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 | CNIH1,SEC23B,SMIM12,PNPO,LDHA,HSPA8,CHP1,NTMT1,HSPA4,SSR3,CCT7,PRDX1,ATP5F1B,PLEKHB2,TUBA1C,DPP3,GPN1,GDI2,ATP5PB,PSMD1,ORMDL2 | 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 | ENSG00000272836 | ENST00000610050 | exon_skip_1234 | chr1:11658532-11658628 | -18.38 | -0.2042 | FBXO44 | ENST00000251547,ENST00000376770 | In-frame |
-lncRNA and exonskipping events are negatively correlated. |
![lncRNA and exonskipping events negative correlated](images/figure_exon/figure_neg/ENSG00000272836.svg) |
LncRNA Ensembl ID | LncRNA ENST ID | Exon ID | Skipped Exon | dG | ndG | Gene name with skipped exon | TransID with skipped exon | LOF | ENSG00000272836 | ENST00000610050 | exon_skip_62623 | chr11:69079833-69079883 | -14.11 | -0.4409 | TPCN2 | ENST00000294309 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_66482 | chr11:126274926-126275021 | -11.77 | -0.1435 | FOXRED1 | ENST00000263578 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_110959 | chr14:20372732-20372857 | -14.54 | -0.1671 | TEP1 | ENST00000262715 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_111863 | chr14:23565815-23565892 | -15.31 | -0.2686 | AP1G2 | ENST00000308724,ENST00000397120 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_114376 | chr14:74293153-74293248 | -15.55 | -0.1690 | ABCD4 | ENST00000356924 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_302168 | chr19:10680345-10680443 | -13.35 | -0.1517 | ILF3 | ENST00000590261 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_370518 | chr22:50247691-50247776 | -16.29 | -0.3017 | HDAC10 | ENST00000216271 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_382458 | chr3:38131595-38131638 | -8.90 | -0.5933 | ACAA1 | ENST00000333167 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_290158 | chr17:42953723-42953778 | -9.42 | -0.1777 | AARSD1 | ENST00000427569 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_431827 | chr4:109696409-109696486 | -6.48 | -0.2400 | CASP6 | ENST00000265164 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_462144 | chr6:125298713-125298816 | -17.60 | -0.2286 | HDDC2 | ENST00000398153 | Frame-shift | ENSG00000272836 | ENST00000610050 | exon_skip_470226 | chr7:103307595-103307708 | -14.39 | -0.1893 | PMPCB | ENST00000249269 | Frame-shift |
lncRNA targets by miRNA. |
LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | ENSG00000272836 | hsa-mir-22 | ENST00000610050 | chr22:50205590-50205670 | 154.00 | -81.67 | 79 | NA | ENSG00000272836 | hsa-mir-22 | ENST00000610050 | chr22:50205776-50205856 | 151.00 | -88.10 | 80 | 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 | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,WDR33 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,MUS81 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,CRMP1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,PHF2 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,COIL | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,YTHDC1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,PRR14 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,C2orf68 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,TSNARE1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,ZNF7 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,ZC3H4 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,NAA16 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,PHC1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,CRAMP1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,PAXBP1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,TNRC18 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,PAGR1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,TIA1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,DPF2 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,EDRF1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,SBK1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,RBMX | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,FBXO46 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,MKRN1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,RBM14 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,PCIF1 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,DGCR8 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,CTDSPL2 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,PARP6 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,CLK3 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,ILF3 | PCPG,CHOL,LGG,SARC,KIRP | ENSG00000272836 | RP3-402G11.27,hsa-mir-22,EDC3 | PCPG,CHOL,LGG,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 | ENSG00000272836.1 | ENST00000610050.1 | 198 | 101 | 697 |
|