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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: ENSG00000279672

Summary for CMB9-55F22.1

check button Gene summary

Gene informationEnsembl ID

ENSG00000279672

Gene symbol

CMB9-55F22.1

Gene name
HGNC
Entrez ID
Gene typeTEC
Synonyms
UniProtAcc

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Structure and expression level for CMB9-55F22.1

check buttonDifferentially expressed gene analysis between cancer and normal samples.
DEG result
Ensembl IDBase meanlog2FC(AD/control)lfcSEStatP-valueAdjc.p-valueDEG direction Cancer type
ENSG000002796728.931098e+011.457815e+001.921637e-017.586314e+003.290000e-143.340000e-13UPLIHC

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value
ENSG000002796723.341991e-012.484937e-02CHOL2.638676e-02

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lncRNA-Protein interaction for CMB9-55F22.1

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
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000173473SMARCC143.7690.2271Q92922EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000024048UBR235.8992.6617Q8IWV8EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000118058KMT2A35.1394.8426Q03164TF,EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000149311ATM34.3894.6479Q13315EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000146247PHIP34.092.3721Q8WWQ0EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000141867BRD432.2791.7826O60885EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000196367TRRAP29.3491.4126Q9Y4A5EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000164080RAD54L228.9392.2854Q9Y4B4EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000185658BRWD126.1593.1467Q9NSI6EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000131149GSE122.0193.6548Q14687EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000171634BPTF20.0392.1209Q12830TF,EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000167548KMT2D18.7392.3091O14686EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000163935SFMBT115.9791.6112Q9UHJ3EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000096070BRPF346.2792.2387Q9ULD4EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000032219ARID4A32.8191.2204P29374EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000165671NSD130.0690.5951Q96L73EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000055609KMT2C29.8993.387Q8NEZ4EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000163939PBRM128.3493.1732Q86U86EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000005339CREBBP24.592.9913Q92793EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000100393EP30024.0792.8314Q09472EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000071794HLTF23.3990.823Q14527EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000076108BAZ2A23.3690.4633Q9UIF9TF,RBP,EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000115524SF3B119.9293.602O75533EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000163104SMARCAD118.2691.1489Q9H4L7EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000083168KAT6A16.1690.8294Q92794EpiNA

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
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000118058KMT2A35.1394.6598Q03164TF,EpiNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000135164DMTF131.3990.4184Q9Y222TFNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000076108BAZ2A23.3690.1386Q9UIF9TF,RBP,EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000171634BPTF20.0391.8767Q12830TF,EpiNA

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
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000134815DHX3423.5890.2004Q14147RBPNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000076108BAZ2A23.3690.0789Q9UIF9TF,RBP,EpiNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000137776SLTM22.590.1839Q9NWH9RBPNA
ENSG00000279672ENST00000623692CMB9-55F22.1ENSG00000136381IREB222.3791.4946P48200RBPNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000133226SRRM110.4690.9527Q8IYB3RBPNA
ENSG00000279672ENST00000623846CMB9-55F22.1ENSG00000167978SRRM27.5893.8561Q9UQ35RBPNA

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lncRNA-DNA interaction for CMB9-55F22.1

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 CMB9-55F22.1

lncrna_RNA
check buttonlncRNA targets the 3'UTR region and negatively regulates the mRNA.
Only predicted by lncTar
BUD31
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 and exonskipping events negative correlated
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonLOF
ENSG00000279672ENST00000623692exon_skip_382458chr3:38131595-38131638-10.01-0.2860ACAA1ENST00000333167Frame-shift
ENSG00000279672ENST00000623692exon_skip_370518chr22:50247691-50247776-15.59-0.2107HDAC10ENST00000216271Frame-shift

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

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Variants for CMB9-55F22.1

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

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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
ENSG00000279672.1ENST00000623846.187579316
ENSG00000279672.1ENST00000623692.12971711064