Dataset Overview
RBPDDX55
Knock-MethodshRNA
RBP FamilyDEAD
Biosample NameK562
Tissue TypeHaematopoietic_and_lymphoid_tissue
Biosample TypeCell line
# of Control2
# of Treat2
SpeciesHuman
Data SourceENCODE
Profile IDENCSR856CJK
PlatformHiSeq
Pubmed ID32252787

DDX55 - Target Gene Network

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

Differential Expression Genes responding to KD/KO of DDX55
Gene Mean Expr. of Control Mean Expr. of KD/KO logFC PValue FDR

Function Analysis of Target Genes of DDX55


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
chr8144940792GC9.20360E-05EPPK1-FALSE
chr127332852CT0.00829FAM46B-FALSE
chr1179843725TC0.00028TOR1AIP2-TRUEAluJbSINE,Alu
chr1774561213AG0.00241SNHG16+FALSE
chr4119952955CT0.00278SYNPO2+FALSE
chr5151041871CA0.00165SPARC-FALSE
chr226399214GA0.00187GAREM2+FALSE
chr1110596569GA0.00867STRIP1+FALSE
chr3184766301TC0.00025VPS8+FALSE
chr159127086GA0.00051MYSM1-FALSE
chr237327589TC0.00253.FALSE
chr119586458AG0.00029MRTO4+TRUEAluSzSINE,Alu
chr145280109AG0.00591.FALSEAluYk3SINE,Alu
chr3107763040GA1.74111E-05CD47-FALSE
chr2203744629TC0.00363.FALSEAluSx1SINE,Alu
chr238522141GT0.00109ATL2-FALSE
chr1453243438TC7.89901E-12GNPNAT1-TRUEAluSx3SINE,Alu
chr135650014CA0.00012SFPQ-FALSE
chrX152916235GA0.00015DUSP9+FALSE
chrX9686187TC0.00420TBL1X+FALSE
chr1186646405CA9.05139E-05PRSS23+FALSEL2bSINE,Alu
chr642856978AG0.00061RPL7L1+TRUEAluSpSINE,Alu
chr1197053373GA0.00124ASPM-FALSE
chr417803681TC3.85233E-06DCAF16-TRUEAluYSINE,Alu
chr128833494GA0.00122SNHG3,RCC1+FALSE
chr133148284AG0.00793SYNC,RBBP4+,-FALSEAluSgSINE,Alu
chr579923788TC0.00693DHFR-TRUEAluSpSINE,Alu
chr237329300TC0.00925.FALSEAluJr4SINE,Alu
chr110517635TC0.00124.FALSEAluSx1SINE,Alu
chr1205583610TC0.00070ELK4-FALSE
chr5180663940AG0.00331RACK1-FALSE
chr540832552GT1.14652E-07RPL37-FALSE
chr274686329CT0.00640INO80B-WBP1,WBP1+FALSE
chr119543456TC0.00011LOC101927895,EMC1+,-FALSEAluJbSINE,Alu
chr264687777GT7.38315E-07LGALSL+FALSE
chr1146495576GC0.00107LOC728989-FALSE
chr439528976CT8.52335E-05UGDH-FALSE
chr268402794TG0.00630PNO1+FALSE
chr744918672TC0.00150PURB-TRUEAluSgSINE,Alu
chr133148211AG9.09328E-07SYNC,RBBP4+,-FALSEAluSgSINE,Alu
chr146077218AG0.00783NASP+TRUEAluSc8SINE,Alu
chr811701458TC1.82355E-06CTSB-TRUEAluSx1SINE,Alu
chr1138156GT0.00140LOC729737-FALSE
chr117326540GA0.00120ATP13A2-FALSE
chr21636053AG0.00189PXDN-FALSE
chr111783001AG0.00012.FALSEAluSxSINE,Alu
chr192426238TG0.00129TIMM13,TMPRSS9+,-FALSE
chr247387306GT0.00026CALM2-FALSE
chr2191799592AG2.07606E-11GLS+TRUE
chr136067749TC0.00748PSMB2-TRUEAluSzSINE,Alu
chr1184661932AG0.00063EDEM3-FALSE
chr7127947979TC0.00257.FALSEAluJrSINE,Alu
chr6149912307AG0.00026.FALSEAluScSINE,Alu
chr1742113064AG0.00014LSM12-FALSE(A)nSINE,Alu
chr1115259341AC2.70927E-07NRAS-FALSE
chr146075777AG0.00268NASP+TRUEAluSx4SINE,Alu
chr129464358AG0.00056LOC642846+FALSE
chr3195961254CT0.00119.FALSE
chr631324202TA0.00300.FALSE
chr596366326GC0.00120.FALSE(TG)nSINE,Alu
chr1958356540AG0.00019ZNF587B+TRUEAluSxSINE,Alu
chr116928622CA0.00197NBPF1-FALSE
chr11017747AG0.00142C1orf159-FALSE
chr170833400CT0.00224HHLA3+FALSELTR7SINE,Alu
chr1453242652TC0.00081GNPNAT1-TRUEAluJrSINE,Alu
chr1202311040AC0.00588UBE2T-FALSE
chr3150262002GT0.00016SERP1-FALSE
chr1164473TC0.00152.FALSEAluSq2SINE,Alu
chr2201774185TC0.00932.FALSEAluSzSINE,Alu
chr473923056TC0.00077COX18-TRUEAluSzSINE,Alu
chr4169911112CA0.00142CBR4-FALSE
chr631601344TC0.00569.FALSE
chr153292875GT8.43181E-07ZYG11B+FALSE
chr119810693GC0.00042CAPZB-FALSE
chr1145512014AG0.00370NBPF20,NBPF10,RBM8A,GNRHR2+,-FALSEAluYSINE,Alu
chr154692341TC0.00027SSBP3-FALSE(T)nSINE,Alu
chr1936033460CT0.00622GAPDHS,TMEM147-AS1+,-FALSE
chr1081114959CT0.00048PPIF+FALSEMSTASINE,Alu
chr140974799TC0.00038EXO5+FALSE
chr1918477337AG0.00085PGPEP1+TRUEAluSx1SINE,Alu
chr116901668TC0.00421NBPF1-FALSE
chr1168218574AG0.00148.FALSEAluSzSINE,Alu
chr6149915565AG0.00198RPS18P9+FALSE
chr2242291743AG0.00731SEPT2+FALSE
chr285772405TA0.00016GGCX-FALSE
chr174665493GA0.00128FPGT-TNNI3K,FPGT+FALSE
chr1154987526CT0.00218ZBTB7B+FALSE
chr19161142TC0.00160.FALSEAluSxSINE,Alu
chr154692331TC0.00549SSBP3-FALSE(T)nSINE,Alu
chr1183218871GT0.00025NMNAT2-FALSE
chr1013687171TC0.00033FRMD4A-FALSE
chr1144598755GA0.00743NBPF20+FALSE
chr3172115589GT0.00435FNDC3B+FALSE
chr1160658566AC0.00387PRPF19-FALSE
chr123631625AG0.00536HNRNPR-FALSEUCON44SINE,Alu
chr310005159AT0.00939EMC3-FALSE(AT)nSINE,Alu
chr1214527252GA0.00181PTPN14-FALSEMADE2SINE,Alu
chr116890286CT3.65680E-06NBPF1-FALSE
chr29629955GT0.00866ADAM17-FALSE
chr5290324TA0.00729PDCD6+FALSE
chr340577745AG0.00044ZNF621+TRUEAluSzSINE,Alu
chr1145291108AC0.00827NBPF20+FALSE
chr3185009713GT0.00106MAP3K13+FALSE
chrM2619AT0.00012RNR2+FALSELSU-rRNA_HsaSINE,Alu
chr116905869GA0.00027NBPF1-FALSE
chr114159457AG0.00764RRM1+FALSE
chr1165179817TC0.00599FRMD8+FALSE
chr220192696GA0.00400MATN3,LOC101928222+,-FALSE
chr116894514CT0.00270NBPF1-FALSE
chr729960812TA1.34773E-06SCRN1-FALSE
chr1296661613AG0.00183ELK3+FALSE
chr110517672TC0.00090.FALSEAluSx1SINE,Alu
chr1160967843TC0.00247F11R-TRUEAluSpSINE,Alu
chr344791406TC0.00598KIAA1143-TRUEAluJrSINE,Alu
chr2206980072GA1.35396E-05.FALSEMLT1A1SINE,Alu
chr136068276TC0.00110PSMB2-TRUEAluScSINE,Alu
chr122148474TC0.00089LDLRAD2+FALSEMIRbSINE,Alu
chr1144594170CT0.00636NBPF20+FALSE
chr145975279TC0.00019MMACHC+FALSEAluSg7SINE,Alu
chr5151041874AC0.00060SPARC-FALSE
chr439551140TC1.44695E-08UGDH-AS1,SMIM14+,-FALSEAluSzSINE,Alu
chr2203922075AG0.00058NBEAL1+FALSE
chr440138676AG0.00157N4BP2+FALSE
chr3195451488CT1.73907E-06MUC20+FALSE
chr1163116048GT3.38683E-05RGS5-FALSE
chr136068325TC0.00746PSMB2-TRUEAluScSINE,Alu
chr5290174CT0.00083PDCD6+FALSE
chr286251151TC0.00882.FALSEAluSxSINE,Alu
chr358306666AG0.00139.FALSEAluSzSINE,Alu
chr2241252612GA0.00561ST13-FALSE
chr286248309TC0.00808LOC90784-FALSE
chr1913883923AG0.00493MRI1+TRUEAluSzSINE,Alu
chr3176739694TC1.91391E-08TBL1XR1-FALSE
chr631324110GA0.00521.FALSE
chr133148635AG5.17667E-05SYNC,RBBP4+,-FALSEAluScSINE,Alu
chr337366459CA2.94197E-05GOLGA4+FALSE
chr237331531TC0.00148.FALSEAluJbSINE,Alu
chr2206987634TC0.00281.FALSEAluJbSINE,Alu
chr1235492546TG0.00786GGPS1+FALSE
chr19328120AG4.35354E-06H6PD+TRUEAluJrSINE,Alu
chr1159887904AT8.82173E-05TAGLN2-FALSE
chr44291825CT1.35815E-09LYAR-FALSE
chr552393421CT0.00144MOCS2-FALSEL1MA9SINE,Alu
chrX152916229GA0.00809DUSP9+FALSE
chr3148748198GA3.62985E-05HLTF-FALSE
chr2178482698AG0.00408TTC30A-FALSE
chr1144931727GA0.00521NBPF20,PDE4DIP+,-FALSE
chr16161108CA0.00071KCNAB2+FALSE
chr4144442611TC0.00899SMARCA5+FALSE
chr136534939AG0.00936.FALSEAluJoSINE,Alu
chr138174987TC0.00350CDCA8+FALSE
chr1145688944AG0.00359NBPF20,NBPF10,RNF115+TRUEAluSc8SINE,Alu
chr3178741082AC5.87013E-06ZMAT3-FALSE
chr162628606AG0.00164PATJ+TRUEAluSg4SINE,Alu
chr356763316GA0.00830ARHGEF3-FALSE
chr140705200GA3.20116E-08RLF+FALSE
chr11421531CA0.00467ATAD3B+FALSE
chr1149943157GA0.00060OTUD7B-FALSE
chr1145281633CA0.00022NBPF20,NOTCH2NL+FALSE
chr1053456599AG0.00339PRKG1,CSTF2T+,-FALSE
chr729962282GC0.00023SCRN1-FALSE
chr110520383TC0.00401.FALSEAluSx1SINE,Alu
chr19163334TC0.00074.FALSEAluSpSINE,Alu
chr1211923085TG0.00674LPGAT1-FALSE
chr1149816373GA0.00364.FALSE(A)nSINE,Alu
chr1113212974AT0.00424CAPZA1+FALSE
chr191990445AG0.00784CDC7+FALSELFSINE_VertSINE,Alu
chr120975992TC2.78350E-06PINK1,PINK1-AS+,-FALSEAluSzSINE,Alu
chr3194998813AG0.00572ACAP2-FALSEAluSx1SINE,Alu
chr197543764CT0.00901DPYD-FALSE
chr1931807GA0.00578.FALSE
chr3197611095AG0.00694.FALSEAluSx1SINE,Alu
chr1569803GA0.00166.FALSE
chr111188109CA0.00817MTOR-FALSE
chr1114443474AG9.14620E-06AP4B1-AS1,AP4B1+,-FALSEAluSpSINE,Alu
chr112058869CT0.00027MFN2+FALSE
chr119542456TC0.00323LOC101927895,EMC1+,-FALSEAluSzSINE,Alu
chr7300512GA3.09252E-06FAM20C+FALSE
chr9132573290CT0.00881TOR1B+FALSE
chr110520505TC0.00011.FALSEAluSx1SINE,Alu
chr2201774264TC0.00639.FALSEAluSzSINE,Alu
chr116918717CT0.00550NBPF1-FALSE
chr195123291GC0.00040LINC01057-FALSELTR7YSINE,Alu
chr46675519AC0.00064LOC105374366-FALSE
chr1474526975TC0.00024BBOF1,ALDH6A1+,-FALSEAluJoSINE,Alu
chr388191444AC0.00020CGGBP1,ZNF654+,-FALSE
chr1742225547AC0.00240C17orf53+FALSE
chr1937236432TC0.00333ZNF850-TRUEAluSpSINE,Alu
chr133148623AG4.79591E-07SYNC,RBBP4+,-FALSEAluScSINE,Alu
chr13545184GT0.00347TPRG1L+FALSE
chr1773774199CT0.00056H3F3B-FALSE
chr116932495AC0.00199NBPF1-FALSEL1MC2SINE,Alu
chr743665371AT0.00430STK17A,COA1+,-FALSE(AG)nSINE,Alu
chr9115446668TC1.81109E-05INIP-TRUEAluJrSINE,Alu
chr534906661TC9.12853E-06RAD1-TRUEAluJoSINE,Alu
chr246612340GT0.00094EPAS1+FALSE
chr110517300TC0.00011.FALSEAluJrSINE,Alu
chr176229185TA0.00280ACADM+FALSE
chr811172477CT0.00805MTMR9+FALSE
chr1110566210TA0.00832AHCYL1+FALSE
chr138182333GT0.00063EPHA10-FALSEL2d2SINE,Alu
chr237330527TC0.00284.FALSEAluSq2SINE,Alu
chr112024235CT0.00395PLOD1+FALSE
chr1145512074AG0.00084NBPF20,NBPF10,RBM8A,GNRHR2+,-FALSEAluYSINE,Alu
chr217836722TA0.00816VSNL1+FALSE
chr3181430454GA0.00577SOX2-OT,SOX2+FALSE
chr39935263AG1.04104E-09JAGN1+FALSE
chr4185309401AG0.00782IRF2-FALSE
chr133147934AG0.00251SYNC,RBBP4+,-FALSEAluSxSINE,Alu
chr119232017TG0.00723IFFO2-FALSE
chr1100654765TC0.00254DBT-TRUEAluSzSINE,Alu
chr644222158TA0.00856SLC35B2-FALSE
chr1911945685AG0.00016ZNF440+TRUEAluSpSINE,Alu
chr7102006488AT0.00168LOC100289561,LOC100630923+FALSE
chr638140503CT0.00065BTBD9-FALSE
chr121611791CG0.00971LINC00942+FALSE
chr1145688973AG0.00017NBPF20,NBPF10,RNF115+TRUEAluSc8SINE,Alu
chr7100031495CT0.00475MEPCE+FALSE
chr237331065TC0.00293.FALSEAluSx1SINE,Alu
chr127205632TC0.00471.FALSEFLAM_ASINE,Alu
chr116889423GC6.70783E-10NBPF1-FALSEL1MC4SINE,Alu
chr1230461079GA9.74527E-05PGBD5-FALSE
chr1220231263TC0.00116RNU5F-1,BPNT1+,-FALSEAluYSINE,Alu
chr532601672AT0.00563SUB1+FALSE
chr345721874AG0.00296LIMD1,LIMD1-AS1+,-FALSEAluJbSINE,Alu
chr1667715890TC9.92672E-05GFOD2-TRUEAluJrSINE,Alu
chr514510071GT0.00130TRIO+FALSE
chr116945570AG0.00131CROCCP2-FALSE
chr613788200TC0.00879MCUR1-TRUEAluSxSINE,Alu
chr1242012149CT0.00334EXO1+FALSE
chr2218571345AG0.00113PEX26+TRUEAluSzSINE,Alu
chr116929100CT0.00249NBPF1-FALSELTR16B2SINE,Alu
chr194352570GT0.00402GCLM-FALSEAluSx1SINE,Alu
chr11595034TC2.36116E-07CDK11B,SLC35E2B-TRUEAluSgSINE,Alu
chr12124105948CT0.00778EIF2B1-FALSE
chr342592138GA0.00056SEC22C-FALSE
chr116958833TA0.00765.FALSE
chr744917351TC0.00338PURB-TRUEAluSzSINE,Alu
chr274334790AG0.00870TET3+FALSE
chr1100361925GA0.00181AGL+FALSE
chr1811852628CT0.00048GNAL,CHMP1B+FALSE
chr1656510334TC0.00494OGFOD1+FALSE
chr442088291CA0.00000SLC30A9+FALSE
chr11650832AG0.00065CDK11B,CDK11A-FALSE
chr2118854108AT0.00568INSIG2+FALSE
chr189299658GA0.00779PKN2+FALSE
chr272403387CA0.00486EXOC6B-FALSE
chr1194801640AC0.00790SRSF8+FALSE
chr274090064AT0.00197STAMBP+FALSE
chr1117617705AG0.00081TTF2+FALSE
chr128826130AG0.00207PHACTR4+TRUEAluJbSINE,Alu
chr1916661421TC0.00427SLC35E1-TRUEAluSzSINE,Alu
chr9132268259AG0.00032LINC00963+TRUEAluJbSINE,Alu
chr11595048TC0.00646CDK11B,SLC35E2B-TRUEAluSgSINE,Alu
chr119543356TC0.00256LOC101927895,EMC1+,-FALSEAluJbSINE,Alu
chr1746803538CT0.00492HOXB13-FALSE
chr3195411239AC5.03065E-05SDHAP2+FALSE
chr138174185GT0.00020CDCA8+FALSE
chr1160990878CT9.31086E-06F11R-FALSE
chr19160989TC0.00609.FALSEAluJbSINE,Alu
chr841401497AG0.00051LOC102723729,GINS4+,-FALSEAluSq2SINE,Alu
chr2206983797TC0.00145.FALSEAluSxSINE,Alu
chrX123046772AG0.00548XIAP+TRUEAluSzSINE,Alu
chrX77083672TC2.97227E-07MAGT1-TRUEAluSz6SINE,Alu
chr315838717AC0.00673ANKRD28-FALSE(A)nSINE,Alu
chr9140729536CA0.00699EHMT1+FALSE
chr1225683180GT0.00076ENAH-FALSE
chr131838550TA0.00595FABP3-FALSE
chr1179326847AG0.00846SOAT1+TRUEAluJoSINE,Alu
chr1210006603CT0.00829DIEXF+FALSE
chr1745761108GT0.00127.FALSE
chr124934334AG0.00031NCMAP+TRUEAluSz6SINE,Alu
chr2234749258TC0.00710HJURP-FALSE
chr127108245TC0.00265ARID1A+FALSE
chr2025427823AG0.00054GINS1+TRUEAluSzSINE,Alu
chr1100658578GA0.00012DBT-FALSE
chr116945227GT0.00090CROCCP2-FALSE
chr2206986926TC0.00913.FALSEAluJrSINE,Alu
chr1148003730TC0.00636NBPF8-TRUEL1MC4SINE,Alu
chr6143661166AC0.00536AIG1+FALSE
chr136752811CT0.00000THRAP3+FALSE
chr1160175191AC0.00509LOC729867,PEA15+,-FALSE(GGC)nSINE,Alu
chr1144931101GA0.00358NBPF20,PDE4DIP+,-FALSE
chr11209196CG0.00581UBE2J2-FALSE(CCG)nSINE,Alu
chr3195694454CT0.00307SDHAP1-FALSE
chr119585493AG0.00199MRTO4+TRUEAluSc8SINE,Alu
chr2128061053AG0.00184MAP3K2-FALSE
chr119543249TC0.00559LOC101927895,EMC1+,-FALSEAluJbSINE,Alu
chr3186502665CT0.00637EIF4A2+FALSE
chr19162362TC0.00526.FALSEAluSxSINE,Alu
chr1530781885CT0.00380.FALSE
chr175288078AG0.00081RABEP1+FALSE
chr21637201CT5.10703E-15PXDN-FALSE
chr417629921AG0.00454.FALSEMER90SINE,Alu

Differential Expression Gene Analysis