 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 | | CNOT1,NEK4,RBBP4,SINHCAF,VPS26C,TRAP1,CES2,PNPO,GET3,UHRF1BP1L,RNF123,HACD3,PFKM,SENP2,RNF40,EPB41,PCDHGC3,GNL3L,DHX40,EHBP1,CEP104,TSR1,HPS3,EIF4G1,RAB7A,SERP1,ATP6V0C,PUM1,OS9,C1orf43,RABL3,L2HGDH,RAB3IP,VGLL4,LZIC,THTPA,EXOC7,M6PR,ATP2C1,MFSD6,ANAPC1,PMS2,APAF1,FBXO21,ILK,FLT1,NMNAT3,TUBGCP4,GOLIM4,PC,KIDINS220,DOCK7,WBP11,RFFL,ARNT,ABAT,BRD3,BCKDHA,GANAB,PCCA,ZFPL1,DCAF11,WLS,SLC25A15,MTMR12,PSME3,AP2B1,SMAD1,COPB2,WIPF2,PRKAR2A,RAB11FIP1,FBXL14,RAB5C,PRPS1,ZFAND3,COPG1,HSPG2,C1orf109,MCCC1,KBTBD4,SSX2IP,APP,CHTF8,STT3A,CFL2,ARF3,ATPAF1,NCOA4,SMG6,SF3A1,SNX3,TMLHE,KLHL5,PKP2,ABHD5,AZI2,RSRC1,PEX19,PIGS,TBC1D23,TM9SF4,ALDH5A1,MRPL49,NEO1,SEC23B,PLS1,EIF3L,SNX4,IPO9,LDHD,LARS2,IQCK,CS,PRKAR1A,BRF2,SUFU,MIEF1,ARL2BP,HCCS,SLC25A30,PLAA,CPD,EVC,BTD,AMBRA1,RUSF1,USP10,GABARAPL1,AGBL5,UBFD1,ADAT1,CTDSP2,BCKDHB,CRADD,MCFD2,NOMO2,BSCL2,ZDHHC4 | | 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 | | ENSG00000269958 | ENST00000602422 | exon_skip_470077 | chr7:102397619-102397698 | -11.74 | -0.1525 | PRKRIP1 | ENST00000397912,ENST00000496391 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_372419 | chr3:32449453-32449552 | -11.29 | -0.1241 | CMTM7 | ENST00000334983 | In-frame | | ENSG00000269958 | ENST00000602422 | exon_skip_340124 | chr2:74142271-74142360 | -10.79 | -0.1332 | BOLA3 | ENST00000327428 | 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 | | ENSG00000269958 | ENST00000602422 | exon_skip_349646 | chr20:25207075-25207397 | -34.88 | -0.1282 | ENTPD6 | ENST00000376652 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_41813 | chr10:68337857-68337996 | -15.13 | -0.1164 | HNRNPH3 | ENST00000265866 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_370518 | chr22:50247691-50247776 | -15.06 | -0.1883 | HDAC10 | ENST00000216271 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_382458 | chr3:38131595-38131638 | -8.89 | -0.2615 | ACAA1 | ENST00000333167 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_387016 | chr3:121788283-121788432 | -13.93 | -0.1114 | IQCB1 | ENST00000310864 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_53559 | chr10:101793912-101793998 | -11.22 | -0.1352 | OGA | ENST00000361464 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_114365 | chr14:74290026-74290118 | -14.01 | -0.1819 | ABCD4 | ENST00000356924 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_127618 | chr15:58890280-58890461 | -19.28 | -0.1518 | SLTM | ENST00000380516 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_353131 | chr20:58669290-58669453 | -24.80 | -0.1771 | STX16 | ENST00000371141 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_363747 | chr22:23877720-23877869 | -24.67 | -0.1737 | SLC2A11 | ENST00000345044 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_377198 | chr3:123130479-123130616 | -20.55 | -0.1605 | PDIA5 | ENST00000316218 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_442657 | chr5:74730259-74730398 | -15.37 | -0.1240 | GFM2 | ENST00000296805,ENST00000509430 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_444499 | chr5:138164086-138164133 | -6.33 | -0.4220 | BRD8 | ENST00000254900 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_445390 | chr5:150403120-150403312 | -21.95 | -0.1347 | CD74 | ENST00000009530 | In-frame | | ENSG00000269958 | ENST00000602422 | exon_skip_446758 | chr5:178212972-178213103 | -19.15 | -0.1637 | PHYKPL | ENST00000308158 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_470226 | chr7:103307595-103307708 | -12.56 | -0.1380 | PMPCB | ENST00000249269 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_511212 | chrX:71555189-71555385 | -22.01 | -0.1171 | OGT | ENST00000373719 | Frame-shift | | ENSG00000269958 | ENST00000602422 | exon_skip_382439 | chr3:38126161-38126341 | -21.54 | -0.1517 | ACAA1 | ENST00000333167 | In-frame |
| lncRNA targets by miRNA. |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | | ENSG00000269958 | hsa-let-7c | ENST00000602422 | chr14:103696508-103696597 | 182.00 | -58.40 | 90 | NA | | ENSG00000269958 | hsa-let-7c | ENST00000602422 | chr14:103696755-103696840 | 180.00 | -82.28 | 81 | NA | | ENSG00000269958 | hsa-let-7c | ENST00000602422 | chr14:103696999-103697083 | 161.00 | -63.22 | 85 | NA | | ENSG00000269958 | hsa-let-7c | ENST00000602422 | chr14:103696853-103696931 | 156.00 | -69.96 | 72 | 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 | | ENSG00000269958 | ENSG00000004534 | RBM6 | exon_skip_370518 | ENSG00000100429:chr22:50247691-50247776 | HDAC10 | ENST00000216271 | Frame-shift | STAD,UVM,PRAD,THYM,PAAD | | ENSG00000269958 | ENSG00000004534 | RBM6 | exon_skip_382458 | ENSG00000060971:chr3:38131595-38131638 | ACAA1 | ENST00000333167 | Frame-shift | STAD,PRAD,THYM,PAAD,THCA | | ENSG00000269958 | ENSG00000079134 | THOC1 | exon_skip_382458 | ENSG00000060971:chr3:38131595-38131638 | ACAA1 | ENST00000333167 | Frame-shift | STAD,PRAD,THYM,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 | | ENSG00000269958 | ENST00000602422 | ABAT | ENSG00000183044 | ENST00000567812 | -0.1096 | 384 | - | KIRC | | ENSG00000269958 | ENST00000602422 | ABAT | ENSG00000183044 | ENST00000425191 | -0.1133 | 464 | - | KIRC | | ENSG00000269958 | ENST00000602422 | ABAT | ENSG00000183044 | ENST00000569156 | -0.1052 | 456 | - | KIRC | | ENSG00000269958 | ENST00000602422 | ABAT | ENSG00000183044 | ENST00000562115 | -0.1267 | 612 | - | KIRC | | ENSG00000269958 | ENST00000602422 | WLS | ENSG00000116729 | ENST00000527864 | -0.1159 | 522 | - | KIRC | | ENSG00000269958 | ENST00000602422 | WLS | ENSG00000116729 | ENST00000370971 | -0.1460 | 593 | - | KIRC | | ENSG00000269958 | ENST00000602422 | ALDH5A1 | ENSG00000112294 | ENST00000491546 | -0.1386 | 660 | - | KIRC | | ENSG00000269958 | ENST00000602422 | ACADM | ENSG00000117054 | ENST00000420607 | -0.5462 | 518 | - | KIRC | | ENSG00000269958 | ENST00000602422 | ACADM | ENSG00000117054 | ENST00000528016 | -0.1531 | 345 | - | KIRC | | ENSG00000269958 | ENST00000602422 | LDHD | ENSG00000166816 | ENST00000569876 | -0.1030 | 213 | - | KIRC | | ENSG00000269958 | ENST00000602422 | PC | ENSG00000173599 | ENST00000524491 | -0.6331 | 409 | - | KIRC | | ENSG00000269958 | ENST00000602422 | NDUFS1 | ENSG00000023228 | ENST00000449699 | -0.2690 | 435 | - | KIRC | | ENSG00000269958 | ENST00000602422 | NDUFS1 | ENSG00000023228 | ENST00000432169 | -0.2690 | 435 | - | KIRC | | ENSG00000269958 | ENST00000602422 | NDUFS1 | ENSG00000023228 | ENST00000456284 | -0.1209 | 459 | - | KIRC | | ENSG00000269958 | ENST00000602422 | HACD3 | ENSG00000074696 | ENST00000565299 | -0.1236 | 366 | - | KIRC | | ENSG00000269958 | ENST00000602422 | MCCC1 | ENSG00000078070 | ENST00000466650 | -0.1085 | 368 | - | KIRC | | ENSG00000269958 | ENST00000602422 | MCCC1 | ENSG00000078070 | ENST00000486226 | -0.1042 | 253 | - | KIRC |
| lncRNA regulates mRNA by competing the miRNA binding site with mRNA. |
| LncRNA Ensembl ID | lncRNA-miRNA-mRNA | Cancer Types | | ENSG00000269958 | RP11-73M18.8,hsa-let-7c,SLC52A2 | HNSC,TGCT,UVM,GBM,LIHC |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000269958.1 | ENST00000602422.1 | 119 | 507 | 148 |
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