+00 | 1.465083e-05 | 1.805969e-05 | DOWN | ENSG00000230177 | LncEditing_171979 | DLBC | chr6_111278449_+ | 5.982828e+00 | 2.882537e+00 | 9.492276e-01 | 4.126044e+00 | 3.690560e-05 | 3.222143e-04 | UP | ENSG00000230177 | LncEditing_171979 | GBM | chr6_111278449_+ | 2.279961e+00 | 1.134806e+00 | 9.934791e-01 | 5.752750e+00 | 8.780324e-09 | 2.440991e-08 | UP | ENSG00000230177 | LncEditing_171979 | BLCA | chr6_111278449_+ | 5.759450e+00 | 2.508896e+00 | 8.341129e-01 | 1.204701e+01 | 2.011223e-33 | 4.558773e-32 | UP | ENSG00000230177 | LncEditing_171982 | BLCA | chr6_111278524_+ | 7.137606e+00 | 3.204119e+00 | 8.654167e-01 | 7.456483e+00 | 8.886276e-14 | 1.965095e-13 | UP | ENSG00000230177 | LncEditing_171979 | ACC | chr6_111278449_+ | 3.730818e+00 | 1.838281e+00 | 9.793031e-01 | 3.536586e+00 | 4.053345e-04 | 8.575673e-04 | UP | ENSG00000230177 | LncEditing_171979 | LUSC | chr6_111278449_+ | 4.239665e+00 | 1.975251e+00 | 9.075112e-01 | 1.151905e+01 | 1.057658e-30 | 7.591633e-30 | UP | ENSG00000230177 | LncEditing_171979 | SKCM | chr6_111278449_+ | 3.294541e+00 | 1.581664e+00 | 9.446133e-01 | 8.998556e+00 | 2.287054e-19 | 4.229484e-19 | UP | ENSG00000230177 | LncEditing_171978 | LAML | chr6_111278447_+ | 1.303479e+01 | 9.899084e+00 | 2.518891e+00 | 4.049880e+00 | 5.124390e-05 | 8.517661e-05 | UP | ENSG00000230177 | LncEditing_171979 | LAML | chr6_111278449_+ | 1.176607e+01 | 7.898413e+00 | 1.739138e+00 | 6.165279e+00 | 7.035896e-10 | 3.330968e-09 | UP | ENSG00000230177 | LncEditing_171982 | LAML | chr6_111278524_+ | 1.173015e+01 | 9.525243e+00 | 3.328967e+00 | 3.855841e+00 | 1.153322e-04 | 1.798425e-04 | UP | ENSG00000230177 | LncEditing_171990 | LAML | chr6_111278682_+ | 1.211548e+01 | 9.640115e+00 | 3.032788e+00 | 3.495227e+00 | 4.736585e-04 | 6.557940e-04 | UP | ENSG00000230177 | LncEditing_171979 | PCPG | chr6_111278449_+ | 4.477823e+00 | 2.190158e+00 | 9.692151e-01 | 9.170858e+00 | 4.692680e-20 | 1.900535e-18 | UP | ENSG00000230177 | LncEditing_171982 | PCPG | chr6_111278524_+ | 4.386890e+00 | 2.788234e+00 | 1.529411e+00 | 4.907711e+00 | 9.214558e-07 | 2.092652e-06 | UP | ENSG00000230177 | LncEditing_171979 | KIRP | chr6_111278449_+ | 9.408199e+00 | 8.066759e+00 | 4.505936e+00 | 6.149134e+00 | 7.790717e-10 | 1.642269e-09 | UP | ENSG00000230177 | LncEditing_171979 | THCA | chr6_111278449_+ | 2.826895e+00 | 1.662635e+00 | 1.305914e+00 | 1.024074e+01 | 1.302298e-24 | 7.367632e-24 | UP | ENSG00000230177 | LncEditing_171979 | CHOL | chr6_111278449_+ | 5.710085e+00 | 2.920606e+00 | 1.033865e+00 | 3.072715e+00 | 2.121207e-03 | 5.982839e-03 | UP | ENSG00000230177 | LncEditing_171982 | CHOL | chr6_111278524_+ | 5.986944e+00 | 3.040752e+00 | 1.023131e+00 | 2.701619e+00 | 6.900278e-03 | 1.278581e-02 | UP | ENSG00000230177 | LncEditing_171990 | CHOL | chr6_111278682_+ | 7.077648e+00 | 3.272688e+00 | 8.986389e-01 | 2.768519e+00 | 5.631175e-03 | 1.130722e-02 | UP | ENSG00000230177 | LncEditing_171978 | THYM | chr6_111278447_+ | 6.938930e+00 | 4.375669e+00 | 1.503285e+00 | 3.117859e+00 | 1.821699e-03 | 2.431923e-03 | UP | ENSG00000230177 | LncEditing_171979 | THYM | chr6_111278449_+ | 5.381106e+00 | 3.275627e+00 | 1.396391e+00 | 6.134334e+00 | 8.551684e-10 | 6.917930e-09 | UP | ENSG00000230177 | LncEditing_171982 | THYM | chr6_111278524_+ | 5.321098e+00 | 4.221325e+00 | 2.993759e+00 | 4.457575e+00 | 8.289198e-06 | 1.818925e-05 | UP | ENSG00000230177 | LncEditing_171978 | TGCT | chr6_111278447_+ | 1.123978e+01 | 7.534929e+00 | 1.733258e+00 | 3.918592e+00 | 8.906788e-05 | 1.247560e-04 | UP | ENSG00000230177 | LncEditing_171982 | TGCT | chr6_111278524_+ | 1.025659e+01 | 5.552997e+00 | 1.129673e+00 | 6.264082e+00 | 3.750272e-10 | 1.257263e-09 | UP | ENSG00000230177 | LncEditing_171990 | TGCT | chr6_111278682_+ | 1.189592e+01 | 6.936230e+00 | 1.284945e+00 | 5.363553e+00 | 8.160063e-08 | 1.685589e-07 | UP | ENSG00000230177 | LncEditing_171979 | READ | chr6_111278449_+ | 4.519287e+00 | 2.041663e+00 | 8.723334e-01 | 6.037181e+00 | 1.568301e-09 | 7.707081e-09 | UP | ENSG00000230177 | LncEditing_171979 | LUAD | chr6_111278449_+ | 4.742740e+00 | 2.260387e+00 | 9.353216e-01 | 1.113460e+01 | 8.512827e-29 | 6.826026e-28 | UP | ENSG00000230177 | LncEditing_171979 | STAD | chr6_111278449_+ | 3.377588e+00 | 1.632431e+00 | 9.533150e-01 | 1.183111e+01 | 2.695685e-32 | 6.772317e-31 | UP | ENSG00000230177 | LncEditing_171982 | STAD | chr6_111278524_+ | 3.674908e+00 | 2.205986e+00 | 1.358171e+00 | 6.525426e+00 | 6.780844e-11 | 1.143718e-10 | UP | ENSG00000230177 | LncEditing_171990 | STAD | chr6_111278682_+ | 4.697088e+00 | 2.281545e+00 | 9.599181e-01 | 6.160141e+00 | 7.268024e-10 | 1.136224e-09 | UP | ENSG00000230177 | LncEditing_171979 | CESC | chr6_111278449_+ | 3.837790e+00 | 2.136112e+00 | 1.183027e+00 | 8.555996e+00 | 1.168552e-17 | 7.011313e-17 | UP | ENSG00000230177 | LncEditing_171979 | PRAD | chr6_111278449_+ | 3.715818e+00 | 2.264965e+00 | 1.400186e+00 | 1.055366e+01 | 4.885568e-26 | 2.673491e-25 | UP | ENSG00000230177 | LncEditing_171982 | PRAD | chr6_111278524_+ | 4.063579e+00 | 2.433104e+00 | 1.351437e+00 | 7.689594e+00 | 1.476023e-14 | 3.760042e-14 | UP | ENSG00000230177 | LncEditing_171979 | PAAD | chr6_111278449_+ | 3.660089e+00 | 1.843867e+00 | 1.010975e+00 | 6.439640e+00 | 1.197569e-10 | 6.096717e-10 | UP | ENSG00000230177 | LncEditing_171979 | ESCA | chr6_111278449_+ | 3.358631e+00 | 1.824096e+00 | 1.135471e+00 | 5.958161e+00 | 2.550914e-09 | 6.253469e-09 | UP | ENSG00000230177 | LncEditing_171982 | ESCA | chr6_111278524_+ | 3.671845e+00 | 2.652554e+00 | 2.131637e+00 | 4.383995e+00 | 1.165227e-05 | 1.617427e-05 | UP | ENSG00000230177 | LncEditing_171990 | ESCA | chr6_111278682_+ | 4.254630e+00 | 2.736003e+00 | 1.569948e+00 | 4.261746e+00 | 2.028358e-05 | 2.742864e-05 | 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 | ENSG00000230177 | LncEditing_171978 | -5.630181e-01 | 2.231702e-03 | 6.492225e-03 | ENSG00000230177 | LncEditing_171990 | -5.744341e-01 | 1.312269e-04 | 1.574722e-03 | ENSG00000230177 | LncEditing_171982 | -4.162006e-01 | 3.616795e-03 | 1.222227e-02 | ENSG00000230177 | LncEditing_171982 | -4.589609e-01 | 4.869502e-03 | 1.015343e-02 | ENSG00000230177 | LncEditing_171982 | -3.721640e-01 | 3.038885e-04 | 8.446664e-04 | ENSG00000230177 | LncEditing_171990 | -6.073071e-01 | 1.572953e-05 | 1.261938e-04 | ENSG00000230177 | LncEditing_171979 | -3.812507e-01 | 1.474266e-05 | 2.383396e-03 | ENSG00000230177 | LncEditing_171982 | -3.747210e-01 | 6.200776e-03 | 1.526587e-02 | ENSG00000230177 | LncEditing_171990 | -4.414077e-01 | 2.398230e-02 | 3.304379e-02 | ENSG00000230177 | LncEditing_171982 | -4.372256e-01 | 2.418185e-04 | 4.322506e-04 | ENSG00000230177 | LncEditing_171979 | -3.665607e-01 | 2.870963e-07 | 1.102856e-05 |
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 |
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 | ENSG00000230177 | ENST00000444259 | GRHPR | ENSG00000137106 | ENST00000318158 | -0.1209 | 1 | - | LIHC | ENSG00000230177 | ENST00000444259 | GRHPR | ENSG00000137106 | ENST00000494290 | -0.1888 | 1 | - | LIHC |
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 | ENSG00000230177.1 | ENST00000444259.1 | 55 | 221 | 54 |
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