Dataset Overview
RBPPUM1
Knock-MethodshRNA
RBP FamilyPUF
Biosample NameHepG2
Tissue TypeLiver
Biosample TypeCell line
# of Control2
# of Treat2
SpeciesHuman
Data SourceENCODE
Profile IDENCSR945XKW
PlatformHiSeq
Pubmed ID32252787

PUM1 - Target Gene Network

up-regulated gene   
down-regulated gene   
Gene Type: # of Top Genes:

Differential Expression Genes responding to KD/KO of PUM1
Gene Mean Expr. of Control Mean Expr. of KD/KO logFC PValue FDR

Function Analysis of Target Genes of PUM1


Differential Alternative Splicing
  • Exon Skipping
  • Mutually Exclusive Exons
  • Alternative 5’ splice site
  • Alternative 3’ splice site
  • Intron Retention
RBP LongES_LongEE_ShortES_ShortEE_FlankingES_FlankingEE pValue △Inc Dataset ID Sashimi plot
RBP LongES_LongEE_ShortES_ShortEE_FlankingES_FlankingEE pValue △Inc Dataset ID Sashimi plot
RBP LongES_LongEE_ShortES_ShortEE_FlankingES_FlankingEE pValue △Inc Dataset ID Sashimi plot
RBP LongES_LongEE_ShortES_ShortEE_FlankingES_FlankingEE pValue △Inc Dataset ID Sashimi plot
RBP LongES_LongEE_ShortES_ShortEE_FlankingES_FlankingEE pValue △Inc Dataset ID Sashimi plot

Differential Variants in RNA (DVRs)
Chrom Site Ref_allele Alt_allele Pvalue Genename Strand KnownRNAediting RepeatName RepeatFamily
chr19163393TC0.00327.FALSEAluSpSINE,Alu
chr110519982TC0.00417.FALSEAluJrSINE,Alu
chr1117644949CG0.00440TTF2+FALSE
chr153288862AG0.00799ZYG11B+TRUEAluJoSINE,Alu
chr1921366997AG0.00727ZNF431+TRUEAluScSINE,Alu
chr247703548GA5.05442E-05MSH2+FALSE
chr11252510TC1.62601E-05CPSF3L-TRUEAluSpSINE,Alu
chr154571374AG0.00916TCEANC2+TRUEAluScSINE,Alu
chr3194361768CT1.49766E-06LSG1-FALSEMSTASINE,Alu
chr2128950515AG0.00052UGGT1+TRUEAluScSINE,Alu
chr110520649TC0.00629DFFA-TRUEAluSc8SINE,Alu
chr891637754AT0.00297TMEM64-FALSE
chr1939926509AC0.00986RPS16-FALSE
chr136067821TC8.78017E-05PSMB2-TRUEAluSzSINE,Alu
chr1206578650GC0.00159SRGAP2+FALSE
chr1148561089TC0.00011NBPF15+FALSE
chr2025428348AG0.00121GINS1+TRUEAluSzSINE,Alu
chr652868087TC0.00594ICK-TRUEMER135SINE,Alu
chr1256532056GC0.00743ESYT1+FALSE
chr3101542436AG0.00023NXPE3+TRUEAluJrSINE,Alu
chr1185069687CT0.00072RNF2+FALSE
chr1156206121GA0.00423PMF1-BGLAP,PMF1+FALSE
chr517276080AC0.00298BASP1+FALSE(TC)nSINE,Alu
chr261277775AG0.00113PEX13+TRUEAluYSINE,Alu
chr1150704633TC0.00080CTSS-TRUEAluJoSINE,Alu
chr565452100GT0.00600SREK1+FALSE(TTTTTG)nSINE,Alu
chr116893721AC0.00179NBPF1-FALSE
chr127205214TC0.00048.FALSEAluScSINE,Alu
chr167874689TC0.00146SERBP1-TRUEAluSx3SINE,Alu
chr2171699153CG0.00247GAD1+FALSE
chr3196670090GA6.78352E-09NCBP2-AS2+FALSE
chr1185014720AG0.00989RNF2+FALSE
chr6150047376TC0.00306NUP43-TRUEAluScSINE,Alu
chr375779619TA0.00061ZNF717-FALSE
chr126143725AT0.00116SEPN1+FALSEAluSxSINE,Alu
chr138423183CT0.00210SF3A3-FALSEAluJoSINE,Alu
chr119953129TA0.00934MINOS1,MINOS1-NBL1+FALSE
chr2128602507TC4.02376E-05.FALSEAluSq2SINE,Alu
chr2201774244TC0.00332.FALSEAluSzSINE,Alu
chr110521238TC0.00795DFFA-TRUEAluYSINE,Alu
chr2188330323TG0.00162TFPI-FALSEL2SINE,Alu
chr1959093999AG0.00018CENPBD1P1+TRUEAluYSINE,Alu
chr159249682GA0.00074JUN-FALSE
chr265496187GA0.00266ACTR2+FALSE
chr2238678004AG0.00631LRRFIP1+FALSE
chr1225684742TC0.00518ENAH-FALSE
chr167874252CA0.00558SERBP1-FALSE
chr269689663TC0.00091AAK1-TRUEAluSgSINE,Alu
chr110517313TC0.00661.FALSEAluJrSINE,Alu
chr285547772GC0.00871TGOLN2-FALSE
chr1144595943AG0.00050NBPF20+FALSEAluJbSINE,Alu
chr16283305TC0.00129ICMT-TRUEAluSx3SINE,Alu
chr5115165731TC5.24208E-07ATG12-TRUEAluSq2SINE,Alu
chr230381505TC0.00820YPEL5+FALSE
chr1148003752TC0.00015NBPF8-TRUEL1MC4SINE,Alu
chr593018884AC0.00030FAM172A-FALSE(TCA)nSINE,Alu
chr119542631TC0.00031LOC101927895,EMC1+,-FALSEFRAMSINE,Alu
chr112024235CT0.00395PLOD1+FALSE
chr167874859TC0.00209SERBP1-TRUEAluSxSINE,Alu
chr1101443701AG0.00749SLC30A7+FALSE
chr310193683TG0.00681VHL+FALSEAluJrSINE,Alu
chr19161231TC0.00481.FALSEAluSxSINE,Alu
chr1145292925CT0.00817NBPF20+FALSE
chr10104417856TA0.00616TRIM8+FALSE(AAT)nSINE,Alu
chr1143915747GA0.00603.FALSE
chr128662057AG3.94650E-05MED18+TRUEAluSq2SINE,Alu
chrX3526616GA0.00971PRKX-FALSE
chr1578841543TA0.00438PSMA4+FALSE
chr19161365TC4.68504E-05.FALSEAluSxSINE,Alu
chr265496144AG0.00883ACTR2+FALSE
chr119198414GA0.00028ALDH4A1-FALSE
chr892075904TC0.00242OTUD6B-AS1-FALSELTR67BSINE,Alu
chr11654038GA0.00290CDK11B,CDK11A-FALSE
chr1244572644GC0.00033ADSS-FALSE
chr1161732461GT2.02182E-05FTH1-FALSE
chr3141879765TC0.00212GK5-TRUEAluJrSINE,Alu
chr369104669CT0.00113UBA3-FALSE
chr177257878AG0.00027KCTD11+FALSE
chr2218572597AG0.00322PEX26+TRUEAluYf1SINE,Alu
chr116889624TC0.00794NBPF1-TRUE
chr3189712010GA1.42873E-07P3H2-FALSE
chr5137842895AT0.00038ETF1-FALSE
chr532404176CT0.00342ZFR-FALSE
chr133150598TC4.12722E-05SYNC,RBBP4+,-FALSE
chr1228682330CG0.00509RNF187+FALSE
chr1148561090GA8.62202E-05NBPF15+FALSE
chr128861636GA0.00754RCC1+FALSE(GCATGT)nSINE,Alu
chr1151092875AG0.00154GABPB2+TRUEAluSpSINE,Alu
chr2202242616GA0.00880TRAK2-FALSE
chr1542860120AG0.00045HAUS2+TRUEAluSgSINE,Alu
chrX123047168AG2.82326E-05XIAP+TRUEAluSxSINE,Alu
chr1120455441AG0.00872NOTCH2-FALSE
chr1931935TC0.00796.FALSE
chr119440460CT0.00073UBR4-FALSE
chr1145500918TC0.00127NBPF20,NBPF10,LIX1L+FALSE
chr514510067GT0.00130TRIO+FALSE
chr286252043TC0.00909POLR1A-TRUEAluSq2SINE,Alu
chr1420923558AC0.00373APEX1+FALSE
chr1727872313TC0.00226TAOK1+FALSE
chr129519736TC0.00610MECR-TRUEAluJbSINE,Alu
chr1109746825AG0.00281KIAA1324+TRUEAluJbSINE,Alu
chr1774560725TC0.00476SNHG16+FALSETHE1BSINE,Alu
chr1206566948GA0.00568SRGAP2+FALSE
chr439550549TC0.00014UGDH-AS1,SMIM14+,-FALSEAluSx1SINE,Alu
chr247130527GA0.00462MCFD2-FALSE
chr111734730CT4.90909E-09MAD2L2-FALSE
chr1233514975GT0.00584MLK4+FALSE
chr111084103TA0.00968TARDBP+FALSE
chr9137330709GT0.00965RXRA+FALSE(GCTG)nSINE,Alu
chr239212565TG0.00662SOS1-FALSE
chr116529004AC3.00007E-07ARHGEF19-FALSE
chr1100548868TC0.00114MFSD14A+FALSE
chr123636274GT0.00165HNRNPR-FALSE
chr16583066TC0.00209NOL9-TRUEAluSx4SINE,Alu
chr638140505AG0.00109BTBD9-FALSE
chr153291420AG6.80791E-05ZYG11B+TRUEAluJrSINE,Alu
chr340577810AG0.00896ZNF621+TRUEAluSzSINE,Alu
chr42940265TC4.71601E-06NOP14-AS1,NOP14+,-FALSEAluJoSINE,Alu
chr1204524950AG4.72439E-07MDM4+TRUEAluSxSINE,Alu
chr1112003958TA0.00557ATP5F1+FALSEHelitron2Na_MamSINE,Alu
chr110520202TC0.00529.FALSEAluSxSINE,Alu
chr187170493TG0.00345SH3GLB1+FALSE
chr119542456TC0.00193LOC101927895,EMC1+,-FALSEAluSzSINE,Alu
chr1214529740TC0.00356PTPN14-TRUE
chr1773885248TC0.00017TRIM65-TRUEAluSgSINE,Alu
chr1230416410GT0.00516GALNT2+FALSE
chr111346336AG0.00288UBIAD1+FALSE
chr110520669TC0.00022DFFA-FALSEAluSc8SINE,Alu
chr332496328CA0.00013CMTM7+FALSE
chr2102793246AG0.00904IL1R1+FALSE
chr627860480GA0.00908HIST1H2AM-FALSE
chr110093371CT0.00264UBE4B+FALSE
chr124296849TC0.00125.FALSE
chr349396751TC0.00000RHOA-FALSE
chr164114301TC0.00955PGM1+FALSE
chr642854681AG0.00011RPL7L1+TRUEAluScSINE,Alu
chr735840866AG0.00947SEPT7+FALSE
chr2172178540TC0.00040METTL8-TRUEAluSx3SINE,Alu
chr1110136458AG0.00136GNAI3+FALSE
chr1240255561GA0.00224FMN2+FALSE(GGC)nSINE,Alu
chr2233446265TC0.00177EIF4E2+FALSE
chr592956173CT0.00646FAM172A-FALSE
chr1145281656AT0.00768NBPF20,NOTCH2NL+FALSE
chr1100489297GC0.00669SLC35A3+FALSEAluScSINE,Alu
chr2153512503CT0.00082PRPF40A-FALSE
chr1946053172TC0.00098OPA3-TRUEAluSx1SINE,Alu
chr12123253711AG0.00066DENR+TRUE(AT)nSINE,Alu
chr136068276TC5.36857E-05PSMB2-TRUEAluScSINE,Alu
chr3107765249TC0.00156CD47-FALSE
chr16283550AT0.00225ICMT-FALSE
chr3156259317TC0.00189SSR3-TRUEAluSq2SINE,Alu
chr540852810GT0.00276CARD6+FALSE
chr1332973012AC0.00231BRCA2+FALSE
chr1113240711GA0.00454MOV10+FALSE
chr165901227AT0.00914LEPR,LEPROT+FALSEAluYh3SINE,Alu
chr5125961210AG0.00966PHAX+TRUEAluSzSINE,Alu
chr116892275CT0.00087NBPF1-FALSE
chr720178434TC0.00178MACC1,LOC101927668-TRUEAluYSINE,Alu
chr135648710GC0.00377SFPQ-FALSE
chrX77083116TC0.00658MAGT1-TRUEAluSgSINE,Alu
chr2183622547TG0.00346DNAJC10+FALSE
chr1298942808AG0.00019TMPO+TRUEAluScSINE,Alu
chr6160101733TC0.00784SOD2-TRUEAluSzSINE,Alu
chr5175816759TA0.00018.FALSE
chr126755536AG0.00515LIN28A+TRUEAluScSINE,Alu
chr291847987CG0.00083.FALSETAR1SINE,Alu
chr193308168TA0.00314FAM69A-FALSE
chr136068325TC0.00049PSMB2-TRUEAluScSINE,Alu
chr1149816373GA0.00364.FALSE(A)nSINE,Alu
chr11421531CA0.00409ATAD3B+FALSE
chr189271574TC0.00074PKN2+FALSE
chr13545196TC0.00035TPRG1L+FALSE
chr9130268408TC0.00416FAM129B-FALSE(CTCA)nSINE,Alu
chr353220215GA2.78975E-05PRKCD+FALSE
chr8145159706CG0.00561MAF1+FALSE
chr631601344TC0.00569.FALSE
chr140537941AC0.00489CAP1+FALSE(A)nSINE,Alu
chr626095462AG0.00113HFE+TRUEAluYSINE,Alu
chr159122871CT0.00863MYSM1-FALSE
chr1179326847AG0.00577SOAT1+TRUEAluJoSINE,Alu
chr12125512541AG6.52088E-06.FALSE
chr2113287424TA0.00616TTL+FALSE
chr2128620437TA0.00388AMMECR1L-FALSE
chr381539382CT1.63276E-05GBE1-FALSE
chr2128952006AG0.00076UGGT1+TRUEAluSx1SINE,Alu
chr13111111173GA0.00224COL4A2,COL4A2-AS2+,-FALSE
chr3197611758AG0.00958.FALSEFLAM_CSINE,Alu
chr13731655GT0.00985CEP104-FALSE
chr5122359494GC0.00043PPIC-FALSE
chr1151966348CT0.00511S100A10-FALSE
chr110519951TC0.00499.FALSEAluJrSINE,Alu
chr1148252785TC0.00314NBPF8,NBPF14,NBPF9-FALSE
chr11252309AT0.00403CPSF3L-FALSEAluSxSINE,Alu
chr1165404868TG0.00022PCNX3+FALSE
chr11662764TC0.00505SLC35E2-TRUEAluYSINE,Alu
chr16582353TC0.00121NOL9-TRUEAluSx1SINE,Alu
chr1155181396AG0.00209MTX1+FALSE
chr154571491AG0.00538TCEANC2+TRUEAluScSINE,Alu
chr388104162TC0.00106CGGBP1-FALSE
chr42940135TC5.42423E-07NOP14-AS1,NOP14+,-FALSEAluSpSINE,Alu
chr110518616GA0.00379.FALSEAluSx1SINE,Alu
chr116933643AG0.00279NBPF1-FALSEGA-richSINE,Alu
chr1148251009TC0.00065NBPF8,NBPF14,NBPF9-TRUE
chr174929861AG0.00705KIF1C+TRUEAluJbSINE,Alu
chr67289958CG0.00893SSR1-FALSE
chr1205272926CT0.00690NUAK2-FALSE
chr1194801636CG0.00522SRSF8+FALSE
chr4177252327AG3.52508E-05SPCS3+TRUE
chr136642420TC0.00162MAP7D1+FALSE
chr121810575TC0.00827NBPF3+FALSE
chr3105294534AG1.10929E-06ALCAM+FALSE
chr154563156AG3.59804E-06TCEANC2+FALSE
chr1143189473CA0.00626LOC102723769-FALSE
chr4128756579AG0.00501.FALSEAluSxSINE,Alu
chr552388460AT0.00034ITGA2+FALSE
chr841399648AG0.00037LOC102723729,GINS4+,-FALSEAluSx3SINE,Alu
chr765844563GA0.00581LINC00174-FALSE
chr12133298465AG5.98085E-08PGAM5+TRUEAluSpSINE,Alu
chr186852621AG0.00930ODF2L-FALSE
chr228002602CA0.00037MRPL33+FALSE
chr1225974581AG0.00732SRP9+TRUEAluJrSINE,Alu
chr2133974094CT0.00880C21orf59-FALSE
chr1204189357CT0.00835PLEKHA6-FALSE
chr3124948045GC0.00784ZNF148-FALSE
chr145975498AG9.09033E-05MMACHC+TRUEAluSx4SINE,Alu
chr1610625414TC0.00015EMP2-TRUEAluSxSINE,Alu
chr9115448785CT0.00195INIP-FALSEAluSzSINE,Alu
chr110519200TC0.00059.FALSEAluSx3SINE,Alu
chr1245017462GA0.00255HNRNPU,SNORA100-FALSE
chr417488244GA0.00030QDPR-FALSE
chr39848222AT0.00083ARPC4,ARPC4-TTLL3+FALSE
chr192862836AG0.00430.FALSEAluJrSINE,Alu
chrX2825119TC0.00670ARSD-TRUEAluSx1SINE,Alu
chr1160967857TC0.00806F11R-TRUEAluSpSINE,Alu
chr1569803GA0.00166.FALSE
chr310193796AG2.82806E-06VHL+TRUEAluSxSINE,Alu
chr127338911CT0.00455FAM46B-FALSE
chr1150704486TC0.00947CTSS-TRUEAluJoSINE,Alu
chr2217366933CT2.15691E-05.FALSEAluSz6SINE,Alu
chr631379931GA0.00093.FALSE
chr1145324364CG0.00157NBPF20,NBPF10+FALSE
chr1619715588TC0.00063.FALSEAluSgSINE,Alu
chr775958149AC0.00050YWHAG-FALSE
chr3197400501CG0.00270RUBCN-FALSE
chr3196769982CG0.00131DLG1-FALSE
chr116933135GT0.00937NBPF1-FALSEL1MC2SINE,Alu
chr642856905AG4.80826E-12RPL7L1+TRUEAluSpSINE,Alu
chr116889624TC3.50465E-05NBPF1-TRUE
chr8117858600TA0.00015RAD21-FALSE
chr5159492103TG0.00332TTC1+FALSE
chr220648140AC6.93182E-06RHOB+FALSE
chr21637648TC9.03854E-11PXDN-FALSE
chr136282608GT0.00886AGO4+FALSE
chr1099504630GT0.00544ZFYVE27+FALSE
chr1148251083TC0.00041NBPF8,NBPF14,NBPF9-FALSEL1MC4SINE,Alu
chr119542455TC0.00506LOC101927895,EMC1+,-FALSEAluSzSINE,Alu
chr410442610TC0.00174ZNF518B-FALSE
chr44291832AT6.49020E-08LYAR-FALSE
chr652860746TG0.00011.FALSE7SKSINE,Alu
chr19161231TC5.02708E-05.FALSEAluSxSINE,Alu
chr674346347AG4.16931E-07SLC17A5-FALSE
chr1942375586AG0.00016.FALSEAluSxSINE,Alu
chr1100440553AG0.00553SLC35A3+TRUEAluJbSINE,Alu
chr1120163007GA0.00573ZNF697-FALSE
chr97798518GC0.00423TMEM261-FALSE
chrX9686187TC0.00420TBL1X+FALSE
chr417629934TC0.00178.FALSEMER90SINE,Alu
chr133149376AG0.00284SYNC,RBBP4+,-FALSEAluSx1SINE,Alu
chr1765334766TC4.45484E-05PSMD12-TRUEAluSqSINE,Alu
chr159142713TC0.00246MYSM1-FALSE
chr1162497738GC0.00390UHMK1+FALSE
chr1183486859GA0.00831SMG7+FALSE
chr2234385276TC0.00951USP40-FALSE
chr110438014AC0.00046KIF1B+FALSE
chrX77084017TC0.00179MAGT1-TRUEAluSzSINE,Alu
chr145976723TC5.68535E-05MMACHC,PRDX1+,-FALSE

Differential Expression Gene Analysis