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. |
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 | ENSG00000262877 | ENST00000608155 | exon_skip_1234 | chr1:11658532-11658628 | -19.02 | -0.2348 | FBXO44 | ENST00000251547,ENST00000376770 | 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 | ENSG00000262877 | ENST00000608155 | exon_skip_66482 | chr11:126274926-126275021 | -11.48 | -0.2870 | FOXRED1 | ENST00000263578 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_111863 | chr14:23565815-23565892 | -13.87 | -0.2102 | AP1G2 | ENST00000308724,ENST00000397120 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_290158 | chr17:42953723-42953778 | -10.03 | -0.1892 | AARSD1 | ENST00000427569 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_377198 | chr3:123130479-123130616 | -13.32 | -0.1233 | PDIA5 | ENST00000316218 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_382458 | chr3:38131595-38131638 | -9.41 | -0.7238 | ACAA1 | ENST00000333167 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_4796 | chr1:41007448-41007545 | -11.79 | -0.1474 | CTPS1 | ENST00000372616,ENST00000372621 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_7523 | chr1:78660553-78660654 | -12.79 | -0.1487 | IFI44 | ENST00000370747 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_16568 | chr1:201989382-201989531 | -13.74 | -0.1309 | RNPEP | ENST00000295640 | Frame-shift | ENSG00000262877 | ENST00000571724 | exon_skip_38175 | chr1:234398381-234398553 | -18.99 | -0.1417 | TARBP1 | ENST00000040877 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_41813 | chr10:68337857-68337996 | -19.95 | -0.1900 | HNRNPH3 | ENST00000265866 | Frame-shift | ENSG00000262877 | ENST00000571724 | exon_skip_41841 | chr10:68756272-68756483 | -26.71 | -0.1518 | CCAR1 | ENST00000265872 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_53559 | chr10:101793912-101793998 | -10.05 | -0.2233 | OGA | ENST00000361464 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_62623 | chr11:69079833-69079883 | -11.37 | -0.2773 | TPCN2 | ENST00000294309 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_74009 | chr11:64773429-64773505 | -13.09 | -0.2111 | SF1 | ENST00000377390 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_95407 | chr12:95040475-95040597 | -15.34 | -0.1300 | NR2C1 | ENST00000333003 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_114365 | chr14:74290026-74290118 | -14.88 | -0.1815 | ABCD4 | ENST00000356924 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_133217 | chr16:8635038-8635079 | -9.37 | -1.0411 | METTL22 | ENST00000381920 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_139422 | chr16:89114338-89114487 | -20.65 | -0.1518 | ACSF3 | ENST00000317447,ENST00000406948 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_300663 | chr19:1425877-1425960 | -9.36 | -0.1337 | DAZAP1 | ENST00000233078 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_302168 | chr19:10680345-10680443 | -13.17 | -0.1386 | ILF3 | ENST00000590261 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_370518 | chr22:50247691-50247776 | -13.38 | -0.1738 | HDAC10 | ENST00000216271 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_374497 | chr3:49999439-49999513 | -12.12 | -0.2376 | RBM6 | ENST00000266022 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_380242 | chr3:186784961-186785101 | -15.98 | -0.1551 | EIF4A2 | ENST00000323963 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_436035 | chr5:79656957-79657001 | -10.63 | -0.4622 | TENT2 | ENST00000296783,ENST00000428308,ENST00000453514 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_442657 | chr5:74730259-74730398 | -12.90 | -0.1142 | GFM2 | ENST00000296805,ENST00000509430 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_446758 | chr5:178212972-178213103 | -11.32 | -0.1121 | PHYKPL | ENST00000308158 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_462144 | chr6:125298713-125298816 | -11.75 | -0.1865 | HDDC2 | ENST00000398153 | Frame-shift | ENSG00000262877 | ENST00000608155 | exon_skip_470226 | chr7:103307595-103307708 | -11.71 | -0.1394 | PMPCB | ENST00000249269 | Frame-shift | ENSG00000262877 | ENST00000571724 | exon_skip_327433 | chr2:86125794-86125880 | -7.65 | -0.1821 | PTCD3 | ENST00000254630 | Frame-shift |
lncRNA targets by miRNA. |
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LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81388556-81388640 | 195.00 | -80.19 | 87 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81388233-81388323 | 174.00 | -100.88 | 89 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81388134-81388216 | 171.00 | -86.66 | 86 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81388327-81388415 | 168.00 | -75.72 | 89 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81388779-81388876 | 168.00 | -98.87 | 94 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81389469-81389548 | 167.00 | -80.27 | 82 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81388966-81389056 | 164.00 | -87.35 | 92 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81389182-81389274 | 156.00 | -95.34 | 88 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81388870-81388958 | 150.00 | -99.94 | 88 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000571724 | chr17:81388449-81388533 | 148.00 | -75.46 | 81 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000608155 | chr17:81388322-81388407 | 182.00 | -80.35 | 80 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000608155 | chr17:81388200-81388288 | 168.00 | -75.72 | 89 | NA | ENSG00000262877 | hsa-mir-22 | ENST00000608155 | chr17:81388132-81388196 | 162.00 | -82.47 | 65 | 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 | ENSG00000262877 | ENSG00000004534 | RBM6 | exon_skip_382458 | ENSG00000060971:chr3:38131595-38131638 | ACAA1 | ENST00000333167 | Frame-shift | SARC,UVM,SKCM,PRAD,PCPG,PAAD,THCA | ENSG00000262877 | ENSG00000004534 | RBM6 | exon_skip_370518 | ENSG00000100429:chr22:50247691-50247776 | HDAC10 | ENST00000216271 | Frame-shift | UVM,SKCM,PRAD,PAAD,THCA | ENSG00000262877 | ENSG00000004534 | RBM6 | exon_skip_442657 | ENSG00000164347:chr5:74730259-74730398 | GFM2 | ENST00000296805,ENST00000509430 | Frame-shift | UVM,SKCM,PCPG,PAAD,THCA | ENSG00000262877 | ENSG00000004534 | RBM6 | exon_skip_470226 | ENSG00000105819:chr7:103307595-103307708 | PMPCB | ENST00000249269 | Frame-shift | UVM,SKCM,PRAD,PCPG,PAAD,THCA |
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 | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,NDE1 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,CRMP1 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,C1orf35 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,USP21 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,TRIM45 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,FUZ | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,PRR14 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,KIAA0895L | CHOL,MESO,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,BOLA1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,KAT2A | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,NCAPH2 | CHOL,MESO,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,PHC1 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,EXD3 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,RBM4B | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,PPOX | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,DNMT3A | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,SFI1 | CHOL,MESO,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,NEIL1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,HEXIM2 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,SALL2 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,PAGR1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,ING5 | KICH,CHOL,MESO,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,SYNGAP1 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,E4F1 | CHOL,MESO,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,KHDC4 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,PHF10 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,MTMR11 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,GABBR1 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,EDRF1 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,SBK1 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,TSEN54 | KICH,CHOL,MESO,PAAD,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,FAM228B | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,MRPL38 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,CELSR2 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,FBXO46 | KICH,CHOL,MESO,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,CCDC57 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,COPS7B | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,C14orf93 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,PURB | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,DGCR8 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,POGZ | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,THOC2 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,BUD13 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,SSBP4 | KICH,CHOL,MESO,PAAD,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,LYSMD1 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,HMGB2 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,RGL3 | CHOL,MESO,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,SRRT | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,PLXNB1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,CASC3 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,TTC13 | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,WBP1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,ANP32E | KICH,CHOL,MESO,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,WDR90 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000262877 | RP11-1055B8.4,hsa-mir-22,CCHCR1 | KICH,CHOL,MESO,SARC,KIRP |
ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | ENSG00000262877.4 | ENST00000571724.3 | 104 | 330 | 16 | ENSG00000262877.4 | ENST00000608155.1 | 167 | 491 | 994 |
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