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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: ENSG00000233621

Summary for LINC01137

check button Gene summary

Gene informationEnsembl ID

ENSG00000233621

Gene symbol

LINC01137

Gene namelong intergenic non-protein coding RNA 1137
HGNC

49453

Entrez ID

728431

Gene typeantisense
Synonyms01p34.3|LINC01137
UniProtAcc

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Structure and expression level for LINC01137

check buttonAS events and RNA A-to-I editing events of lncRNA in TCGA based on Genvode V22 structure.
UCSC result

check buttonDifferentially expressed gene analysis between cancer and normal samples.
DEG result
Ensembl IDBase meanlog2FC(AD/control)lfcSEStatP-valueAdjc.p-valueDEG direction Cancer type
ENSG000002336214.137639e+021.106334e+009.291212e-021.190731e+011.080000e-323.840000e-31UPTHCA

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value
ENSG000002336213.655044e-011.355019e-02CHOL1.533743e-02
ENSG00000233621-5.541659e-011.762240e-08KICH8.933114e-08

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lncRNA-Protein interaction for LINC01137

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
ENSG00000233621ENST00000424989LINC01137ENSG00000132780NASP77.1395.5107P49321EpiNA
ENSG00000233621ENST00000424989LINC01137ENSG00000155363MOV1086.9891.5614Q9HCE1RBP,EpiNA
ENSG00000233621ENST00000424989LINC01137ENSG00000149929HIRIP314.293.6349Q9BW71EpiNA
ENSG00000233621ENST00000424989LINC01137ENSG00000156858PRR1412.9692.086Q9BWN1EpiNA
ENSG00000233621ENST00000424989LINC01137ENSG00000171148TADA31.1793.8084O75528EpiNA

check buttonlncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).
TF result
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source
ENSG00000233621ENST00000424989LINC01137ENSG00000166823MESP143.891.8388Q9BRJ9TFNA
ENSG00000233621ENST00000424989LINC01137ENSG00000260428SCX29.6590.0591Q7RTU7TFNA
ENSG00000233621ENST00000424989LINC01137ENSG00000169740ZNF3227.8390.3736P17041TFNA
ENSG00000233621ENST00000424989LINC01137ENSG00000138073PREB7.8690.9645Q9HCU5TFNA
ENSG00000233621ENST00000424989LINC01137ENSG00000154957ZNF187.0391.7965P17022TFNA
ENSG00000233621ENST00000424989LINC01137ENSG00000126456IRF33.0791.9912Q14653TFChIP-seq

check buttonlncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).
RBP result
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source
ENSG00000233621ENST00000424989LINC01137ENSG00000155363MOV1086.9891.1696Q9HCE1RBP,EpiNA
ENSG00000233621ENST00000424989LINC01137ENSG00000134597RBMX219.1391.737Q9Y388RBPNA
ENSG00000233621ENST00000424989LINC01137ENSG00000204356NELFE12.1591.8665P18615RBPChIP-seq
ENSG00000233621ENST00000424989LINC01137ENSG00000125970RALY8.690.7576Q9UKM9RBPNA

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lncRNA-DNA interaction for LINC01137

lncrna_DNA
check buttonlncRNA targets the enhancer region and positively regulates the gene expression.

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

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

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lncRNA-RNA interaction for LINC01137

lncrna_RNA
check buttonlncRNA targets the 3'UTR region and negatively regulates the mRNA.
Only predicted by lncTar
SPICE1,NEK4,CMTM4,SCAPER,KLHL42,ZFP28,ZFP14,HEATR1,AP5M1,RNF123,RBBP6,TBC1D5,MAP4K3,BECN1,RDX,TCF20,TAF4,PPP1R12A,GNL3L,TMEM161B,KIAA1109,STAU2,KAT6B,C11orf58,SMG1,CREBBP,PBRM1,SRRM2,TRAK1,SCRN1,ANKRD28,UBAP2,VPS13B,SACM1L,FGD4,GMPS,L2HGDH,TDG,NECAP1,PRRC2C,ATP11B,DNM1L,SNX19,PDPK1,R3HDM2,PHF3,ACBD5,CPEB4,LONP2,ARID1B,STRN,NMD3,TMEM33,TTC3,PHF20,KIDINS220,CDC27,REPS1,GTF2H3,RNF31,CLASP2,FBXO11,DDX6,GANAB,SEC23A,MKLN1,ARHGEF9,ITSN2,RNF38,RB1CC1,KLF13,SMAD1,KIF21A,MYCBP2,AGFG1,SNRNP200,MKRN2,MED12,POC1B,MSH6,FOXN3,GTF3C3,TRA2B,RNF138,OSBPL8,CPSF7,NCOA4,AZI2,TMOD2,ACTR2,DCAF7,EEF2,GPATCH8,ALMS1,RPAP1,ACTR8,MED1,NUP58,HBP1,EIF4G2,CDC23,NIN,NAA50,CUL2,GON4L,HUWE1,SLC25A40,YME1L1,ZZEF1,TLK1,RABEP1,FAM13B,MED23,DYNC2I1,EPM2AIP1,ICE2,DPP8,BCKDHB,RPRD1A,FYCO1,SPOPL,DOP1A,NOMO2,LRP6,FAM168B,PHF6,FAM53C,USP4,SINHCAF,HACD3,PFKM,REV1,FRS2,PNN,MLXIP,EDC4,UBXN7,PTPN23,RNF214,TAF4B,DCTN4,GPATCH2L,ARIH1,PUM1,SEC24B,FOXN2,LIMD1,ZFP1,KMT2D,CTNNB1,FUBP1,HUS1,ANAPC1,MON2,CEP57,RSBN1,RNF111,TP53BP1,TUBGCP4,WDR48,STRBP,PPIP5K2,G3BP1,GIGYF2,NCBP1,TFCP2,WBP11,TTC28,TMPO,DNMT1,SRP54,BRD2,PAN3,AFF4,DDX3X,ALG10B,IPO5,ASXL2,PHF8,RAF1,POLR2B,ESF1,BAZ2A,CEP350,PIKFYVE,R3HDM1,RAB3GAP2,DDHD2,CHD7,ASH1L,RAB18,DENND4A,GNPTAB,USP19,METTL6,RAP1B,WDR7,TMEM131,EP400,GNE,RSBN1L,SMG6,ADNP2,WDR20,NUP98,KIAA0586,TRIM23,CDK12,AKT3,GTF2A1,CHD9,TFIP11,MPHOSPH8,SOS1,SMAD5,CSNK1A1,TUBGCP3,TTC37,TNPO2,ELF1,CLINT1,PIGO,RPE,NSD2,TAF2,GCC2,CHD6,NEU3,DOCK10,PLAA,TRIM33,CPSF6,MED21,HEATR5A,DMTF1,FEM1B,HDAC4,THOC2,TEX10,CELF1,CCNK,NEMF,CTDSP2,DDX55,SDAD1,TAF5L,SCAF11,CNOT1,NF1,DIABLO,TOPBP1,MAPK8,CEBPZ,SLC11A2,NCBP3,RBMX,SECISBP2L,UBR1,NOP9,CHD8,TAOK3,TSR1,ILF3,RBM28,ARHGAP21,SCAI,DCUN1D1,RAB5A,ERBIN,PCBP1,INTS3,ZC3H11A,VGLL4,RIC1,MARF1,KTN1,C5orf24,PARP2,PTPN4,FARP2,ZDHHC17,CLIP1,SART3,RAD50,API5,NCOA2,RC3H2,XPO1,PRR14L,RNF169,UBR5,KLHL24,ACACA,USP42,PRKAR2A,MIER3,USP9X,ROCK2,CCDC88A,SATB1,MTMR1,SEC23IP,WNK1,ASXL1,PPP4R2,SOCS7,PFAS,RBM33,RNF44,SMCHD1,LYSMD3,PSIP1,CCNG1,PPARA,GFM2,USP7,KIF2A,REST,EIF3L,EMSY,G2E3,SOS2,LARS2,CS,POLK,RANBP2,RTF1,DYRK1A,AFF1,BLOC1S6,MECP2,CARM1,PICALM,USP14,RAD54L2,CKAP5,CPSF2,SPG11,FAM172A,ATP2B1,GLYR1,DHX36,MBTD1,ZNF91,RALGAPA1,FER,RAB6A,GSK3B,AEBP2,CEP170,OXSR1,NT5C2,ZMYND11,RALGAPB,HIPK1,QTRT2,NSD3,ZMYM5,PTPN11,WDR36,MCM3AP,ZNF84,PLEKHB2,ZNF17,TSC1,NR2C2,DIP2A,CLTC,ATRN,AP1AR,SLC25A36,PARG,EPB41L5,ATP2A2,SON,PTPRG,M6PR,APAF1,BBX,TAF1,THAP9,PCNX1,DMXL2,DCAF16,EIF2A,ZNF720,LYRM7,TTBK2,SMPD4,SLMAP,IRAK1BP1,RBL1,CIPC,STRAP,ARHGAP5,BCLAF1,FTO,SEC14L1,SLC7A6,SETD5,SF3B1,NIPA2,C2CD5,PCM1,DYNC1LI2,KBTBD4,ZNF106,CERT1,UBXN4,SENP6,MED13L,SF3A1,SIK3,KMT2B,UBE3A,NCOA3,SYNJ1,SBF2,TNPO1,SPTLC1,FAM160B1,RO60,NCAPD3,HEATR5B,BIRC6,SEC31A,TMEM184C,ARL5A,DPY19L3,BDP1,BCOR,SYNRG,SCAF4,EIF2AK4,PDS5A,USP10,TMEM131L,AFAP1,NDUFS1,NSD1,MPHOSPH9
Exist in public source
NA

check buttonlncRNA targets the skipped exon region.
-lncRNA and exonskipping events are positively correlated.
lncRNA and exonskipping events positive correlated
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonORF mutation
ENSG00000233621ENST00000424989exon_skip_335426chr2:238016565-238016633-12.35-0.2422UBE2FENST00000272930Frame-shift

-lncRNA and exonskipping events are negatively correlated.
lncRNA and exonskipping events negative correlated
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonLOF
ENSG00000233621ENST00000424989exon_skip_90104chr12:10709907-10710114-27.25-0.1449YBX3ENST00000228251In-frame
ENSG00000233621ENST00000424989exon_skip_291980chr17:59119318-59119495-15.97-0.1044SKA2ENST00000330137In-frame
ENSG00000233621ENST00000424989exon_skip_462554chr6:136267028-136267175-13.28-0.1771BCLAF1ENST00000531224In-frame
ENSG00000233621ENST00000424989exon_skip_489166chr8:38169801-38169917-11.92-0.1204LSM1ENST00000311351Frame-shift

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

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Variants for LINC01137

check buttonRNA A-to-I editing events in lncRNA.
LncRNAediting IDLncRNA Ensembl IDChromosomeEditing PositionStrandGene TypeGene NameTranscript IDTranscript TypeTranscript Name
LncEditing_3140ENSG00000233621.1chr137456444-antisenseLINC01137ENST00000424989.1antisenseLINC01137-001

check buttonEdited-associated DElncRNAs in cancer.
Differentially expressed gene
LncRNA Ensembl IDLncRNA IndexCancer TypeChr_Postion_StrandAVE1AVE2log2FCW-valueP-valueAdjc.p-valueChange
ENSG00000233621LncEditing_3140OVchr1_37456444_-3.220229e+002.724494e+004.146369e+003.617189e+002.978201e-043.331455e-04UP

check buttonCorrelation between RNA A-to-I editing events's frequecy and lncRNA expression.
LncRNA Ensembl IDLncRNA IndexCorrelationP-valueAdjc.p-value
ENSG00000233621LncEditing_3140-3.703824e-011.713818e-021.892614e-02

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

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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
ENSG00000233621ENST00000424989HDAC4ENSG00000068024ENST00000430200-0.283020-THCA
ENSG00000233621ENST00000424989SLC7A6ENSG00000103064ENST00000563080-0.1239849-THCA
ENSG00000233621ENST00000424989SLC7A6ENSG00000103064ENST00000566579-0.12951110-THCA

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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
ENSG00000233621.1ENST00000424989.18426410