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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: ENSG00000251562

Summary for MALAT1

check button Gene summary

Gene informationEnsembl ID

ENSG00000251562

Gene symbol

MALAT1

Gene namemetastasis associated lung adenocarcinoma transcript 1
HGNC

29665

Entrez ID

378938

Gene typelincRNA
SynonymsMALAT1|11q13.1
UniProtAcc

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Structure and expression level for MALAT1

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
ENSG000002515621.893838e+041.305215e+001.546082e-018.442082e+003.120000e-171.600000e-16UPKIRC
ENSG000002515629.932339e+031.303557e+001.456764e-018.948308e+003.610000e-195.430000e-18UPKICH
ENSG000002515621.284357e+042.479076e+002.945554e-018.416332e+003.880000e-174.180000e-16UPCOAD
ENSG000002515627.548313e+031.741044e+004.544049e-013.831482e+001.273740e-049.328460e-04UPREAD

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value
ENSG000002515626.439345e-011.821875e-06CHOL2.650625e-05
ENSG000002515623.558500e-016.207708e-04KICH8.918739e-04

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lncRNA-Protein interaction for MALAT1

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
ENSG00000251562ENST00000534336MALAT1ENSG00000172273HINFP105.8297.3008Q9BQA5TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000116731PRDM2104.3398.2548Q13029TF,EpiPredict
ENSG00000251562ENST00000534336MALAT1ENSG00000139154AEBP299.8493.2827Q6ZN18TF,EpiChIP-seq,ChIP-seq,catRAPID
ENSG00000251562ENST00000534336MALAT1ENSG00000067066SP10097.3997.7054P23497TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000118058KMT2A87.7498.994Q03164TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000036549ZZZ383.297.9801Q8IYH5TF,EpiChIP-seq,RNA-seq,ChIP-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000171634BPTF77.6498.9257Q12830TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000169057MECP277.1197.573P51608TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000182568SATB167.7897.3957Q01826TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000134852CLOCK58.5896.9118O15516TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000101126ADNP56.3998.0365Q9H2P0TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000187605TET345.9698.4991O43151TF,EpiPredict
ENSG00000251562ENST00000612781MALAT1ENSG00000118058KMT2A43.6993.2205Q03164TF,EpiNA
ENSG00000251562ENST00000612781MALAT1ENSG00000116731PRDM241.4590.3638Q13029TF,EpiPredict
ENSG00000251562ENST00000612781MALAT1ENSG00000083544TDRD318.1290.2353Q9H7E2RBP,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000118058KMT2A85.8696.4655Q03164TF,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000067066SP10073.5792.8793P23497TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000116731PRDM268.4192.2921Q13029TF,EpiPredict
ENSG00000251562ENST00000618227MALAT1ENSG00000187605TET364.8992.7505O43151TF,EpiPredict
ENSG00000251562ENST00000618227MALAT1ENSG00000171634BPTF58.194.7899Q12830TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000610481MALAT1ENSG00000118058KMT2A56.8295.0051Q03164TF,EpiNA
ENSG00000251562ENST00000610481MALAT1ENSG00000187605TET348.0292.9763O43151TF,EpiPredict
ENSG00000251562ENST00000610481MALAT1ENSG00000171634BPTF44.5694.976Q12830TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000083544TDRD327.9991.2576Q9H7E2RBP,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000123636BAZ2B123.4398.7844Q9UIF8TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000185811IKZF1120.7896.8465Q13422TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000104517UBR5116.1397.6555O95071RBP,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000116560SFPQ99.7897.6511P23246RBP,EpiGSE96080,eCLIP,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000534336MALAT1ENSG00000084676NCOA192.4998.5799Q15788TF,EpiRNA-seq,Microarray,catRAPID
ENSG00000251562ENST00000534336MALAT1ENSG00000124151NCOA388.2998.5918Q9Y6Q9TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000150907FOXO185.3297.3043Q12778TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000025293PHF2079.3496.9981Q9BVI0TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000189079ARID277.0998.0719Q68CP9TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000084093REST60.7398.3632Q13127TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000168769TET258.4698.6387Q6N021TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000114861FOXP156.8897.1821Q9H334TF,EpiChIP-seq,RNA-seq,ChIP-seq,Microarray
ENSG00000251562ENST00000612781MALAT1ENSG00000025293PHF2056.7292.234Q9BVI0TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000136450SRSF134.9896.9276Q07955RBP,EpiRT-PCR,qRT-PCR,Northern,blot,Western,blot,RIP,PAR-CLIP,eCLIP,RIP-ChIp,HITS-CLIP,iCLIP,Microarray,CLIP-seq,iCLIP
ENSG00000251562ENST00000612781MALAT1ENSG00000168769TET233.2890.1324Q6N021TF,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000123636BAZ2B103.7790.7674Q9UIF8TF,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000165156ZHX170.1991.1475Q9UKY1TF,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000198919DZIP366.590.9483Q86Y13RBP,EpiRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000084676NCOA165.2191.4474Q15788TF,EpiRNA-seq,Microarray,catRAPID
ENSG00000251562ENST00000618227MALAT1ENSG00000168769TET262.1194.8284Q6N021TF,EpiNA
ENSG00000251562ENST00000610481MALAT1ENSG00000080603SRCAP56.4790.557Q6ZRS2TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000610481MALAT1ENSG00000084676NCOA146.5690.362Q15788TF,EpiRNA-seq,Microarray,catRAPID
ENSG00000251562ENST00000610481MALAT1ENSG00000189079ARID239.4891.8724Q68CP9TF,EpiNA

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
ENSG00000251562ENST00000534336MALAT1ENSG00000126804ZBTB1159.8597.6462Q9Y2K1TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000113916BCL6132.9196.0719P41182TFChIP-seq,RNA-seq,ChIP-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000114439BBX123.6998.1292Q8WY36TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000123636BAZ2B123.4398.7001Q9UIF8TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000185811IKZF1120.7896.7158Q13422TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000136603SKIL120.6196.5273P12757TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000140836ZFHX3120.3598.9453Q15911TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000159140SON117.6198.3527P18583TF,RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000164631ZNF12112.1296.7633P17014TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000146587RBAK106.5197.4103Q9NYW8TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000172273HINFP105.8297.3288Q9BQA5TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000080298RFX3104.4696.3604P48380TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000116731PRDM2104.3398.1733Q13029TF,EpiPredict
ENSG00000251562ENST00000534336MALAT1ENSG00000118689FOXO3101.1797.339O43524TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000196670ZFP62100.6698.1182Q8NB50TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000169981ZNF35100.597.6434P13682TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000068305MEF2A99.8797.3216Q02078TFChIP-seq,RNA-seq,ChIP-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000139154AEBP299.8493.153Q6ZN18TF,EpiChIP-seq,ChIP-seq,catRAPID
ENSG00000251562ENST00000534336MALAT1ENSG00000180787ZFP398.097.2366Q96NJ6TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000067066SP10097.3997.6617P23497TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000167232ZNF9195.7998.2479Q05481TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000168795ZBTB594.3897.3369O15062TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000186660ZFP9194.0997.4961Q96JP5TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000130254SAFB292.6698.4066Q14151TF,RBPENCODE,eCLIP
ENSG00000251562ENST00000534336MALAT1ENSG00000084676NCOA192.4998.4705Q15788TF,EpiRNA-seq,Microarray,catRAPID
ENSG00000251562ENST00000534336MALAT1ENSG00000005889ZFX92.3597.883P17010TFChIP-seq,RNA-seq,ChIP-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000144747TMF191.7597.4257P82094TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000198521ZNF4391.3697.621P17038TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000099326MZF189.3498.0292P28698TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000167766ZNF8388.6597.5686P51522TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000142065ZFP1488.4796.5944Q9HCL3TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000124151NCOA388.2998.5746Q9Y6Q9TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000118058KMT2A87.7498.9383Q03164TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000105856HBP187.1195.424O60381TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000150907FOXO185.3297.2198Q12778TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000036549ZZZ383.297.9387Q8IYH5TF,EpiChIP-seq,RNA-seq,ChIP-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000257315ZBED682.1993.1359P86452TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000198040ZNF8482.198.0711P51523TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000102908NFAT581.6895.8822O94916TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000106459NRF179.8890.6624Q16656TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000181827RFX779.6698.1326Q2KHR2TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000025293PHF2079.3496.8342Q9BVI0TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000135164DMTF177.8497.5263Q9Y222TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000171634BPTF77.6498.8201Q12830TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000169554ZEB277.3997.9936O60315TFRT-PCR,Western,blot
ENSG00000251562ENST00000534336MALAT1ENSG00000156273BACH177.2597.2363O14867TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000169057MECP277.1197.4833P51608TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000189079ARID277.0997.9731Q68CP9TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000117000RLF76.1398.5349Q13129TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000081189MEF2C73.0897.034Q06413TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000124782RREB172.6897.7354Q92766TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000053254FOXN371.7494.9909O00409TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000166432ZMAT170.0796.6858Q5H9K5TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000147124ZNF4168.8298.1601P51814TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000102189EEA168.6798.7371Q15075TFPredict
ENSG00000251562ENST00000534336MALAT1ENSG00000182568SATB167.7897.2924Q01826TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000102349KLF866.5194.3259O95600TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000196867ZFP2865.9298.1432Q8NHY6TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000178177LCORL65.3197.5417Q8N3X6TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000165030NFIL362.4990.7036Q16649TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000084093REST60.7398.2537Q13127TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000170653ATF760.5590.519P17544TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000123411IKZF460.0797.1679Q9H2S9TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000256223ZNF1059.8697.2927P21506TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000109381ELF258.6996.3727Q15723TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000134852CLOCK58.5896.8504O15516TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000168769TET258.4698.5345Q6N021TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000067082KLF658.3694.9331Q99612TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000172466ZNF2458.1896.0591P17028TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000278129ZNF857.4297.8449P17098TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000114861FOXP156.8897.0866Q9H334TF,EpiChIP-seq,RNA-seq,ChIP-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000213928IRF956.8696.0717Q00978TFNA
ENSG00000251562ENST00000612781MALAT1ENSG00000025293PHF2056.7291.5913Q9BVI0TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000101126ADNP56.3997.9848Q9H2P0TF,EpiChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000141646SMAD456.096.1015Q13485TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000170802FOXN254.9696.2642P32314TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000143995MEIS154.5295.7806O00470TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000198205ZXDA52.3897.2736P98168TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000136936XPA51.2594.8039P23025TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000105717PBX447.3897.014Q9BYU1TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000143178TBX1946.6794.6396O60806TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000187605TET345.9698.3843O43151TF,EpiPredict
ENSG00000251562ENST00000534336MALAT1ENSG00000075426FOSL244.1395.8436P15408TFChIP-seq
ENSG00000251562ENST00000612781MALAT1ENSG00000118058KMT2A43.6992.9949Q03164TF,EpiNA
ENSG00000251562ENST00000534336MALAT1ENSG00000198455ZXDB42.7697.429P98169TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000187792ZNF7042.0696.7581Q9UC06TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000185129PURA38.4597.0466Q00577TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000186130ZBTB633.3296.479Q15916TFNA
ENSG00000251562ENST00000612781MALAT1ENSG00000167232ZNF9133.1990.6471Q05481TFNA
ENSG00000251562ENST00000534336MALAT1ENSG00000185670ZBTB332.3897.4887Q9H5J0TFRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000144161ZC3H830.0495.9061Q8N5P1TF,RBPRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000159216RUNX129.8996.6162Q01196TFChIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000085274MYNN28.894.4347Q9NPC7TFRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000102189EEA1105.3790.6576Q15075TFPredict
ENSG00000251562ENST00000618227MALAT1ENSG00000123636BAZ2B103.7791.012Q9UIF8TF,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000118058KMT2A85.8696.6531Q03164TF,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000067066SP10073.5792.7074P23497TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000196867ZFP2871.4690.3774Q8NHY6TFRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000165156ZHX170.1991.5684Q9UKY1TF,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000116731PRDM268.4192.1728Q13029TF,EpiPredict
ENSG00000251562ENST00000618227MALAT1ENSG00000084676NCOA165.2191.5333Q15788TF,EpiRNA-seq,Microarray,catRAPID
ENSG00000251562ENST00000618227MALAT1ENSG00000187605TET364.8992.7161O43151TF,EpiPredict
ENSG00000251562ENST00000618227MALAT1ENSG00000147124ZNF4162.6990.3461P51814TFNA
ENSG00000251562ENST00000618227MALAT1ENSG00000168769TET262.1194.7559Q6N021TF,EpiNA
ENSG00000251562ENST00000618227MALAT1ENSG00000171634BPTF58.194.9237Q12830TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000610481MALAT1ENSG00000118058KMT2A56.8294.9476Q03164TF,EpiNA
ENSG00000251562ENST00000610481MALAT1ENSG00000080603SRCAP56.4790.3644Q6ZRS2TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000084093REST55.8690.5233Q13127TF,EpiChIP-seq
ENSG00000251562ENST00000618227MALAT1ENSG00000167232ZNF9153.7192.3495Q05481TFNA
ENSG00000251562ENST00000610481MALAT1ENSG00000124782RREB153.3294.0522Q92766TFNA
ENSG00000251562ENST00000618227MALAT1ENSG00000169554ZEB252.3193.2811O60315TFRT-PCR,Western,blot
ENSG00000251562ENST00000618227MALAT1ENSG00000117000RLF51.1293.7487Q13129TFRNA-seq,Microarray
ENSG00000251562ENST00000610481MALAT1ENSG00000187605TET348.0292.9711O43151TF,EpiPredict
ENSG00000251562ENST00000610481MALAT1ENSG00000196867ZFP2847.7190.8126Q8NHY6TFRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000196670ZFP6247.4491.3921Q8NB50TFNA
ENSG00000251562ENST00000610481MALAT1ENSG00000084676NCOA146.5690.4703Q15788TF,EpiRNA-seq,Microarray,catRAPID
ENSG00000251562ENST00000618227MALAT1ENSG00000140836ZFHX345.294.2012Q15911TFChIP-seq
ENSG00000251562ENST00000610481MALAT1ENSG00000171634BPTF44.5694.7439Q12830TF,EpiRNA-seq,Microarray
ENSG00000251562ENST00000618227MALAT1ENSG00000146587RBAK41.3890.5107Q9NYW8TFNA
ENSG00000251562ENST00000610481MALAT1ENSG00000169554ZEB240.1193.7962O60315TFRT-PCR,Western,blot
ENSG00000251562ENST00000610481MALAT1ENSG00000189079ARID239.4891.7336Q68CP9TF,EpiNA
ENSG00000251562ENST00000610481MALAT1ENSG00000136603SKIL38.790.22P12757TFNA
ENSG00000251562ENST00000610481MALAT1ENSG00000117000RLF36.2991.5151Q13129TFRNA-seq,Microarray
ENSG00000251562ENST00000610481MALAT1ENSG00000140836ZFHX332.6991.8969Q15911TFChIP-seq
ENSG00000251562ENST00000610481MALAT1ENSG00000114439BBX31.4791.1548Q8WY36TFNA
ENSG00000251562ENST00000610481MALAT1ENSG00000166432ZMAT122.7691.6076Q5H9K5TFNA

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
ENSG00000251562ENST00000618227MALAT1ENSG00000198000NOL871.5292.2795Q76FK4RBPRNA-seq,Microarray
ENSG00000251562ENST00000610481MALAT1ENSG00000163728TTC1452.1390.2617Q96N46RBPRNA-seq,Microarray
ENSG00000251562ENST00000610481MALAT1ENSG00000003756RBM551.8191.2689P52756RBPENCODE,eCLIP,HITS-CLIP,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000610481MALAT1ENSG00000125676THOC245.2393.7593Q8NI27RBPRNA-seq,Microarray,catRAPID
ENSG00000251562ENST00000618227MALAT1ENSG00000133226SRRM131.2292.315Q8IYB3RBPRT-PCR,Filter,trap,assay,Western,blot,FISH,ICC
ENSG00000251562ENST00000534336MALAT1ENSG00000159140SON117.6198.4106P18583TF,RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000104517UBR5116.1397.6633O95071RBP,EpiRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000123908AGO2111.5390.7847Q9UKV8RBPGSE66056;GSE58798;GSE57926,GSE67990,High-throughput data,Literature mining;High-throughput data,Western,blot,CLIP,HITS-CLIP
ENSG00000251562ENST00000534336MALAT1ENSG00000125676THOC2105.6698.0791Q8NI27RBPRNA-seq,Microarray,catRAPID
ENSG00000251562ENST00000534336MALAT1ENSG00000064607SUGP2101.2693.0398Q8IX01RBPENCODE
ENSG00000251562ENST00000534336MALAT1ENSG00000116560SFPQ99.7897.8105P23246RBP,EpiGSE96080,eCLIP,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000534336MALAT1ENSG00000113742CPEB495.7296.7344Q17RY0RBPRNA-seq,Microarray,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000534336MALAT1ENSG00000102081FMR193.8397.3705Q06787RBPENCODE,GSE104269,RNA-seq,PAR-CLIP,eCLIP,Microarray,CLIP-seq
ENSG00000251562ENST00000534336MALAT1ENSG00000130254SAFB292.6698.6451Q14151TF,RBPENCODE,eCLIP
ENSG00000251562ENST00000534336MALAT1ENSG00000133226SRRM191.2498.6395Q8IYB3RBPRT-PCR,Filter,trap,assay,Western,blot,FISH,ICC
ENSG00000251562ENST00000534336MALAT1ENSG00000134698AGO489.8292.5386Q9HCK5RBPGSE58798,GSE67990
ENSG00000251562ENST00000534336MALAT1ENSG00000089280FUS88.595.4979P35637RBPGSE106386,HITS-CLIP,CLIP-seq,iCLIP,PAR-CLIP,High-throughput data,PAR-CLIP
ENSG00000251562ENST00000619449MALAT1ENSG00000198000NOL887.1991.3746Q76FK4RBPRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000147274RBMX87.1497.8403P38159RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000198000NOL884.6198.3415Q76FK4RBPRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000003756RBM582.7598.0074P52756RBPENCODE,eCLIP,HITS-CLIP,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000534336MALAT1ENSG00000079134THOC178.1791.8599Q96FV9RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000163728TTC1475.5197.5634Q96N46RBPRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000004534RBM672.7698.5744P78332RBPHITS-CLIP,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000534336MALAT1ENSG00000184863RBM3369.1798.2022Q96EV2RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000080802CNOT468.6290.8042O95628RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000135870RC3H167.0998.0154Q5TC82RBPCLIP,PAR-CLIP,GSE47078
ENSG00000251562ENST00000534336MALAT1ENSG00000173914RBM4B66.9996.005Q9BQ04RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000106344RBM2866.5597.7572Q9NW13RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000065457ADAT165.7196.1641Q9BUB4RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000124193SRSF665.3496.7787Q13247RBPLiterature mining,RT-PCR,RIP,Western,blot,RIP-ChIp,miRNA,array,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000111364DDX5563.8197.1047Q8NHQ9RBPENCODE,eCLIP,RNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000116350SRSF463.3898.2059Q08170RBPHigh-throughput data,Literature mining,miRNA,array,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000173933RBM462.7596.3015Q9BWF3RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000145833DDX4659.9297.1165Q7L014RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000137449CPEB255.8992.3577Q7Z5Q1RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000104177MYEF252.8294.692Q9P2K5RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000100650SRSF551.8596.7052Q13243RBPLiterature mining,blot,RIP-ChIp,miRNA,array,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000534336MALAT1ENSG00000162231NXF151.6496.43Q9UBU9RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000172667ZMAT350.7190.0371Q9HA38RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000164548TRA2A46.6897.6321Q13595RBPENCODE,eCLIP,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000612781MALAT1ENSG00000004534RBM645.5390.4417P78332RBPHITS-CLIP,Scan,pipeline,widely,used,MATCH,algorithm
ENSG00000251562ENST00000534336MALAT1ENSG00000138757G3BP241.7197.7717Q9UN86RBPNA
ENSG00000251562ENST00000612781MALAT1ENSG00000198000NOL840.6390.6027Q76FK4RBPRNA-seq,Microarray
ENSG00000251562ENST00000534336MALAT1ENSG00000155858LSM1140.096.9626P83369RBPENCODE,eCLIP
ENSG00000251562ENST00000619449MALAT1ENSG00000133226SRRM139.2390.7464Q8IYB3RBPRT-PCR,Filter,trap,assay,Western,blot,FISH,ICC
ENSG00000251562ENST00000534336MALAT1ENSG00000107164FUBP339.0897.1619Q96I24RBPENCODE
ENSG00000251562ENST00000534336MALAT1ENSG00000136450SRSF134.9896.7729Q07955RBP,EpiRT-PCR,qRT-PCR,Northern,blot,Western,blot,RIP,PAR-CLIP,eCLIP,RIP-ChIp,HITS-CLIP,iCLIP,Microarray,CLIP-seq,iCLIP
ENSG00000251562ENST00000534336MALAT1ENSG00000117602RCAN330.7396.2905Q9UKA8RBPNA
ENSG00000251562ENST00000534336MALAT1ENSG00000144161ZC3H830.0493.8476Q8N5P1TF,RBPRNA-seq,Microarray
ENSG00000251562ENST00000612781MALAT1ENSG00000133226SRRM119.7890.6856Q8IYB3RBPRT-PCR,Filter,trap,assay,Western,blot,FISH,ICC

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lncRNA-DNA interaction for MALAT1

lncrna_DNA
check buttonlncRNA targets the enhancer region and positively regulates the gene expression.
Only predicted by TDF
RBM19,XRN1,BCL6,CPEB2,RBM39,KLF7,LCORL,MYSM1,SUGP2,DMTF1,FOSL2,RBM27,ZNF70,ZNF24,RORA,RBM28,RUNX1,DDX55,MEF2C,STAT2,ZMAT3,TET3,ZBTB5,ZFP14,ZXDA,RNPC3,SAFB2,THOC1,FOXO1,TRNT1,CNOT4,SON,DDX59,ZBED5,ZZZ3,TTC14,KLF6,MEX3C,RC3H1,SP100,EEA1,ZFP91,RBMX,AGO2,ZBTB3,ADNP,MYEF2,IKZF4,PUS7L,CLOCK,NFIA,CPSF7,LIN54,UBR5,THOC2,DDX6,ZBTB6,THAP6,DDX17,RFX7,FOXN3,FMR1,MECP2,PHF1,KLF3,PURA,ZNF41,ZC3H8,HSF4,RBM41,DZIP3,IRF2,ZFP62,CELF1,TMF1,TIGD1,BACH1,PRDM2,AHR,AGO3,NFIB,FOXP1,MYNN,PBX4,ZMAT1,ZNF83,SKIL,RFX3,NXF1,ZFX,ZNF8,NR2C2,SYNJ1,PUS10,GPBP1,RBM6,G3BP2,LSM11,ZFHX3,PUM2,RBM5,ELF2,SMAD4,ZNF43,ZFP28,SRCAP,ZNF84,ETS1,BAZ2B,TRA2A,ZEB2,HINFP,XPA,ZFP3,TEP1,ZBED6,NFIL3,TET2,RBM33,NOL8,ZNF10
Exist in public source
MZF1,NRF1,ARID2,RBM4,ZNF91,SRSF4,RBM4B,MEIS1,SMAD3,SP110,KMT2A,ADAT1,SFPQ

check buttonlncRNA targets the promoter region and positively regulates the gene expression.
Only predicted by TDF
CNOT4,TET3,RBM27,FOXP1,MECP2,RFX7,ZMAT1,REST,NCOA3,SKIL,ZNF70,NFIL3,FOSL2,RORA,HINFP,ELF2,DDX17,ZFP14,KLF8,AGO2,RBM5,ZFP62,MBNL1,THOC2,TIGD1,SYNJ1,STAT2,MYNN,RBM19,ZNF83,BACH1,TET2,AGO4,CELF2,CELF1,LCORL,DDX59,IRF2,FOXO3,BCL6,POGK,FOXO1,HBP1,SRSF5,KLF6,DDX46,KDM2A,ZFHX3,TEP1,PBX4,NCOA1,FOXN3,MLXIP,UBR5,ZBED6,RCAN3,CPSF7,G3BP2,RC3H1,RBM6,RUNX1,RBM39,NFIA,ZBTB6
Exist in public source
BPTF,ADAT1,KMT2A,ARID2,MZF1,SP110,NRF1,RBM4,MEIS1

check buttonlncRNA targets the promoter region and negatively regulates the gene expression.
Only predicted by TDF
LSM2,RBM42
Exist in public source
NA

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lncRNA-RNA interaction for MALAT1

lncrna_RNA
check buttonlncRNA targets the 3'UTR region and negatively regulates the mRNA.
Only predicted by lncTar
PIN1,RNH1,EIF3B,APEX1,THAP4,NELFE,PUF60,MAZ,ERAL1,DDX54,SF3B6,RBM42,MBD3
Exist in public source
PUSL1,DDX49,LSM4

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
ENSG00000251562ENST00000616691exon_skip_1234chr1:11658532-11658628-12.73-0.2315FBXO44ENST00000251547,ENST00000376770In-frame

-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
ENSG00000251562ENST00000613376exon_skip_38175chr1:234398381-234398553-7.58-0.1995TARBP1ENST00000040877Frame-shift
ENSG00000251562ENST00000616691exon_skip_114365chr14:74290026-74290118-11.78-0.1510ABCD4ENST00000356924Frame-shift
ENSG00000251562ENST00000616691exon_skip_143275chr16:24939363-24939597-24.51-0.1263ARHGAP17ENST00000289968In-frame
ENSG00000251562ENST00000617489exon_skip_327433chr2:86125794-86125880-7.99-0.1289PTCD3ENST00000254630Frame-shift
ENSG00000251562ENST00000616691exon_skip_370518chr22:50247691-50247776-11.11-0.1355HDAC10ENST00000216271Frame-shift
ENSG00000251562ENST00000616691exon_skip_382458chr3:38131595-38131638-6.11-0.2037ACAA1ENST00000333167Frame-shift
ENSG00000251562ENST00000616691exon_skip_446758chr5:178212972-178213103-13.28-0.1413PHYKPLENST00000308158Frame-shift
ENSG00000251562ENST00000616691exon_skip_41813chr10:68337857-68337996-15.71-0.1172HNRNPH3ENST00000265866Frame-shift
ENSG00000251562ENST00000610851exon_skip_95407chr12:95040475-95040597-10.86-0.1308NR2C1ENST00000333003Frame-shift
ENSG00000251562ENST00000616691exon_skip_138351chr16:70469151-70469323-15.48-0.1114FUKENST00000288078Frame-shift
ENSG00000251562ENST00000616691exon_skip_374497chr3:49999439-49999513-8.42-0.1619RBM6ENST00000266022Frame-shift
ENSG00000251562ENST00000616691exon_skip_374551chr3:50100531-50100605-11.52-0.2259RBM5ENST00000347869Frame-shift
ENSG00000251562ENST00000616691exon_skip_9446chr1:147270931-147271005-6.78-0.1027CHD1LENST00000369258Frame-shift
ENSG00000251562ENST00000616691exon_skip_53559chr10:101793912-101793998-10.06-0.1705OGAENST00000361464Frame-shift
ENSG00000251562ENST00000616691exon_skip_62623chr11:69079833-69079883-10.06-0.2395TPCN2ENST00000294309Frame-shift
ENSG00000251562ENST00000616691exon_skip_111863chr14:23565815-23565892-10.60-0.1828AP1G2ENST00000308724,ENST00000397120Frame-shift
ENSG00000251562ENST00000616691exon_skip_114376chr14:74293153-74293248-13.38-0.1738ABCD4ENST00000356924Frame-shift
ENSG00000251562ENST00000613376exon_skip_127618chr15:58890280-58890461-8.91-0.1291SLTMENST00000380516Frame-shift
ENSG00000251562ENST00000613376exon_skip_127623chr15:58899468-58899937-13.34-0.1131SLTMENST00000380516Frame-shift
ENSG00000251562ENST00000616691exon_skip_133217chr16:8635038-8635079-11.37-0.2843METTL22ENST00000381920Frame-shift
ENSG00000251562ENST00000616691exon_skip_290158chr17:42953723-42953778-6.27-0.1529AARSD1ENST00000427569Frame-shift
ENSG00000251562ENST00000616691exon_skip_302168chr19:10680345-10680443-9.01-0.1060ILF3ENST00000590261Frame-shift
ENSG00000251562ENST00000616691exon_skip_327748chr2:95410863-95411026-14.89-0.1064FAHD2AENST00000233379,ENST00000447036Frame-shift
ENSG00000251562ENST00000616691exon_skip_333962chr2:219247112-219247246-14.72-0.1533STK16ENST00000396738,ENST00000409638Frame-shift
ENSG00000251562ENST00000616691exon_skip_353131chr20:58669290-58669453-21.56-0.1925STX16ENST00000371141Frame-shift
ENSG00000251562ENST00000616691exon_skip_365497chr22:38067703-38067770-10.09-0.1770PICK1ENST00000356976,ENST00000404072Frame-shift
ENSG00000251562ENST00000616691exon_skip_380242chr3:186784961-186785101-12.41-0.1009EIF4A2ENST00000323963Frame-shift
ENSG00000251562ENST00000616691exon_skip_438188chr5:141638954-141639021-13.25-0.2650RELL2ENST00000297164,ENST00000444782Frame-shift
ENSG00000251562ENST00000618132exon_skip_442657chr5:74730259-74730398-13.39-0.1164GFM2ENST00000296805,ENST00000509430Frame-shift
ENSG00000251562ENST00000616691exon_skip_444499chr5:138164086-138164133-7.00-0.2000BRD8ENST00000254900Frame-shift
ENSG00000251562ENST00000613376exon_skip_453169chr6:75702644-75703072-13.51-0.1299SENP6ENST00000447266Frame-shift
ENSG00000251562ENST00000616691exon_skip_470226chr7:103307595-103307708-11.01-0.1251PMPCBENST00000249269Frame-shift
ENSG00000251562ENST00000616691exon_skip_511212chrX:71555189-71555385-17.15-0.1021OGTENST00000373719Frame-shift
ENSG00000251562ENST00000616691exon_skip_374581chr3:50110378-50110463-10.05-0.2284RBM5ENST00000347869Frame-shift
ENSG00000251562ENST00000616691exon_skip_377198chr3:123130479-123130616-15.21-0.1237PDIA5ENST00000316218Frame-shift
ENSG00000251562ENST00000616691exon_skip_509943chrX:47175018-47175092-12.80-0.1753RBM10ENST00000377604Frame-shift

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

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Variants for MALAT1

check buttonRNA A-to-I editing events in lncRNA.
LncRNAediting IDLncRNA Ensembl IDChromosomeEditing PositionStrandGene TypeGene NameTranscript IDTranscript TypeTranscript Name
LncEditing_243872ENSG00000251562.6chr1165506159+lincRNAMALAT1ENST00000618227.1lincRNAMALAT1-016

check buttonEdited-associated DElncRNAs in cancer.
Differentially expressed gene
LncRNA Ensembl IDLncRNA IndexCancer TypeChr_Postion_StrandAVE1AVE2log2FCW-valueP-valueAdjc.p-valueChange
ENSG00000251562LncEditing_243872SARCchr11_65506159_+1.317368e+018.441123e+001.557264e+005.008226e+005.493389e-077.452428e-07UP
ENSG00000251562LncEditing_243872LIHCchr11_65506159_+9.202133e+005.171449e+001.202791e+007.456838e+008.862327e-141.908259e-13UP
ENSG00000251562LncEditing_243872KIRCchr11_65506159_+4.816765e+018.636362e+01-1.187142e+004.655829e+003.226794e-063.962823e-06DOWN
ENSG00000251562LncEditing_243872DLBCchr11_65506159_+1.155839e+018.091554e+001.943819e+003.166667e+001.541970e-034.660959e-03UP
ENSG00000251562LncEditing_243872GBMchr11_65506159_+2.484174e+011.683157e+011.780637e+004.215892e+002.487925e-053.841091e-05UP
ENSG00000251562LncEditing_243872LGGchr11_65506159_+2.069747e+011.416625e+011.828165e+007.677806e+001.618368e-143.191531e-14UP
ENSG00000251562LncEditing_243872ACCchr11_65506159_+2.670190e+011.319825e+019.836745e-013.875533e+001.063914e-043.026246e-04UP
ENSG00000251562LncEditing_243872LUSCchr11_65506159_+2.357361e+011.245004e+011.085750e+009.808456e+001.035407e-223.412619e-22UP
ENSG00000251562LncEditing_243872HNSCchr11_65506159_+1.435569e+018.057385e+001.200136e+001.038924e+012.775416e-258.162988e-25UP
ENSG00000251562LncEditing_243872KICHchr11_65506159_+2.321177e+011.648477e+012.025429e+003.592416e+003.276260e-048.200458e-04UP
ENSG00000251562LncEditing_243872SKCMchr11_65506159_+1.379381e+016.855894e+009.914694e-019.805226e+001.069076e-222.532022e-22UP
ENSG00000251562LncEditing_243872PCPGchr11_65506159_+2.570983e+011.555359e+011.379173e+004.833021e+001.344763e-062.891835e-06UP
ENSG00000251562LncEditing_243872KIRPchr11_65506159_+3.074879e+011.827278e+011.331853e+007.303222e+002.809578e-139.208032e-13UP
ENSG00000251562LncEditing_243872OVchr11_65506159_+1.839854e+021.351469e+022.246875e+003.944460e+007.997990e-059.244691e-05UP
ENSG00000251562LncEditing_243872TGCTchr11_65506159_+8.071783e+005.506363e+001.812291e+005.168032e+002.365720e-074.564055e-07UP
ENSG00000251562LncEditing_243872STADchr11_65506159_+4.880809e+022.810257e+021.255622e+006.955821e+003.505145e-126.587097e-12UP
ENSG00000251562LncEditing_243872CESCchr11_65506159_+1.566082e+011.415293e+016.846527e+002.488420e+001.283120e-021.304435e-02UP

check buttonCorrelation between RNA A-to-I editing events's frequecy and lncRNA expression.
LncRNA Ensembl IDLncRNA IndexCorrelationP-valueAdjc.p-value
ENSG00000251562LncEditing_243872-4.263852e-013.209082e-042.608566e-03
ENSG00000251562LncEditing_243872-3.213133e-012.431894e-059.688654e-05

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
ENSG00000251562ENSG00000025293PHF20ENSG00000080802CNOT45CHOL,LAML,LUAD,THYM,UCEC
ENSG00000251562ENSG00000118058KMT2AENSG00000080802CNOT410BLCA,BRCA,CHOL,COAD,DLBC,KIRC,LUAD,PRAD,THYM,UCEC
ENSG00000251562ENSG00000167232ZNF91ENSG00000080802CNOT49BLCA,BRCA,CHOL,COAD,KIRC,LAML,LUAD,PRAD,THYM
ENSG00000251562ENSG00000114439BBXENSG00000080802CNOT49BLCA,CHOL,COAD,KIRC,LAML,LUAD,PRAD,THYM,UCEC
ENSG00000251562ENSG00000117000RLFENSG00000080802CNOT49CHOL,COAD,DLBC,KIRC,LAML,LUAD,PRAD,THYM,UCEC
ENSG00000251562ENSG00000124782RREB1ENSG00000080802CNOT46BLCA,BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000136603SKILENSG00000080802CNOT45CHOL,COAD,LUAD,THYM,UCEC
ENSG00000251562ENSG00000140836ZFHX3ENSG00000080802CNOT48BLCA,BRCA,CHOL,COAD,KIRC,LUAD,PRAD,THYM
ENSG00000251562ENSG00000169554ZEB2ENSG00000080802CNOT46COAD,DLBC,KIRC,LAML,LUAD,PRAD
ENSG00000251562ENSG00000171634BPTFENSG00000080802CNOT410BLCA,CHOL,COAD,DLBC,KIRC,LAML,LUAD,PRAD,THYM,UCEC
ENSG00000251562ENSG00000187605TET3ENSG00000080802CNOT47BLCA,CHOL,COAD,DLBC,KIRC,LUAD,THYM
ENSG00000251562ENSG00000189079ARID2ENSG00000080802CNOT410BLCA,BRCA,CHOL,COAD,KIRC,LAML,LUAD,PRAD,THYM,UCEC
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ENSG00000251562ENSG00000172466ZNF24ENSG00000131051RBM395CHOL,LUAD,SARC,THYM,UCEC
ENSG00000251562ENSG00000178177LCORLENSG00000131051RBM396CESC,CHOL,COAD,ESCA,LUAD,THYM
ENSG00000251562ENSG00000180787ZFP3ENSG00000131051RBM397CESC,CHOL,KIRP,LUAD,PAAD,SARC,THYM
ENSG00000251562ENSG00000181827RFX7ENSG00000131051RBM397CHOL,COAD,GBM,LUAD,SARC,THYM,UCEC
ENSG00000251562ENSG00000185129PURAENSG00000131051RBM397CESC,CHOL,COAD,LUAD,SKCM,THYM,UCEC
ENSG00000251562ENSG00000186130ZBTB6ENSG00000131051RBM395CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000187792ZNF70ENSG00000131051RBM395GBM,KIRC,KIRP,LGG,LUAD
ENSG00000251562ENSG00000198040ZNF84ENSG00000131051RBM3913CHOL,COAD,ESCA,GBM,KIRC,KIRP,LIHC,LUAD,PAAD,SARC,SKCM,THCA,THYM
ENSG00000251562ENSG00000198455ZXDBENSG00000131051RBM395COAD,LUAD,SARC,THYM,UCEC
ENSG00000251562ENSG00000213928IRF9ENSG00000131051RBM3910CESC,CHOL,ESCA,HNSC,KIRP,LUSC,PAAD,SKCM,STAD,THYM
ENSG00000251562ENSG00000256223ZNF10ENSG00000131051RBM3910CESC,CHOL,GBM,KIRC,KIRP,LUAD,SARC,SKCM,THCA,THYM
ENSG00000251562ENSG00000278129ZNF8ENSG00000131051RBM397COAD,KIRP,LGG,LUAD,PAAD,SARC,THYM
ENSG00000251562ENSG00000118058KMT2AENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000167232ZNF91ENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000124782RREB1ENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000140836ZFHX3ENSG00000162599NFIA5COAD,KIRC,LUAD,PRAD,TGCT
ENSG00000251562ENSG00000169554ZEB2ENSG00000162599NFIA5COAD,KIRC,LUAD,PRAD,TGCT
ENSG00000251562ENSG00000189079ARID2ENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000123636BAZ2BENSG00000162599NFIA6BRCA,COAD,KIRC,LUAD,PRAD,TGCT
ENSG00000251562ENSG00000168769TET2ENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000005889ZFXENSG00000162599NFIA5COAD,KIRC,LUAD,PRAD,TGCT
ENSG00000251562ENSG00000068305MEF2AENSG00000162599NFIA5COAD,KIRC,LUAD,PRAD,TGCT
ENSG00000251562ENSG00000102908NFAT5ENSG00000162599NFIA5BRCA,COAD,LUAD,PRAD,TGCT
ENSG00000251562ENSG00000135164DMTF1ENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000181827RFX7ENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000185129PURAENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000257315ZBED6ENSG00000162599NFIA5BRCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000118058KMT2AENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000167232ZNF91ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000117000RLFENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000140836ZFHX3ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000171634BPTFENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000189079ARID2ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000123636BAZ2BENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000068305MEF2AENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000085274MYNNENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000102908NFAT5ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000109381ELF2ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000126804ZBTB1ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000135164DMTF1ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000139154AEBP2ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000159140SONENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000167766ZNF83ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000172466ZNF24ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000181827RFX7ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000198040ZNF84ENSG00000186130ZBTB65CHOL,COAD,LUAD,SARC,THYM
ENSG00000251562ENSG00000118058KMT2AENSG00000173933RBM47BLCA,COAD,KIRC,LIHC,LUAD,PAAD,PRAD
ENSG00000251562ENSG00000167232ZNF91ENSG00000173933RBM46CHOL,COAD,KIRC,LUAD,PRAD,SARC
ENSG00000251562ENSG00000136603SKILENSG00000173933RBM45CHOL,COAD,KIRC,LIHC,LUAD
ENSG00000251562ENSG00000140836ZFHX3ENSG00000173933RBM46BLCA,CHOL,COAD,KIRC,LUAD,SARC
ENSG00000251562ENSG00000171634BPTFENSG00000173933RBM49BLCA,CHOL,COAD,KIRC,LIHC,LUAD,PAAD,PRAD,SARC
ENSG00000251562ENSG00000187605TET3ENSG00000173933RBM46BLCA,CHOL,COAD,LIHC,LUAD,PAAD
ENSG00000251562ENSG00000189079ARID2ENSG00000173933RBM47BLCA,COAD,KIRC,LIHC,LUAD,PRAD,SARC
ENSG00000251562ENSG00000084093RESTENSG00000173933RBM46BLCA,CHOL,COAD,KIRC,LIHC,LUAD
ENSG00000251562ENSG00000116731PRDM2ENSG00000173933RBM47BLCA,COAD,KIRC,LIHC,LUAD,PAAD,PRAD
ENSG00000251562ENSG00000123636BAZ2BENSG00000173933RBM46BLCA,COAD,KIRC,LUAD,PRAD,SARC
ENSG00000251562ENSG00000146587RBAKENSG00000173933RBM47BLCA,CHOL,COAD,KIRC,LIHC,LUAD,PAAD
ENSG00000251562ENSG00000147124ZNF41ENSG00000173933RBM45CHOL,COAD,KIRC,LUAD,PAAD
ENSG00000251562ENSG00000168769TET2ENSG00000173933RBM47BLCA,COAD,KIRC,LUAD,PAAD,PRAD,SARC
ENSG00000251562ENSG00000196670ZFP62ENSG00000173933RBM45CHOL,COAD,KIRC,LIHC,LUAD
ENSG00000251562ENSG00000005889ZFXENSG00000173933RBM46COAD,KIRC,LIHC,LUAD,PAAD,PRAD
ENSG00000251562ENSG00000036549ZZZ3ENSG00000173933RBM45BLCA,COAD,KIRC,LUAD,PRAD
ENSG00000251562ENSG00000085274MYNNENSG00000173933RBM46CHOL,COAD,LIHC,LUAD,PAAD,SARC
ENSG00000251562ENSG00000101126ADNPENSG00000173933RBM46CHOL,KIRC,LIHC,LUAD,PAAD,SARC
ENSG00000251562ENSG00000102908NFAT5ENSG00000173933RBM45BLCA,COAD,KIRC,LUAD,PAAD
ENSG00000251562ENSG00000109381ELF2ENSG00000173933RBM47BLCA,CHOL,COAD,KIRC,LUAD,PAAD,PRAD
ENSG00000251562ENSG00000124151NCOA3ENSG00000173933RBM46CHOL,COAD,KIRC,LUAD,PAAD,PRAD
ENSG00000251562ENSG00000126804ZBTB1ENSG00000173933RBM47BLCA,CHOL,COAD,KIRC,LIHC,LUAD,PAAD
ENSG00000251562ENSG00000135164DMTF1ENSG00000173933RBM49BLCA,CHOL,COAD,KIRC,LIHC,LUAD,PAAD,PRAD,SARC
ENSG00000251562ENSG00000139154AEBP2ENSG00000173933RBM47CHOL,COAD,KIRC,LIHC,LUAD,PAAD,SARC
ENSG00000251562ENSG00000142065ZFP14ENSG00000173933RBM47BLCA,CHOL,KIRC,LUAD,PAAD,PRAD,SARC
ENSG00000251562ENSG00000144161ZC3H8ENSG00000173933RBM45CHOL,COAD,KIRC,LUAD,PAAD
ENSG00000251562ENSG00000159140SONENSG00000173933RBM47BLCA,COAD,KIRC,LIHC,LUAD,PAAD,SARC
ENSG00000251562ENSG00000164631ZNF12ENSG00000173933RBM47BLCA,CHOL,COAD,KIRC,LIHC,LUAD,PAAD
ENSG00000251562ENSG00000169057MECP2ENSG00000173933RBM45CHOL,COAD,KIRC,LUAD,PAAD
ENSG00000251562ENSG00000172466ZNF24ENSG00000173933RBM46BLCA,CHOL,COAD,KIRC,LUAD,SARC
ENSG00000251562ENSG00000181827RFX7ENSG00000173933RBM46BLCA,CHOL,COAD,KIRC,LUAD,PAAD
ENSG00000251562ENSG00000198040ZNF84ENSG00000173933RBM46CHOL,COAD,KIRC,LIHC,LUAD,SARC
ENSG00000251562ENSG00000278129ZNF8ENSG00000173933RBM45BLCA,COAD,LUAD,PAAD,SARC

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-RBP complex negative regulation
LncRNA Ensembl IDRBP IDRBP Gene NameExon Skipping IDSkipped ExonEX Gene NameEX Affected TransIDORF_annoCancer Type
ENSG00000251562ENSG00000004534RBM6exon_skip_370518ENSG00000100429:chr22:50247691-50247776HDAC10ENST00000216271Frame-shiftSARC,UVM,SKCM,PAAD,THCA
ENSG00000251562ENSG00000003756RBM5exon_skip_370518ENSG00000100429:chr22:50247691-50247776HDAC10ENST00000216271Frame-shiftSARC,UVM,SKCM,PAAD,THCA
ENSG00000251562ENSG00000100650SRSF5exon_skip_370518ENSG00000100429:chr22:50247691-50247776HDAC10ENST00000216271Frame-shiftSARC,UVM,SKCM,PAAD,THCA
ENSG00000251562ENSG00000079134THOC1exon_skip_370518ENSG00000100429:chr22:50247691-50247776HDAC10ENST00000216271Frame-shiftSARC,UVM,SKCM,PAAD,THCA
ENSG00000251562ENSG00000004534RBM6exon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,STAD,UVM,SKCM,OV,MESO,THYM,PCPG,PAAD,THCA
ENSG00000251562ENSG00000003756RBM5exon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,UVM,SKCM,OV,PAAD,THCA
ENSG00000251562ENSG00000163728TTC14exon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,STAD,UVM,SKCM,OV,MESO,PAAD,THCA
ENSG00000251562ENSG00000162231NXF1exon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,UVM,SKCM,READ,PAAD
ENSG00000251562ENSG00000184863RBM33exon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,UVM,SKCM,THYM,PAAD,THCA
ENSG00000251562ENSG00000130254SAFB2exon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,OV,PCPG,PAAD,THCA
ENSG00000251562ENSG00000124193SRSF6exon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,UVM,SKCM,THYM,PAAD,THCA
ENSG00000251562ENSG00000079134THOC1exon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,UVM,SKCM,LIHC,PAAD,THCA
ENSG00000251562ENSG00000164548TRA2Aexon_skip_382458ENSG00000060971:chr3:38131595-38131638ACAA1ENST00000333167Frame-shiftSARC,UVM,THYM,PAAD,THCA
ENSG00000251562ENSG00000004534RBM6exon_skip_374551ENSG00000003756:chr3:50100531-50100605RBM5ENST00000347869Frame-shiftSTAD,UVM,SKCM,UCS,PAAD
ENSG00000251562ENSG00000004534RBM6exon_skip_470226ENSG00000105819:chr7:103307595-103307708PMPCBENST00000249269Frame-shiftUVM,SKCM,LIHC,PAAD,THCA
ENSG00000251562ENSG00000079134THOC1exon_skip_470226ENSG00000105819:chr7:103307595-103307708PMPCBENST00000249269Frame-shiftUVM,SKCM,LIHC,PAAD,THCA

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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
ENSG00000251562.6ENST00000534336.17730976
ENSG00000251562.6ENST00000619449.1108685359
ENSG00000251562.6ENST00000620902.139481600
ENSG00000251562.6ENST00000617791.127271351
ENSG00000251562.6ENST00000544868.236255365
ENSG00000251562.6ENST00000610481.139255374
ENSG00000251562.6ENST00000508832.241230352
ENSG00000251562.6ENST00000616527.364747553
ENSG00000251562.6ENST00000618925.191530255
ENSG00000251562.6ENST00000620465.335391284
ENSG00000251562.6ENST00000612781.144332198
ENSG00000251562.6ENST00000618132.13633143
ENSG00000251562.6ENST00000613376.169414205
ENSG00000251562.6ENST00000618227.15089241
ENSG00000251562.6ENST00000617489.15182237
ENSG00000251562.6ENST00000616691.1441310