PNKP

General Information

Gene Name       : PNKP
Gene ID             : ENSG00000039650.11
Essential Gene : Yes

Functions

Localization

Domains (AlphaFold: PNKP)


Antibody Validation

Expression Level in Cell lines

Cell Line Gene Name Ensembl ID Rep1 TPM Rep2 TPM Average TPM Experiment ID
Gm12878PNKPENSG00000039650.119.5113.8011.66ENCSR000AEF
HepG2PNKPENSG00000039650.1126.4513.3619.91ENCSR985KAT
K562PNKPENSG00000039650.1121.6617.9519.80ENCSR000AEO

Assays

0 Released experiments are available on ENCORE database.







  eCLIP  

No eCLIP experiment available



  Antibody Validation  

No Antibody Primary Validation image or Secondary image available



  KD RNA-Seq  

No KD RNA-Seq experiment available



  RNA Bind-n-Seqn  

No RBNS experiment available



  Localization Image in HepG2  

No Localization Information available













RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela








RNA Targets

  • eCLIP assay for PNKP is not avaliable on ENCORE database.



Proteins bound to RNA
  • PNKP RNA is bound by 14 proteins.  







eCLIP assay for PNKP is not avaliable on ENCORE database.





14 proteins are bound to PNKP RNA:

Chr Start End Strand Matched Area log2(fold change) -log(p-value) Cell Line Binding Protein Name
chr195036470950364747-3'-UTR,CDS,intron-Distal5.418469.44903HepG2PPIG
chr195036497050365036-3'-UTR,CDS,intron-Distal,intron-Proximal3.556307.29769HepG2PRPF8
chr195036503650365106-3'-UTR,CDS,intron-Distal,intron-Proximal4.319344.91614HepG2GRWD1
chr195036594750365959-3'-UTR,CDS,intron-Distal,intron-Proximal4.075515.24452HepG2PPIG
chr195036552150365529-3'-UTR,CDS,intron-Distal,intron-Proximal4.966164.08604HepG2PPIG
chr195036739950367457-3'-UTR,CDS,intron-Distal,intron-Proximal5.637157.70650HepG2PRPF8
chr195036545650365484-3'-UTR,CDS,intron-Distal,intron-Proximal4.205185.52342HepG2PPIG
chr195036722050367314-3'-UTR,CDS,intron-Distal,intron-Proximal4.236893.46058HepG2PABPN1
chr195036553550365589-3'-UTR,CDS,intron-Distal,intron-Proximal4.213957.50705K562SF3B4
chr195036509450365144-3'-UTR,CDS,intron-Distal,intron-Proximal4.275883.74254HepG2SF3B4
chr195036548950365597-3'-UTR,CDS,intron-Distal,intron-Proximal5.5695914.21667HepG2EFTUD2
chr195036563450365656-3'-UTR,CDS,intron-Distal,intron-Proximal4.785804.17466K562DDX24
chr195036563150365671-3'-UTR,CDS,intron-Distal,intron-Proximal3.924937.83545HepG2PPIG
chr195036466050364707-3'-UTR,CDS,intron-Distal,intron-Proximal4.176807.13970HepG2PRPF8
chr195036586450365909-3'-UTR,CDS,intron-Distal,intron-Proximal5.823078.08771HepG2EFTUD2
chr195036510650365131-3'-UTR,CDS,intron-Distal,intron-Proximal4.127127.49899HepG2PPIG
chr195036696050366985-3'-UTR,CDS,intron-Distal3.246176.23940HepG2PPIG
chr195036575450365812-3'-UTR,CDS,intron-Distal,intron-Proximal5.272485.68502HepG2PRPF8
chr195036530550365338-3'-UTR,CDS,intron-Distal,intron-Proximal3.743216.70085HepG2PPIG
chr195036592750365994-3'-UTR,CDS,intron-Distal,intron-Proximal4.370318.96422HepG2PRPF8
chr195036513250365193-3'-UTR,CDS,intron-Distal,intron-Proximal4.677816.53298K562SF3B4
chr195036854050368595-3'-UTR,5'-UTR,CDS,intron-Distal4.115794.15208K562RBM15
chr195036583150365865-3'-UTR,CDS,intron-Distal,intron-Proximal4.491476.92541HepG2PPIG
chr195036551950365591-3'-UTR,CDS,intron-Distal,intron-Proximal3.940956.60968K562BUD13
chr195036743950367482-3'-UTR,CDS,intron-Distal,intron-Proximal4.596428.98365HepG2PPIG
chr195036698550367017-3'-UTR,CDS,intron-Distal4.9503615.70082HepG2PPIG
chr195036721950367312-3'-UTR,CDS,intron-Distal,intron-Proximal4.9386322.14315HepG2PPIG
chr195036723050367263-3'-UTR,CDS,intron-Distal3.920633.11168K562ZNF622
chr195036967050369688-5'-UTR,CDS,intron-Distal3.970446.08299HepG2PPIG
chr195036839150368498-5'-UTR,CDS,intron-Distal,intron-Proximal4.9111820.87700HepG2PPIG
chr195036963150369657-5'-UTR,CDS,intron-Distal,intron-Proximal3.693596.06472K562AQR
chr195037072350370831-5'-UTR,intron-Distal,intron-Proximal4.510117.95933HepG2NCBP2
chr195036841250368502-5'-UTR,CDS,intron-Distal,intron-Proximal3.013063.89560K562UCHL5
chr195037033050370382-CDS,intron-Distal,intron-Proximal4.091939.56105HepG2PPIG
chr195037026850370333-CDS,intron-Distal,intron-Proximal5.2466221.83203HepG2PRPF8
chr195036554750365589-intron-Distal,intron-Proximal4.541085.95597K562EFTUD2
chr195036674950366824-intron-Distal4.303406.71940K562PRPF8
chr195036612550366181-intron-Distal3.884434.58287K562PRPF8
chr195036612250366137-intron-Distal4.430433.39588K562SF3B4
chr195036616650366234-intron-Distal3.859453.48722HepG2PRPF4
chr195036652850366571-intron-Distal5.315406.41139HepG2EFTUD2
chr195036514450365211-intron-Distal,intron-Proximal3.715017.21382HepG2SF3B4
chr195036586850365934-intron-Distal,intron-Proximal4.518945.03032HepG2SF3B4
chr195036537350365403-intron-Distal,intron-Proximal4.869655.13952K562SF3B4
chr195036960950369631-intron-Distal,intron-Proximal3.484566.87160K562AQR
chr195036644550366486-intron-Distal4.853945.32062K562EFTUD2
chr195036587150365915-intron-Distal,intron-Proximal4.450805.95597K562EFTUD2
chr195036652850366565-intron-Distal3.723134.21913K562EFTUD2
chr195036624150366315-intron-Distal4.255164.55101HepG2PRPF4
ChrStartEndStrandMatched Arealog2(fold change)-log(p-value)Cell LineBinding Protein Name




eCLIP assay for PNKP is not avaliable on ENCORE database.



Diffrential Expression

  • The Knockdown/knockout assay for PNKP is not available on ENCORE database.

  • 62 RBPs can affect the levels of PNKP.  








The Knockdown/knockout RNA-Seq assay for PNKP is not available on ENCORE database.





62 RBPs can affect the gene expression of PNKP :

Gene NameGene IDKDMeanCNMeanlog2(fold change) *-log(pval) **-log(padj) **Cell LineAffected by RBPBound by RBP
PNKPENSG00000039650.5434.62780342.356600.344202.257101.69750HepG2ACO1
PNKPENSG00000039650.5329.00050205.675600.677602.778101.83870HepG2BCCIP
PNKPENSG00000039650.5382.74360234.547600.706403.477602.81540HepG2BOP1
PNKPENSG00000039650.5125.72860222.58330-0.824003.996203.07610HepG2CIRBP
PNKPENSG00000039650.5225.07360112.821900.996204.396303.42780HepG2CNOT7
PNKPENSG00000039650.5177.09810271.20490-0.614802.244701.67600HepG2DDX3X
PNKPENSG00000039650.5325.10400202.236000.684802.830702.04900HepG2DDX55
PNKPENSG00000039650.5118.62360203.70430-0.780102.491601.62890HepG2EIF3D
PNKPENSG00000039650.5368.85420249.820100.562102.956802.24030HepG2FXR1
PNKPENSG00000039650.5291.29850183.991100.662804.833204.04980HepG2HNRNPU
PNKPENSG00000039650.5526.63080373.254900.496502.519701.72820HepG2LARP4
PNKPENSG00000039650.5421.39210251.281300.745804.486003.69990HepG2MATR3
PNKPENSG00000039650.5484.54900291.501000.733007.987806.71260HepG2NOL12
PNKPENSG00000039650.5269.50030182.112700.565403.293602.37730HepG2PARN
PNKPENSG00000039650.5323.22880241.402400.421002.299401.73590HepG2PCBP1
PNKPENSG00000039650.5318.72240245.624400.375701.903601.43340HepG2PTBP1
PNKPENSG00000039650.5430.10350295.457300.541605.391004.61940HepG2PUM1
PNKPENSG00000039650.5331.46580241.440800.457102.263601.64880HepG2RBM25
PNKPENSG00000039650.5357.27170220.443100.696502.793001.79720HepG2RBM27
PNKPENSG00000039650.5469.80700273.366000.781107.451606.64020HepG2NELFE
PNKPENSG00000039650.5319.01030203.291200.650003.129902.27830HepG2RPS2
PNKPENSG00000039650.5214.79190113.262300.923204.321003.32100HepG2RPS3A
PNKPENSG00000039650.5262.75400163.848900.681204.525203.73480HepG2SAFB2
PNKPENSG00000039650.5382.35200255.747400.580104.004003.31430HepG2SF3B4
PNKPENSG00000039650.5303.15700191.069900.665904.896804.08070HepG2SMN1
PNKPENSG00000039650.5267.78820164.288300.704802.715701.76970HepG2SMNDC1
PNKPENSG00000039650.5162.33530256.47980-0.659902.470101.73250HepG2SNRNP70
PNKPENSG00000039650.5154.3000098.516200.647202.322501.32980HepG2STIP1
PNKPENSG00000039650.5504.74420312.506700.691608.584507.58960HepG2SUCLG1
PNKPENSG00000039650.5248.66060180.381300.463002.403101.87000HepG2TRIM56
PNKPENSG00000039650.5222.47880118.899700.903804.732003.73450HepG2UCHL5
PNKPENSG00000039650.5193.40380362.94270-0.908108.472807.51700HepG2UTP3
PNKPENSG00000039650.5955.88970648.254100.560208.013507.11850K562AGGF1
PNKPENSG00000039650.5865.57430674.546100.359602.686202.04240K562AKAP8L
PNKPENSG00000039650.5535.08490734.71100-0.457402.721302.13720K562AQR
PNKPENSG00000039650.5859.06700683.120100.330502.645301.56430K562CPEB4
PNKPENSG00000039650.5882.140301144.32710-0.375403.450602.35940K562CELF1
PNKPENSG00000039650.5510.04730266.443500.936708.457606.78250K562EFTUD2
PNKPENSG00000039650.5731.27580506.600600.529505.695004.71830K562EIF2S2
PNKPENSG00000039650.5213.88860343.19530-0.682203.970202.58860K562FKBP4
PNKPENSG00000039650.5192.54310270.88400-0.492502.109401.35790K562FMR1
PNKPENSG00000039650.5332.42500231.849200.519702.965201.47380K562G3BP1
PNKPENSG00000039650.541.98290157.03020-1.9032010.807409.22720K562G3BP2
PNKPENSG00000039650.5622.33630487.602400.351902.042701.35470K562HSPD1
PNKPENSG00000039650.5507.83490242.613601.065605.174803.59240K562IGF2BP2
PNKPENSG00000039650.5121.73610217.04210-0.834202.138201.32940K562KRR1
PNKPENSG00000039650.5412.22570254.322000.696705.716904.32530K562MATR3
PNKPENSG00000039650.5368.60740226.737900.701003.362402.28500K562PCBP2
PNKPENSG00000039650.5561.37970408.309000.459203.068802.19810K562PPIG
PNKPENSG00000039650.5529.15480354.275900.578704.307103.14110K562PSIP1
PNKPENSG00000039650.5393.04430247.618800.666505.302704.40880K562PTBP1
PNKPENSG00000039650.5745.063901015.40110-0.446603.394302.48980K562PUF60
PNKPENSG00000039650.5725.736101080.06500-0.573606.665704.94680K562PUM1
PNKPENSG00000039650.51143.41720668.905600.773409.720008.75040K562PUS1
PNKPENSG00000039650.5367.38180237.371200.630003.900402.89070K562RBM22
PNKPENSG00000039650.5349.14570231.441900.593103.397601.80850K562RBM34
PNKPENSG00000039650.5344.63790163.375301.0768010.994509.22530K562SF3B4
PNKPENSG00000039650.5575.19400746.25000-0.375602.607601.69400K562SRPK2
PNKPENSG00000039650.5402.31730242.762400.728705.666804.66100K562SRSF1
PNKPENSG00000039650.5363.45050229.304200.664404.484303.09210K562SRSF5
PNKPENSG00000039650.5479.07080245.662400.963509.380907.96550K562TARDBP
PNKPENSG00000039650.5363.76920236.976700.618204.152703.11940K562TIA1
PNKPENSG00000039650.5396.10030232.613500.767805.646103.95690K562TRA2A
PNKPENSG00000039650.5246.62510152.316200.695203.395402.15680K562U2AF1
PNKPENSG00000039650.5270.38360157.275800.781605.369704.25600K562U2AF2
PNKPENSG00000039650.5374.40210265.642800.495002.415801.47130K562UCHL5
PNKPENSG00000039650.5515.78230696.38100-0.433103.349302.42640K562WDR43
Gene NameGene IDKDMeanCNMeanlog2(fold change)-log(pval)-log(padj)Cell LineAffected by RBPBound by RBP

*: "Inf" was shown as "99999.99999" and "-Inf" was shown as "-99999.99999".
**: "-log(0)" was displayed as "99999.99999".






The Knockdown/knockout RNA-Seq assay for PNKP is not available on ENCORE database.





21 RBPs can affect the splicing of PNKP :

Event TypeGene NameGene IDchrStrandExonStartExonEnd2ndExonStart2ndExonEndupstreamESupstreamEEdownstreamESdownstreamEEdPSIp-valueFDRis_includedCell LineAffected by RBPBound by RBP
SEPNKPENSG00000039650.5chr19-503650285036513850364864503649525036530050365362-0.214000.000010.00030excludedK562HNRNPC
A3SSPNKPENSG00000039650.5chr19-5036965550369785503696555036970250370310503704740.408000.000060.00787longerHepG2SF3A3
A3SSPNKPENSG00000039650.5chr19-5036965550369785503696555036970250370310503704740.613000.003380.06958longerHepG2U2AF2
A3SSPNKPENSG00000039650.5chr19-5036965550369785503696555036970250370310503704740.412000.001200.00818longerK562AQR
A3SSPNKPENSG00000039650.5chr19-5036965550369785503696555036970250370310503704740.449000.001510.05645longerHepG2U2AF1
RIPNKPENSG00000039650.5chr19-503647055036513850364705503647675036486450365138-0.107000.002200.07275excludedHepG2AKAP1
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.213000.000500.01014includedK562SF3B4
RIPNKPENSG00000039650.5chr19-5036486450365138503648645036495250365028503651380.085000.000070.00070includedK562PUS1
RIPNKPENSG00000039650.5chr19-5036470550365138503647055036476750364864503651380.177000.000200.00173includedK562PUS1
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.146000.000000.00000includedK562PUS1
RIPNKPENSG00000039650.5chr19-5036530050365494503653005036536250365441503654940.237000.000000.00001includedHepG2SF3A3
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.235000.000030.00067includedHepG2SF3A3
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.227000.000000.00002includedK562HNRNPU
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.623000.000000.00000includedHepG2U2AF2
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.279000.002110.02715includedHepG2PRPF8
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.185000.000990.06908includedHepG2EFTUD2
RIPNKPENSG00000039650.5chr19-5036470550365138503647055036476750364864503651380.324000.000850.01281includedK562PRPF8
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.423000.000000.00000includedK562PRPF8
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.173000.003710.06242includedHepG2IGF2BP3
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.215000.000050.00213includedK562RBM22
RIPNKPENSG00000039650.5chr19-5036486450365138503648645036495250365028503651380.103000.000060.00090includedK562AKAP8L
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.359000.000000.00000includedHepG2U2AF1
RIPNKPENSG00000039650.5chr19-5036486450365138503648645036495250365028503651380.084000.004910.04775includedK562RBM15
RIPNKPENSG00000039650.5chr19-5036470550365138503647055036476750364864503651380.127000.009130.07819includedK562RBM15
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.103000.000150.00256includedK562RBM15
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.331000.000000.00010includedK562U2AF2
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.180000.000160.00318includedHepG2NCBP2
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.137000.000010.00507includedK562WDR43
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.168000.000260.00298includedHepG2SF3B4
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.152000.002760.05628includedHepG2PTBP1
RIPNKPENSG00000039650.5chr19-5036486450365138503648645036495250365028503651380.073000.002330.02879includedK562UTP18
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.087000.000900.01323includedK562UTP18
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.465000.000000.00000includedK562EFTUD2
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.205000.000090.01558includedK562SAFB
RIPNKPENSG00000039650.5chr19-5036486450365138503648645036495250365028503651380.155000.000120.00098includedK562AQR
RIPNKPENSG00000039650.5chr19-5036449550364727503644955036462250364705503647270.243000.000000.00003includedK562AQR
RIPNKPENSG00000039650.5chr19-5036470550365138503647055036476750364864503651380.104000.005140.02948includedK562AQR
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.222000.000000.00000includedK562AQR
RIPNKPENSG00000039650.5chr19-5036743550367660503674355036749350367580503676600.193000.000090.00256includedK562FXR1
MXEPNKPENSG00000039650.5chr19-5036502850365138503653005036536250364864503649525036544150365538-0.373000.009350.051172includedHepG2U2AF2
MXEPNKPENSG00000039650.5chr19-5036486450364952503650285036513850364705503647675036530050365362-0.126000.006270.082172includedK562HNRNPC
MXEPNKPENSG00000039650.5chr19-50367580503676605036965550369785503674355036749350370310503704850.197000.000400.011471includedK562PRPF8

*: "Inf" was shown as "99999.99999" and "-Inf" was shown as "-99999.99999".
**: "-log(0)" was displayed as "99999.99999".





The Knockdown/knockout RNA-Seq assay for PNKP is not avaliable on ENCORE database.