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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: ENSG00000226711

Summary for FAM66C

check button Gene summary

Gene informationEnsembl ID

ENSG00000226711

Gene symbol

FAM66C

Gene namefamily with sequence similarity 66 member C
HGNC

21644

Entrez ID

440078

Gene typeantisense
Synonyms12p13.31|FAM66C
UniProtAcc

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Structure and expression level for FAM66C

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
ENSG000002267112.450409e+023.078002e+004.029283e-017.639082e+002.190000e-143.740000e-12UPPCPG

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value

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lncRNA-Protein interaction for FAM66C

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

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 FAM66C

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 FAM66C

lncrna_RNA
check buttonlncRNA targets the 3'UTR region and negatively regulates the mRNA.

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 FAM66C

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
ENSG00000226711FAM66Crs34311045:8323135:G:T4PRAD,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs12370428:8323079:A:G4PRAD,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs12372630:8352832:C:T4PRAD,LUAD,THYM,KIRC0
ENSG00000226711FAM66Crs7965442:8328874:A:G6PRAD,THYM,LUSC,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4883077:8324525:G:T5PRAD,LUSC,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs11043742:8326256:G:A5PRAD,THYM,PCPG,KIRC,THCA0
ENSG00000226711FAM66Crs11043743:8326260:A:G5PRAD,THYM,PCPG,KIRC,THCA0
ENSG00000226711FAM66Crs35217701:8324340:AT:A5PRAD,THYM,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs79298385:8353649:AAC:A5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840979:8355288:T:C3PRAD,THYM,KIRC0
ENSG00000226711FAM66Crs71042344:8352550:GT:G5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs7485891:8355729:A:G4PRAD,THYM,KIRC,BRCA0
ENSG00000226711FAM66Crs4523766:8326567:C:T5PRAD,THYM,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs7306155:8354423:C:T3PRAD,THYM,KIRC0
ENSG00000226711FAM66Crs58712432:8349970:C:T5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4278579:8356121:G:C5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs71042341:8327469:AT:A5PRAD,THYM,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs11830311:8351064:A:C6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840918:8323921:T:C5PRAD,THYM,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs7968628:8329240:A:C5PRAD,THYM,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs10743253:8329700:A:C5PRAD,THYM,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs10840977:8354653:C:T5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs12369280:8325018:C:T6PRAD,LUAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs59495395:8325443:G:C6PRAD,LUAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs10770298:8330796:A:G:-5PRAD,THYM,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs4242879:8326009:C:T5PRAD,THYM,LUSC,KIRC,BRCA0
ENSG00000226711FAM66Crs10840921:8324613:A:G7PRAD,LUAD,THYM,LUSC,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs7350621:8343188:C:T6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs34787357:8325462:A:G6PRAD,LUAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs4242878:8325660:A:G6PRAD,LUAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs10770308:8347358:A:G5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs6486894:8354135:G:A5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10770317:8354987:G:A5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840924:8326425:C:T6PRAD,LUAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs4604963:8355856:G:A6PRAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840926:8327369:A:G6PRAD,LUAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs4453311:8327676:G:A6PRAD,LUAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs11043962:8355254:T:C6PRAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840962:8346608:A:G:-06PRAD,LUAD,THYM,KIRC,THCA,BRCA
ENSG00000226711FAM66Crs12368250:8348230:A:G5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs11613962:8324717:A:G5PRAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs61922211:8331906:C:T4PRAD,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs4291750:8346866:C:T6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs6486877:8331234:A:G6PRAD,THYM,LUSC,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs7304320:8331317:C:T6PRAD,THYM,LUSC,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10770295:8329574:C:T5PRAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs10743252:8329676:C:T5PRAD,THYM,LUSC,KIRC,THCA0
ENSG00000226711FAM66Crs10770297:8330484:A:C6PRAD,THYM,LUSC,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4883080:8348768:T:C6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4533110:8345964:G:T6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840980:8355328:G:A6PRAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840981:8355351:A:G6PRAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs7350570:8342863:T:G6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs11043862:8342703:C:T5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs11043860:8342492:T:C6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs11043934:8352902:G:T6PRAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4548691:8358550:G:A5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10841001:8358053:G:A5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4463910:8346867:A:G7PRAD,LUAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840953:8342309:G:A5PRAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs7970875:8345518:A:G6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10770309:8347958:G:C6PRAD,LUAD,THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4883079:8345075:G:T7PRAD,LUAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10840950:8340554:G:A7PRAD,LUAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs7138926:8339586:A:G3PRAD,KIRC,THCA0
ENSG00000226711FAM66Crs11043800:8336212:T:C5PRAD,LUAD,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10770306:8339778:T:C7PRAD,LUAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs10770342:8357956:C:G7PRAD,LUAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs11043808:8336594:G:A3PRAD,KIRC,BRCA0
ENSG00000226711FAM66Crs12311395:8357507:C:T:-06PRAD,THYM,KIRP,KIRC,THCA,BRCA
ENSG00000226711FAM66Crs4604965:8308297:A:G2PRAD,KIRC0
ENSG00000226711FAM66Crs7977447:8361035:C:T3PRAD,THCA,BRCA0
ENSG00000226711FAM66Crs7968858:8356908:T:C6PRAD,THYM,KIRP,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4883086:8372757:A:C:+2PRAD,KIRC0
ENSG00000226711FAM66Crs10840818:8305976:G:T03LUAD,KIRC,BRCA
ENSG00000226711FAM66Crs10840834:8306476:C:T03LUAD,KIRC,BRCA
ENSG00000226711FAM66Crs7294887:8306590:G:T03LUAD,KIRC,BRCA
ENSG00000226711FAM66Crs7296152:8306829:C:T02LUAD,KIRC
ENSG00000226711FAM66Crs4589367:8305588:T:A03LUAD,KIRC,BRCA
ENSG00000226711FAM66Crs7296176:8306902:C:T02LUAD,KIRC
ENSG00000226711FAM66Crs4297540:8307004:G:A02LUAD,KIRC
ENSG00000226711FAM66Crs34534786:8305368:TG:T02LUAD,KIRC
ENSG00000226711FAM66Crs61922216:8337305:G:C3THYM,KIRC,THCA0
ENSG00000226711FAM66Crs10840927:8327516:G:T4THYM,PCPG,KIRC,THCA0
ENSG00000226711FAM66Crs7397859:8359304:C:T4THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs4627150:8343961:C:T:-4THYM,KIRC,THCA,BRCA0
ENSG00000226711FAM66Crs12426297:8334366:C:T03THYM,KIRC,THCA
ENSG00000226711FAM66Crs11043930:8352702:A:G1THYM0
ENSG00000226711FAM66Crs4334105:8332691:C:A3PCPG,KIRC,THCA0
ENSG00000226711FAM66Crs11043734:8324663:G:A2KIRC,THCA0
ENSG00000226711FAM66Crs71451946:8338420:A:AC2KIRC,THCA0
ENSG00000226711FAM66Crs4619218:8333260:C:G2KIRC,THCA0
ENSG00000226711FAM66Crs4523762:8335159:A:C2KIRC,THCA0
ENSG00000226711FAM66Crs10840914:8321045:G:C2KIRC,THCA0
ENSG00000226711FAM66Crs7976346:8330732:T:C2KIRC,THCA0
ENSG00000226711FAM66Crs10743248:8320262:T:C1KIRC0
ENSG00000226711FAM66Crs10840913:8320842:A:G2KIRC,THCA0
ENSG00000226711FAM66Crs11519179:8303978:T:A02KIRC,BRCA
ENSG00000226711FAM66Crs10840851:8308145:C:G02KIRC,BRCA
ENSG00000226711FAM66Crs10840849:8307968:C:T:-02KIRC,BRCA
ENSG00000226711FAM66Crs10840850:8308025:T:C02KIRC,BRCA
ENSG00000226711FAM66Crs6486847:8309235:A:G1KIRC0
ENSG00000226711FAM66Crs6486903:8368213:C:G:+2KIRC,BRCA0
ENSG00000226711FAM66Crs10840833:8306414:A:G02KIRC,BRCA
ENSG00000226711FAM66Crs11043622:8305249:C:T02KIRC,BRCA
ENSG00000226711FAM66Crs4293193:8307358:A:G:+2KIRC,BRCA0
ENSG00000226711FAM66Crs10840853:8308449:T:G02KIRC,BRCA
ENSG00000226711FAM66Crs7963107:8310035:A:G01KIRC
ENSG00000226711FAM66Crs4414303:8335227:G:A2THCA,BRCA0

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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
ENSG00000226711.5ENST00000456135.583550801
ENSG00000226711.5ENST00000454799.5139618199
ENSG00000226711.5ENST00000544214.4132597199
ENSG00000226711.5ENST00000541558.4166686186
ENSG00000226711.5ENST00000372173.52111573938
ENSG00000226711.5ENST00000535567.483339590
ENSG00000226711.5ENST00000420514.572559341
ENSG00000226711.5ENST00000438689.5109163492
ENSG00000226711.5ENST00000540566.188238501