PCF11

General Information

Gene Name       : PCF11
Gene ID             : ENSG00000165494.11
Essential Gene : Yes

Functions

Localization

Domains (AlphaFold: PCF11)


Antibody Validation

Expression Level in Cell lines

Cell Line Gene Name Ensembl ID Rep1 TPM Rep2 TPM Average TPM Experiment ID
Gm12878PCF11ENSG00000165494.1138.1635.9537.05ENCSR000AEF
HepG2PCF11ENSG00000165494.1125.2133.0629.14ENCSR985KAT
K562PCF11ENSG00000165494.1136.1736.2636.22ENCSR000AEO

Assays

0 Released experiments are available on ENCORE database.







  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  
PCF11A303-706A1BGKcLV37-29, Submitted, ENCORE2


  KD RNA-Seq  
  GeneName    Cell_Line    Method    Exp_ID    Control_ID    Sample_reps    Control_reps    KD%    Status    Project    Note  
PCF11K562CRISPRPCF11-BGKcLV37-29,PCF11-BGKcLV37-30NT-BGKcLV37-1,NT-BGKcLV37-267.1,60.1SubmittingENCORE2
PCF11HepG2CRISPRBGHcLV36-25,BGHcLV36-26BGHcLV36-1,BGHcLV36-2NO CLEAR BAND ON THE POSITION,NotSatisfiedENCORE2


  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
PCF11Product_ID: A303-706A
Lot_ID: 1
Source: Bethyl Labs
Target Name: PCF11-human		 PCF11-K562-CRISPR-A303-706A.png<br>Caption: Western blot following CRISPR against PCF11 in K562 whole cell lysate using PCF11 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PCF11. PCF11 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.








RNA Targets

  • eCLIP assay for PCF11 is not avaliable on ENCORE database.



Proteins bound to RNA
  • PCF11 RNA is bound by 35 proteins.  







eCLIP assay for PCF11 is not avaliable on ENCORE database.





35 proteins are bound to PCF11 RNA:

Chr Start End Strand Matched Area log2(fold change) -log(p-value) Cell Line Binding Protein Name
chr118289606782896162+3'-UTR3.393533.23424HepG2FUBP3
chr118289611082896253+3'-UTR4.982257.20250K562CPSF6
chr118289676982896813+3'-UTR5.798055.13070K562PUM2
chr118286819582868241+5'-UTR4.160148.93333K562SRSF1
chr118286829182868383+5'-UTR3.3089222.27385K562UCHL5
chr118286847182868557+5'-UTR,CDS3.500766.80236HepG2RBM15
chr118286820082868245+5'-UTR3.331165.13820HepG2NCBP2
chr118286820382868210+5'-UTR6.2839333.58664K562RBM15
chr118286822482868236+5'-UTR6.4098637.86614K562RBM15
chr118286821082868224+5'-UTR6.3896837.15218K562RBM15
chr118286830482868320+5'-UTR5.4803015.93262K562RBM15
chr118286838982868476+5'-UTR3.451057.85725K562SRSF1
chr118286820382868324+5'-UTR3.478004.79623HepG2UCHL5
chr118286843982868475+5'-UTR6.0281018.37745K562RBM15
chr118286820282868252+5'-UTR3.297083.87906HepG2SRSF9
chr118286822582868286+5'-UTR3.2592626.13596K562ZNF622
chr118286847582868534+5'-UTR,CDS5.3390931.48436K562RBM15
chr118286823682868247+5'-UTR4.2295718.93753K562RBM15
chr118286824182868316+5'-UTR3.470599.45197K562SRSF1
chr118286831982868366+5'-UTR3.176723.52645HepG2NCBP2
chr118286832082868358+5'-UTR5.0004226.06746K562RBM15
chr118286824782868302+5'-UTR4.1872726.49763K562RBM15
chr118286830882868385+5'-UTR3.3813320.62010K562ZNF622
chr118286839882868479+5'-UTR3.3323911.32351K562UCHL5
chr118286824582868319+5'-UTR4.2137212.90019HepG2NCBP2
chr118286835882868404+5'-UTR4.3276826.48444K562RBM15
chr118286828682868303+5'-UTR3.1148116.45926K562ZNF622
chr118286823382868297+5'-UTR3.9118910.81670HepG2RBM15
chr118286843482868496+5'-UTR,CDS3.466299.36516HepG2GRWD1
chr118287999682880017+CDS4.130113.02457HepG2BCLAF1
chr118287952482879583+CDS3.975663.56019HepG2GRWD1
chr118289406682894127+CDS,intron-Distal,intron-Proximal4.784594.65563K562AQR
chr118288057182880603+CDS4.417834.15208K562RBM15
chr118289344282893526+CDS,intron-Distal3.436843.61259K562ZNF622
chr118287775182877806+CDS,intron-Proximal4.784595.26064K562AQR
chr118288811782888170+CDS,intron-Proximal4.402826.02363HepG2U2AF2
chr118287976982879823+CDS3.793473.15816HepG2PRPF4
chr118287988982880050+CDS3.668798.50761K562FUS
chr118287994182880017+CDS4.533806.16046K562LIN28B
chr118287956282879598+CDS4.359824.34038HepG2BCLAF1
chr118287241082872447+CDS,intron-Distal4.593114.78529HepG2BCLAF1
chr118287480182874850+CDS4.984025.68196HepG2BCLAF1
chr118289221982892274+CDS,intron-Distal,intron-Proximal4.405174.22101K562PRPF8
chr118287818182878245+CDS4.730928.85766HepG2BCLAF1
chr118287749882877559+CDS3.673675.76403K562UCHL5
chr118289208282892178+CDS,intron-Distal5.152306.13315HepG2BCLAF1
chr118288036382880443+CDS3.796794.75351K562LIN28B
chr118289344182893529+CDS,intron-Distal4.003984.51739HepG2BCLAF1
chr118287665682876699+CDS4.171626.81811K562UCHL5
chr118287758782877642+CDS4.278327.87612K562UCHL5
chr118287758582877658+CDS4.328988.85033K562ZNF622
chr118287730382877353+CDS3.390516.62505K562UCHL5
chr118286993882870008+intron-Distal7.2705240.05165K562CSTF2T
chr118286936482869432+intron-Distal5.6951912.05379HepG2PCBP2
chr118287156682871624+intron-Distal3.854774.06464HepG2CSTF2
chr118286938082869436+intron-Distal3.106199.12470K562DDX6
chr118286909882869147+intron-Distal4.2922412.66945HepG2PRPF4
chr118286937982869445+intron-Distal4.2545230.62414K562CSTF2T
chr118286913582869194+intron-Distal3.030029.39582K562LARP4
chr118286993682869975+intron-Distal6.2277823.25521HepG2CSTF2
chr118287283182872902+intron-Distal4.997596.09994K562KHSRP
chr118286937482869438+intron-Distal4.7432521.81591K562GTF2F1
chr118286913782869208+intron-Distal3.1255728.01375K562FAM120A
chr118286937382869442+intron-Distal3.7491324.92187K562DROSHA
chr118286997582870034+intron-Distal5.1579818.04989HepG2CSTF2
chr118286913382869187+intron-Distal3.163514.70788HepG2PCBP2
chr118286987382869903+intron-Distal3.347657.31938K562CSTF2T
chr118287002682870092+intron-Distal4.2999414.74077K562CSTF2T
chr118286976782869824+intron-Distal3.294918.84504HepG2CSTF2
chr118286938382869430+intron-Distal3.427848.77718K562UPF1
chr118286937682869414+intron-Distal5.499427.00923HepG2XRN2
chr118286938382869429+intron-Distal3.812517.95520K562XRN2
chr118286909982869202+intron-Distal3.4655218.70635HepG2CSTF2T
chr118287256482872662+intron-Distal,intron-Proximal5.3793416.42770K562CSTF2T
chr118286913782869202+intron-Distal3.7761324.43035K562GTF2F1
chr118286911682869191+intron-Distal4.4432610.43505HepG2CDC40
chr118289424182894302+intron-Distal4.073683.02181K562PRPF8
chr118286913982869194+intron-Distal4.4266312.17214HepG2GTF2F1
chr118286938482869423+intron-Distal4.196423.65778K562GRWD1
chr118286994082870006+intron-Distal5.036124.23016K562FMR1
chr118287256382872607+intron-Distal,intron-Proximal4.585896.16300K562FMR1
chr118286938682869427+intron-Distal3.485934.98801K562WDR43
chr118287268882872773+intron-Distal3.396563.93901K562KHSRP
chr118287072982870819+intron-Distal3.681823.04054K562GTF2F1
chr118287015282870200+intron-Distal3.143026.74654K562CSTF2T
chr118286915082869188+intron-Distal3.208363.69083K562PTBP1
chr118286937482869428+intron-Distal3.1030214.52001K562FASTKD2
chr118286911182869134+intron-Distal3.8470711.34892K562UCHL5
chr118286913482869198+intron-Distal3.4069039.34861K562UCHL5
chr118287156882871612+intron-Distal4.139614.22598K562CSTF2T
chr118287256582872638+intron-Distal,intron-Proximal4.021508.44940HepG2CSTF2
chr118286937182869440+intron-Distal5.1487118.07360HepG2GTF2F1
chr118286987082869920+intron-Distal4.540686.43804HepG2CSTF2
chr118286916582869198+intron-Distal4.0379613.31657HepG2PRPF4
chr118286937082869413+intron-Distal3.456649.42296HepG2PRPF4
chr118287014882870199+intron-Distal3.523185.18472HepG2CSTF2
chr118287072582870817+intron-Distal3.032464.10307K562TIA1
chr118286914782869165+intron-Distal4.0491013.47220HepG2PRPF4
chr118287266282872731+intron-Distal3.600614.02206K562CSTF2T
chr118286914382869203+intron-Distal3.7627511.69529K562XRN2
chr118286938382869441+intron-Distal3.5882717.19216K562FAM120A
chr118286909582869140+intron-Distal3.026305.30626K562XRN2
chr118287651982876607+intron-Distal,intron-Proximal4.181713.49011K562KHSRP
chr118286986082869911+intron-Distal3.480828.76942K562KHSRP
chr118286938482869437+intron-Distal3.3467415.28685K562UCHL5
chr118286914682869192+intron-Distal3.3658110.20850K562ZC3H11A
chr118286987182869891+intron-Distal3.809733.02373K562ZC3H11A
chr118288827382888369+intron-Distal,intron-Proximal3.959323.26999K562KHSRP
chr118289305282893128+intron-Distal,intron-Proximal5.199637.23718K562AQR
ChrStartEndStrandMatched Arealog2(fold change)-log(p-value)Cell LineBinding Protein Name




eCLIP assay for PCF11 is not avaliable on ENCORE database.



Diffrential Expression

  • The Knockdown/knockout assay for PCF11 is not available on ENCORE database.

  • 94 RBPs can affect the levels of PCF11.  








The Knockdown/knockout RNA-Seq assay for PCF11 is not available on ENCORE database.





94 RBPs can affect the gene expression of PCF11 :

Gene NameGene IDKDMeanCNMeanlog2(fold change) *-log(pval) **-log(padj) **Cell LineAffected by RBPBound by RBP
PCF11ENSG00000165494.6855.429401201.23460-0.489803.312702.73790HepG2AKAP1
PCF11ENSG00000165494.6920.450701145.24030-0.315203.331202.49940HepG2AKAP8L
PCF11ENSG00000165494.61011.380001507.17310-0.575506.606605.72850HepG2BOP1
PCF11ENSG00000165494.61276.34100944.299700.434603.365302.51780HepG2CIRBP
PCF11ENSG00000165494.6948.053901139.64510-0.265502.894802.21850HepG2CKAP4
PCF11ENSG00000165494.6878.833801359.96120-0.629903.871502.96030HepG2CNOT7
PCF11ENSG00000165494.61036.17570642.184000.690108.189906.50490HepG2CSTF2
PCF11ENSG00000165494.61269.08550898.392800.498305.534004.23850HepG2DDX24
PCF11ENSG00000165494.61587.928701150.714100.464503.778203.05880HepG2DDX3X
PCF11ENSG00000165494.6718.19610969.49730-0.432904.781903.87960HepG2DNAJC21
PCF11ENSG00000165494.6612.24090960.98390-0.6504012.2805011.01080HepG2DNAJC2
PCF11ENSG00000165494.61100.65240866.997500.344202.860001.76220HepG2EIF3G
PCF11ENSG00000165494.62010.042501664.700100.271903.430102.77130HepG2ETF1
PCF11ENSG00000165494.6797.309601113.87480-0.482404.883703.77880HepG2EWSR1
PCF11ENSG00000165494.6459.30450686.61600-0.580105.729504.00530HepG2FAM120A
PCF11ENSG00000165494.62129.460901374.119700.631906.401005.27750HepG2FIP1L1
PCF11ENSG00000165494.61250.336501568.45560-0.327002.026201.47320HepG2GPKOW
PCF11ENSG00000165494.6825.215301088.25510-0.399205.014303.73810HepG2HDGF
PCF11ENSG00000165494.6743.265601088.73410-0.550705.420504.47740HepG2HNRNPC
PCF11ENSG00000165494.6959.394901174.22040-0.291502.865702.13750HepG2HNRNPF
PCF11ENSG00000165494.61129.887701496.80860-0.405703.222902.54970HepG2HNRNPLL
PCF11ENSG00000165494.6798.025501081.53490-0.438606.074405.20530HepG2HNRNPU
PCF11ENSG00000165494.6966.773201296.14910-0.423002.632701.47690HepG2KHDRBS1
PCF11ENSG00000165494.6758.862301041.99130-0.457406.997105.42390HepG2KIF1C
PCF11ENSG00000165494.6721.50360934.00220-0.372402.729501.52040HepG2NAA15
PCF11ENSG00000165494.61678.786301090.933800.621806.190305.25900HepG2NCBP2
PCF11ENSG00000165494.6654.56520870.82220-0.411802.884101.43590HepG2NIP7
PCF11ENSG00000165494.61151.342801403.11640-0.285302.649801.90370HepG2NOL12
PCF11ENSG00000165494.61149.52720988.926300.217001.811101.30300HepG2PCBP1
PCF11ENSG00000165494.6802.40130964.64000-0.265702.124601.47140HepG2PPIL4
PCF11ENSG00000165494.61227.93100971.290500.338203.933803.02640HepG2PRPF4
PCF11ENSG00000165494.61203.112501006.265000.257702.587802.05570HepG2PTBP1
PCF11ENSG00000165494.6958.608301339.38460-0.482605.097104.31790HepG2PUF60
PCF11ENSG00000165494.61101.645901420.77160-0.367003.782203.00330HepG2PUM2
PCF11ENSG00000165494.61340.560301119.880100.259402.451701.93730HepG2NELFE
PCF11ENSG00000165494.61024.586501264.86440-0.303902.195401.57760HepG2RPLP0
PCF11ENSG00000165494.61027.473301365.89310-0.410702.313701.57990HepG2RPS3A
PCF11ENSG00000165494.6596.60950963.14530-0.6910012.5119011.29020HepG2SAFB2
PCF11ENSG00000165494.6713.262401060.78840-0.572603.852302.70730HepG2SMNDC1
PCF11ENSG00000165494.61175.090901648.46640-0.488402.745001.96710HepG2SNRNP70
PCF11ENSG00000165494.61917.748301571.474400.287203.610603.06150HepG2SRFBP1
PCF11ENSG00000165494.61380.131401093.526700.335703.972303.43130HepG2SRSF1
PCF11ENSG00000165494.62127.621401594.175300.416302.633201.65950HepG2SRSF3
PCF11ENSG00000165494.6882.348601153.61920-0.386704.627503.76200HepG2SRSF7
PCF11ENSG00000165494.61092.53310889.639400.296303.116302.53760HepG2SRSF9
PCF11ENSG00000165494.61637.939201364.369700.263503.046902.51400HepG2SSB
PCF11ENSG00000165494.6705.97000928.08380-0.394603.163202.16430HepG2SUPT6H
PCF11ENSG00000165494.6673.112701017.39970-0.596004.052903.25810HepG2SUPV3L1
PCF11ENSG00000165494.61196.248501458.99770-0.286501.950301.32810HepG2TARDBP
PCF11ENSG00000165494.6646.23430903.15660-0.482904.759803.67300HepG2TIA1
PCF11ENSG00000165494.6751.645001050.85400-0.483405.321404.67420HepG2TIAL1
PCF11ENSG00000165494.6866.290101060.31150-0.291602.994602.41300HepG2TRIM56
PCF11ENSG00000165494.61525.617701175.611000.375903.017702.36220HepG2U2AF1
PCF11ENSG00000165494.61742.711101413.830800.301603.831703.14490HepG2UTP3
PCF11ENSG00000165494.61243.74980958.519300.375705.368804.48290HepG2ZC3H8
PCF11ENSG00000165494.61351.222401610.57010-0.253303.427402.83690HepG2ZNF622
PCF11ENSG00000165494.61425.439302289.09330-0.6834013.2238012.08200K562AGGF1
PCF11ENSG00000165494.6729.57960913.42500-0.324203.054501.46750K562AKAP1
PCF11ENSG00000165494.61711.966202381.84910-0.476405.852604.88040K562AKAP8L
PCF11ENSG00000165494.63692.469802800.573600.398802.760301.52140K562APOBEC3C
PCF11ENSG00000165494.69144.873202598.992001.8149057.1408054.82260K562AQR
PCF11ENSG00000165494.61578.112402499.02690-0.6632013.9399011.71590K562ATP5C1
PCF11ENSG00000165494.62245.066302735.77460-0.285203.009801.77240K562CCDC124
PCF11ENSG00000165494.61575.630101920.26440-0.285402.837101.31150K562CEBPZ
PCF11ENSG00000165494.61843.700502207.15370-0.259603.132301.83840K562DDX21
PCF11ENSG00000165494.6669.16300980.61350-0.551307.310104.47810K562DDX24
PCF11ENSG00000165494.6620.42440925.48430-0.577006.116504.49530K562DDX3X
PCF11ENSG00000165494.63310.389702698.680300.294602.604701.97020K562DDX47
PCF11ENSG00000165494.61166.79630844.241200.466704.061102.41130K562DNAJC21
PCF11ENSG00000165494.61621.08020966.876600.7455010.984709.32780K562EIF4A3
PCF11ENSG00000165494.64154.019403173.645600.388303.291502.26960K562EIF4G2
PCF11ENSG00000165494.61264.38540984.544000.360802.447401.39880K562FKBP4
PCF11ENSG00000165494.63076.780302485.893100.307602.536701.71770K562FMR1
PCF11ENSG00000165494.62658.463702107.116100.335202.308301.47720K562FTO
PCF11ENSG00000165494.61994.623301005.506500.9881029.1743027.34660K562FXR1
PCF11ENSG00000165494.6753.436501262.53240-0.7448010.675207.85610K562G3BP1
PCF11ENSG00000165494.61511.11420873.536000.790602.950302.21760K562G3BP2
PCF11ENSG00000165494.61376.512501134.512500.278802.170601.63350K562HNRNPC
PCF11ENSG00000165494.61467.663102109.76870-0.523604.829103.56100K562HNRNPM
PCF11ENSG00000165494.62382.203003477.90860-0.545907.210405.94060K562HSPD1
PCF11ENSG00000165494.6887.231401320.58310-0.573804.753403.25330K562IGF2BP2
PCF11ENSG00000165494.63672.387202536.504600.533802.823901.38640K562ILF2
PCF11ENSG00000165494.61048.83340792.724800.403802.894701.37770K562KHDRBS1
PCF11ENSG00000165494.61943.144702527.93420-0.379602.873002.02990K562KIF1C
PCF11ENSG00000165494.62597.324901991.776400.382902.265201.42890K562KRR1
PCF11ENSG00000165494.61718.552101387.853800.308202.629801.81020K562MAGOH
PCF11ENSG00000165494.61845.349202419.69530-0.390902.527901.51470K562MAK16
PCF11ENSG00000165494.61728.782101385.034200.319702.931701.97900K562MATR3
PCF11ENSG00000165494.62030.500902831.89730-0.479907.024005.45130K562MBNL1
PCF11ENSG00000165494.61479.236901984.93760-0.424202.824001.93130K562NAA15
PCF11ENSG00000165494.64471.254703470.908700.365303.137701.53860K562NOL12
PCF11ENSG00000165494.63141.751902046.783100.618102.904901.88350K562PABPN1
PCF11ENSG00000165494.61937.553402911.80360-0.587707.769206.24010K562PPIG
PCF11ENSG00000165494.61631.414301312.173900.314102.238001.55970K562PRPF8
PCF11ENSG00000165494.65779.245403462.868200.7388012.7377010.97330K562PUF60
PCF11ENSG00000165494.64748.549703682.019100.366903.464802.26260K562PUM1
PCF11ENSG00000165494.61805.109902301.60890-0.350602.394201.83600K562RBM15
PCF11ENSG00000165494.61790.944901360.604600.396403.288302.08640K562NELFE
PCF11ENSG00000165494.6871.442301336.57870-0.617105.308804.17410K562RPS19
PCF11ENSG00000165494.61602.06300947.819000.757109.352307.38450K562RPS3
PCF11ENSG00000165494.61633.275401276.484100.355503.250802.07680K562SAFB
PCF11ENSG00000165494.61762.503001319.754800.417303.920702.18080K562SDAD1
PCF11ENSG00000165494.61753.090701313.951600.415904.156802.10120K562SND1
PCF11ENSG00000165494.61957.072901321.873800.566007.681306.50990K562SRSF1
PCF11ENSG00000165494.61433.09250915.037300.647108.649006.65220K562SRSF4
PCF11ENSG00000165494.62066.755701436.966600.524207.843806.44900K562SYNCRIP
PCF11ENSG00000165494.62028.470801337.815900.600407.196305.99720K562TARDBP
PCF11ENSG00000165494.61702.229501290.476300.399404.343103.28240K562TIA1
PCF11ENSG00000165494.62487.051001983.463300.326305.737204.56430K562WDR43
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 PCF11 is not available on ENCORE database.





1 RBPs can affect the splicing of PCF11 :

Event TypeGene NameGene IDchrStrandExonStartExonEnd2ndExonStart2ndExonEndupstreamESupstreamEEdownstreamESdownstreamEEdPSIp-valueFDRis_includedCell LineAffected by RBPBound by RBP
SEPCF11ENSG00000165494.6chr11+828828598288295682879469828810378288812682888246-0.086000.000400.00558excludedK562AQR
A3SSPCF11ENSG00000165494.6chr11+8289285482892973828928958289297382892061828922330.057000.000000.00000longerK562AQR
A3SSPCF11ENSG00000165494.6chr11+8287468382874909828747208287490982872368828724940.098000.000040.00041longerK562AQR
MXEPCF11ENSG00000165494.6chr11+82880905828810378288285982882956828784568287854782888126828882460.090000.001440.012481includedK562AQR
MXEPCF11ENSG00000165494.6chr11+82878456828785478287946982881037828781668287835082882859828829560.111000.009330.059851includedK562AQR

*: "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 PCF11 is not avaliable on ENCORE database.