Dataset Overview
RBPPTBP1
Knock-MethodshRNA
RBP FamilyRRM_5
Biosample NameK562
Tissue TypeHaematopoietic_and_lymphoid_tissue
Biosample TypeCell line
# of Control2
# of Treat2
SpeciesHuman
Data SourceENCODE
Profile IDENCSR239BCO
PlatformHiSeq
Pubmed ID32252787

PTBP1 - Target Gene Network

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

Differential Expression Genes responding to KD/KO of PTBP1
Gene Mean Expr. of Control Mean Expr. of KD/KO logFC PValue FDR

Function Analysis of Target Genes of PTBP1


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
chr1160967855TC0.00042F11R-TRUEAluSpSINE,Alu
chr135648712GA0.00298SFPQ-FALSE
chr116133912TC0.00126UQCRHL-TRUE
chr6108364582TC0.00577OSTM1-FALSE
chr9136335345GA0.00490CACFD1+FALSE(TG)nSINE,Alu
chr128826118AG0.00039PHACTR4+TRUEAluJbSINE,Alu
chr3100428460GC5.60949E-08TFG+FALSE
chr2180810264AT1.24157E-05CWC22-FALSE
chr1142449GA0.00073.FALSEMIRbSINE,Alu
chr342252924GC0.00079TRAK1+FALSE
chr299813003AG0.00226MRPL30+TRUEAluJbSINE,Alu
chr1953999034AG0.00282.FALSEAluSq2SINE,Alu
chr165330637CT0.00047JAK1-FALSE
chr147716046AT0.00696STIL-FALSE
chr112164538GA8.95385E-07TNFRSF8+FALSE
chr193298516AG0.00493FAM69A,RPL5+,-FALSE
chr1153720690GA0.00550INTS3+FALSE
chr388104159AC0.00279CGGBP1-FALSE
chr12102517753TC0.00022PARPBP+FALSE
chr1142619487AG0.00511.FALSE
chr1110136321TA0.00721GNAI3+FALSE
chr9102744711AT0.00675ERP44-FALSE
chr133148216AG0.00321SYNC,RBBP4+,-FALSEAluSgSINE,Alu
chr1629454768AG0.00564SMG1P6,BOLA2-SMG1P6-FALSE
chr540830064TC0.00554.FALSEAluSpSINE,Alu
chr12125514122AG1.22592E-05.FALSE(TA)nSINE,Alu
chr16583593TC0.00088NOL9-TRUEAluSqSINE,Alu
chr320025677GT0.00116RAB5A,PP2D1+,-FALSE
chr1116609185GA0.00187SLC22A15+FALSE
chr348787042TC0.00799PRKAR2A-TRUEAluSx3SINE,Alu
chr136067886TC0.00786PSMB2-TRUEAluSzSINE,Alu
chr417803537TC0.00366DCAF16-TRUEAluYSINE,Alu
chr165898873GC0.00530LEPR,LEPROT+FALSE
chr133149496AG0.00308SYNC,RBBP4+,-FALSEAluSx1SINE,Alu
chr467846CA0.00573ZNF718,ZNF595+FALSEAluYk3SINE,Alu
chr139470978TA0.00378AKIRIN1+FALSEAluSx1SINE,Alu
chr123631625AG0.00536HNRNPR-FALSEUCON44SINE,Alu
chr42940085TC0.00801NOP14-AS1,NOP14+,-FALSEAluSpSINE,Alu
chr2191184475AG0.00895HIBCH-FALSE
chr29630247TG0.00638ADAM17-FALSE
chr3196662641TC0.00089NCBP2-FALSE
chr1156044222GT0.00037MEX3A-FALSE(T)nSINE,Alu
chr830535975TC5.05710E-05GSR-TRUEAluJrSINE,Alu
chr1757279167AG0.00071PRR11+TRUEAluSq2SINE,Alu
chr124798498CT0.00131NIPAL3+FALSE
chr145244419TA0.00027.FALSE
chr239050141AC0.00924DHX57-FALSE
chr9115447528TC0.00112INIP-TRUEAluJbSINE,Alu
chr110520076TC0.00763.FALSEAluSxSINE,Alu
chr10120795222AT0.00193EIF3A-FALSE
chr1624807247GA0.00417TNRC6A+FALSE
chr2236957822GA0.00929AGAP1+FALSE
chr119586519AG0.00310MRTO4+TRUEAluSzSINE,Alu
chr1131452788AG0.00239DNAJC24+TRUEAluSx1SINE,Alu
chr314239845GA0.00375LSM3+FALSE
chr633281842GT0.00514.FALSE
chr345721874AG0.00314LIMD1,LIMD1-AS1+,-FALSEAluJbSINE,Alu
chr1228880021CT4.50271E-05RHOU+FALSE
chr47765042CT0.00903AFAP1,AFAP1-AS1+,-FALSE
chr1256510709GA0.00047RPL41+FALSE
chr3156258319TC0.00909SSR3-TRUEAluYk3SINE,Alu
chr3183861750AC1.09807E-05EIF2B5+FALSE
chr373115390CT0.00462PPP4R2+FALSE(AT)nSINE,Alu
chr128825370AG0.00617PHACTR4+TRUEAluSgSINE,Alu
chr1214524566TC0.00040PTPN14-TRUEAluSgSINE,Alu
chr1911257644TC0.00991SPC24-TRUEAluSpSINE,Alu
chr115899345TC0.00300AGMAT-TRUEAluSx3SINE,Alu
chr699319240TA0.00842.FALSECheshireSINE,Alu
chr568850922GC0.00323OCLN+FALSEAluSx4SINE,Alu
chr5125961468AG2.27854E-07PHAX+TRUEAluSz6SINE,Alu
chr3155660961AG6.62819E-05.FALSEAluSzSINE,Alu
chr116912014AC0.00702NBPF1-FALSE
chr237329238TC0.00249.FALSEAluJr4SINE,Alu
chr2192699639AG0.00017SDPR-FALSE
chr1114438951AG0.00017AP4B1-AS1,AP4B1+,-FALSE
chr11668943AC0.00640SLC35E2-FALSE
chr274332837GT4.72839E-05TET3+FALSE
chr264687665CA0.00976LGALSL+FALSE
chr127182750GC0.00141.FALSE
chr1161929879AT0.00680ATF6+FALSE
chr154691921GA0.00010SSBP3-FALSE
chr933624856CT0.00823ANXA2P2+FALSE
chr227001973CT0.00327SLC35F6+FALSEAluSxSINE,Alu
chr1178447798TC2.92578E-05RASAL2+FALSE
chr153366673AG0.00243ECHDC2-FALSEAluJbSINE,Alu
chr2198368113TA1.78788E-05HSPE1,HSPE1-MOB4+FALSE
chr1145688664AT0.00087NBPF20,NBPF10,RNF115+FALSE
chr642856330AG2.22045E-16RPL7L1+TRUE
chr42940358GA2.85215E-10NOP14-AS1,NOP14+,-FALSEAluJoSINE,Alu
chr167874696TC0.00014SERBP1-TRUEAluSx3SINE,Alu
chr1109816293GC0.00759CELSR2+FALSE
chr1120166681GA0.00241ZNF697-FALSE
chr1220231959TC0.00464RNU5F-1,BPNT1+,-FALSEAluSzSINE,Alu
chr140307166GA0.00026TRIT1-FALSE
chr11126147713CG0.00384FOXRED1+FALSE
chr398541116GA1.05300E-07DCBLD2-FALSE
chr2242173247GA0.00345HDLBP-FALSE
chr1200375418CT0.00425ZNF281-FALSE
chr128835934AG0.00069SNHG3,RCC1+TRUEAluSx4SINE,Alu
chr1165404868TG0.00022PCNX3+FALSE
chr111780004GT0.00216DRAXIN+FALSE
chr145976112AG1.14998E-06MMACHC+TRUEAluJrSINE,Alu
chr11684347CT0.00550NADK-FALSE
chr7128144035AG0.00054.FALSEAluSq2SINE,Alu
chr439550977TC0.00987UGDH-AS1,SMIM14+,-FALSEAluSzSINE,Alu
chr1148556753GA0.00472.FALSE
chr314985983AT6.81677E-14FGD5-AS1-FALSE
chr145976261TA0.00018MMACHC+FALSE
chr1201846630CA0.00212IPO9+FALSE(CA)nSINE,Alu
chr1610623571TC0.00329EMP2-TRUEAluSpSINE,Alu
chr1154128831GT0.00183TPM3-FALSE
chr1114443458AG0.00320AP4B1-AS1,AP4B1+,-FALSEAluSpSINE,Alu
chr1743002237CA0.00141KIF18B-FALSE
chr224223291AG0.00512UBXN2A+TRUEAluScSINE,Alu
chr237327702TC0.00119.FALSE
chr17421931TC0.00260VPS53-TRUEAluSxSINE,Alu
chr116889502TC5.54778E-06NBPF1-TRUEL1MC4SINE,Alu
chr1156044222GT0.00758MEX3A-FALSE(T)nSINE,Alu
chr194995653AC0.00035F3-FALSEAluSxSINE,Alu
chr162628531AG0.00716PATJ+TRUEAluSg4SINE,Alu
chr1158067059AC0.00655KIRREL+FALSE
chr1246831356GA0.00616CNST+FALSE
chr1145273345TC0.00133NBPF20,NOTCH2NL+FALSE
chr353220215GA2.78975E-05PRKCD+FALSE
chr7120740103GT0.00601CPED1+FALSE
chr116895634TG0.00472NBPF1-FALSE
chr811666384CT0.00029FDFT1+FALSE
chr237431604AG0.00876CEBPZOS,CEBPZ+,-FALSEAluScSINE,Alu
chr122853141GA0.00060ZBTB40+FALSE
chr1245006499CG0.00171COX20+FALSE
chr120976032TC0.00010PINK1,PINK1-AS+,-FALSEAluSzSINE,Alu
chr140539208AT2.90582E-07PPT1-FALSE
chr6109784327TC2.38076E-05MICAL1,ZBTB24-TRUEAluSgSINE,Alu
chr1145281633CA0.00510NBPF20,NOTCH2NL+FALSE
chr1949608GA0.00416ISG15+FALSE
chr989626839TG0.00016LOC440173-FALSE
chr436121336TG0.00183ARAP2-FALSE
chr8143413136CT0.00267TSNARE1-FALSE
chr128662254AG0.00052MED18+TRUEAluSq2SINE,Alu
chr543527402TC0.00539PAIP1-FALSE
chr1214529170TC0.00670PTPN14-TRUE
chr466439707TC0.00148EPHA5-FALSE
chr633377511TC5.31992E-06.FALSE(TG)nSINE,Alu
chr2153483048GA0.00740FMNL2+FALSE
chr152381350TG4.39398E-08RAB3B-FALSE
chr110521200TC0.00096DFFA-TRUEAluYSINE,Alu
chr3195694448CT0.00025SDHAP1-FALSE
chr1206635245TC0.00238SRGAP2+FALSE
chr237327669TC0.00566.FALSE
chr128825337AG0.00838PHACTR4+TRUEAluSgSINE,Alu
chr2135208354AT0.00249MGAT5+FALSE
chr1179044181AG0.00083FAM20B+TRUEAluSxSINE,Alu
chr2152334323AG0.00504.FALSEAluSqSINE,Alu
chr175175797GA0.00203CRYZ-FALSE
chr192865902AG0.00040.FALSEAluJrSINE,Alu
chr193298756TC0.00264FAM69A,RPL5+,-FALSEMER5CSINE,Alu
chr237333924TC0.00298EIF2AK2-FALSEAluSzSINE,Alu
chr417802819TC0.00112DCAF16-TRUEAluSzSINE,Alu
chr1729578724CT0.00514NF1+FALSE
chr111084345CT0.00558TARDBP+FALSE
chr1204521590AG1.33621E-05MDM4+TRUEAluSgSINE,Alu
chr1824127008TG0.00800KCTD1-FALSE(TGG)nSINE,Alu
chr2206987597TC0.00085.FALSEAluJbSINE,Alu
chr1179044174AG0.00410FAM20B+TRUEAluSxSINE,Alu
chr239664278CA0.00053MAP4K3-FALSE(CGC)nSINE,Alu
chr195658346TA0.00098TMEM56-RWDD3,LOC101928118,TMEM56+,-FALSE
chr110517689TC0.00504.FALSEAluSx1SINE,Alu
chr11017747AG0.00142C1orf159-FALSE
chr5478174CT0.00392SLC9A3,LOC100288152+,-FALSE
chr1117117182CT0.00270IGSF3-FALSE
chr439552174TC0.00026UGDH-AS1,SMIM14+,-FALSEAluSxSINE,Alu
chr330733403AT0.00110TGFBR2+FALSE(TA)nSINE,Alu
chr764435684TG0.00239ZNF117-FALSE
chr186049389TA0.00420CYR61+FALSE
chrM9988TC0.00011.FALSE
chr5134061334AG0.00721SEC24A+FALSE
chr417629937GA0.00795.FALSEMER90SINE,Alu
chr631322980CT0.00091.FALSE
chr5290174CT0.00083PDCD6+FALSE
chr4153545691TC0.00671.FALSEAluJbSINE,Alu
chr332524229GT0.00359CMTM6-FALSE
chr348787640TC0.00463PRKAR2A-TRUEAluSpSINE,Alu
chr3196660344TA0.00022SENP5+FALSE
chr115909744CT0.00225AGMAT-FALSE
chr1075008841TC0.00088DNAJC9-AS1,MRPS16+,-FALSEAluJrSINE,Alu
chr457326873AG0.00034PAICS+TRUEAluSx1SINE,Alu
chr110520378TC0.00743.FALSEAluSx1SINE,Alu
chr342826041TG0.00019HIGD1A-FALSE
chr1757279323AG0.00159PRR11+TRUEAluSq2SINE,Alu
chr5125961648AG0.00031PHAX+FALSEAluSz6SINE,Alu
chr19643106AG0.00088.FALSEAluSxSINE,Alu
chr119543459TC0.00540LOC101927895,EMC1+,-FALSEAluJbSINE,Alu
chr198005999TC0.00027TIMM44-FALSE
chr1453242674TC1.74446E-05GNPNAT1-TRUEAluJrSINE,Alu
chr237230734CT0.00025HEATR5B-FALSE
chr117313654CT0.00886ATP13A2-FALSE
chr1110564996CT0.00926AHCYL1+FALSE
chr29629953CA0.00105ADAM17-FALSE
chr128564195TC0.00113ATPIF1+FALSE
chr3169808354GA0.00015PHC3-FALSE
chr1201846627AT0.00571IPO9+FALSE(CA)nSINE,Alu
chr76442892CA0.00675RAC1+FALSE
chr1749042381TC0.00931SPAG9-TRUEAluJbSINE,Alu
chr7128169979TG0.00569.FALSE
chr1016554732TA0.00706PTER+FALSE
chr116891340TA0.00440NBPF1-FALSE
chr4129795661AT0.00165JADE1+FALSE
chr129848629AG0.00027CLEC2D+FALSE
chr23622912GT0.00000RPS7+FALSE
chr310192709CT0.00082VHL+FALSEAluSx1SINE,Alu
chr261413040TA0.00675AHSA2+FALSE(ATTTTAT)nSINE,Alu
chr3156259317TC0.00189SSR3-TRUEAluSq2SINE,Alu
chr1475202287TC0.00757FCF1+FALSEAluScSINE,Alu
chr285133793GA0.00577TMSB10+FALSE
chr5130537933AG0.00084LYRM7+TRUEAluSpSINE,Alu
chr2232576431TC0.00593PTMA+FALSE
chr642857058AG3.29248E-05RPL7L1+TRUEAluSpSINE,Alu
chr671298815TA0.00287.FALSE
chr110517314TC0.00288.FALSEAluJrSINE,Alu
chr1212967264CG0.00781DDX47+FALSE
chr314986447TC2.03372E-08FGD5-AS1-TRUEAluSq2SINE,Alu
chr146075663AG0.00061NASP+TRUEAluSx4SINE,Alu
chr348787052TC0.00866PRKAR2A-TRUEAluSx3SINE,Alu
chr133148367CG0.00439SYNC,RBBP4+,-FALSEAluSgSINE,Alu
chr1160967817TC0.00478F11R-TRUEAluSpSINE,Alu
chr2128952075AG0.00919UGGT1+TRUEAluSx1SINE,Alu
chr195660026GT0.00129TMEM56-RWDD3,LOC101928118,TMEM56+,-FALSE
chr110521162TC0.00911DFFA-TRUEAluYSINE,Alu
chr1145511797TG0.00894NBPF20,NBPF10,RBM8A,GNRHR2+,-FALSE(T)nSINE,Alu
chr410443059AT0.00187ZNF518B-FALSE
chr552389817TA0.00868ITGA2+FALSE
chr7116147752AG0.00031CAV2+FALSE(AAAAGAAA)nSINE,Alu
chr153289892AG0.00178ZYG11B+TRUEFRAMSINE,Alu
chr12125511958AG0.00494THRIL-FALSEAluSx1SINE,Alu
chr12125269475TC0.00184SCARB1-FALSE
chr1231377081CT6.17358E-06GNPAT+FALSE
chr1148561089TC0.00975NBPF15+FALSE
chr274333234TC0.00270TET3+FALSE
chr154692674AG0.00864SSBP3-FALSE
chr744917320TC0.00082PURB-TRUEAluSzSINE,Alu
chr156961756AG0.00265PLPP3-FALSE
chr341281388TG0.00720CTNNB1+FALSE
chr1423300642CA0.00266MRPL52+FALSEMIRbSINE,Alu
chr1399056476AT0.00535FARP1+FALSE
chr239009427AG1.04745E-05.FALSEAluSx3SINE,Alu
chr996438974CG0.00083PHF2+FALSE(CTCCAC)nSINE,Alu
chr147746678GC0.00328STIL-FALSE
chr456295160TA0.00187CLOCK-FALSE(T)nSINE,Alu
chr1688763958GA7.55606E-05RNF166-FALSE
chr136690599AG0.00406THRAP3+FALSE
chr1179312752CT0.00106SOAT1+FALSE
chr120975992TC0.00027PINK1,PINK1-AS+,-FALSEAluSzSINE,Alu
chr161922437GT0.00359NFIA+FALSE
chr1212618715TC0.00714BORCS5+FALSE
chr398518155AT0.00777DCBLD2-FALSE
chr1421929014TC0.00749RAB2B-TRUEAluSpSINE,Alu
chr19161218TC0.00641.FALSEAluSxSINE,Alu
chr164810507GA0.00021ZNF500-FALSE
chr1623478710CA0.00335GGA2-FALSE(AC)nSINE,Alu
chr153680205CT9.80404E-07C1orf123-FALSE
chr856985608AT0.00077RPS20-FALSE
chr131905886CA0.00702SERINC2+FALSE
chr45743512TC0.00045EVC+FALSE
chr12133298275AG4.13546E-09PGAM5+TRUEAluSpSINE,Alu
chr133149502AG0.00045SYNC,RBBP4+,-FALSEAluSx1SINE,Alu
chr436121334CG0.00057ARAP2-FALSE
chr110517306TC0.00176.FALSEAluJrSINE,Alu
chr553841240AG0.00416SNX18+FALSE
chr16282301TC0.00480ICMT-TRUEAluSzSINE,Alu
chr311596302TC0.00110ATG7+FALSE
chr128662205CT0.00010MED18+FALSEAluSq2SINE,Alu
chrX2825075TC0.00410ARSD-TRUEAluSx1SINE,Alu
chr41205667AC0.00990CTBP1-AS,CTBP1+,-FALSE(A)nSINE,Alu
chr131426815AG0.00797PUM1-FALSE
chr1741144251TG0.00014RUNDC1+FALSE
chr1789187CG5.07459E-05LINC01128+FALSE
chr1207942427AG0.00822CD46+TRUEAluSg4SINE,Alu

Differential Expression Gene Analysis