CPSF4

General Information

Gene Name       : CPSF4
Gene ID             : ENSG00000160917.14
Essential Gene : Yes

Functions

Localization

Domains (AlphaFold: CPSF4)


Antibody Validation

Expression Level in Cell lines

Cell Line Gene Name Ensembl ID Rep1 TPM Rep2 TPM Average TPM Experiment ID
Gm12878CPSF4ENSG00000160917.1415.9031.1623.53ENCSR000AEF
HepG2CPSF4ENSG00000160917.1437.7632.4735.11ENCSR985KAT
K562CPSF4ENSG00000160917.1462.6861.0361.86ENCSR000AEO

Assays

2 Released experiments are available on ENCORE database.

Assay TypeExp_NameENCODE IDTarget labelBiosampleStatusLinked AntibodyControlsMethodNote
knockdown followed by RNA-seq CPSF4-BGKcLV21-K562ENCSR854MSPCPSF4K562ReleasedENCSR854OFV   CRISPRKD% = 66.7,66.1505675
knockdown followed by RNA-seq CPSF4-BGHcLV24-HepG2ENCSR740WAGCPSF4HepG2ReleasedENCSR671FDZ   CRISPRKD% = 51.0,53.8






  eCLIP  

No eCLIP experiment available



  Antibody Validation  
  GeneName    Antibody_DCC_ID    Product_ID    Lot_ID    Phosphate    HepG2 Primary Validation    K562 Primary Validation    HepG2 Secondary Validation    K562 Secondary Validation  
CPSF4ENCAB277YJIA301-584A1BGHcLV24-23, Released, ENCODE4BGKcLV21-11, Released, ENCODE4


  KD RNA-Seq  
  GeneName    Cell_Line    Method    Exp_ID    Control_ID    Sample_reps    Control_reps    KD%    Status    Project    Note  
CPSF4K562CRISPRENCSR854MSPENCSR854OFVCPSF4-BGKcLV21-11,CPSF4-BGKcLV21-12NT-BGKcLV21-1,NT-BGKcLV21-266.7,66.1505675ReleasedENCODE4
CPSF4HepG2CRISPRBGHcLV22-13,BGHcLV22-14BGHcLV22-1,BGHcLV22-240.4,29.0NotSatisfiedENCODE4
CPSF4HepG2CRISPRENCSR740WAGENCSR671FDZCPSF4-BGHcLV24-23,CPSF4-BGHcLV24-24NT-BGHcLV24-1,NT-BGHcLV24-251.0,53.8ReleasedENCODE4
CPSF4Ribo-STAMP-293TshRNABGRSLV02-3,BGRSLV02-4BGRSLV02-1,BGRSLV02-2NotSatisfiedENCORE2
CPSF4Ribo-STAMP-293TshRNACPSF4-BGRSLV03-17,CPSF4-BGRSLV03-18NT-BGRSLV03-1,NT-BGRSLV03-2,SubmittedENCORE2
CPSF4Ribo-STAMP-293TshRNABGRSDLV03-9,BGRSDLV03-10BGRSDLV03-1,BGRSDLV03-2SubmittedENCORE2
CPSF4Ribo-STAMP-293TshRNACPSF4-BGRSDLV03-11dox,CPSF4-BGRSDLV03-12doxCPSF4-BGRSDLV03-9,CPSF4-BGRSDLV03-10,SubmittedENCORE2


  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
CPSF4Product_ID: A301-584A
Lot_ID: 1
Source: Bethyl Labs
Target Name: CPSF4-human		 CPSF4-HEPG2-CRISPR-A301-584A.png<br>Caption: Western blot following CRISPR against CPSF4 in HepG2 whole cell lysate using CPSF4 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against CPSF4. CPSF4 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CPSF4-K562-CRISPR-A301-584A.png<br>Caption: Western blot following CRISPR against CPSF4 in K562 whole cell lysate using CPSF4 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against CPSF4. CPSF4 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.








RNA Targets

  • eCLIP assay for CPSF4 is not avaliable on ENCORE database.



Proteins bound to RNA
  • CPSF4 RNA is bound by 18 proteins.  







eCLIP assay for CPSF4 is not avaliable on ENCORE database.





18 proteins are bound to CPSF4 RNA:

Chr Start End Strand Matched Area log2(fold change) -log(p-value) Cell Line Binding Protein Name
chr79904827099048347+3'-UTR,CDS,intron-Distal,intron-Proximal3.052264.21476HepG2SF3B4
chr79904841699048457+3'-UTR,CDS,intron-Distal,intron-Proximal3.861726.28932HepG2AQR
chr79905436599054425+3'-UTR3.852493.19668HepG2UPF1
chr79904830299048351+3'-UTR,CDS,intron-Distal,intron-Proximal5.0042416.14891K562SF3B4
chr79904841399048430+3'-UTR,CDS,intron-Distal,intron-Proximal4.9759314.79390HepG2PRPF8
chr79905454199054633+3'-UTR4.121073.61011HepG2AKAP1
chr79904841799048420+3'-UTR,CDS,intron-Distal,intron-Proximal7.0853759.90330K562AQR
chr79904573099045788+3'-UTR,CDS,intron-Proximal3.682497.42773K562BUD13
chr79905490799054966+3'-UTR4.467164.34615K562LIN28B
chr79904589399045930+3'-UTR,CDS,intron-Proximal4.733475.35117HepG2PRPF8
chr79905458099054645+3'-UTR3.489866.04024K562UPF1
chr79905458899054668+3'-UTR4.575865.93974HepG2UPF1
chr79904568099045767+3'-UTR,CDS,intron-Proximal5.7007110.07464K562SF3B4
chr79905429199054346+3'-UTR3.802723.19668HepG2UPF1
chr79905469399054779+3'-UTR3.5145110.83735K562UPF1
chr79903670799036804+5'-UTR,CDS3.337605.54854HepG2GRWD1
chr79904241999042506+5'-UTR,CDS,intron-Proximal4.492047.79098HepG2PRPF8
chr79903666599036715+5'-UTR,CDS3.578283.62203K562DDX24
chr79903674299036801+5'-UTR,CDS3.895194.94100K562FTO
chr79903673799036803+5'-UTR,CDS3.045044.88466K562UCHL5
chr79904246099042516+5'-UTR,CDS,intron-Proximal4.8605911.03354K562AQR
chr79903674199036825+5'-UTR,CDS,intron-Proximal3.145216.23779HepG2PPIG
chr79905175299051850+CDS,intron-Proximal4.3844314.50379K562PRPF8
chr79903680799036833+CDS,intron-Proximal5.8827912.46873K562AQR
chr79904995799050000+CDS,intron-Proximal3.794587.26133HepG2PRPF8
chr79905005299050112+CDS,intron-Proximal3.389945.62208HepG2PRPF8
chr79905167799051693+CDS3.134114.94039K562YBX3
chr79905162099051686+CDS,intron-Proximal3.776725.85504K562SF3B4
chr79905175299051831+CDS,intron-Proximal3.441036.91257HepG2BUD13
chr79904995199050014+CDS,intron-Proximal4.6588221.42933K562AQR
chr79905400699054048+CDS,intron-Proximal4.892345.17615K562AQR
chr79905399499054056+CDS,intron-Proximal3.039755.52172K562SF3B4
chr79905174699051823+CDS,intron-Proximal4.3180812.49465HepG2PRPF8
chr79905399299054068+CDS,intron-Proximal3.546489.04968HepG2BUD13
chr79904991699050000+CDS,intron-Proximal3.551629.39108K562SF3B4
chr79905169399051749+CDS3.436977.18470K562YBX3
chr79904827499048302+intron-Distal,intron-Proximal5.3814414.90111K562SF3B4
chr79904843099048485+intron-Distal,intron-Proximal4.8022318.47587HepG2PRPF8
chr79905010999050176+intron-Distal,intron-Proximal3.523696.99200HepG2EFTUD2
chr79905009399050206+intron-Distal,intron-Proximal3.052156.72480K562BUD13
chr79904093799040986+intron-Distal3.767793.29248HepG2SUGP2
chr79904842099048455+intron-Distal,intron-Proximal7.3162070.22684K562AQR
chr79904847699048543+intron-Distal,intron-Proximal4.4621112.08233K562AQR
chr79904847699048526+intron-Distal,intron-Proximal3.015954.04646K562PRPF8
chr79905104699051131+intron-Distal,intron-Proximal3.780315.97302HepG2XPO5
chr79904843099048476+intron-Distal,intron-Proximal3.460148.28777K562PRPF8
chr79904634899046421+intron-Distal4.140373.62737K562HNRNPK
chr79904845599048471+intron-Distal,intron-Proximal8.2406766.15245K562AQR
chr79905176299051831+intron-Proximal4.753195.02679K562BUD13
chr79905176799051847+intron-Proximal4.7606612.29596HepG2EFTUD2
chr79905177899051839+intron-Proximal4.4973512.55930K562EFTUD2
chr79905177299051803+intron-Proximal5.4455614.28850K562AQR
chr79904994199049951+intron-Proximal4.815966.99120K562AQR
chr79905180399051825+intron-Proximal3.964544.49024K562AQR
chr79905178099051843+intron-Proximal3.999195.39405HepG2RBM22
chr79905175999051772+intron-Proximal6.0710410.48996K562AQR
chr79903683399036849+intron-Proximal5.8854111.56697K562AQR
ChrStartEndStrandMatched Arealog2(fold change)-log(p-value)Cell LineBinding Protein Name




eCLIP assay for CPSF4 is not avaliable on ENCORE database.



Diffrential Expression

  • The Knockdown/knockout assay for CPSF4 is not available on ENCORE database.

  • 75 RBPs can affect the levels of CPSF4.  








The Knockdown/knockout RNA-Seq assay for CPSF4 is not available on ENCORE database.





75 RBPs can affect the gene expression of CPSF4 :

Gene NameGene IDKDMeanCNMeanlog2(fold change) *-log(pval) **-log(padj) **Cell LineAffected by RBPBound by RBP
CPSF4ENSG00000160917.10596.39130478.476700.317702.471901.89180HepG2ACO1
CPSF4ENSG00000160917.10718.81310887.87800-0.304702.753402.06980HepG2AUH
CPSF4ENSG00000160917.10309.16900482.70120-0.642704.286403.18970HepG2BCLAF1
CPSF4ENSG00000160917.10677.74680406.740400.736507.179506.26870HepG2BOP1
CPSF4ENSG00000160917.10234.66720318.35140-0.440002.164101.47640HepG2CALR
CPSF4ENSG00000160917.10614.12650434.561100.498902.237801.55550HepG2CNOT7
CPSF4ENSG00000160917.10253.11230373.40860-0.561003.216702.48150HepG2CPSF6
CPSF4ENSG00000160917.10652.09750343.114400.926309.932008.10260HepG2CSTF2
CPSF4ENSG00000160917.10541.67630683.09530-0.334702.717502.07950HepG2CELF1
CPSF4ENSG00000160917.10578.41960404.032800.517503.709802.93360HepG2DDX21
CPSF4ENSG00000160917.10345.16160644.79970-0.901608.484107.43900HepG2DDX3X
CPSF4ENSG00000160917.10390.95750546.24620-0.482502.699501.93330HepG2DDX55
CPSF4ENSG00000160917.10204.08660424.03330-1.055005.802804.40460HepG2DDX59
CPSF4ENSG00000160917.10272.20350532.47170-0.968008.599807.59040HepG2EIF2S1
CPSF4ENSG00000160917.10414.94000588.41050-0.503902.953902.29280HepG2EIF4A3
CPSF4ENSG00000160917.10362.78160694.16050-0.9362010.810309.26130HepG2EIF4G2
CPSF4ENSG00000160917.10219.02780374.05120-0.772102.284701.36960HepG2FTO
CPSF4ENSG00000160917.10273.59770373.84670-0.450402.541901.78710HepG2FUBP3
CPSF4ENSG00000160917.10847.58610593.782500.513303.781202.98180HepG2FXR1
CPSF4ENSG00000160917.10407.14910293.997300.469702.612601.74520HepG2GEMIN5
CPSF4ENSG00000160917.10316.29130423.28430-0.420401.893901.35760HepG2GPKOW
CPSF4ENSG00000160917.10584.94440402.315600.539902.738001.63150HepG2GRSF1
CPSF4ENSG00000160917.10480.51940675.04840-0.490405.043403.84480HepG2HNRNPA2B1
CPSF4ENSG00000160917.10253.54350403.94830-0.671904.185603.42680HepG2HNRNPLL
CPSF4ENSG00000160917.10566.68740424.886500.415403.628802.94300HepG2HNRNPU
CPSF4ENSG00000160917.10370.06270611.35470-0.724205.648104.75800HepG2NCBP2
CPSF4ENSG00000160917.10247.70730358.17990-0.532002.484101.77450HepG2NSUN2
CPSF4ENSG00000160917.10368.94440544.38990-0.561203.622002.80320HepG2PABPC4
CPSF4ENSG00000160917.10351.27130543.53300-0.629806.695905.81460HepG2PCBP1
CPSF4ENSG00000160917.10521.32670695.28620-0.415403.075202.45270HepG2PUF60
CPSF4ENSG00000160917.10440.13090598.99140-0.444603.426902.74190HepG2QKI
CPSF4ENSG00000160917.10360.21050543.61690-0.593804.867303.99510HepG2RBM25
CPSF4ENSG00000160917.10657.96070449.828900.548502.883601.80040HepG2RCC2
CPSF4ENSG00000160917.10760.35460615.506200.304802.221801.72620HepG2NELFE
CPSF4ENSG00000160917.10875.36930666.792500.392603.053202.34120HepG2RPLP0
CPSF4ENSG00000160917.10480.31550321.301200.580004.243403.49670HepG2RPS19
CPSF4ENSG00000160917.10729.29750510.834500.513603.192402.33220HepG2RPS2
CPSF4ENSG00000160917.10221.94940416.73230-0.908906.504505.35510HepG2RRP9
CPSF4ENSG00000160917.10689.12350470.779700.549602.830502.14810HepG2SF3A3
CPSF4ENSG00000160917.10181.02880399.82710-1.1432010.382909.09580HepG2SF3B1
CPSF4ENSG00000160917.10465.76750575.81810-0.306002.034901.51600HepG2SF3B4
CPSF4ENSG00000160917.10463.15560666.63070-0.525406.197005.21320HepG2SLBP
CPSF4ENSG00000160917.10559.40640441.271100.342102.801602.15450HepG2SMN1
CPSF4ENSG00000160917.10279.65420444.87840-0.669803.176602.33780HepG2SNRNP70
CPSF4ENSG00000160917.10408.22870962.36550-1.2372028.0965026.93520HepG2SRFBP1
CPSF4ENSG00000160917.10756.61430601.023700.332002.703602.23490HepG2SRSF1
CPSF4ENSG00000160917.10485.30030608.15810-0.325602.280101.64370HepG2SRSF7
CPSF4ENSG00000160917.10311.89810488.95980-0.648606.817706.01990HepG2SRSF9
CPSF4ENSG00000160917.10999.07750780.726000.355703.910903.19410HepG2SUCLG1
CPSF4ENSG00000160917.10817.80890412.892000.9859015.8091014.79170HepG2TIAL1
CPSF4ENSG00000160917.10718.67060497.836700.529602.382301.45710HepG2UPF2
CPSF4ENSG00000160917.10613.36110403.088900.605506.738205.87270HepG2UTP3
CPSF4ENSG00000160917.10361.61910459.18050-0.344602.461801.93750HepG2ZNF622
CPSF4ENSG00000160917.101071.164601304.70720-0.284501.994701.43820K562AKAP8L
CPSF4ENSG00000160917.101265.342201733.61810-0.454304.558003.83900K562AQR
CPSF4ENSG00000160917.101132.392201368.94160-0.273702.505901.63970K562ATP5C1
CPSF4ENSG00000160917.101799.350101330.328000.435607.344606.35180K562DDX47
CPSF4ENSG00000160917.101044.31430580.870600.8462014.9138013.01220K562EIF3G
CPSF4ENSG00000160917.101039.53790825.720500.332102.383601.62020K562EIF4A3
CPSF4ENSG00000160917.10977.39450743.596000.394304.021302.58380K562EIF4B
CPSF4ENSG00000160917.101073.70810770.821800.478004.121703.07350K562FIP1L1
CPSF4ENSG00000160917.10517.67810665.66070-0.362702.122001.36870K562FMR1
CPSF4ENSG00000160917.10423.98090564.20290-0.412202.245101.42660K562FTO
CPSF4ENSG00000160917.101238.21450858.712800.527907.620006.68170K562FXR1
CPSF4ENSG00000160917.10157.94860437.92640-1.4712011.114909.50810K562G3BP2
CPSF4ENSG00000160917.10470.11770624.64040-0.410002.603601.83190K562GPKOW
CPSF4ENSG00000160917.10877.98940634.071500.469503.222102.21220K562HNRNPM
CPSF4ENSG00000160917.101421.906301044.987100.444204.112603.14930K562HSPD1
CPSF4ENSG00000160917.101029.22020763.837200.430102.625701.63550K562IGF2BP2
CPSF4ENSG00000160917.10343.27740533.35350-0.635703.640202.55240K562KRR1
CPSF4ENSG00000160917.101047.54000802.330200.384602.908002.04590K562MAGOH
CPSF4ENSG00000160917.10792.761901087.23740-0.455702.646701.78740K562NAA15
CPSF4ENSG00000160917.101014.667501322.71910-0.382502.557701.75850K562PCBP3
CPSF4ENSG00000160917.101243.55910875.121100.506804.946803.79940K562PPIG
CPSF4ENSG00000160917.101111.57350779.546400.511805.782604.85060K562PTBP1
CPSF4ENSG00000160917.101067.332501260.72750-0.240201.881101.37520K562RBM15
CPSF4ENSG00000160917.10376.20500594.03920-0.659004.601903.32910K562SF3B1
CPSF4ENSG00000160917.10572.58060455.147100.331002.095301.35190K562SF3B4
CPSF4ENSG00000160917.10790.58960611.671700.370102.406101.46690K562SRFBP1
CPSF4ENSG00000160917.10955.59920764.263900.322202.388501.72330K562SRSF1
CPSF4ENSG00000160917.10946.97580721.909900.391402.563201.55940K562SRSF5
CPSF4ENSG00000160917.101115.68090773.380300.528604.664003.73780K562TARDBP
CPSF4ENSG00000160917.10981.16560746.040100.395103.448302.51930K562TIA1
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 CPSF4 is not available on ENCORE database.





18 RBPs can affect the splicing of CPSF4 :

Event TypeGene NameGene IDchrStrandExonStartExonEnd2ndExonStart2ndExonEndupstreamESupstreamEEdownstreamESdownstreamEEdPSIp-valueFDRis_includedCell LineAffected by RBPBound by RBP
SECPSF4ENSG00000160917.10chr7+9903704699037219990366959903680899042411990424620.332000.000000.00000includedHepG2RBM22
SECPSF4ENSG00000160917.10chr7+9904061999040798990366959903680899042411990424620.130000.000000.00043includedK562MATR3
SECPSF4ENSG00000160917.10chr7+9903710999037219990366959903680899042411990424620.199000.000010.00988includedHepG2CSTF2
SECPSF4ENSG00000160917.10chr7+9903704699037219990366959903680899042411990424620.085000.001100.08600includedHepG2SRSF7
SECPSF4ENSG00000160917.10chr7+9904539599045536990424119904246299045743990458960.077000.005310.06517includedK562PUS1
SECPSF4ENSG00000160917.10chr7+9904061999040798990370479903721999042411990424620.560000.000000.00020includedHepG2MATR3
SECPSF4ENSG00000160917.10chr7+9903704699037219990366959903680899042411990424620.095000.000190.03025includedHepG2SSB
SECPSF4ENSG00000160917.10chr7+9903710999037219990366959903680899042411990424620.191000.000000.00113includedHepG2SUPV3L1
SECPSF4ENSG00000160917.10chr7+9904061999040798990366959903680899042411990424620.129000.005220.07513includedK562U2AF2
A3SSCPSF4ENSG00000160917.10chr7+990515889905175999051663990517599904999099050063-0.284000.000210.09940shorterK562EIF3G
A3SSCPSF4ENSG00000160917.10chr7+990515889905175999051663990517599904999099050063-0.301000.000050.01985shorterK562SUPV3L1
A3SSCPSF4ENSG00000160917.10chr7+990515889905175999051663990517599904999099050063-0.329000.000010.00247shorterK562FXR1
A3SSCPSF4ENSG00000160917.10chr7+990515889905175999051663990517599904999099050063-0.365000.000010.00573shorterK562TARDBP
MXECPSF4ENSG00000160917.10chr7+99047898990479949904832499048418990457439904589699049990990500630.068000.000590.012981includedK562DROSHA
MXECPSF4ENSG00000160917.10chr7+9904789899047994990483249904841899045743990458969904999099050063-0.113000.006900.046902includedK562AQR
MXECPSF4ENSG00000160917.10chr7+99047898990479949904832499048418990457439904589699049990990500630.116000.000220.004851includedHepG2SFPQ
MXECPSF4ENSG00000160917.10chr7+99047898990479949904832499048418990457439904589699049990990500630.065000.021600.097861includedHepG2U2AF2
MXECPSF4ENSG00000160917.10chr7+99047898990479949904832499048418990457439904589699049990990500630.092000.003520.080851includedHepG2RBFOX2
MXECPSF4ENSG00000160917.10chr7+99047898990479949904832499048418990457439904589699049990990500630.083000.001850.065601includedK562SAFB
MXECPSF4ENSG00000160917.10chr7+99047898990479949904832499048418990457439904589699049990990500630.320000.002110.060501includedK562TAF15
MXECPSF4ENSG00000160917.10chr7+9904789899047994990483249904841899045743990458969904999099050063-0.174000.001440.025942includedK562SF3B4

*: "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 CPSF4 is not avaliable on ENCORE database.