RNPC3

General Information

Gene Name       : RNPC3
Gene ID             : ENSG00000185946.15
Essential Gene : Yes

Functions

Localization

Domains (AlphaFold: RNPC3)


Antibody Validation

Expression Level in Cell lines

Cell Line Gene Name Ensembl ID Rep1 TPM Rep2 TPM Average TPM Experiment ID
Gm12878RNPC3ENSG00000185946.1534.3824.8229.60ENCSR000AEF
HepG2RNPC3ENSG00000185946.156.7210.528.62ENCSR985KAT
K562RNPC3ENSG00000185946.1512.0819.1615.62ENCSR000AEO

Assays

1 Released experiments are available on ENCORE database.

Assay TypeExp_NameENCODE IDTarget labelBiosampleStatusLinked AntibodyControlsMethodNote
knockdown followed by RNA-seq RNPC3-BGKcLV30-K562ENCSR631NIZRNPC3K562ReleasedENCSR347NKX   CRISPRKD% = 72.2,62.7






  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  
RNPC3ENCAB974GCVA305-145A1Released, ENCODE4BGKcLV30-41, Released, ENCODE4


  KD RNA-Seq  
  GeneName    Cell_Line    Method    Exp_ID    Control_ID    Sample_reps    Control_reps    KD%    Status    Project    Note  
RNPC3K562CRISPRENCSR631NIZENCSR347NKXRNPC3-BGKcLV30-41,RNPC3-BGKcLV30-42NT-BGKcLV30-1,NT-BGKcLV30-272.2,62.7ReleasedENCODE4
RNPC3HepG2CRISPRBGHcLV32-39,BGHcLV32-40BGHcLV32-1,BGHcLV32-2NO CLEAR BAND,NotSatisfiedENCODE4


  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
RNPC3Product_ID: A305-145A
Lot_ID: 1
Source: Bethyl Labs
Target Name: RNPC3-human		 Bethyl_A305-145A_1_RNPC3.png<br>Caption: IP-WB analysis of K562 whole cell lysate using the RNPC3 specific antibody, A305-145A. Lanes 1 and 2 are 2.5% of five million whole cell lysate input and 50% of IP enrichment, respectively, using a normal IgG antibody. Lane 3 is 50% of IP enrichment from five million whole cell lysate using the RNPC3-specific antibody, A305-145A. The same antibody was used to detect protein levels via Western blot. This antibody passes preliminary validation and will be further pursued for secondary validation. *NOTE* Protein sizes are taken from Genecards.org and are only estimates based on sequence. Actual protein size may differ based on protein characteristics and electrophoresis method used.
 RNPC3-K562-CRISPR-A305-145A.png<br>Caption: Western blot following CRISPR against RNPC3 in K562 whole cell lysate using RNPC3 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against RNPC3. RNPC3 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.








RNA Targets

  • eCLIP assay for RNPC3 is not avaliable on ENCORE database.



Proteins bound to RNA
  • RNPC3 RNA is bound by 6 proteins.  







eCLIP assay for RNPC3 is not avaliable on ENCORE database.





6 proteins are bound to RNPC3 RNA:

Chr Start End Strand Matched Area log2(fold change) -log(p-value) Cell Line Binding Protein Name
chr1104097452104097514+3'-UTR,5'-UTR,intron-Distal4.390655.46313K562KHSRP
chr1104077454104077486+3'-UTR,CDS,intron-Proximal4.422593.45943HepG2BCLAF1
chr1104097711104097805+3'-UTR,5'-UTR,intron-Proximal3.175525.62342K562KHSRP
chr1104096271104096319+3'-UTR,intron-Distal3.338823.93901K562KHSRP
chr1104077973104078042+3'-UTR,CDS3.255563.36945K562ZNF622
chr1104096319104096374+3'-UTR,intron-Distal3.737806.89837K562KHSRP
chr1104094341104094410+3'-UTR,5'-UTR,CDS,intron-Proximal3.520295.35144K562ZNF622
chr1104096202104096257+3'-UTR,intron-Distal,intron-Proximal4.193684.26925HepG2KHSRP
chr1104096104104096128+3'-UTR,intron-Distal3.466995.32884K562KHSRP
chr1104077949104078040+3'-UTR,CDS,intron-Proximal4.381367.53358HepG2BCLAF1
chr1104096079104096104+3'-UTR,intron-Distal4.173744.72162K562KHSRP
chr1104094341104094415+3'-UTR,5'-UTR,CDS,intron-Proximal3.214553.43213K562UCHL5
chr1104087561104087654+CDS,intron-Proximal3.886067.65975HepG2BCLAF1
chr1104084058104084099+CDS,intron-Proximal4.305356.22576HepG2BCLAF1
chr1104068812104068875+CDS,intron-Distal4.384414.50440HepG2PPIG
chr1104080061104080114+CDS,intron-Proximal4.630114.78529HepG2BCLAF1
chr1104085916104085979+CDS,intron-Proximal4.745808.85766HepG2BCLAF1
chr1104084071104084098+CDS,intron-Proximal3.568364.49887K562ZNF622
chr1104093674104093701+CDS,intron-Proximal4.080343.02457HepG2BCLAF1
chr1104083974104084050+CDS5.097847.04013HepG2BCLAF1
chr1104087672104087733+CDS,intron-Proximal3.681656.81385HepG2BCLAF1
chr1104085917104085973+CDS,intron-Proximal4.483403.53690K562ZNF622
chr1104087634104087728+CDS,intron-Proximal4.720364.90367K562ZNF622
chr1104088887104088946+CDS4.422593.89826HepG2BCLAF1
chr1104085992104086070+CDS,intron-Proximal4.083556.65960HepG2BCLAF1
chr1104095696104095779+intron-Distal3.342004.56724K562KHSRP
chr1104095508104095541+intron-Distal4.166263.89294K562KHSRP
chr1104095541104095563+intron-Distal3.816623.02234K562KHSRP
chr1104088654104088740+intron-Distal4.767118.50955K562QKI
ChrStartEndStrandMatched Arealog2(fold change)-log(p-value)Cell LineBinding Protein Name




eCLIP assay for RNPC3 is not avaliable on ENCORE database.



Diffrential Expression

  • The Knockdown/knockout assay for RNPC3 is not available on ENCORE database.

  • 66 RBPs can affect the levels of RNPC3.  








The Knockdown/knockout RNA-Seq assay for RNPC3 is not available on ENCORE database.





66 RBPs can affect the gene expression of RNPC3 :

Gene NameGene IDKDMeanCNMeanlog2(fold change) *-log(pval) **-log(padj) **Cell LineAffected by RBPBound by RBP
RNPC3ENSG00000185946.11216.48080361.99930-0.741706.882606.01050HepG2ACO1
RNPC3ENSG00000185946.11261.76860363.69950-0.474503.178202.36260HepG2AKAP8L
RNPC3ENSG00000185946.11241.26960430.61220-0.835706.764605.87700HepG2BOP1
RNPC3ENSG00000185946.11266.40540159.513300.739804.139302.85500HepG2CSTF2
RNPC3ENSG00000185946.11299.18180442.02180-0.563104.820804.01590HepG2CELF1
RNPC3ENSG00000185946.11368.45690232.203700.666004.336103.50700HepG2DDX21
RNPC3ENSG00000185946.11194.58080295.04120-0.600502.055501.50750HepG2DDX3X
RNPC3ENSG00000185946.11471.49460346.335100.445003.260502.53530HepG2DKC1
RNPC3ENSG00000185946.11157.06300244.51020-0.638603.610202.81340HepG2DNAJC21
RNPC3ENSG00000185946.11471.48960243.647300.952307.800506.84000HepG2EIF2S1
RNPC3ENSG00000185946.11560.92470269.305601.058504.104203.32940HepG2EIF4A3
RNPC3ENSG00000185946.11605.21290455.425800.410103.520202.85450HepG2ETF1
RNPC3ENSG00000185946.11331.39810207.758700.673603.906701.87350HepG2EXOSC9
RNPC3ENSG00000185946.11277.20290169.419900.710202.608801.84490HepG2FUBP3
RNPC3ENSG00000185946.11341.91330252.001600.440101.980001.41350HepG2G3BP1
RNPC3ENSG00000185946.11420.36080267.434900.652304.151003.05030HepG2G3BP2
RNPC3ENSG00000185946.11253.97960345.60530-0.444402.873101.87900HepG2HDGF
RNPC3ENSG00000185946.11374.18550246.852800.600003.465302.75230HepG2HNRNPA1
RNPC3ENSG00000185946.11535.13010274.583300.962509.406608.19050HepG2HNRNPC
RNPC3ENSG00000185946.11394.96100255.000900.631103.844203.03270HepG2HNRNPK
RNPC3ENSG00000185946.11405.18780257.624500.653202.636001.66040HepG2KHSRP
RNPC3ENSG00000185946.11385.93210271.671000.506402.016401.45240HepG2MAGOH
RNPC3ENSG00000185946.11180.66570273.21450-0.596701.944601.41100HepG2MATR3
RNPC3ENSG00000185946.11342.69290263.160600.380902.113901.43000HepG2PRPF4
RNPC3ENSG00000185946.11291.19790195.862800.572102.502301.73210HepG2PRPF8
RNPC3ENSG00000185946.11322.29660241.464100.416502.376101.86260HepG2PTBP1
RNPC3ENSG00000185946.11364.80770261.495000.480302.781902.15540HepG2QKI
RNPC3ENSG00000185946.11352.67770237.329800.571403.502202.75100HepG2RBM25
RNPC3ENSG00000185946.11445.36550268.719900.728806.600705.82510HepG2NELFE
RNPC3ENSG00000185946.11393.45520250.287800.652505.213404.40160HepG2RECQL
RNPC3ENSG00000185946.11249.83370375.11090-0.586303.225302.05930HepG2RPS5
RNPC3ENSG00000185946.11352.19410251.381300.486402.991702.38060HepG2SF3B4
RNPC3ENSG00000185946.11603.31450429.939700.488702.899102.38970HepG2SRFBP1
RNPC3ENSG00000185946.11285.69550444.21820-0.636806.049605.17590HepG2SRSF5
RNPC3ENSG00000185946.11354.01230213.475900.729606.551405.76650HepG2SRSF9
RNPC3ENSG00000185946.11641.38790373.297500.7808011.3098010.40860HepG2SSB
RNPC3ENSG00000185946.11312.52600505.23030-0.693008.193007.21860HepG2SUCLG1
RNPC3ENSG00000185946.11499.33380235.865201.0819014.0111012.89250HepG2TAF15
RNPC3ENSG00000185946.11310.42360216.711200.518402.270001.51050HepG2TIA1
RNPC3ENSG00000185946.11368.50690265.025100.475502.923202.41200HepG2TIAL1
RNPC3ENSG00000185946.11205.79060267.41520-0.377901.812001.33640HepG2TRIM56
RNPC3ENSG00000185946.11348.74000465.19880-0.415702.026401.31610HepG2UBE2L3
RNPC3ENSG00000185946.11264.49410149.315600.824804.854703.84320HepG2UCHL5
RNPC3ENSG00000185946.11359.41030259.694800.468703.224402.50890HepG2ZC3H8
RNPC3ENSG00000185946.11708.141601108.26000-0.6462010.162909.16510K562AGGF1
RNPC3ENSG00000185946.11729.151001153.21000-0.661407.558806.43190K562AKAP8L
RNPC3ENSG00000185946.11858.504401122.94610-0.387403.140402.52260K562AQR
RNPC3ENSG00000185946.11824.772301023.96770-0.312102.319101.31460K562CPEB4
RNPC3ENSG00000185946.11695.032001059.29170-0.607906.362005.43180K562DDX47
RNPC3ENSG00000185946.11366.27920556.02550-0.602205.704404.57610K562EIF3G
RNPC3ENSG00000185946.11444.21710597.52780-0.427702.966302.11810K562EIF4A3
RNPC3ENSG00000185946.11623.24160458.102500.444002.479801.42200K562FKBP4
RNPC3ENSG00000185946.11409.51860621.39950-0.601606.409405.54380K562FXR1
RNPC3ENSG00000185946.11901.27220667.269800.433602.462001.80120K562G3BP2
RNPC3ENSG00000185946.11707.23650977.44300-0.466804.113703.14960K562GPKOW
RNPC3ENSG00000185946.11700.50340528.234200.407102.662602.07500K562HNRNPC
RNPC3ENSG00000185946.11562.25380824.79520-0.552805.656404.27580K562MATR3
RNPC3ENSG00000185946.11657.30260954.08330-0.537605.153503.93740K562METAP2
RNPC3ENSG00000185946.11275.05920453.25230-0.720604.974303.10370K562NONO
RNPC3ENSG00000185946.11433.79670802.89800-0.888209.483108.30490K562PTBP1
RNPC3ENSG00000185946.111107.402801400.63640-0.338902.739001.92740K562PUF60
RNPC3ENSG00000185946.11784.103301143.55850-0.544402.684302.14670K562PUS1
RNPC3ENSG00000185946.11851.779501114.31620-0.387603.560902.90180K562RBM15
RNPC3ENSG00000185946.11505.51400770.05790-0.607204.478703.37870K562RBM22
RNPC3ENSG00000185946.11291.10200456.02980-0.647603.832202.86790K562RPS19
RNPC3ENSG00000185946.11306.05760457.75280-0.580802.850001.50140K562RRP9
RNPC3ENSG00000185946.11632.531401157.18350-0.871403.025001.74750K562SF1
RNPC3ENSG00000185946.11664.216001411.35400-1.087404.246102.49780K562SFPQ
RNPC3ENSG00000185946.11900.29800752.713500.258202.227601.37830K562SRPK2
RNPC3ENSG00000185946.11538.77970787.07180-0.546805.199704.23570K562SRSF1
RNPC3ENSG00000185946.11668.43830493.996400.436203.749301.96880K562SRSF9
RNPC3ENSG00000185946.11685.248501001.78250-0.547903.940002.49720K562UTP3
RNPC3ENSG00000185946.11878.58810675.579200.379003.023902.11050K562WDR3
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 RNPC3 is not available on ENCORE database.





5 RBPs can affect the splicing of RNPC3 :

Event TypeGene NameGene IDchrStrandExonStartExonEnd2ndExonStart2ndExonEndupstreamESupstreamEEdownstreamESdownstreamEEdPSIp-valueFDRis_includedCell LineAffected by RBPBound by RBP
SERNPC3ENSG00000185946.11chr1+1040795371040796721040787471040788161040799631040801060.063000.000020.00907includedK562METAP2
SERNPC3ENSG00000185946.11chr1+104068688104068884104068318104068445104070316104070364-0.109000.004030.05278excludedK562PUS1
SERNPC3ENSG00000185946.11chr1+1040822141040823631040799631040801061040839711040840970.067000.000220.02017includedHepG2FTO
SERNPC3ENSG00000185946.11chr1+1040795371040796721040787471040788161040799631040801060.161000.000930.02113includedK562U2AF1
SERNPC3ENSG00000185946.11chr1+1040795371040796721040787471040788161040799631040801060.053000.000210.01213includedK562SF3B1

*: "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 RNPC3 is not avaliable on ENCORE database.