CLCN3

General Information

Gene Name       : CLCN3
Gene ID             : ENSG00000109572.13
Essential Gene : Yes

Functions

Localization

Domains (AlphaFold: CLCN3)


Antibody Validation

Expression Level in Cell lines

Cell Line Gene Name Ensembl ID Rep1 TPM Rep2 TPM Average TPM Experiment ID
Gm12878CLCN3ENSG00000109572.1317.6410.8814.26ENCSR000AEF
HepG2CLCN3ENSG00000109572.1313.8620.0116.94ENCSR985KAT
K562CLCN3ENSG00000109572.1325.3829.3127.34ENCSR000AEO

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 CLCN3 is not avaliable on ENCORE database.



Proteins bound to RNA
  • CLCN3 RNA is bound by 21 proteins.  







eCLIP assay for CLCN3 is not avaliable on ENCORE database.





21 proteins are bound to CLCN3 RNA:

Chr Start End Strand Matched Area log2(fold change) -log(p-value) Cell Line Binding Protein Name
chr4170641475170641524+3'-UTR3.900533.32022K562UCHL5
chr4170642868170642919+3'-UTR3.671146.25570K562UPF1
chr4170643782170643834+3'-UTR4.695866.75148K562TIA1
chr4170641656170641740+3'-UTR3.757295.25167K562TIA1
chr4170641662170641750+3'-UTR5.6184128.76274K562PTBP1
chr4170643519170643623+3'-UTR3.415044.53184K562IGF2BP1
chr4170643792170643836+3'-UTR3.939003.74511K562IGF2BP1
chr4170641635170641753+3'-UTR3.062847.38135K562LSM11
chr4170641770170641854+3'-UTR4.163964.55369K562LIN28B
chr4170641569170641638+3'-UTR4.5212010.51368K562IGF2BP1
chr4170644207170644292+3'-UTR3.493664.54145K562DDX6
chr4170641831170641916+3'-UTR3.254534.61266K562IGF2BP1
chr4170641658170641733+3'-UTR4.562395.07733HepG2PTBP1
chr4170541784170541843+5'-UTR,intron-Distal,intron-Proximal3.817299.45490K562DDX3X
chr4170541737170541853+5'-UTR,intron-Distal,intron-Proximal3.6388210.26041HepG2DDX3X
chr4170541738170541784+5'-UTR,intron-Distal3.402443.95805K562DDX3X
chr4170634285170634294+CDS4.480148.37444K562RBM15
chr4170634390170634454+CDS,intron-Proximal4.452255.40333K562RBM15
chr4170634259170634327+CDS3.476163.61371K562SND1
chr4170625149170625250+CDS3.222283.61570K562SRSF1
chr4170610252170610384+CDS,intron-Proximal3.496786.60490HepG2BCLAF1
chr4170634294170634331+CDS3.732128.72457K562RBM15
chr4170628213170628300+CDS3.482203.07497K562SND1
chr4170628190170628311+CDS3.393415.23038K562ZNF622
chr4170634264170634285+CDS3.978487.98536K562RBM15
chr4170610178170610240+CDS,intron-Proximal4.676657.38012K562U2AF2
chr4170625158170625245+CDS3.388617.25501K562LIN28B
chr4170581636170581700+intron-Distal,intron-Proximal5.3345711.36415K562RBFOX2
chr4170608959170609018+intron-Distal,intron-Proximal4.267516.74743K562U2AF1
chr4170609148170609293+intron-Distal3.8190810.91503K562KHSRP
chr4170608979170609033+intron-Distal,intron-Proximal4.4248012.95470K562U2AF2
chr4170575332170575474+intron-Distal5.776738.93487K562PTBP1
chr4170575351170575468+intron-Distal4.211479.12099HepG2PTBP1
chr4170608961170609039+intron-Distal,intron-Proximal3.966595.18845HepG2U2AF2
chr4170575355170575464+intron-Distal3.960445.38800HepG2PCBP2
chr4170639916170640059+intron-Distal5.474759.03229HepG2QKI
chr4170606681170606790+intron-Distal4.714376.28383K562KHSRP
chr4170639720170639827+intron-Distal4.544285.68841K562KHSRP
chr4170578871170578925+intron-Distal3.778043.49011K562KHSRP
chr4170639926170640062+intron-Distal6.4335222.23673K562QKI
chr4170639635170639707+intron-Distal3.081885.36888K562KHSRP
chr4170581643170581696+intron-Distal,intron-Proximal4.373053.18939HepG2RBFOX2
chr4170621217170621274+intron-Distal4.674923.68931K562XRCC6
chr4170608962170608979+intron-Proximal3.892287.86439K562U2AF2
ChrStartEndStrandMatched Arealog2(fold change)-log(p-value)Cell LineBinding Protein Name




eCLIP assay for CLCN3 is not avaliable on ENCORE database.



Diffrential Expression

  • The Knockdown/knockout assay for CLCN3 is not available on ENCORE database.

  • 122 RBPs can affect the levels of CLCN3.  








The Knockdown/knockout RNA-Seq assay for CLCN3 is not available on ENCORE database.





122 RBPs can affect the gene expression of CLCN3 :

Gene NameGene IDKDMeanCNMeanlog2(fold change) *-log(pval) **-log(padj) **Cell LineAffected by RBPBound by RBP
CLCN3ENSG00000109572.91613.81920933.988500.7889011.883809.88580HepG2AATF
CLCN3ENSG00000109572.91836.023901090.910100.7510021.6501020.31010HepG2ACO1
CLCN3ENSG00000109572.93480.467601632.763601.0919017.3508016.13460HepG2AKAP1
CLCN3ENSG00000109572.91450.113101096.021700.403805.761804.69120HepG2AKAP8L
CLCN3ENSG00000109572.91967.433801351.010600.542205.397804.31770HepG2ASCC1
CLCN3ENSG00000109572.91523.821901057.210200.527306.242704.21890HepG2ATP5C1
CLCN3ENSG00000109572.92559.847501687.516100.6011014.3500013.00130HepG2AUH
CLCN3ENSG00000109572.91846.127701117.420000.724205.704004.65010HepG2CALR
CLCN3ENSG00000109572.9787.772101283.54150-0.704307.641106.40610HepG2CIRBP
CLCN3ENSG00000109572.91525.675101090.656500.484209.595208.50430HepG2CKAP4
CLCN3ENSG00000109572.91422.93640964.722900.560607.120505.42490HepG2CPSF7
CLCN3ENSG00000109572.91282.840601008.491200.347002.948102.00210HepG2DDX24
CLCN3ENSG00000109572.92625.480901564.140800.747109.692208.58350HepG2DDX3X
CLCN3ENSG00000109572.91496.819201109.214000.432303.388802.54370HepG2DDX55
CLCN3ENSG00000109572.92449.605601343.448600.8665010.956009.82140HepG2DDX6
CLCN3ENSG00000109572.9674.405401087.01160-0.688708.437306.82120HepG2DHX30
CLCN3ENSG00000109572.9745.518301043.70110-0.485406.363705.41600HepG2DKC1
CLCN3ENSG00000109572.91432.876001127.047500.346303.913603.08920HepG2DNAJC21
CLCN3ENSG00000109572.91059.53600794.399100.415403.118001.94290HepG2EFTUD2
CLCN3ENSG00000109572.91286.82800949.054100.439202.683601.59580HepG2AGO1
CLCN3ENSG00000109572.91674.860501291.669100.374702.722802.13480HepG2EIF2S1
CLCN3ENSG00000109572.91151.96890773.543300.574405.217104.00560HepG2EIF3D
CLCN3ENSG00000109572.9997.093101427.53290-0.517703.989503.22570HepG2EIF4A3
CLCN3ENSG00000109572.93789.842901389.738001.4472017.6715016.03730HepG2EIF4B
CLCN3ENSG00000109572.91911.602401434.642800.414003.835702.88760HepG2EIF4G2
CLCN3ENSG00000109572.92462.004401937.531800.345505.538804.73740HepG2ETF1
CLCN3ENSG00000109572.91436.733901065.999400.430502.680201.85850HepG2EWSR1
CLCN3ENSG00000109572.91283.61440982.330800.385803.342002.10160HepG2FASTKD2
CLCN3ENSG00000109572.92681.687801182.645201.1810020.4545018.70800HepG2FIP1L1
CLCN3ENSG00000109572.92081.857701264.525500.719205.957204.36840HepG2FUS
CLCN3ENSG00000109572.91121.299801440.05840-0.361002.502401.84320HepG2FXR1
CLCN3ENSG00000109572.91748.519601336.003400.388102.568901.92700HepG2G3BP1
CLCN3ENSG00000109572.91419.722401041.496800.446907.072205.59950HepG2HDGF
CLCN3ENSG00000109572.91906.900601210.988300.654903.894702.22800HepG2HLTF
CLCN3ENSG00000109572.91099.501601535.83110-0.482207.755606.63440HepG2HNRNPF
CLCN3ENSG00000109572.91781.583101426.527700.320602.335101.75130HepG2HNRNPLL
CLCN3ENSG00000109572.91135.95740816.112200.477005.097503.84770HepG2HNRNPM
CLCN3ENSG00000109572.9852.347301257.24070-0.560709.742008.65930HepG2HNRNPU
CLCN3ENSG00000109572.91051.905501512.35980-0.523806.764705.67760HepG2IGF2BP1
CLCN3ENSG00000109572.92563.338801274.289801.008204.679803.40830HepG2IGF2BP3
CLCN3ENSG00000109572.91471.112001284.235800.195902.158001.50140HepG2ILF2
CLCN3ENSG00000109572.9769.80140997.21830-0.373404.805703.46820HepG2KIF1C
CLCN3ENSG00000109572.92652.475001984.675000.418302.755601.92710HepG2LARP4
CLCN3ENSG00000109572.91233.65380809.598100.607603.714602.50170HepG2METAP2
CLCN3ENSG00000109572.91485.36840957.374500.633609.004907.62470HepG2MSI2
CLCN3ENSG00000109572.91045.66200803.858600.379303.011801.74520HepG2NAA15
CLCN3ENSG00000109572.92339.317201327.226200.817605.853304.52910HepG2PABPC1
CLCN3ENSG00000109572.91769.923901320.711100.422303.322602.53600HepG2PABPC4
CLCN3ENSG00000109572.91004.509001244.49710-0.309103.361202.43630HepG2PARN
CLCN3ENSG00000109572.91623.645401334.856800.282503.136102.49690HepG2PCBP1
CLCN3ENSG00000109572.9815.230701197.13790-0.554302.792401.74750HepG2PCBP2
CLCN3ENSG00000109572.9717.103301121.36440-0.6450010.259708.88680HepG2PPIL4
CLCN3ENSG00000109572.91799.324501358.197900.405706.063805.31630HepG2PTBP1
CLCN3ENSG00000109572.92572.944801525.359900.7542030.0562028.52710HepG2PUM1
CLCN3ENSG00000109572.92091.599801524.241000.456406.275405.27940HepG2PUM2
CLCN3ENSG00000109572.91723.436901111.160300.6331015.3630014.11880HepG2PUS1
CLCN3ENSG00000109572.92560.370401471.108600.7993018.8371017.40960HepG2QKI
CLCN3ENSG00000109572.94177.254601155.501201.8539026.4857024.53210HepG2RAVER1
CLCN3ENSG00000109572.91865.255301340.638700.476406.413105.17570HepG2RBM15
CLCN3ENSG00000109572.92988.759501619.410200.8840027.1378025.84700HepG2RBM22
CLCN3ENSG00000109572.91822.906001335.070200.449204.999704.11710HepG2RBM25
CLCN3ENSG00000109572.9772.092801093.25690-0.501803.594902.38540HepG2RCC2
CLCN3ENSG00000109572.9781.911501134.62460-0.537102.766301.82300HepG2RPS10
CLCN3ENSG00000109572.9982.42630752.673700.384203.188202.53500HepG2RPS19
CLCN3ENSG00000109572.9987.651201457.97560-0.561903.955002.99890HepG2RPS3A
CLCN3ENSG00000109572.91410.26370846.729700.735908.026006.77430HepG2RRP9
CLCN3ENSG00000109572.9833.024301181.08170-0.503703.340702.59780HepG2SF3A3
CLCN3ENSG00000109572.91112.122501412.01610-0.344402.599701.91480HepG2SF3B1
CLCN3ENSG00000109572.9977.719001377.79620-0.494909.043107.88900HepG2SLBP
CLCN3ENSG00000109572.93286.022401829.050400.8451035.1864033.92800HepG2SRFBP1
CLCN3ENSG00000109572.91809.505201476.050200.293803.578903.05790HepG2SRSF1
CLCN3ENSG00000109572.91264.626701508.88720-0.254802.538401.86940HepG2SRSF7
CLCN3ENSG00000109572.92440.820201200.802101.0233034.8581033.32350HepG2SRSF9
CLCN3ENSG00000109572.91300.909101588.02470-0.287703.579503.01300HepG2SSB
CLCN3ENSG00000109572.92742.099701613.509500.7650024.1353022.59250HepG2SUCLG1
CLCN3ENSG00000109572.91086.81290798.766300.444204.791503.57100HepG2SUPT6H
CLCN3ENSG00000109572.91585.879901104.284400.522104.811403.95620HepG2SUPV3L1
CLCN3ENSG00000109572.91789.344601390.260100.364003.106102.34380HepG2TARDBP
CLCN3ENSG00000109572.9996.21170740.211200.428403.268602.18940HepG2TFIP11
CLCN3ENSG00000109572.91588.538201219.105400.381803.883902.90160HepG2TIA1
CLCN3ENSG00000109572.91003.274001221.77640-0.284302.419101.94600HepG2TIAL1
CLCN3ENSG00000109572.91436.989701232.556300.221302.197801.68380HepG2TRIM56
CLCN3ENSG00000109572.91272.796101011.800700.331002.394701.80640HepG2U2AF1
CLCN3ENSG00000109572.9871.803101047.43830-0.264802.572501.89570HepG2UPF1
CLCN3ENSG00000109572.9529.600301011.39430-0.933406.910105.28110HepG2UPF2
CLCN3ENSG00000109572.91614.818501135.854700.507503.022101.69840HepG2XRCC5
CLCN3ENSG00000109572.9610.913101087.04450-0.831408.471707.21710HepG2XRN2
CLCN3ENSG00000109572.91364.24440985.418600.469208.288907.23100HepG2ZC3H8
CLCN3ENSG00000109572.92288.428901802.624400.344202.690001.52590K562AARS
CLCN3ENSG00000109572.93840.722105610.54570-0.5468016.8467015.56960K562AGGF1
CLCN3ENSG00000109572.94863.485406165.12120-0.342103.546002.39980K562AKAP8
CLCN3ENSG00000109572.93742.785105838.02210-0.6414010.619309.23110K562AKAP8L
CLCN3ENSG00000109572.95626.128604404.169900.353203.752902.27900K562APOBEC3C
CLCN3ENSG00000109572.93293.467604386.24280-0.413404.612003.88940K562AQR
CLCN3ENSG00000109572.94466.393006125.48100-0.455709.056707.28380K562ATP5C1
CLCN3ENSG00000109572.91867.181902263.13350-0.277503.868802.72100K562BCLAF1
CLCN3ENSG00000109572.92788.176602294.407200.281102.056501.31050K562BOP1
CLCN3ENSG00000109572.95606.843306704.92610-0.258002.811501.62420K562CCDC124
CLCN3ENSG00000109572.92660.276703496.62840-0.394404.155502.57310K562CIRBP
CLCN3ENSG00000109572.91355.900901716.92390-0.340603.922702.63380K562CSTF2
CLCN3ENSG00000109572.95029.839906136.98960-0.287003.533702.42770K562CELF1
CLCN3ENSG00000109572.95108.326003766.153400.4397010.599709.41850K562DDX47
CLCN3ENSG00000109572.9855.439401267.97090-0.567802.685301.37710K562DHX30
CLCN3ENSG00000109572.94658.852606282.16130-0.431308.961507.20740K562DKC1
CLCN3ENSG00000109572.92830.774002193.038300.368202.749901.71680K562EIF3D
CLCN3ENSG00000109572.96250.848604991.216500.324605.708904.38190K562EIF4G2
CLCN3ENSG00000109572.93115.970502439.522200.353002.122701.51530K562G3BP2
CLCN3ENSG00000109572.92995.062404111.14370-0.457002.951402.17210K562GRSF1
CLCN3ENSG00000109572.93301.864605004.31950-0.599902.620001.44570K562HNRNPA2B1
CLCN3ENSG00000109572.92429.657701972.903700.300302.908102.29870K562HNRNPC
CLCN3ENSG00000109572.91431.500001761.59820-0.299402.441001.38090K562HNRNPF
CLCN3ENSG00000109572.94124.880403258.570000.340002.879801.62090K562HNRNPK
CLCN3ENSG00000109572.94574.707706195.61810-0.437605.677204.40070K562KIF1C
CLCN3ENSG00000109572.92633.109401988.831700.404702.639501.73010K562KRR1
CLCN3ENSG00000109572.92658.331103428.74570-0.367204.093203.06500K562MAGOH
CLCN3ENSG00000109572.94716.381005930.71680-0.330503.084901.93380K562MAK16
CLCN3ENSG00000109572.94957.353406940.65470-0.485508.120506.39630K562MBNL1
CLCN3ENSG00000109572.93376.184704864.89480-0.527004.364603.17980K562NAA15
CLCN3ENSG00000109572.92775.281403091.96620-0.155902.399801.70020K562NSUN2
CLCN3ENSG00000109572.91462.369201942.19370-0.409403.328701.71160K562NUSAP1
CLCN3ENSG00000109572.92394.488904379.65180-0.871104.279102.97770K562PABPN1
CLCN3ENSG00000109572.91842.639003050.82400-0.7274012.9479010.71510K562PCBP2
CLCN3ENSG00000109572.93692.932202539.084400.540405.693304.49390K562PCBP3
CLCN3ENSG00000109572.92914.670901947.599700.581507.632406.32610K562POLR2G
CLCN3ENSG00000109572.92211.553103266.24200-0.562607.349305.87870K562PPIG
CLCN3ENSG00000109572.91162.389801768.85720-0.605707.557005.91990K562PSIP1
CLCN3ENSG00000109572.92763.255403331.20460-0.269702.604701.95720K562PTBP1
CLCN3ENSG00000109572.96519.885205445.805000.259602.239501.50650K562PUF60
CLCN3ENSG00000109572.92847.269805789.75230-1.0239024.1232022.52790K562PUS1
CLCN3ENSG00000109572.93293.649505641.21130-0.7763023.6021021.79810K562RBM15
CLCN3ENSG00000109572.92062.990003194.49480-0.630909.363007.66860K562RBM22
CLCN3ENSG00000109572.91209.493901613.57510-0.415904.396403.14480K562RCC2
CLCN3ENSG00000109572.92133.228802731.72550-0.356804.976302.86740K562RPS10
CLCN3ENSG00000109572.92429.285101794.093800.437204.560302.68460K562SDAD1
CLCN3ENSG00000109572.92415.669701705.538100.502103.159501.47950K562SERBP1
CLCN3ENSG00000109572.91666.630903050.87580-0.8723027.4816025.21450K562SF3A3
CLCN3ENSG00000109572.91084.903001529.65490-0.495605.128203.60560K562SRFBP1
CLCN3ENSG00000109572.93818.608103125.678600.288805.840304.54700K562SRPK2
CLCN3ENSG00000109572.92626.430903265.63620-0.314303.345702.57310K562SRSF1
CLCN3ENSG00000109572.92373.446201953.444300.280902.815301.98810K562SYNCRIP
CLCN3ENSG00000109572.92678.092303305.15530-0.303502.417101.75310K562TARDBP
CLCN3ENSG00000109572.91317.779601807.18450-0.455604.554003.27150K562TRIM56
CLCN3ENSG00000109572.93552.901802443.043400.540209.709408.20240K562U2AF2
CLCN3ENSG00000109572.94000.274502917.117000.4555012.7439011.08630K562WDR43
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 CLCN3 is not available on ENCORE database.





6 RBPs can affect the splicing of CLCN3 :

Event TypeGene NameGene IDchrStrandExonStartExonEnd2ndExonStart2ndExonEndupstreamESupstreamEEdownstreamESdownstreamEEdPSIp-valueFDRis_includedCell LineAffected by RBPBound by RBP
SECLCN3ENSG00000109572.9chr4+1706389421706390181706342291706344461706410571706416960.247000.000000.00000includedK562SRSF1
SECLCN3ENSG00000109572.9chr4+170608808170608908170601200170601358170610193170610296-0.063000.004500.06817excludedK562SF3B4
SECLCN3ENSG00000109572.9chr4+1706389421706390181706342291706344461706410571706416960.125000.000290.03380includedHepG2DDX59
SECLCN3ENSG00000109572.9chr4+170608808170608908170601200170601358170610193170610381-0.051000.000040.00078excludedK562AQR
SECLCN3ENSG00000109572.9chr4+170608816170608908170601218170601358170610193170610381-0.085000.000010.00032excludedK562PUS1
SECLCN3ENSG00000109572.9chr4+1706389421706390181706342291706344461706410571706416960.124000.000350.01674includedK562TARDBP
A3SSCLCN3ENSG00000109572.9chr4+1706341951706343381706342291706343381706280181706284170.112000.000000.00000longerK562AQR
A3SSCLCN3ENSG00000109572.9chr4+1706132321706134711706132641706134711706116801706118030.055000.000120.00106longerK562AQR
A3SSCLCN3ENSG00000109572.9chr4+1706167451706168431706167621706168431706132641706134710.074000.000010.00011longerK562AQR
A3SSCLCN3ENSG00000109572.9chr4+1706087871706089081706088081706089081706012001706013580.058000.000010.00006longerK562AQR
A3SSCLCN3ENSG00000109572.9chr4+170618339170618885170618746170618885170616699170616843-0.115000.003640.02184shorterK562AQR
MXECLCN3ENSG00000109572.9chr4+170616762170616843170618339170618885170613264170613471170625148170625335-0.130000.005730.076892includedK562PUS1
MXECLCN3ENSG00000109572.9chr4+170618339170618476170618746170618885170616699170616843170634229170634446-0.074000.001160.010392includedK562AQR

*: "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 CLCN3 is not avaliable on ENCORE database.