lncRNA targets the enhancer region and positively regulates the gene expression. |
Only predicted by TDF | ZNF30,BCL6,KLF9,CPEB2,PBX2,RBM39,KLF12,ZBTB4,CIRBP,JAZF1,MZF1,MYSM1,RFX5,AKAP8,ZNF2,ZXDC,SUGP2,RARB,DMTF1,VEZF1,ZNF70,ZNF74,TBP,GABPA,MEF2C,ZFP14,ZFP69,SAFB2,ZNF25,DDX59,PBX3,ZBED5,TTC14,RC3H1,ZNF44,RBM4B,RBPMS,TIGD6,RBM26,PURB,ZBTB3,IKZF4,ASH1L,NFYC,DHX34,NFIA,ARNT2,HAND2,SP4,PPIE,RBM43,CPSF7,KLF11,NFIC,THAP9,ZNF34,THAP6,DDX17,E2F6,PRR12,ZNF22,LCOR,MECP2,PHF1,HSF4,DZIP3,KLF10,SMAD3,ELK4,TIGD1,RBM45,UNC50,NFIB,MBD6,FIZ1,SALL2,MYNN,ZNF83,QKI,NSUN6,ZNF3,NXF1,NR2C2,EIF2D,SYNJ1,TEAD2,ARNT,KDM2B,HMGN3,RFX1,LSM11,PUM2,TEAD3,RBM5,ELF2,SMAD4,RBMS1,NFYB,ZFP28,ZNF84,BAZ2B,RXRB,TRA2A,AHDC1,KMT2A,NR2C1,ZFP3,ZNF10 | Exist in public source | NA |
lncRNA targets the promoter region and positively regulates the gene expression. |
Only predicted by TDF | AGO1,BCL6,TBP,DDX17,ZFP14,MZF1,TEAD2,ZBTB4,E4F1,ZNF22,E2F6,RBM5,MECP2,RBMS2,HLF,SRSF5,TIGD6,RBM43,MYNN,ZNF3,CPSF7,ZNF83,EIF2D,ZFP3,ZNF70,NR2C2,AGO4,ZNF30,NFIA,ZNF2,FOXJ2,HAND2,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. |
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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 | ORF mutation | ENSG00000260077 | ENST00000567540 | exon_skip_42594 | chr10:74111908-74112112 | -20.96 | -0.1344 | VCL | ENST00000211998 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_84383 | chr12:57093406-57093598 | -24.69 | -0.1372 | NAB2 | ENST00000300131 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_287874 | chr17:29085603-29085648 | -8.29 | -0.2022 | MYO18A | ENST00000527372 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_301267 | chr19:6746028-6746196 | -17.01 | -0.1083 | TRIP10 | ENST00000313244 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_313472 | chr19:5216719-5216767 | -12.72 | -0.3262 | PTPRS | ENST00000587303 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_322579 | chr19:55455635-55455845 | -29.47 | -0.1466 | ISOC2 | ENST00000425675 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_48327 | chr10:26771074-26771089 | -5.35 | -0.4864 | ABI1 | ENST00000376142 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_460899 | chr6:85538837-85538864 | -6.39 | -0.3043 | SNX14 | ENST00000314673 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_302353 | chr19:11033766-11033865 | -18.81 | -0.3420 | SMARCA4 | ENST00000344626,ENST00000429416 | In-frame |
-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 | ENSG00000260077 | ENST00000567540 | exon_skip_7523 | chr1:78660553-78660654 | -13.00 | -0.1398 | IFI44 | ENST00000370747 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_111863 | chr14:23565815-23565892 | -15.12 | -0.2291 | AP1G2 | ENST00000308724,ENST00000397120 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_131398 | chr15:101286213-101286293 | -12.36 | -0.1648 | SNRPA1 | ENST00000254193 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_132355 | chr16:1786756-1786955 | -37.38 | -0.1888 | NUBP2 | ENST00000262302 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_11029 | chr1:154989559-154989707 | -18.61 | -0.1275 | FLAD1 | ENST00000292180 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_103741 | chr13:49669776-49669846 | -9.12 | -0.1754 | EBPL | ENST00000242827 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_114200 | chr14:73279280-73279424 | -19.93 | -0.1845 | NUMB | ENST00000355058,ENST00000555238 | In-frame | ENSG00000260077 | ENST00000567540 | exon_skip_287763 | chr17:28884224-28884315 | -17.26 | -0.2242 | FLOT2 | ENST00000394908 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_374375 | chr3:49675182-49675309 | -18.19 | -0.1542 | APEH | ENST00000296456 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_16568 | chr1:201989382-201989531 | -15.86 | -0.1279 | RNPEP | ENST00000295640 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_41841 | chr10:68756272-68756483 | -19.43 | -0.1170 | CCAR1 | ENST00000265872 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_382458 | chr3:38131595-38131638 | -8.06 | -0.2303 | ACAA1 | ENST00000333167 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_470226 | chr7:103307595-103307708 | -15.34 | -0.1805 | PMPCB | ENST00000249269 | Frame-shift | ENSG00000260077 | ENST00000567540 | exon_skip_99811 | chr13:37002272-37002309 | -9.23 | -0.3550 | EXOSC8 | ENST00000389704 | Frame-shift |
lncRNA targets by miRNA. |
LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10039690-10039789 | 196.00 | -99.58 | 98 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10039093-10039184 | 195.00 | -102.96 | 83 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10039966-10040057 | 182.00 | -98.61 | 94 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10039296-10039399 | 173.00 | -106.09 | 86 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10040418-10040520 | 173.00 | -80.94 | 100 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10039230-10039317 | 172.00 | -86.91 | 95 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10039601-10039700 | 171.00 | -97.61 | 94 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10039460-10039569 | 156.00 | -106.79 | 104 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10039822-10039915 | 148.00 | -94.33 | 94 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10040575-10040664 | 147.00 | -85.95 | 83 | NA | ENSG00000260077 | hsa-mir-33b | ENST00000567540 | chr2:10040174-10040273 | 146.00 | -86.52 | 83 | 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 | ENSG00000260077 | ENSG00000167967 | E4F1 | ENSG00000099326 | MZF1 | 6 | CHOL,HNSC,KIRC,KIRP,LIHC,THCA | ENSG00000260077 | ENSG00000167967 | E4F1 | ENSG00000003756 | RBM5 | 5 | HNSC,KIRC,KIRP,LIHC,THCA | ENSG00000260077 | ENSG00000118058 | KMT2A | ENSG00000184898 | RBM43 | 6 | DLBC,LIHC,PCPG,READ,SARC,THYM | ENSG00000260077 | ENSG00000118058 | KMT2A | ENSG00000134698 | AGO4 | 5 | DLBC,LIHC,PAAD,READ,THYM |
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 | ENSG00000260077.1 | ENST00000567540.1 | 94 | 711 | 995 |
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