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Center for Computational Systems Medicine
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lncRNA summary

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lncRNA structure and expression level

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lncRNA-Protein interaction

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lncRNA-DNA interaction

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lncRNA-RNA interaction

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Variants in lncRNA

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lncRNAs regulate the target genes through functioning as enhancers

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lncRNAs regulate the target genes through recruiting transcript factors

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lncRNAs regulate the alternative splicing events through interacting with splicing factor

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lncRNAs regulate mRNA through targeting the 3'-UTR region

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lncRNAs regulate mRNA by competing with miRNA

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lncRNA coding potential

lncRNA: ENSG00000271858

Summary for CYB561D2

check button Gene summary

Gene informationEnsembl ID

ENSG00000271858

Gene symbol

CYB561D2

Gene name
HGNC
Entrez ID

11068

Gene typeantisense
Synonyms
UniProtAcc

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Structure and expression level for CYB561D2

check buttonDifferentially expressed gene analysis between cancer and normal samples.
Ensembl IDBase meanlog2FC(AD/control)lfcSEStatP-valueAdjc.p-valueDEG direction Cancer type

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value
ENSG00000271858-3.588492e-012.660583e-10KIRP3.389732e-09

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lncRNA-Protein interaction for CYB561D2

lncrna_protein
check buttonlncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).
Epi result
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source
ENSG00000271858ENST00000606259CYB561D2ENSG00000108840HDAC59.1890.0604Q9UQL6EpiNA

check buttonlncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source

check buttonlncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source

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lncRNA-DNA interaction for CYB561D2

lncrna_DNA
check buttonlncRNA targets the enhancer region and positively regulates the gene expression.
Only predicted by TDF
ARL16,UXT,TCEA2,CTF1,GPR108,ABHD17A,ANTKMT,C12orf57,CIRBP,PET100,MZF1,WDR83OS,C1orf56,PEBP1,DYNC2I2,SIRT3,TMUB1,HINT2,CTU1,DPP7,XAB2,TIMM17B,MIEF2,TRAPPC12,NDUFA11,CENATAC,NPEPL1,TMEM203,SAFB2,TUBGCP6,FAAP20,COA3,EIF3G,TPRN,NDUFA3,SLC2A11,MICOS13,SUGP1,TAZ,NAA80,SIGIRR,ECHDC2,CYB5D2,RAB4B,CA11,ILKAP,MST1,SSU72,CHKB,CBY1,ABHD14B,SLC12A9,WDR83,C3orf18,DHPS,MPST,MRPS34,FCHSD1,TMEM243,INO80E,C3orf62,YJU2,CBX7,NDUFA2,BORCS6,MIIP,TMEM160,FDX2,SH2D3A,FUZ,TSC22D4,CDK11A,MTLN,FBXW4,NAGPA,TSEN54,ZNF593,ATG4B,MRPL57,LMNTD2,CCDC191,KIF9,IL17RC,FAM229A,PFDN5,LRTOMT,CCS,MRPL41,CCDC159,GIGYF1,FAM193B,NDUFB1,SLC25A28,NOL3,CZIB,HDAC5,HEXD,PMVK,SCNN1D,CCDC24,RHOT2,CCDC12,KRTCAP3,POLM,DECR2,FBXO2,KIF12,ERCC5,AP1M2,PHYHD1,CYB561D2,MED16,GLI4,DNAJC4,MRPL55,HMGCL,LENG8,NMRAL1,SH2B1,STK11,C1orf159,DDX56,TECR,FAM98C,OVOL2,NICN1,PPOX,IP6K2,NDUFAF3,MRPL20,CAPN10,BICDL2,METRN,RPL13A,CTDSP1,SURF1,NUBP2,TMEM175,GNPTG,GPN2,INTS11,TMEM8B,FIS1,SPACA9,UBL7,NPDC1,NAA38,TBL3,TCTA,CCDC106,EMD,FBXO44,EXD3,GSDMD,P4HTM,PCED1A,ABTB1,TUSC2,MVB12A,CHMP2A,SYCE1L,LMF1,POLRMT,UBOX5,LENG1,GALT,DENND6B,PEX11G,CCHCR1,ZFYVE19,LRRC56,TRADD,RSRP1,IL11RA,TLE2,SGF29,NEK8,SERF2,CRACR2B,GSTO2,VPS28,TRPT1,TM7SF2,ODF3B,SERP2,HEMK1,ROGDI,RABEP2,OGFR,PTOV1,ALKBH4,FBXL8,RBM6,ZNF862,IDUA,TMEM134,POP5,ORAI3,TMEM91,NTHL1,UBXN6,GGT7,TNFRSF14,SCAND1,COX14,DHRS1,UBXN11,PTCD1,CCDC71,PPCDC,CROCC,PLXNB1,NCAPH2,AKR7A2,AMT,TRIOBP,CASTOR1,SPAG7,TMEM187,NOSIP,ENKD1,FAM3A,ATP5IF1,ZDHHC1,ACADS,LRRC14,NISCH,BLOC1S1,TRMU,POMT1,WDR25,DALRD3,ARF5,CDPF1,C1orf35,CCDC174,ZCWPW1,NPRL2,CCNL2,WDR24,VAMP8,HDAC11,GFER,ZMYND12,ZER1,RFNG,SLC66A1,TP53I13,VILL,COQ4,WDR45,OSBPL7,DHRS12,ZMAT5,STX10,KAT2A,ECI1,UBALD1,TMCO4,ACBD4,PLA2G6,ENDOV,PPIE,ELP6,ALKBH7,ERMARD,EPS8L1,GEMIN7,MIB2,MZT2B,PHF1,HDAC10,HEXIM2,CHADL,SCRN2,HSF4,ARGLU1,ANKS3,ATRAID,NOXA1,UCK1,SMDT1,RGL3,PIGQ,TXNRD2,RASSF7,VMAC,COX4I1,B3GALT4,MZT2A,PEX14,RETREG3,ARFRP1,MAGIX,ABCD4,BRAT1,UQCR10,C19orf25,ADAMTS13,DTX3,RNF215,TLE5,UBA7,ABHD14A,LUC7L,TRMT61A,COA5,MICOS10,C14orf93,LRSAM1,DPH7,ATP5F1D,DUS1L,TOMM7,PNPLA7,APBB3,CRELD1,B9D2,NOP53,WBP1,TEPSIN,FKBP2,NDUFB10,TPRA1,PRDX5,GEMIN8,NUDT16L1,TMEM115,TXN2,MRPS26,HDDC3,IRF3,SMIM1,IMP3,SERGEF,NDUFA13,CHCHD5,C7orf50,RRNAD1,KAT8,ZSWIM7,RP11-523H20.5,CSAD,HSD17B8,ATAD3B,ZNHIT2,SAMD10,MUTYH,BCL7C,DCAF8,SLC25A1,PHYKPL,TMEM259,ASMTL,IFT27,RECQL5,ZNHIT1,PHKG2,PMF1,SARS2,POLR2J,PPP1R16A,LRRC75B,SS18L2,SWSAP1,TBC1D17,FLOT2,RNH1,CENPT,CFAP410,VAMP2,DMKN,NUDT14,DNAJB2,ANAPC2,BEND5,RABAC1,UBL5,RPS11,CNKSR1,CXXC1,MRNIP,ELMOD3,C8orf82,GSTM2,NDUFB7,ING4,TELO2,LRRC29,ANO9,POLL,WASHC1,CHCHD10,GPS2,COA8,THAP3,NOL12,MTFR1L,PCP2,MOSPD3,CLASRP,ZMAT1,SPATA2L,COMMD6,TMA7,MACROD1,SETD4,NEDD8,DUSP28,BOLA1,RBM5,TSR3,RPS19BP1,SMIM4,YPEL3,CIAO3,RILPL2,TTLL3,PIN1,TMEM238,NMRK1,DGCR6L,REX1BD,LRP5L,SH3GLB2,FASTK,CYHR1,SIRT6,TMEM125,DXO,USP20,MRPL54,CCDC57,FAM174C
Exist in public source
NA

check buttonlncRNA targets the promoter region and positively regulates the gene expression.
Only predicted by TDF
C12orf57,C14orf93,WBP1,ECHDC2,CA11,VILL,CIB1,C16orf13,KIF12,TRMT61A,C19orf73,TSC22D4,FASTK,ARRDC1,TNFSF12,ACTL10,CPSF3L,C9orf16,TMUB1,NOSIP,INO80B,NME3,IL17RC,VPS37D,ATP5D,MRPL20,RFNG,BEND5,AHSA2,ATRAID,NCAPH2,PPOX,FAM195A,DMKN,TRABD,COX14,GGT7,AES,ANO9,TSEN54,CRTC1,MRPS34,PCP2,C8orf82,GPN2,CSAD,FBXL8,SMIM4,PPIE,APBB3,OGFR,TRIOBP,PPDPF,POLR2J,SPATA2L,CYHR1,NAA38,TRADD,RPP25L,C9orf142,ZNHIT1
Exist in public source
NA

check buttonlncRNA targets the promoter region and negatively regulates the gene expression.

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lncRNA-RNA interaction for CYB561D2

lncrna_RNA
check buttonlncRNA targets the 3'UTR region and negatively regulates the mRNA.
Only predicted by lncTar
TUBA1B,HEATR1,RRP1B,CEP170,RACGAP1,PSMD14,CHST11,NUP155,LIMS1,ELOVL5,SNX6,NOP14,ACTR3,BUB1B,PTPN11,KPNA2,SCYL2,ITGB1,TUBA1C,IARS1,GORASP2,PSMC1,SRP72,CLTC,GMPS,ATP2A2,MRPL19,TDG,ZDHHC20,FAM98A,MYO1B,LRRC59,ECT2,RAB31,HSPA8,ARHGAP11A,CCT5,SEC24D,YARS2,ZW10,KIDINS220,G3BP1,CDC27,NCBP1,RAN,CORO1C,SEC23A,TWF1,PSME3,EIF3J,TARS1,AGFG1,R3HDM1,LDHA,LARP4,ARSB,TPM4,DESI2,CCT2,ZWILCH,WDR12,MAP4K4,ASCC3,SLC16A1,IGF2R,ASAP1,ACTR2,ME2,NPC1,SENP1,KIF2A,SOS1,PGM3,EIF4G2,ACLY,NAA50,CS,CENPN,SETD7,CALU,SEC31A,BACH1,RPE,CKAP5,FNDC3B,PSMD1,NDUFS1,PGM2
Exist in public source
NA

check buttonlncRNA targets the skipped exon region.
-lncRNA and exonskipping events are positively correlated.
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonORF mutation

-lncRNA and exonskipping events are negatively correlated.
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonLOF

check buttonlncRNA targets by miRNA.
LncRNA Ensembl IDmiRNA IDLncRNA ENST IDBinding site in lncRNAScoreEnergyAlign LenPublic source

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Variants for CYB561D2

check buttonRNA A-to-I editing events in lncRNA.
LncRNAediting IDLncRNA Ensembl IDChromosomeEditing PositionStrandGene TypeGene NameTranscript IDTranscript TypeTranscript Name

check buttonEdited-associated DElncRNAs in cancer.
LncRNA Ensembl IDLncRNA IndexCancer TypeChr_Postion_StrandAVE1AVE2log2FCW-valueP-valueAdjc.p-valueChange

check buttonCorrelation between RNA A-to-I editing events's frequecy and lncRNA expression.
LncRNA Ensembl IDLncRNA IndexCorrelationP-valueAdjc.p-value

check buttonCis-expression quantitative trait loci(cis-eQTL) of lncRNA.
LncRNA Ensembl IDLncRNA NameSNP infoNumber of Positive corelated CancerPositive corelated CancerNumber of Negative corelated CancerNegative corelated Cancer
ENSG00000271858CYB561D2rs2073499:50374293:A:G01PRAD
ENSG00000271858CYB561D2rs2233474:50388607:C:A01PRAD
ENSG00000271858CYB561D2rs2236948:50409826:A:G01PRAD
ENSG00000271858CYB561D2rs6776145:50316119:C:T:+2PRAD,LIHC0
ENSG00000271858CYB561D2rs2282751:50291785:A:G:+1PRAD0
ENSG00000271858CYB561D2rs12629572:50324672:T:G01PRAD
ENSG00000271858CYB561D2rs57838764:50374568:T:C01PRAD
ENSG00000271858CYB561D2rs3840490:50375606:A:AC01PRAD
ENSG00000271858CYB561D2rs1989839:50378946:A:G01PRAD
ENSG00000271858CYB561D2rs4141060:50300117:T:C01PRAD
ENSG00000271858CYB561D2rs78138837:50344178:A:G01PRAD
ENSG00000271858CYB561D2rs2236950:50420554:C:A01PRAD
ENSG00000271858CYB561D2rs2526383:50184538:T:C1PRAD0
ENSG00000271858CYB561D2rs2236987:50504546:C:T:+1PRAD0
ENSG00000271858CYB561D2rs6792502:50531201:C:A01PRAD
ENSG00000271858CYB561D2rs1467913:50525017:G:T:-01PRAD
ENSG00000271858CYB561D2rs9852677:50291617:C:T:-01PRAD
ENSG00000271858CYB561D2rs2282762:50514612:A:G01PRAD
ENSG00000271858CYB561D2rs2071205:50327429:A:G01PRAD
ENSG00000271858CYB561D2rs12494849:50524558:C:G:+01PRAD
ENSG00000271858CYB561D2rs11711407:50225029:A:G:+1PRAD0
ENSG00000271858CYB561D2rs4552340:50919168:C:A01PRAD
ENSG00000271858CYB561D2rs6786523:50524221:A:G:-1PRAD0
ENSG00000271858CYB561D2rs2236964:50449062:C:G:-1PRAD0
ENSG00000271858CYB561D2rs1467914:50523668:A:G01PRAD
ENSG00000271858CYB561D2rs2236965:50453456:T:C01PRAD
ENSG00000271858CYB561D2rs11917538:50872976:A:G:+01PRAD
ENSG00000271858CYB561D2rs9875961:50878122:G:A1PRAD0
ENSG00000271858CYB561D2rs743757:50476378:C:G:+1PRAD0
ENSG00000271858CYB561D2rs149599886:50451280:A:AAAATAAATAAAT01PRAD
ENSG00000271858CYB561D2rs6446230:50919939:G:A01PRAD
ENSG00000271858CYB561D2rs2071204:50330987:C:T:+1PRAD0
ENSG00000271858CYB561D2rs9867588:50526880:T:C01PRAD
ENSG00000271858CYB561D2rs734767:50431410:C:G:+01PRAD
ENSG00000271858CYB561D2rs1458385:50876124:A:G1PRAD0
ENSG00000271858CYB561D2rs35490967:50929081:T:TA01PRAD
ENSG00000271858CYB561D2rs150189108:50933638:T:C01PRAD
ENSG00000271858CYB561D2rs4447760:50950909:C:T01PRAD
ENSG00000271858CYB561D2rs9832952:50974834:C:T1PRAD0
ENSG00000271858CYB561D2rs36066875:51000142:CTT:C1PRAD0
ENSG00000271858CYB561D2rs142946961:51015845:CAG:C1PRAD0
ENSG00000271858CYB561D2rs9838433:51017304:T:C1PRAD0
ENSG00000271858CYB561D2rs7627266:50962368:C:T01PRAD
ENSG00000271858CYB561D2rs12639243:50900354:C:T01PRAD
ENSG00000271858CYB561D2rs4028316:50916014:A:AAG01PRAD
ENSG00000271858CYB561D2rs74200161:50916894:AG:A01PRAD
ENSG00000271858CYB561D2rs7625232:50941441:T:C01PRAD
ENSG00000271858CYB561D2rs6446231:50920006:A:G01PRAD
ENSG00000271858CYB561D2rs11719998:50567736:C:T1PRAD0
ENSG00000271858CYB561D2rs750453:50565137:T:A01PRAD
ENSG00000271858CYB561D2rs743756:50481717:C:T01PRAD
ENSG00000271858CYB561D2rs9835537:50464335:T:C01PRAD
ENSG00000271858CYB561D2rs2355700:50910625:A:G01PRAD
ENSG00000271858CYB561D2rs7616183:50956372:A:G01PRAD
ENSG00000271858CYB561D2rs61108141:50966191:A:G01PRAD
ENSG00000271858CYB561D2rs7433217:50987194:G:A1PRAD0
ENSG00000271858CYB561D2rs7638082:50880677:G:A1PRAD0
ENSG00000271858CYB561D2rs9859692:50882396:A:G1PRAD0
ENSG00000271858CYB561D2rs368962642:50948430:GT:G01PRAD
ENSG00000271858CYB561D2rs2073497:50367867:A:C01PRAD
ENSG00000271858CYB561D2rs72932987:50370481:T:C01PRAD
ENSG00000271858CYB561D2rs7614482:51029164:A:G1PRAD0
ENSG00000271858CYB561D2rs4688725:50378176:T:G01PRAD
ENSG00000271858CYB561D2rs3213621:50378628:A:G01PRAD
ENSG00000271858CYB561D2rs12631096:50900318:C:CAA01PRAD
ENSG00000271858CYB561D2rs6795573:50921261:T:C01PRAD
ENSG00000271858CYB561D2rs3755831:50228767:G:T1PRAD0
ENSG00000271858CYB561D2rs2236946:50363771:G:A01PRAD
ENSG00000271858CYB561D2rs2236959:50441627:T:C01PRAD
ENSG00000271858CYB561D2rs743857:50493550:T:C01PRAD
ENSG00000271858CYB561D2rs2236984:50495487:A:C01PRAD
ENSG00000271858CYB561D2rs2236979:50486895:T:C01PRAD
ENSG00000271858CYB561D2rs2236981:50488845:A:C01PRAD
ENSG00000271858CYB561D2rs763030:50528092:G:C01PRAD
ENSG00000271858CYB561D2rs398703:50574213:G:A1PRAD0
ENSG00000271858CYB561D2rs6446243:51029707:A:G1PRAD0
ENSG00000271858CYB561D2rs4346541:50910499:T:C01PRAD
ENSG00000271858CYB561D2rs13080170:51114357:A:G1PRAD0
ENSG00000271858CYB561D2rs4234694:50664785:C:T:+1BRCA0

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lncRNAs regulate the target genes through functioning as enhancers

lncrna_enhancer
check buttonlncRNA regulates differentially expressed genes by function as enhancer.
LncRNA Ensembl IDPC Gene IDPC Gene NamePositive correlated cancersCancer with PC gene up-regulationCancer with PC gene down-regulation

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lncRNAs regulate the target genes through recruiting transcript factors

lncrna_TF
check buttonLncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5).
lncRNA IDTF IDTF NamePCgene IDPCgene NameNumber of CancerCanaer Types

check buttonLncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5).
lncRNA IDTF IDTF NamePCgene IDPCgene NameNumber of CancerCanaer Types

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lncRNAs regulate the alternative splicing event through interacting with splicing factor

lncrna_AS
check buttonLncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region.
LncRNA Ensembl IDRBP IDRBP Gene NameExon Skipping IDSkipped ExonEX Gene NameEX Affected TransIDORF_annoCancer Type

check buttonLncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region.
LncRNA Ensembl IDRBP IDRBP Gene NameExon Skipping IDSkipped ExonEX Gene NameEX Affected TransIDORF_annoCancer Type

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lncRNAs regulate mRNA through targeting the 3'-UTR region

lncrna_mRNA
check buttonlncRNA regulates differential expressed mRNA by directly targeting 3' UTR region.
LncRNA Ensembl IDLncRNA ENST IDPC Gene NamePC Gene IDPC ENST IDdGnDGCancer with PC gene up-regulationCancer with PC gene Down-regulation

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lncRNAs regulate mRNA by competing with miRNA

lncrna_miRNA
check buttonlncRNA regulates mRNA by competing the miRNA binding site with mRNA.
LncRNA Ensembl IDlncRNA-miRNA-mRNACancer Types

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lncRNA coding potential

check buttonORFfinder result for the gencode.v22.lncRNA.transcript.fa.
lncRNA Ensembl IDlncRNA ENST IDlength(AA)start at transcriptend at transcript
ENSG00000271858.4ENST00000606259.4809248
ENSG00000271858.4ENST00000607121.47812248
ENSG00000271858.4ENST00000606665.4106489809
ENSG00000271858.4ENST00000607583.1120353715
ENSG00000271858.4ENST00000607088.475241468
ENSG00000271858.4ENST00000607362.171502287