Dataset Overview
RBPRPS3A
Knock-MethodshRNA
RBP FamilyRibosomal_S3Ae
Biosample NameK562
Tissue TypeHaematopoietic_and_lymphoid_tissue
Biosample TypeCell line
# of Control2
# of Treat2
SpeciesHuman
Data SourceENCODE
Profile IDENCSR788YGG
PlatformHiSeq
Pubmed ID32252787

RPS3A - Target Gene Network

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

Differential Expression Genes responding to KD/KO of RPS3A
Gene Mean Expr. of Control Mean Expr. of KD/KO logFC PValue FDR

Function Analysis of Target Genes of RPS3A


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
chr5174956494TA2.51545E-05SFXN1+FALSE
chr2112252630AC0.00040MIR4435-2HG-FALSE
chr1145368837CA4.93702E-07NBPF20,NBPF10+FALSE
chr190496244CT0.00595ZNF326+FALSEAluJrSINE,Alu
chr348787674TC0.00240PRKAR2A-TRUEAluSpSINE,Alu
chr1918475356AG0.00360PGPEP1+TRUEAluSx1SINE,Alu
chr1109475629AG0.00835GPSM2,CLCC1+,-FALSEAluJoSINE,Alu
chr5151041871CA0.00165SPARC-FALSE
chrX16781687AG0.00298.FALSEAluSx1SINE,Alu
chr1145689717AG3.41980E-05NBPF20,NBPF10+TRUEAluJbSINE,Alu
chr124175288CG0.00646FUCA1-FALSE
chr537290492TC8.25709E-07.FALSEAluSzSINE,Alu
chrX54587254AG0.00019GNL3L+TRUEAluSq2SINE,Alu
chr2234749258TC0.00710HJURP-FALSE
chr204680094CT0.00438PRNP+FALSE
chr4185309400TA0.00250IRF2-FALSE(GGGAT)nSINE,Alu
chr11650797AG0.00798CDK11B,CDK11A-FALSE
chr16282237TC0.00455ICMT-TRUEAluSzSINE,Alu
chr5130540368AC0.00420LYRM7+FALSETigger4aSINE,Alu
chr145976262AC0.00010MMACHC+FALSE
chr2102508659AT0.00261MAP4K4+FALSE
chr193297607CT0.00016RPL5+FALSE
chr237328016TC0.00473.FALSE
chr4110971055AT0.00048ELOVL6-FALSE
chr3150262002GT0.00016SERP1-FALSE
chr1474388908TC0.00835ZNF410+FALSE
chr1179042551AG0.00336FAM20B+TRUEAluSx1SINE,Alu
chr1942376711AG0.00223.FALSEAluSpSINE,Alu
chr13729217TC0.00030CEP104-TRUEAluSx3SINE,Alu
chr153289860AG0.00346ZYG11B+TRUEFRAMSINE,Alu
chr132373831TG0.00252PTP4A2-FALSE(T)nSINE,Alu
chrX118672577TC0.00080CXorf56-TRUEAluSxSINE,Alu
chr144402565GA0.00010ARTN+FALSE
chr3156259295TC0.00039SSR3-TRUEAluSq2SINE,Alu
chr755433884AC0.00271LANCL2+FALSE
chr439528976CT8.52335E-05UGDH-FALSE
chr110519888TC0.01000.FALSEAluJrSINE,Alu
chr1145513051AG0.00269NBPF20,NBPF10,RBM8A,GNRHR2+,-FALSEAluSz6SINE,Alu
chr261316542AG0.00033KIAA1841+TRUEAluSx1SINE,Alu
chr29661424GC0.00130ADAM17-FALSE
chr116576836AG0.00885FBXO42-FALSE
chr1203767822TG0.00064ZC3H11A,ZBED6+FALSE
chr119440460CT0.00073UBR4-FALSE
chr1144813815AG2.28281E-05NBPF20,NBPF9+FALSE
chr837717121CA0.00087RAB11FIP1-FALSE
chr1144606963GT0.00965NBPF20+FALSE
chr9136217449CG0.00158RPL7A+FALSE
chr1272182168GC0.00867RAB21+FALSE
chr154692334TC0.00021SSBP3-FALSE(T)nSINE,Alu
chr1256532056GC0.00743ESYT1+FALSE
chr136068369TC0.00252PSMB2-TRUEAluScSINE,Alu
chr2188385337CT0.00210TFPI-FALSEL1MC3SINE,Alu
chr1475202698AG6.15110E-05FCF1+TRUEAluScSINE,Alu
chr232533218AG0.00106.FALSEAluYSINE,Alu
chr1169101274TG0.00026ATP1B1+FALSE(T)nSINE,Alu
chr237327669TC0.00566.FALSE
chr3127790249AG0.00056RUVBL1,SEC61A1+,-FALSE
chr1247319705TG6.58458E-05ZNF124-FALSE
chr1201846634CA0.00852IPO9+FALSE(CA)nSINE,Alu
chr1181058313GA0.00651IER5+FALSE
chr642855962AG0.00781RPL7L1+TRUEAluSzSINE,Alu
chr133149486AG0.00874SYNC,RBBP4+,-FALSEAluSx1SINE,Alu
chr2101623533CT0.00784RPL31+FALSE
chr3113604709TC0.00012GRAMD1C+FALSE
chr1942376843AG0.00221.FALSEAluSpSINE,Alu
chr116200163AG1.36684E-05SPEN+FALSE
chr29770610AG0.00486YWHAQ-FALSE
chr140219280TC8.82951E-05PPIE+FALSE
chr933039686GA0.00542DNAJA1+FALSE
chr1657505656TG0.00107POLR2C+FALSE(GGTGGG)nSINE,Alu
chr1155851620AG0.00066SYT11+TRUEAluSq2SINE,Alu
chr779848334GT0.00158GNAI1+FALSE
chr1160967755CT0.00563F11R-FALSE(T)nSINE,Alu
chr744841646AC0.00316PPIA+FALSEAluJrSINE,Alu
chr138182164TA3.45866E-07EPHA10-FALSE
chr128826150AG0.00047PHACTR4+TRUEAluJbSINE,Alu
chr286252043TC0.00909POLR1A-TRUEAluSq2SINE,Alu
chr1629454288TC9.60363E-06SMG1P6,BOLA2-SMG1P6-FALSETigger4aSINE,Alu
chr1590820095AG6.27827E-07.FALSEAluYSINE,Alu
chr2025428724AG0.00033GINS1+TRUEAluJbSINE,Alu
chr348894565TA0.00142SLC25A20-FALSE
chr237328008TC0.00733.FALSE
chr3121351287AG0.00656HCLS1-FALSE
chr1541590932AG0.00055OIP5-AS1+TRUEAluSx1SINE,Alu
chr1145689717AG7.73781E-05NBPF20,NBPF10+TRUEAluJbSINE,Alu
chr333907945AG3.34896E-07PDCD6IP+FALSE
chr344791062TC0.00014KIAA1143-FALSE
chr145244053AG0.00202RPS8+FALSE
chr124301900GA2.65815E-05.FALSE
chr2046284868AT0.00681NCOA3+FALSE
chr830536544TC5.33169E-07GSR-TRUEAluSpSINE,Alu
chr116892275CT0.00087NBPF1-FALSE
chr110520099TC6.30717E-05.FALSEAluSxSINE,Alu
chr3122291688AG0.00597DTX3L+FALSEAluSzSINE,Alu
chr116890428TA1.76753E-05NBPF1-FALSE
chr136067870TC0.00513PSMB2-TRUEAluSzSINE,Alu
chr347125385GA0.00496SETD2-FALSE
chr1145509570AG0.00043NBPF20,NBPF10,RBM8A+TRUEAluJrSINE,Alu
chr178184325AG0.00150USP33-FALSE
chr299812817AG0.00018MRPL30+TRUEAluJbSINE,Alu
chr110042937AG2.41028E-05NMNAT1+TRUEAluScSINE,Alu
chr192147985CA0.00370TGFBR3-FALSE
chr774169234GT8.95897E-05GTF2I+FALSE
chr116889633TC0.00217NBPF1-TRUE
chr128825331AG0.00563PHACTR4+TRUEAluSgSINE,Alu
chr7102277600TC0.00240POLR2J2,UPK3BL-TRUEAluScSINE,Alu
chr16583593TC0.00088NOL9-TRUEAluSqSINE,Alu
chr110043002AG0.00247NMNAT1+TRUEAluScSINE,Alu
chr2206981856TC0.00174.FALSEAluJbSINE,Alu
chr136067784TC1.34898E-05PSMB2-TRUEAluSzSINE,Alu
chrX3526659CG0.00188PRKX-FALSE(AC)nSINE,Alu
chr2219100706AG0.00874ARPC2+TRUEAluSx1SINE,Alu
chr133148214AG0.00734SYNC,RBBP4+,-FALSEAluSgSINE,Alu
chr9111781015AC0.00853TMEM245-FALSE
chr1203713133GA0.00984ATP2B4+FALSE
chr3156259331TC0.00088SSR3-TRUEAluSq2SINE,Alu
chr116890644CT0.00439NBPF1-FALSE
chr125894472CG0.00063LDLRAP1+FALSEMIRbSINE,Alu
chr128662212AG0.00098MED18+TRUEAluSq2SINE,Alu
chr119542310TC2.12437E-06LOC101927895,EMC1+,-FALSEAluSzSINE,Alu
chr1946053172TC0.00098OPA3-TRUEAluSx1SINE,Alu
chr353259329GC0.00036TKT-FALSE
chr110520725TC0.00234DFFA-TRUEAluSc8SINE,Alu
chr110517635TC7.30839E-07.FALSEAluSx1SINE,Alu
chr17980667TC0.00584TNFRSF9-TRUEAluJbSINE,Alu
chr2201774264TC0.00639.FALSEAluSzSINE,Alu
chr193307479CA0.00809FAM69A,RPL5+,-FALSE
chr1179829425TC1.55944E-05TOR1AIP2-TRUEAluJrSINE,Alu
chr119542250TC9.94571E-09LOC101927895,EMC1+,-FALSEAluSzSINE,Alu
chr116933629AG0.00310NBPF1-FALSEGA-richSINE,Alu
chr617557412CT0.00986CAP2+FALSE
chr11252443TC0.00392CPSF3L-TRUEAluJrSINE,Alu
chr393846961AG0.00454.FALSEAluSq2SINE,Alu
chr366428450GA0.00355SLC25A26+FALSE
chr237429627AG0.00027CEBPZOS,CEBPZ+,-FALSEAluSzSINE,Alu
chr128835934AG0.00596SNHG3,RCC1+TRUEAluSx4SINE,Alu
chr717384882AG8.88136E-05AHR+TRUEAluScSINE,Alu
chr1574319121AG0.00311PML+TRUEAluSz6SINE,Alu
chr110520383TC0.00401.FALSEAluSx1SINE,Alu
chr1225358969TG0.00965KRAS-FALSE
chr136534934AG0.00464.FALSEAluJoSINE,Alu
chr633385535AG0.00671.FALSE
chr274332839AG4.77205E-06TET3+FALSE
chr1117617705AG0.00475TTF2+FALSE
chr1939926509AC0.00986RPS16-FALSE
chr136067817TC0.00016PSMB2-TRUEAluSzSINE,Alu
chr5125962354AG3.71532E-05PHAX+TRUEAluScSINE,Alu
chr1118411057TG0.00254GDAP2-FALSE
chr131342374AC0.00446SDC3-FALSE(A)nSINE,Alu
chr1144053662TG0.00173.FALSE
chr339452123GA0.00093RPSA+FALSE
chr123636274GT0.00032HNRNPR-FALSE
chr996438974CG0.00083PHF2+FALSE(CTCCAC)nSINE,Alu
chr1201438096GT1.87636E-05PHLDA3-FALSE
chr6132617374CG0.00062MOXD1-FALSE
chr110520153TC0.00398.FALSEAluSxSINE,Alu
chr4169847647AT0.00328PALLD+FALSE
chr455147769CT0.00079PDGFRA+FALSE
chr120976023TC0.00889PINK1,PINK1-AS+,-FALSEAluSzSINE,Alu
chr1758156064GA9.79781E-05HEATR6-FALSE
chr1110136329GT0.00993GNAI3+FALSE
chr572876776CA0.00875UTP15+FALSE
chr1811852628CT0.00048GNAL,CHMP1B+FALSE
chr1236717926TC0.00029HEATR1-FALSE
chr127205214TC0.00048.FALSEAluScSINE,Alu
chr6126661502GT0.00873CENPW+FALSE
chr1142804471CG0.00555.FALSEMIRbSINE,Alu
chr1741144250GT0.00025RUNDC1+FALSE
chr153292607TA0.00680ZYG11B+FALSE
chr1143189486AG0.00122LOC102723769-FALSE
chr337317605AG9.02711E-05GOLGA4+FALSE
chr1149943157GA0.00060OTUD7B-FALSE
chr1145282904AG0.00542NBPF20,NOTCH2NL+FALSEL2aSINE,Alu
chr1467852067AG2.77652E-05EIF2S1+TRUEAluJbSINE,Alu
chr116945027TC0.00819CROCCP2-FALSEL1ME3CzSINE,Alu
chr1203098275TG0.00942ADORA1+FALSE
chr3100083460GA0.00041TOMM70-FALSEFAMSINE,Alu
chr127107950GA0.00249ARID1A+FALSE
chr237327685TC0.00057.FALSE
chr128835934AG0.00566SNHG3,RCC1+TRUEAluSx4SINE,Alu
chr1204095687CA5.97770E-05SOX13+FALSE
chr6111591610AG0.00105.FALSEFLAM_ASINE,Alu
chr830536015TC6.64592E-05GSR-TRUEAluJrSINE,Alu
chr16283548AG0.00286ICMT-FALSE
chr316357708AG0.00098RFTN1-FALSE
chr199672312TC4.30163E-05.FALSEAluJrSINE,Alu
chr1745761109TG0.00018.FALSE
chr568936027GA0.00868.FALSE
chr1114940216TG0.00074TRIM33-FALSE(T)nSINE,Alu
chr16582149TC0.00173NOL9-TRUEAluSq4SINE,Alu
chr127678721AG0.00030SYTL1+TRUEAluSx1SINE,Alu
chr189271574TC0.00074PKN2+FALSE
chr652269046CG0.00338PAQR8+FALSE
chr9125609940TA0.00044.FALSE
chr1919792448AG0.00416ZNF101+TRUEAluJbSINE,Alu
chr1142688506TC4.54862E-05.FALSE
chr837613073AC0.00394ERLIN2+FALSE(CCCCCAC)nSINE,Alu
chr1154320942AG0.00579ATP8B2+FALSE
chr6114178851TC0.00056MARCKS+FALSE(TGCCGC)nSINE,Alu
chr483351845GT0.00422ENOPH1+FALSE
chr261764920CA0.00363XPO1-FALSE
chr3195395399GA0.00556SDHAP2+FALSE
chr1610623531TC1.32618E-09EMP2-TRUEAluSpSINE,Alu
chr193826611CG0.00072DR1+FALSE
chr1109746601AG0.00024KIAA1324+TRUEAluJbSINE,Alu
chr119586520AG0.00659MRTO4+TRUEAluSzSINE,Alu
chr167874697TC0.00190SERBP1-TRUEAluSx3SINE,Alu
chr315780233CT1.83528E-06ANKRD28-FALSEMER11BSINE,Alu
chr63266908GA0.00974PSMG4+FALSE
chr1145284138GA0.00382NBPF20,NOTCH2NL+FALSE(TG)nSINE,Alu
chr19163319TC0.00936.FALSEAluSpSINE,Alu
chr340353791AT0.00419EIF1B+FALSE
chr147142539TA0.00066EFCAB14-AS1,EFCAB14+,-FALSE
chr110517527TC0.00430.FALSEAluSx1SINE,Alu
chr631947917CT0.00670.FALSE
chr2062572487AC0.00390UCKL1-FALSE
chr178142856TC0.00086ZZZ3-TRUEAluSxSINE,Alu
chr1022825288GA0.00051PIP4K2A-FALSE
chr7158590740AT0.00211ESYT2-FALSE
chr1226171340TC0.00462SDE2-TRUEBC200SINE,Alu
chr1145513114AG0.00033NBPF20,NBPF10,RBM8A,GNRHR2+,-FALSEAluSz6SINE,Alu
chr312942852CA0.00458IQSEC1-FALSE
chr1109746728AG0.00171KIAA1324+TRUEAluJbSINE,Alu
chr895804469AG0.00133DPY19L4+TRUEAluSq2SINE,Alu
chr1298942840AG0.00031TMPO+FALSEAluScSINE,Alu
chr1114443606AG0.00014AP4B1-AS1,AP4B1+,-FALSEAluSpSINE,Alu
chr2170403030TC0.00294FASTKD1-FALSE
chrX152916230AC1.62471E-05DUSP9+FALSE
chr237230734CT0.00025HEATR5B-FALSE
chr167896040GA1.31286E-05SERBP1-FALSE
chr373116347TA0.00109PPP4R2+FALSE
chr153291434AG6.17060E-06ZYG11B+TRUEAluJrSINE,Alu
chr199673275TC0.00081.FALSETigger1SINE,Alu
chr13806074GA0.00809C1orf174-FALSEAluSpSINE,Alu
chr47762356GA3.36293E-10AFAP1,AFAP1-AS1+,-FALSE
chr1765334753TC4.53868E-08PSMD12-TRUEAluSqSINE,Alu
chrM9756GA0.00315.FALSE
chr4103809241AT0.00073CISD2,SLC9B1+,-FALSE
chr167874696TC0.00420SERBP1-TRUEAluSx3SINE,Alu
chr6114182986TA0.00316MARCKS+FALSE
chr3183890097GA1.43668E-06DVL3+FALSE
chr19163334TC0.00074.FALSEAluSpSINE,Alu
chr3195701388GA0.00274SDHAP1-FALSE
chr544826677GT0.00941.FALSE(T)nSINE,Alu
chr29629306GT0.00255ADAM17-FALSE
chr8145159707GC0.00158MAF1+FALSE
chr345721934AG0.00011LIMD1,LIMD1-AS1+,-FALSEAluJbSINE,Alu
chr119585771AG0.00029MRTO4+FALSEAluSc8SINE,Alu
chr128826190AG0.00233PHACTR4+TRUEAluJbSINE,Alu
chr1100343254GA0.00725AGL+FALSE
chr120976023TC1.28334E-05PINK1,PINK1-AS+,-FALSEAluSzSINE,Alu
chr2191555984TA0.00171NAB1+FALSE
chr629910583CT4.95604E-05.FALSE
chr135817025TA0.00987ZMYM4+FALSE
chr1204524555AG1.07581E-05MDM4+TRUEAluYSINE,Alu
chr7137561078GA0.00558CREB3L2-FALSE(GT)nSINE,Alu
chr2102508655GT0.00817MAP4K4+FALSE
chr1269158881AG0.00219SLC35E3+TRUEAluSpSINE,Alu
chr19330740GC0.00077H6PD+FALSE
chr315094061GA0.00188MRPS25-FALSE
chr373116345TA5.66390E-05PPP4R2+FALSE
chr122854702CT4.66415E-11ZBTB40+FALSE
chr1965146GA0.00761WASH5P-FALSE
chr146032311AG0.00043AKR1A1+FALSE
chr344790781TC0.00158KIAA1143-TRUEAluYSINE,Alu
chr119246181AG1.12993E-05IFFO2-FALSE
chr116952298AC2.15086E-05CROCCP2-FALSE
chr439551018TC0.00224UGDH-AS1,SMIM14+,-FALSEAluSzSINE,Alu
chr1162752670GA0.00594.FALSE
chr1256510696AT0.00015RPL41+FALSE
chr261277775AG0.00640PEX13+TRUEAluYSINE,Alu
chr19163465TC0.00342.FALSEAluSpSINE,Alu
chr812880246AG0.00012KIAA1456+TRUEAluJoSINE,Alu
chr1953914448AG0.00583ZNF765+TRUEAluSxSINE,Alu

Differential Expression Gene Analysis