 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | LRCH4,AGAP6,LRRC14,NISCH,VAMP1,SLC26A11,EPOR,PLEKHG5,PBX2,TTC17,MAPKBP1,RBM39,SLC25A27,LENG8,TMEM234,PGS1,PER2,SH2B1,CIRBP,PHKA2,ATN1,FAM98C,INPPL1,TTC31,ZXDC,MAPK8IP3,LYSMD4,KAT8,SUGP2,DMTF1,L3HYPDH,UNKL,CSAD,KIAA0895L,LMBR1L,SPIN3,TUB,PHYKPL,TMEM259,KMT2B,KLHDC1,POFUT2,NHLRC2,GATAD1,CCNL2,FRA10AC1,CENATAC,NPEPL1,EFS,RNPC3,OGA,C14orf28,CLK3,MSANTD2,RECQL5,TUBGCP6,WDR59,GABBR1,CLK4,TBC1D17,NUMA1,TTC14,CCNT2,CALCOCO1,MTG1,SPG7,FAM76B,POGZ,KAT2A,C19orf44,ZNF91,PKD1,RBM4B,TSC2,PHC1,PIDD1,CLCN6,ECHDC2,OGT,BMPR1A,RBM26,PLA2G6,TAF1C,COX19,RBM25,FAM219B,GABRE,LCAT,MST1,DCAF5,ALS2CL,CHKB,SETD6,POLI,UBN2,EXD3,CLK1,PRPF39,LRIG2,EZH1,MRNIP,RABL2A,ABHD18,ELMOD3,PCED1A,DDX17,SRRM2,NRBP2,GSTM2,MIB2,SENP7,FCHSD1,RAD52,PHF1,HEXIM2,ANO8,CEP44,SDR39U1,HSF4,MAU2,ENOSF1,ARGLU1,YJEFN3,ANKRD49,CDAN1,PAXBP1,CCNL1,RGL3,WSB1,SETD5,ANKRA2,SGSM2,FNBP4,ZBED8,VMAC,INPP5E,POLL,FAM228B,TIGD1,KLC1,CHD2,AGER,GPS2,TRIM52,ATG14,CLASRP,MBD6,TTC32,LTB4R,KIFC2,TIA1,ZMAT1,HOOK2,ZNF83,HEMK1,TMUB2,LMNTD2,CCDC191,ADHFE1,STRADA,PAN2,GOLGA8A,FBXL8,SETD4,SZT2,GIGYF1,ZNF862,PER3,FAM193B,DTX3,AARSD1,TMCO6,SLC25A28,SLC12A4,RBM5,NKTR,ZFC3H1,CRAMP1,MBTD1,PNN,TTLL3,EPM2AIP1,UCKL1,C14orf93,PARP6,DPH7,SCNN1D,POU6F1,WDR27,EME2,REV1,PRPF40B,PNPLA7,KHDC4,PLXNB1,APBB3,ASXL1,TSC1,SH3GLB2,COLCA2,PNISR,MAN2C1,AMT,WHAMM,WBP1,CCDC57,RBM33 | | Exist in public source | | NA |
| 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. |
| 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 |
| -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 | | ENSG00000272734 | ENST00000609111 | exon_skip_111863 | chr14:23565815-23565892 | -18.06 | -0.2656 | AP1G2 | ENST00000308724,ENST00000397120 | Frame-shift | | ENSG00000272734 | ENST00000609111 | exon_skip_340124 | chr2:74142271-74142360 | -14.99 | -0.2111 | BOLA3 | ENST00000327428 | Frame-shift | | ENSG00000272734 | ENST00000609111 | exon_skip_382458 | chr3:38131595-38131638 | -10.50 | -0.3182 | ACAA1 | ENST00000333167 | 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_234901 | ENSG00000272734.1 | chr10 | 86966281 | - | processed_transcript | ADIRF-AS1 | ENST00000609170.1 | retained_intron | ADIRF-AS1-004 | | LncEditing_234909 | ENSG00000272734.1 | chr10 | 86966287 | - | processed_transcript | ADIRF-AS1 | ENST00000609170.1 | retained_intron | ADIRF-AS1-004 | | LncEditing_234917 | ENSG00000272734.1 | chr10 | 86966297 | - | processed_transcript | ADIRF-AS1 | ENST00000609170.1 | retained_intron | ADIRF-AS1-004 | | LncEditing_234921 | ENSG00000272734.1 | chr10 | 86966309 | - | processed_transcript | ADIRF-AS1 | ENST00000609170.1 | retained_intron | ADIRF-AS1-004 | | LncEditing_234925 | ENSG00000272734.1 | chr10 | 86966343 | - | processed_transcript | ADIRF-AS1 | ENST00000609170.1 | retained_intron | ADIRF-AS1-004 |
| 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 | | ENSG00000272734 | LncEditing_234925 | ACC | chr10_86966343_- | 2.832073e+00 | 1.820658e+00 | 1.568876e+00 | 3.006375e+00 | 2.643825e-03 | 3.889765e-03 | UP | | ENSG00000272734 | LncEditing_234901 | THCA | chr10_86966281_- | 2.817425e+00 | 1.661391e+00 | 1.312361e+00 | 8.312576e+00 | 9.364626e-17 | 2.698956e-16 | UP | | ENSG00000272734 | LncEditing_234901 | OV | chr10_86966281_- | 2.972392e+00 | 1.376375e+00 | 9.002920e-01 | 9.926704e+00 | 3.186120e-23 | 1.890089e-22 | UP | | ENSG00000272734 | LncEditing_234909 | OV | chr10_86966287_- | 2.782069e+00 | 1.671513e+00 | 1.360537e+00 | 6.420733e+00 | 1.356195e-10 | 2.437970e-10 | UP | | ENSG00000272734 | LncEditing_234917 | OV | chr10_86966297_- | 3.017617e+00 | 1.656133e+00 | 1.155280e+00 | 6.820230e+00 | 9.089496e-12 | 1.814938e-11 | UP | | ENSG00000272734 | LncEditing_234921 | OV | chr10_86966309_- | 2.579680e+00 | 1.756783e+00 | 1.804219e+00 | 5.278018e+00 | 1.305885e-07 | 1.811103e-07 | 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 | | ENSG00000272734 | LncEditing_234901 | -4.397267e-01 | 5.035345e-07 | 1.181791e-05 | | ENSG00000272734 | LncEditing_234909 | -4.067307e-01 | 3.919968e-04 | 1.090555e-03 | | ENSG00000272734 | LncEditing_234917 | -4.598062e-01 | 1.499355e-04 | 5.561709e-04 | | ENSG00000272734 | LncEditing_234921 | -4.544959e-01 | 3.384456e-04 | 9.727509e-04 | | ENSG00000272734 | LncEditing_234901 | -4.299115e-01 | 1.184284e-04 | 2.160799e-04 | | ENSG00000272734 | LncEditing_234901 | -6.727421e-01 | 5.991745e-03 | 1.518994e-02 | | ENSG00000272734 | LncEditing_234925 | -4.632573e-01 | 3.967690e-02 | 4.639433e-02 |
| 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 | | ENSG00000272734 | ENSG00000213366 | GSTM2 | ACC,BRCA,KIRC,KIRP,SARC,THCA,THYM,UCS | | BRCA | | ENSG00000272734 | ENSG00000012822 | CALCOCO1 | BRCA,KIRC,SARC,THCA,THYM,UCS | | BRCA | | ENSG00000272734 | ENSG00000108799 | EZH1 | BRCA,KIRC,KIRP,THCA,UCS | | BRCA | | ENSG00000272734 | ENSG00000132326 | PER2 | BRCA,KIRP,SARC,THCA,THYM,UCS | | BRCA | | ENSG00000272734 | ENSG00000147576 | ADHFE1 | BRCA,KIRC,KIRP,OV,THCA,THYM | | BRCA | | ENSG00000272734 | ENSG00000175265 | GOLGA8A | BRCA,HNSC,KIRC,KIRP,THCA,THYM | | BRCA | | ENSG00000272734 | ENSG00000184271 | POU6F1 | BRCA,KICH,KIRC,KIRP,SARC,THCA,UCS | | BRCA | | ENSG00000272734 | ENSG00000197776 | KLHDC1 | BRCA,KIRC,KIRP,SARC,THCA | | 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 |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000272734.1 | ENST00000609170.1 | 150 | 4782 | 4330 | | ENSG00000272734.1 | ENST00000440490.1 | 163 | 175 | 666 | | ENSG00000272734.1 | ENST00000418273.2 | 65 | 181 | 378 | | ENSG00000272734.1 | ENST00000609111.1 | 170 | 597 | 1109 |
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