lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | ARHGEF1,EPOR,SLIRP,STRN4,ZSWIM9,BICD2,ABHD17A,KIFC3,DAPK3,MZF1,QPCTL,KDELR1,MAPK8IP3,SRP19,SUGP2,PPP2R3B,FKRP,NUP62,CTU1,OPA3,LMBR1L,MRPS12,NDUFA11,PFKP,ULK3,KMT2B,SERTAD3,CENATAC,NPEPL1,PUM3,KCTD13,PLPPR2,VASP,MYBBP1A,RECQL4,PAF1,SPRN,SUGP1,TAZ,PPP1R13L,DNAJC2,PPIP5K1,RAB4B,COX19,POLD1,CLK2,BRSK1,CA11,ILKAP,CALM3,DHX34,GPATCH4,CHKB,CEP89,RIC8B,DUSP8,TRIM11,MORC2,WDR83,THOC2,WDR5,ANKRD39,OFD1,IGF1R,ACYP1,PIH1D1,CTU2,CDKN2AIPNL,CFAP298,PLK2,B3GALT6,DDX49,C19orf48,ATP5MK,C3orf62,NEURL1,LPCAT4,ALKBH2,RPL35,ZNF45,LYAR,C12orf73,DDX51,C19orf12,SPOUT1,SAE1,MOAP1,GIGYF1,NOP2,FAM193B,PNKP,P3H4,ARHGAP33,C9orf40,CCDC12,DECR2,STXBP5,SELENOI,PITPNM2,ZNF30,JMJD4,SNX25,SCNM1,FLVCR1,ILF3,LENG8,TLNRD1,B4GALT2,JMJD6,STK11,PPP1R12C,C1orf159,DDX56,PRR3,FAM98C,UBE2G2,BOP1,NDUFB11,EIF2B4,TIMM44,DDX55,SMG5,ARFGAP1,CAPN10,PFDN2,PVR,REXO1,SLC4A3,BAIAP2L1,MAN1B1,FAM71E1,NPDC1,LTO1,METTL1,CCDC106,CCDC137,LAS1L,GGNBP2,NAA10,EP400,YRDC,P4HTM,CABLES2,PCED1A,TBCB,SLC25A22,CHMP2A,MYDGF,GNL2,RAB17,THOC6,PQBP1,LENG1,MBOAT7,MEX3A,TM4SF1,ZNF48,MOGS,FNBP4,ATF4,INPP5E,PTRH2,CLPTM1,EIF3B,TATDN2,KIFC2,TMEM132A,RABEP2,SBNO2,MED29,CDC37,SYT7,KRTCAP2,IDUA,PRMT1,AP3D1,GDI1,KIAA1549,MLLT1,CHD1,LRP11,EME2,PTCD1,NDUFAF2,LRFN1,KHDC4,DCAF15,PDCD2L,SCAMP5,RP9,SFPQ,MIER2,MYO1B,TRMU,MYPOP,CTBP1,BICRA,NFKBIB,ATXN7L2,ZNF598,CHTF18,MSTO1,NAT14,P3H3,TAF1D,TAF4,C1orf35,TIMM13,CDK5RAP1,MARCHF9,BUD23,RDH13,KLHDC4,CCNL2,FBXO46,DMPK,TENT4A,DPH2,CHTOP,SLC52A2,MED25,TP53I13,MC1R,GRWD1,KAT2A,ARMC5,AGO2,SNU13,ANKS6,CSNK1E,TMEM86B,RNPS1,NR2F6,RBM25,FBXW7,JOSD1,FAM50A,STX1A,KIF21A,RTN2,GEMIN7,E2F6,HDAC10,DEAF1,DYNLL2,HSF4,PROSER3,ANKRD54,MEGF8,MTHFD2,KRI1,ZDHHC9,BCL2L12,KRT18,R3HDM2,NR2C2AP,MZT2A,UCK2,HOOK2,ZNF83,POLR1G,HCN3,RAB3A,ZNF3,ZNF8,DNMT3A,BRAT1,BTG3,PSMG3,POLG,C19orf25,IPO4,POLE,EIF5B,KPTN,ZMYND19,GRIPAP1,MTG2,RNF215,TNFRSF12A,NAT9,CRAMP1,LUC7L,TRMT61A,CCAR1,AVEN,MAP2K7,PPAN,DPH7,PGBD5,XRCC1,TRA2A,RNF126,ZMYND8,UBE2M,IARS1,NR2C1,APBB3,RUVBL2,CYTH2,C8orf76,WDR74,TEPSIN,RBM33,RANGAP1,IMMP1L,SRRT,CEBPZ,AGAP6,WRAP73,COA7,TPRA1,ADAMTS10,MAPKBP1,C15orf61,LPCAT1,SLC25A27,SAMD4B,MRPS26,IRF3,PPP1R15A,SERGEF,NDUFA13,PPFIA3,TMEM44,GADD45GIP1,ESF1,SNRPD2,PPP5C,SLC5A6,GBA2,CSAD,KIAA0895L,ATAD3B,NOL10,RBM28,MFSD10,TMEM259,ARPC5L,LIN37,AKT1S1,PHKG2,PMF1,SARS2,NUMBL,RRP1B,PSME4,QSOX2,NT5C3B,PA2G4,KEAP1,KLHL18,GTPBP3,EEF1A2,FAM219A,SNRPB,UFD1,RCN1,MYO19,SURF6,SAMD1,RABAC1,RAPGEFL1,RRP12,ACTR3B,SPHK2,SYNE4,SS18L1,NOCT,TXNL4A,ABL2,SLC7A6,NSUN5,HAUS5,GOLGA3,PSMD8,TELO2,CDAN1,FBXL6,TEDC1,EPOP,DUSP16,PCYOX1L,AUP1,DIRAS1,DEDD2,GSK3A,KLC1,RBM10,TRIM52,RPL36A,CLASRP,STK36,SIPA1L3,GOLGA8B,DNM1,SMG9,TIMM29,YBEY,SPIRE2,ASNS,AARSD1,DNAJC5,MAP2K1,PARP6,RHBDD3,CACNB3,NDUFV3,PIGU,TFPT,ASXL1,DENND4B,FASTK,CYHR1,SIRT6,ANKRD13D,LIG1,CCDC57 | | Exist in public source | | NA |
lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | ANKRD39,NPDC1,DPH7,KRT18,YDJC,NOL10,RP9,MSTO1,PDCD2L,MOGS,JOSD1,PLXNA3,CBFA2T2,CA11,HAUS5,JMJD6,CNIH4,DMPK,OPA3,ZNF3,KAT2A,LMBR1L,C11orf84,KEAP1,OXLD1,ZNF30,TRA2A,NFKBIB,CLK2,STX16,TRMU,EPOR,HPRT1,ZMIZ2,XRCC1,IARS,P3H3,PPP1R15A,CBLC,E4F1,KLHDC4,PPP2R1A,DIEXF,C9orf114,THAP7,BCL9,PLK2,RBM10,ZNF83,PIH1D1,TPRA1,TATDN2,PRPF3,ACTR3B,CEP89,CLASRP,LUC7L,MAPK8IP3,SBNO2,SIN3B,MZF1,CSNK1E,FAM219A,C3orf62,FAM160B2,FAM71E1,E2F6,QTRT1,RPSA,TMEM120B,DKC1,FBXO46,P3H4,ZNF45,KIAA0907,TMEM44,C9orf40,EIF5B,NDUFB11,PAF1,TBKBP1,NCLN,CRTC1,RNF126,C14orf80,NAA10,CCDC137,HCN3,GRIPAP1,MOAP1,KPTN,RRP12,FAM98C,R3HDM2,METTL1,CCDC130,AACS,C19orf25,RTN2,SCNM1,MLLT1,ZNF48,SMG9,C21orf59,RPL35,CYTH2,ARPC5L,CLPTM1,ING5,STK36,NR2C2AP,PTCD1,AVEN,SGTA,DPH2,TFPT,MED29,TM4SF1,ZDHHC18,KIAA1549,CAMSAP3,AARSD1,MZT2A,DAPK3,GADD45GIP1,PPP1R12C,RBM6,C8orf76,ALKBH2,ZMYND19,USMG5,TRIM11,FOXK2,CDAN1,TAZ | | Exist in public source | | NA |
lncRNA targets the promoter region and negatively regulates the gene expression. |
| Only predicted by TDF | | CRYL1,LZIC | | Exist in public source | | NA |
lncRNA targets the 3'UTR region and negatively regulates the mRNA. |
| Only predicted by lncTar | | ACAA1,CPT2,AKR7A2,NDRG2,LZIC,SNX3 | | 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 | | ENSG00000279095 | ENST00000623022 | exon_skip_423795 | chr4:55888887-55888932 | -8.53 | -0.1896 | EXOC1 | ENST00000346134,ENST00000381295 | In-frame |
| -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 | | ENSG00000279095 | ENST00000623022 | exon_skip_382458 | chr3:38131595-38131638 | -9.82 | -0.2888 | ACAA1 | ENST00000333167 | Frame-shift | | ENSG00000279095 | ENST00000623022 | exon_skip_377198 | chr3:123130479-123130616 | -16.91 | -0.1566 | PDIA5 | ENST00000316218 | Frame-shift | | ENSG00000279095 | ENST00000623022 | exon_skip_446758 | chr5:178212972-178213103 | -15.26 | -0.1261 | PHYKPL | ENST00000308158 | Frame-shift |
lncRNA targets by miRNA. |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source |
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 | | ENSG00000279095 | ENSG00000052749 | RRP12 | ACC,COAD,GBM,KIRC,KIRP,LGG,READ,THYM | | GBM | | ENSG00000279095 | ENSG00000079313 | REXO1 | ACC,GBM,KICH,KIRC,LGG | | GBM | | ENSG00000279095 | ENSG00000105429 | MEGF8 | ACC,CHOL,GBM,LGG,LIHC,OV,PAAD | | GBM | | ENSG00000279095 | ENSG00000105723 | GSK3A | ACC,CESC,CHOL,GBM,KICH,KIRC,KIRP,LGG,LIHC,LUAD,OV,PAAD,READ,SARC,UCEC,UCS | | GBM | | ENSG00000279095 | ENSG00000114923 | SLC4A3 | ACC,BRCA,CHOL,GBM,LGG,PAAD | | GBM | | ENSG00000279095 | ENSG00000120256 | LRP11 | ACC,GBM,PAAD,READ,UVM | | GBM | | ENSG00000279095 | ENSG00000125503 | PPP1R12C | ACC,GBM,HNSC,KIRC,LGG,LUSC,MESO,OV,SARC,THCA | | GBM | | ENSG00000279095 | ENSG00000138018 | SELENOI | ACC,GBM,MESO,READ,THYM,UVM | | GBM | | ENSG00000279095 | ENSG00000160014 | CALM3 | ACC,CHOL,ESCA,GBM,LGG,OV | | GBM | | ENSG00000279095 | ENSG00000165943 | MOAP1 | ACC,GBM,LGG,PAAD,UVM | | GBM | | ENSG00000279095 | ENSG00000169032 | MAP2K1 | ACC,CHOL,GBM,LGG,UVM | | GBM | | ENSG00000279095 | ENSG00000177614 | PGBD5 | ACC,CHOL,GBM,KIRP,PAAD | | GBM | | ENSG00000279095 | ENSG00000184402 | SS18L1 | ACC,GBM,PAAD,READ,UVM | | GBM | | ENSG00000279095 | ENSG00000184545 | DUSP8 | ACC,CHOL,GBM,KICH,LGG,PAAD,THYM | | GBM | | ENSG00000279095 | ENSG00000067057 | PFKP | BRCA,CHOL,GBM,THYM,UVM | | GBM | | ENSG00000279095 | ENSG00000128011 | LRFN1 | BRCA,CESC,CHOL,GBM,LGG,PRAD,TGCT | | GBM | | ENSG00000279095 | ENSG00000176490 | DIRAS1 | BRCA,GBM,LGG,PAAD,UCS | | GBM | | ENSG00000279095 | ENSG00000101210 | EEF1A2 | CHOL,GBM,LGG,PAAD,UVM | | GBM | | ENSG00000279095 | ENSG00000106976 | DNM1 | CHOL,GBM,LAML,LGG,PAAD | | GBM | | ENSG00000279095 | ENSG00000125744 | RTN2 | CHOL,GBM,KIRP,LGG,PAAD,THYM | | GBM | | ENSG00000279095 | ENSG00000145632 | PLK2 | CHOL,GBM,KIRP,LGG,PAAD | | GBM | | ENSG00000279095 | ENSG00000164970 | FAM219A | CHOL,GBM,KICH,KIRP,PAAD | | GBM | | ENSG00000279095 | ENSG00000168781 | PPIP5K1 | CHOL,GBM,KICH,LGG,PAAD,PRAD | | GBM | | ENSG00000279095 | ENSG00000187266 | EPOR | CHOL,KICH,LUSC,PAAD,THCA | | LUSC | | ENSG00000279095 | ENSG00000198794 | SCAMP5 | CHOL,GBM,PAAD,PRAD,THYM | | GBM | | ENSG00000279095 | ENSG00000264364 | DYNLL2 | CHOL,COAD,GBM,PAAD,READ | | GBM | | ENSG00000279095 | ENSG00000273604 | EPOP | CHOL,GBM,PAAD,PRAD,UVM | | GBM | | ENSG00000279095 | ENSG00000011347 | SYT7 | COAD,GBM,LGG,PAAD,READ | | GBM | | ENSG00000279095 | ENSG00000068400 | GRIPAP1 | COAD,GBM,KICH,PAAD,UVM | | GBM | | ENSG00000279095 | ENSG00000179912 | R3HDM2 | COAD,GBM,PAAD,READ,UVM | | GBM | | ENSG00000279095 | ENSG00000185453 | ZSWIM9 | COAD,GBM,KICH,LAML,LGG,LIHC,LUSC,OV,PAAD,READ,SARC | | GBM | | ENSG00000279095 | ENSG00000203772 | SPRN | COAD,GBM,KIRP,LIHC,PAAD,READ,TGCT,THCA,THYM,UCS,UVM | | GBM | | ENSG00000279095 | ENSG00000204991 | SPIRE2 | COAD,ESCA,GBM,KICH,KIRP,TGCT | | GBM | | ENSG00000279095 | ENSG00000106089 | STX1A | ESCA,GBM,KIRP,LGG,PAAD,UVM | | GBM | | ENSG00000279095 | ENSG00000107954 | NEURL1 | ESCA,GBM,KICH,LGG,PAAD,THYM | | GBM | | ENSG00000279095 | ENSG00000124839 | RAB17 | ESCA,LUSC,PAAD,PRAD,READ | | LUSC | | ENSG00000279095 | ENSG00000087074 | PPP1R15A | GBM,KICH,LGG,LUSC,MESO,THCA,UCS | | LUSC | | ENSG00000279095 | ENSG00000090615 | GOLGA3 | GBM,KICH,KIRC,PAAD,UVM | | GBM | | ENSG00000279095 | ENSG00000090975 | PITPNM2 | GBM,KIRC,MESO,PAAD,UVM | | GBM | | ENSG00000279095 | ENSG00000100401 | RANGAP1 | GBM,KIRP,LGG,LIHC,PRAD | | GBM | | ENSG00000279095 | ENSG00000108352 | RAPGEFL1 | GBM,KIRC,LGG,THCA,THYM | | GBM | | ENSG00000279095 | ENSG00000109670 | FBXW7 | GBM,LGG,PAAD,READ,THYM,UVM | | GBM | | ENSG00000279095 | ENSG00000109762 | SNX25 | GBM,LUSC,PAAD,READ,UVM | | GBM,LUSC | | ENSG00000279095 | ENSG00000136950 | ARPC5L | GBM,KIRP,LGG,LIHC,UVM | | GBM | | ENSG00000279095 | ENSG00000137802 | MAPKBP1 | GBM,KICH,PAAD,THCA,UVM | | GBM | | ENSG00000279095 | ENSG00000138834 | MAPK8IP3 | GBM,KICH,KIRC,LGG,THCA,UVM | | GBM | | ENSG00000279095 | ENSG00000164506 | STXBP5 | GBM,KIRP,LGG,THYM,UVM | | GBM | | ENSG00000279095 | ENSG00000167535 | CACNB3 | GBM,KICH,KIRC,KIRP,LGG,UVM | | GBM | | ENSG00000279095 | ENSG00000167702 | KIFC2 | GBM,KIRC,LGG,UCS,UVM | | GBM | | ENSG00000279095 | ENSG00000176454 | LPCAT4 | GBM,KICH,KIRC,KIRP,LGG,UVM | | GBM | | ENSG00000279095 | ENSG00000153395 | LPCAT1 | KIRP,LUSC,MESO,PAAD,UVM | | LUSC |
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 | | ENSG00000279095 | ENSG00000272333 | KMT2B | ENSG00000125741 | OPA3 | 6 | ACC,CHOL,GBM,KICH,LUAD,PAAD | | ENSG00000279095 | ENSG00000272333 | KMT2B | ENSG00000073050 | XRCC1 | 5 | ACC,COAD,LGG,LUAD,PAAD | | ENSG00000279095 | ENSG00000272333 | KMT2B | ENSG00000104859 | CLASRP | 8 | ACC,COAD,GBM,KICH,KIRC,LGG,LUAD,PAAD | | ENSG00000279095 | ENSG00000272333 | KMT2B | ENSG00000127511 | SIN3B | 5 | ACC,GBM,KIRC,LGG,PAAD | | ENSG00000279095 | ENSG00000272333 | KMT2B | ENSG00000188735 | TMEM120B | 6 | ACC,GBM,KICH,KIRC,LGG,PAAD | | ENSG00000279095 | ENSG00000272333 | KMT2B | ENSG00000177051 | FBXO46 | 7 | COAD,GBM,KICH,KIRC,LGG,LUAD,PAAD | | ENSG00000279095 | ENSG00000272333 | KMT2B | ENSG00000105443 | CYTH2 | 5 | ACC,COAD,GBM,KIRC,LGG |
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 | | ENSG00000279095.1 | ENST00000623022.1 | 64 | 191 | 0 |
|