 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | ZNF30,RBM19,NCOA2,DNMT1,PUM1,XRN1,BCL6,KLF9,ILF3,CPEB2,RBM39,KLF12,ZBTB4,GLYR1,GRSF1,KLF7,CIRBP,LCORL,JAZF1,MZF1,MYSM1,NRF1,RBM23,E2F8,AKAP8,ZNF2,KAT7,ARID2,ZXDC,SUGP2,MAFG,RARB,DMTF1,ZFAT,ELF1,MAZ,VEZF1,GLI3,RBM27,ZNF70,BAZ2A,ZNF77,ZNF24,RORA,RBM28,ZNF74,GABPA,NFKB1,DDX24,ZBED4,MEF2C,DDX55,GRHL2,KMT2B,STAT2,ZMAT3,TET3,ZBTB5,ZFP14,ZXDA,RNPC3,ZFP69,BARD1,TRPS1,SAFB2,KDM5B,NOP9,ATMIN,THOC1,FOXO1,MNT,TRNT1,LARP7,CNOT4,AKNA,SON,DDX59,PBX3,ZBED5,ZZZ3,SCAF4,NOL6,TTC14,ZBED3,RBM4,DDX60,KLF6,MEX3C,CREB1,RC3H1,HIF1A,EEA1,ZNF44,ZNF91,ZFP91,RBMX,AGO2,RBM4B,U2AF2,CSTF3,RBMS3,TIGD6,RBM26,TCFL5,ZIK1,RFX2,RBM14,PURB,ZBTB3,GZF1,ADNP,NCBP1,MYEF2,TERF2,MBD1,IKZF4,PUS7L,ASH1L,MEIS1,CLOCK,NFIA,FUBP1,ARNT2,ZFP30,SP4,CPSF7,FLI1,KLF11,PRDM4,TCF20,NFIC,AGFG1,LIN54,UBR5,THAP9,THOC2,DDX6,ZBTB6,ZNF34,ZNF71,THAP6,PATZ1,DDX17,E2F5,SRRM2,PUS7,RFX7,BRF2,FOXN3,AQR,ZNF57,ZNF22,SP2,LCOR,ZHX3,FMR1,MECP2,FOXJ3,KLF3,PURA,PHAX,ZNF41,ZC3H8,TTF1,RBM41,SART3,THAP1,NOL9,DZIP3,IRF2,ZFP62,MEX3D,KLF10,SGSM2,SMAD3,PAIP1,WIZ,ZNF28,CPSF2,ZNF45,CELF1,SCMH1,PSPC1,KRR1,TMF1,ELK4,RBM45,NFXL1,PRDM2,BACH1,AHR,MBD4,RBM18,UNC50,NFIB,FOXP1,MBD6,DDX31,MYNN,TFCP2,PATL1,ZMAT1,ZNF83,SKIL,ZFR,ZNF3,RFX3,NXF1,STAU1,ZFX,ZNF8,NAF1,NR2C2,SYNJ1,STAT6,SIX5,PUS10,GPBP1,PLAG1,BNC2,KDM2B,RBM6,ZNF14,G3BP2,RBM48,LSM11,GMEB2,ZFHX3,PUM2,XPO1,RBM5,CPEB3,ELF2,SMAD4,NFYB,ZNF43,PTBP3,ZFP28,CASZ1,MTF1,SP3,ZNF17,SRCAP,DOT1L,ZNF84,DDX42,TRA2A,AHDC1,KMT2A,PDCD4,NACC2,AKAP1,HINFP,SF3A1,NR2C1,TFDP2,DACH1,ZFP3,MEF2D,IKZF3,TEP1,ADAT1,ZBED6,SFPQ,TET2,RBM33,ZNF16,NOL8,ZNF10 | | 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. |
| Only predicted by lncTar | | MCTS1,RNH1,RALY,THAP3,ERAL1,HES4,SNRPA,ISG20,SLIRP,RRP7A,THOC6,SPI1,LSM7,DDX49,PUF60,LSM3,TEAD4,KLF16,THAP7,THAP4,PPIE,IRF3,RBM42,IRF7,PA2G4 | | 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 | | ENSG00000268087 | ENST00000597226 | exon_skip_1873 | chr1:16391374-16391424 | -6.30 | -0.2423 | SZRD1 | ENST00000401088 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_96024 | chr12:109090008-109090207 | -17.02 | -0.1013 | ALKBH2 | ENST00000343075,ENST00000429722 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_96466 | chr12:111464661-111464715 | -7.11 | -0.2091 | ATXN2 | ENST00000377617 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_104174 | chr13:79353152-79353224 | -6.59 | -0.2197 | RBM26 | ENST00000438737 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_110809 | chr14:105449358-105449409 | -9.49 | -0.2636 | MTA1 | ENST00000331320 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_150854 | chr17:32366664-32366757 | -10.28 | -0.1155 | ZNF207 | ENST00000321233 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_302353 | chr19:11033766-11033865 | -12.03 | -0.1215 | SMARCA4 | ENST00000344626,ENST00000429416 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_316206 | chr19:16377121-16377254 | -13.63 | -0.1206 | EPS15L1 | ENST00000248070 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_328415 | chr2:105881327-105882049 | -43.31 | -0.1444 | NCK2 | ENST00000233154,ENST00000393349 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_358606 | chr20:63202286-63203807 | -37.14 | -0.1035 | YTHDF1 | ENST00000370339 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_426982 | chr4:163515312-163515461 | -14.24 | -0.1104 | TMA16 | ENST00000358572 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_460899 | chr6:85538837-85538864 | -4.81 | -0.2532 | SNX14 | ENST00000314673 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_462554 | chr6:136267028-136267175 | -12.73 | -0.1354 | BCLAF1 | ENST00000531224 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_89597 | chr12:6672349-6672532 | -17.00 | -0.1141 | ZNF384 | ENST00000361959,ENST00000396801 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_423688 | chr4:53414614-53414722 | -18.97 | -0.2062 | FIP1L1 | ENST00000337488 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_90104 | chr12:10709907-10710114 | -20.41 | -0.1140 | YBX3 | ENST00000228251 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_379758 | chr3:180975312-180975404 | -7.79 | -0.1256 | FXR1 | ENST00000357559 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_29546 | chr1:114737470-114737563 | -11.36 | -0.1959 | CSDE1 | ENST00000358528,ENST00000534699 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_299306 | chr18:50274185-50274353 | -22.15 | -0.1384 | MBD1 | ENST00000269468,ENST00000382948,ENST00000591416 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_445390 | chr5:150403120-150403312 | -18.58 | -0.1264 | CD74 | ENST00000009530 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_4279 | chr1:36174897-36175008 | -11.21 | -0.1168 | MAP7D1 | ENST00000373151 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_41664 | chr10:58390764-58390860 | -8.57 | -0.2090 | TFAM | ENST00000487519 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_61261 | chr11:65713347-65713503 | -15.03 | -0.1022 | KAT5 | ENST00000377046 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_145647 | chr16:69121052-69121170 | -12.71 | -0.1210 | CHTF8 | ENST00000398235,ENST00000448552 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_353131 | chr20:58669290-58669453 | -18.10 | -0.1692 | STX16 | ENST00000371141 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_371367 | chr3:9697710-9697866 | -15.43 | -0.1196 | MTMR14 | ENST00000296003 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_511289 | chrX:76176880-76176992 | -12.99 | -0.1510 | PBDC1 | ENST00000373358 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_382439 | chr3:38126161-38126341 | -16.09 | -0.1463 | ACAA1 | ENST00000333167 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_111672 | chr14:23089981-23090101 | -14.95 | -0.1510 | ACIN1 | ENST00000262710 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_424741 | chr4:83458345-83458429 | -10.23 | -0.1827 | MRPS18C | ENST00000295491 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_139297 | chr16:88065266-88065332 | -13.03 | -0.7239 | BANP | ENST00000286122,ENST00000393207 | In-frame | | ENSG00000268087 | ENST00000597226 | exon_skip_363747 | chr22:23877720-23877869 | -18.36 | -0.1583 | SLC2A11 | ENST00000345044 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_120741 | chr15:34228428-34228589 | -12.30 | -0.1150 | EMC4 | ENST00000267750 | Frame-shift |
| -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 | | ENSG00000268087 | ENST00000597226 | exon_skip_327748 | chr2:95410863-95411026 | -16.95 | -0.1123 | FAHD2A | ENST00000233379,ENST00000447036 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_345955 | chr2:200860124-200860215 | -9.69 | -0.1346 | CLK1 | ENST00000321356 | Frame-shift | | ENSG00000268087 | ENST00000597226 | exon_skip_446942 | chr5:178617343-178617434 | -10.78 | -0.1497 | CLK4 | ENST00000316308 | Frame-shift |
| lncRNA targets by miRNA. |
 |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | | ENSG00000268087 | hsa-mir-3614 | ENST00000597226 | chr19:16610462-16610551 | 195.00 | -85.54 | 89 | NA | | ENSG00000268087 | hsa-mir-3614 | ENST00000597226 | chr19:16610684-16610772 | 158.00 | -72.81 | 89 | NA | | ENSG00000268087 | hsa-mir-3614 | ENST00000597226 | chr19:16610606-16610686 | 153.00 | -70.56 | 80 | NA | | ENSG00000268087 | hsa-mir-186 | ENST00000597226 | chr19:16610423-16610505 | 186.00 | -75.05 | 86 | NA | | ENSG00000268087 | hsa-mir-186 | ENST00000597226 | chr19:16610690-16610771 | 179.00 | -69.00 | 84 | NA | | ENSG00000268087 | hsa-mir-186 | ENST00000597226 | chr19:16610528-16610622 | 155.00 | -69.37 | 90 | NA | | ENSG00000268087 | hsa-mir-365a | ENST00000597226 | chr19:16610656-16610742 | 170.00 | -68.61 | 59 | NA | | ENSG00000268087 | hsa-mir-365a | ENST00000597226 | chr19:16610462-16610562 | 157.00 | -80.89 | 97 | NA | | ENSG00000268087 | hsa-mir-365b | ENST00000597226 | chr19:16610458-16610568 | 179.00 | -90.64 | 110 | NA | | ENSG00000268087 | hsa-mir-365b | ENST00000597226 | chr19:16610566-16610683 | 170.00 | -84.20 | 116 | NA | | ENSG00000268087 | hsa-mir-33b | ENST00000597226 | chr19:16610620-16610720 | 170.00 | -97.37 | 64 | NA | | ENSG00000268087 | hsa-mir-33b | ENST00000597226 | chr19:16610412-16610498 | 168.00 | -96.37 | 87 | NA | | ENSG00000268087 | hsa-mir-576 | ENST00000597226 | chr19:16610412-16610490 | 169.00 | -78.43 | 74 | NA | | ENSG00000268087 | hsa-mir-576 | ENST00000597226 | chr19:16610528-16610618 | 169.00 | -77.61 | 99 | NA | | ENSG00000268087 | hsa-mir-576 | ENST00000597226 | chr19:16610611-16610726 | 159.00 | -88.68 | 110 | 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 |
| 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 | | ENSG00000268087 | CTC-429P9.2,hsa-mir-576,CEP68 | TGCT,CHOL,LGG,UCS,THYM | | ENSG00000268087 | CTC-429P9.2,hsa-mir-33b,YLPM1 | TGCT,ACC,DLBC,THYM,LIHC | | ENSG00000268087 | CTC-429P9.2,hsa-mir-33b,SUFU | TGCT,ACC,DLBC,THYM,LIHC | | ENSG00000268087 | CTC-429P9.2,hsa-mir-33b,TNRC18 | TGCT,ACC,DLBC,THYM,LIHC | | ENSG00000268087 | CTC-429P9.2,hsa-mir-33b,PBX2 | TGCT,ACC,DLBC,THYM,LIHC | | ENSG00000268087 | CTC-429P9.2,hsa-mir-33b,SMAD3 | TGCT,ACC,DLBC,THYM,LIHC | | ENSG00000268087 | CTC-429P9.2,hsa-mir-33b,KMT2E | TGCT,ACC,DLBC,THYM,LIHC |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000268087.1 | ENST00000597226.1 | 97 | 710 | 1003 |
|
