lncRNA targets the enhancer region and positively regulates the gene expression. |
Only predicted by TDF | CHTOP,LSM5,SOX12,PHF1,RBM6,ZBED5,HMGN3,CPSF3,EIF3G,THYN1,KHDC1,DEAF1,DDX49,GLI4,THAP4,EDC3,CENPT,NOL3,MYPOP,HSF4,THOC6,RBM42,FXR2,RBM5,IRF3,CIRBP,PCBP2,SUGP1,DDX56,IMP3,THAP8,LSM2,MZF1,ZNF48,CSTF1,SGSM2,NRF1,LSM4,TFEB,PIN1,THOC5,RBPMS,RXRB,TIGD1,RBM10,RFX2,RNPS1,ERAL1,DDX51,TRA2A,MBD3,HES6,RRP7A,SMYD3,THAP3,CWC15,CENPB,NAIF1,DHX34,HINFP,XPA,FIZ1,THOC7,PPIE,USF2,SF3B6,NELFE,RALY,USF1,GATA3,CXXC1,SNRPA,ZNF34,SAFB2,THOC1,PATZ1,LSM3,ZNF18 | 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 | NCOA2,CPEB4,AGFG1,PPARA,ZNF28,FOXN3 | 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 | ENSG00000273456 | ENST00000607928 | exon_skip_430633 | chr4:82861630-82861708 | -10.65 | -0.2878 | SEC31A | ENST00000355196,ENST00000395310,ENST00000448323 | 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 | ENSG00000273456 | ENST00000607928 | exon_skip_111863 | chr14:23565815-23565892 | -17.38 | -0.2381 | AP1G2 | ENST00000308724,ENST00000397120 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_466137 | chr7:48103296-48103411 | -15.03 | -0.1354 | UPP1 | ENST00000331803,ENST00000395564 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_16568 | chr1:201989382-201989531 | -18.09 | -0.1381 | RNPEP | ENST00000295640 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_41841 | chr10:68756272-68756483 | -19.02 | -0.1160 | CCAR1 | ENST00000265872 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_324294 | chr2:27774423-27774530 | -13.16 | -0.1687 | MRPL33 | ENST00000296102 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_382458 | chr3:38131595-38131638 | -8.70 | -0.2559 | ACAA1 | ENST00000333167 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_319223 | chr19:43526200-43526349 | -21.98 | -0.1628 | ETHE1 | ENST00000292147 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_436498 | chr5:96729152-96729209 | -9.20 | -0.1769 | CAST | ENST00000341926,ENST00000395813 | In-frame | ENSG00000273456 | ENST00000607928 | exon_skip_462160 | chr6:127316449-127316502 | -7.17 | -0.2656 | ECHDC1 | ENST00000531967 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_374581 | chr3:50110378-50110463 | -14.76 | -0.2952 | RBM5 | ENST00000347869 | Frame-shift | ENSG00000273456 | ENST00000607928 | exon_skip_153767 | chr17:48057031-48057121 | -16.54 | -0.1901 | NFE2L1 | ENST00000362042 | In-frame | ENSG00000273456 | ENST00000607928 | exon_skip_472578 | chr7:151236407-151236590 | -19.96 | -0.1109 | CHPF2 | ENST00000035307 | In-frame | ENSG00000273456 | ENST00000607928 | exon_skip_6419 | chr1:51756319-51756358 | -11.15 | -0.8577 | OSBPL9 | ENST00000428468 | In-frame |
lncRNA targets by miRNA. |
LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | ENSG00000273456 | hsa-mir-22 | ENST00000607928 | chr2:202375447-202375537 | 173.00 | -75.33 | 91 | NA | ENSG00000273456 | hsa-mir-22 | ENST00000607928 | chr2:202375184-202375280 | 163.00 | -83.23 | 90 | NA | ENSG00000273456 | hsa-mir-22 | ENST00000607928 | chr2:202375277-202375365 | 156.00 | -76.62 | 89 | NA | ENSG00000273456 | hsa-mir-22 | ENST00000607928 | chr2:202375074-202375148 | 153.00 | -63.67 | 77 | NA | ENSG00000273456 | hsa-mir-146b | ENST00000607928 | chr2:202375044-202375118 | 194.00 | -70.75 | 73 | NA | ENSG00000273456 | hsa-mir-146b | ENST00000607928 | chr2:202374957-202375028 | 151.00 | -62.73 | 60 | NA | ENSG00000273456 | hsa-mir-146b | ENST00000607928 | chr2:202375431-202375498 | 150.00 | -60.66 | 70 | NA | ENSG00000273456 | hsa-mir-146b | ENST00000607928 | chr2:202375158-202375231 | 146.00 | -63.99 | 72 | NA | ENSG00000273456 | hsa-mir-146b | ENST00000607928 | chr2:202375298-202375371 | 144.00 | -71.46 | 74 | NA | ENSG00000273456 | hsa-mir-146b | ENST00000607928 | chr2:202375365-202375435 | 141.00 | -68.46 | 63 | 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 | ENSG00000273456 | RP11-686O6.2,hsa-mir-146b,NECAB3 | CHOL,THCA,DLBC,PAAD,SARC | ENSG00000273456 | RP11-686O6.2,hsa-mir-146b,NT5M | CHOL,THCA,DLBC,PAAD,SARC | ENSG00000273456 | RP11-686O6.2,hsa-mir-146b,PXMP4 | CHOL,THCA,DLBC,PAAD,SARC | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,C1orf35 | KICH,CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,SPOP | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,FUZ | KICH,CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,PRR14 | KICH,CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,C2orf68 | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,ILKAP | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,RETREG3 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,BOLA1 | KICH,CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,KAT2A | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,NCAPH2 | CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,EXD3 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,PPOX | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,C17orf75 | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,NEIL1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,HEXIM2 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,POLR2H | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,PIDD1 | CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,PAGR1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,DYNC2I2 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,ING5 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,MRPL53 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,PTMA | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,SBK1 | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,TSEN54 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,TEPSIN | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,MRPL38 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,IQCC | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,FBXO46 | KICH,CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,CCDC57 | KICH,CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,SNRPA | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,CXXC1 | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,INTS11 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,SUGP1 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,CDK5RAP3 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,RBM14 | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,HINFP | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,MKS1 | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,UBXN11 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,WDR83 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,BUD13 | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,SSBP4 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,NT5C | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,SRRT | KICH,CHOL,PAAD,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,PMF1 | KICH,CHOL,PAAD,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,PLXNB1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,WBP1 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,WDR90 | KICH,CHOL,PAAD,SARC,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,SKA2 | KICH,CHOL,SARC,THYM,KIRP | ENSG00000273456 | RP11-686O6.2,hsa-mir-22,CCHCR1 | KICH,CHOL,SARC,THYM,KIRP |
ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | ENSG00000273456.1 | ENST00000607928.1 | 49 | 375 | 226 |
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