UPF3B

General Information

Gene Name       : UPF3B
Gene ID             : ENSG00000125351.11
Essential Gene : No

Functions

Localization

Domains (AlphaFold: UPF3B)


Antibody Validation

Expression Level in Cell lines

Cell Line Gene Name Ensembl ID Rep1 TPM Rep2 TPM Average TPM Experiment ID
Gm12878UPF3BENSG00000125351.1127.8624.0425.95ENCSR000AEF
HepG2UPF3BENSG00000125351.117.4012.009.70ENCSR985KAT
K562UPF3BENSG00000125351.1131.8138.3335.07ENCSR000AEO

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 UPF3B is not avaliable on ENCORE database.



Proteins bound to RNA
  • UPF3B RNA is bound by 19 proteins.  







eCLIP assay for UPF3B is not avaliable on ENCORE database.





19 proteins are bound to UPF3B RNA:

Chr Start End Strand Matched Area log2(fold change) -log(p-value) Cell Line Binding Protein Name
chrX118968819118968834-3'-UTR,intron-Distal3.967585.85226K562UCHL5
chrX118986803118986944-5'-UTR,CDS,intron-Distal3.536903.40404HepG2NCBP2
chrX118986827118986953-5'-UTR,CDS,intron-Distal4.329778.96385K562DDX3X
chrX118986873118986910-5'-UTR,CDS,intron-Distal4.305548.63879K562UCHL5
chrX118986816118986928-5'-UTR,CDS,intron-Distal4.098323.62765K562SRSF1
chrX118986818118986905-5'-UTR,CDS,intron-Distal3.708738.93089K562ZNF622
chrX118986898118986944-5'-UTR,intron-Distal3.579874.51666K562RBM15
chrX118986801118986895-5'-UTR,CDS,intron-Distal3.462544.40421K562MTPAP
chrX118971924118972000-CDS,intron-Distal5.6932011.46752K562TRA2A
chrX118971989118972036-CDS,intron-Distal,intron-Proximal3.683426.32052K562AQR
chrX118968920118968977-CDS,intron-Distal3.923077.10975K562UCHL5
chrX118985779118985785-CDS,intron-Distal3.617364.40383K562UCHL5
chrX118972402118972485-CDS,intron-Distal3.007854.42779K562GRWD1
chrX118971772118971836-CDS,intron-Distal4.599483.56104K562CPSF6
chrX118971778118971924-CDS,intron-Distal5.7858514.02222K562TRA2A
chrX118975142118975212-CDS,intron-Distal4.452335.64533K562TRA2A
chrX118975041118975093-CDS,intron-Distal3.745487.17964K562ZNF800
chrX118975039118975082-CDS,intron-Distal4.7232111.76941K562UCHL5
chrX118974626118974692-CDS,intron-Distal,intron-Proximal3.337525.03897K562PRPF8
chrX118975039118975094-CDS,intron-Distal3.254964.63145K562BUD13
chrX118974630118974684-CDS,intron-Distal,intron-Proximal3.450884.63311K562AQR
chrX118972407118972444-CDS,intron-Distal3.548043.66187K562ZNF622
chrX118986797118986835-CDS,intron-Distal4.434839.20390K562UCHL5
chrX118971969118972037-CDS,intron-Distal,intron-Proximal5.6445211.60096HepG2AQR
chrX118985462118985500-CDS,intron-Distal3.635626.43326K562UCHL5
chrX118975042118975052-CDS,intron-Distal4.255564.10264K562ZNF622
chrX118972407118972469-CDS,intron-Distal4.326226.97648K562ZNF800
chrX118971771118971960-CDS,intron-Distal3.113173.76399K562SRSF7
chrX118985520118985638-CDS,intron-Distal,intron-Proximal3.238934.65237HepG2U2AF2
chrX118972308118972331-CDS,intron-Distal,intron-Proximal5.162636.83960K562AQR
chrX118986736118986813-CDS,intron-Distal3.359527.33292K562ZNF622
chrX118972457118972490-CDS,intron-Distal3.016953.41438K562BUD13
chrX118971908118971964-CDS,intron-Distal3.772283.16390K562SRSF1
chrX118972255118972284-intron-Distal,intron-Proximal3.679315.35619K562AQR
chrX118985587118985679-intron-Distal,intron-Proximal4.010276.19377K562KHSRP
chrX118972284118972308-intron-Distal,intron-Proximal4.8695510.24966K562AQR
chrX118976503118976614-intron-Distal5.572257.07160K562EIF4G2
chrX118974779118974852-intron-Distal3.959323.02234K562KHSRP
chrX118986611118986692-intron-Distal4.378175.61554HepG2EFTUD2
chrX118977115118977152-intron-Distal,intron-Proximal4.819794.13847K562AQR
chrX118974984118975033-intron-Distal,intron-Proximal3.288113.47285K562PRPF8
ChrStartEndStrandMatched Arealog2(fold change)-log(p-value)Cell LineBinding Protein Name




eCLIP assay for UPF3B is not avaliable on ENCORE database.



Diffrential Expression

  • The Knockdown/knockout assay for UPF3B is not available on ENCORE database.

  • 63 RBPs can affect the levels of UPF3B.  








The Knockdown/knockout RNA-Seq assay for UPF3B is not available on ENCORE database.





63 RBPs can affect the gene expression of UPF3B :

Gene NameGene IDKDMeanCNMeanlog2(fold change) *-log(pval) **-log(padj) **Cell LineAffected by RBPBound by RBP
UPF3BENSG00000125351.6256.35320519.36630-1.0186010.494809.42720HepG2BOP1
UPF3BENSG00000125351.6266.29720420.34570-0.658506.378105.31870HepG2DAZAP1
UPF3BENSG00000125351.6326.24490235.652300.469202.338901.70850HepG2DDX21
UPF3BENSG00000125351.6119.91480209.09660-0.802204.563403.67790HepG2DNAJC21
UPF3BENSG00000125351.6145.52520207.28820-0.510401.940501.37660HepG2DNAJC2
UPF3BENSG00000125351.6318.69880482.42250-0.598105.259204.47710HepG2ETF1
UPF3BENSG00000125351.6253.01490540.51750-1.0951010.079908.91200HepG2GPKOW
UPF3BENSG00000125351.6211.11370283.24100-0.424002.287601.39280HepG2HDGF
UPF3BENSG00000125351.6296.95530386.30800-0.379502.201201.35780HepG2HNRNPA2B1
UPF3BENSG00000125351.6255.40570382.90380-0.584204.746103.88030HepG2HNRNPL
UPF3BENSG00000125351.6291.61020515.82450-0.822806.597305.67110HepG2HNRNPLL
UPF3BENSG00000125351.6420.25730233.150300.849906.149705.17910HepG2MAGOH
UPF3BENSG00000125351.6365.37250234.462000.639903.303002.61940HepG2MATR3
UPF3BENSG00000125351.6415.81120278.312900.579104.931403.92900HepG2PRPF4
UPF3BENSG00000125351.6303.29630397.88420-0.391602.010101.49060HepG2PUF60
UPF3BENSG00000125351.6325.14010422.37040-0.377402.626302.04520HepG2PUM1
UPF3BENSG00000125351.6286.86760422.06260-0.557103.878803.08810HepG2PUM2
UPF3BENSG00000125351.6220.77860302.18560-0.452802.710202.09870HepG2PUS1
UPF3BENSG00000125351.6149.24470225.69200-0.596702.550501.64620HepG2SERBP1
UPF3BENSG00000125351.6283.15600510.57250-0.850507.481406.37130HepG2SF3B1
UPF3BENSG00000125351.6302.42670381.50640-0.335101.934501.32940HepG2SLBP
UPF3BENSG00000125351.6551.61690308.456800.838509.911009.13960HepG2SRSF1
UPF3BENSG00000125351.6296.47130392.85120-0.406102.531301.92800HepG2SRSF5
UPF3BENSG00000125351.6185.84210250.94960-0.433302.120001.62390HepG2SRSF9
UPF3BENSG00000125351.6554.01040395.399400.486504.459903.84020HepG2SSB
UPF3BENSG00000125351.6182.73750267.90740-0.552002.423401.53910HepG2SUPT6H
UPF3BENSG00000125351.6303.99340502.73160-0.725705.703304.71820HepG2TARDBP
UPF3BENSG00000125351.6303.52390226.617300.421502.145601.69430HepG2TIAL1
UPF3BENSG00000125351.6160.81250228.69380-0.508002.637202.08340HepG2TRIM56
UPF3BENSG00000125351.6263.83120388.71400-0.559103.466502.47640HepG2TUFM
UPF3BENSG00000125351.6332.75000694.19140-1.060903.266102.19360HepG2U2AF2
UPF3BENSG00000125351.6387.08460262.559200.559902.406901.47660HepG2UPF2
UPF3BENSG00000125351.6519.63980312.301200.734507.385706.48490HepG2UTP3
UPF3BENSG00000125351.6421.75010258.948200.703603.501802.05930HepG2XRCC5
UPF3BENSG00000125351.6266.10090355.75930-0.418902.771902.22460HepG2ZNF622
UPF3BENSG00000125351.61032.089901881.24800-0.8661012.7528011.62540K562AQR
UPF3BENSG00000125351.61541.173102050.45760-0.411902.069901.32120K562BOP1
UPF3BENSG00000125351.61678.785503128.17910-0.897905.278403.75290K562CNOT7
UPF3BENSG00000125351.61686.381002012.03410-0.254702.543801.48330K562CPEB4
UPF3BENSG00000125351.6611.27980768.63080-0.330502.563401.55250K562CSTF2
UPF3BENSG00000125351.6604.68100888.17600-0.554704.832203.06740K562DDX27
UPF3BENSG00000125351.6671.29830880.73910-0.391803.260402.12180K562DDX3X
UPF3BENSG00000125351.63381.075702082.065000.6994020.9103019.27550K562DDX47
UPF3BENSG00000125351.6653.54650931.20160-0.510803.809001.81730K562DDX51
UPF3BENSG00000125351.61276.791201028.629100.311702.720701.93010K562EIF3G
UPF3BENSG00000125351.61225.870801719.86080-0.488502.837101.97730K562FIP1L1
UPF3BENSG00000125351.61397.461501066.822100.389402.229301.60440K562G3BP2
UPF3BENSG00000125351.61194.312501469.36560-0.299003.025401.83230K562GLRX3
UPF3BENSG00000125351.61217.590402081.81120-0.773805.042503.97500K562GPKOW
UPF3BENSG00000125351.61374.441601907.51650-0.472803.033402.24410K562GRSF1
UPF3BENSG00000125351.6705.80820978.13020-0.470802.754002.15850K562HNRNPC
UPF3BENSG00000125351.61228.409801881.59210-0.615209.020807.02880K562HNRNPL
UPF3BENSG00000125351.61000.692901318.11520-0.397502.513801.55080K562IGF2BP2
UPF3BENSG00000125351.61086.891501382.33590-0.346903.110102.12820K562MATR3
UPF3BENSG00000125351.61456.423701716.51860-0.237103.351202.53650K562NSUN2
UPF3BENSG00000125351.61137.83320938.728200.277402.250501.52800K562POLR2G
UPF3BENSG00000125351.61430.557401952.21500-0.448502.916202.07120K562PPIG
UPF3BENSG00000125351.61065.459701345.78340-0.337003.069702.37430K562PTBP1
UPF3BENSG00000125351.61219.693701557.52870-0.352702.776302.23250K562PUS1
UPF3BENSG00000125351.61020.028801290.37860-0.339202.621101.80460K562RBM22
UPF3BENSG00000125351.6609.95730799.81990-0.391002.267501.37480K562RCC2
UPF3BENSG00000125351.61732.20320854.704801.0190011.090609.42300K562RPS19
UPF3BENSG00000125351.61830.048402849.13150-0.638603.297301.61720K562SBDS
UPF3BENSG00000125351.6430.65850718.02080-0.737504.879502.80710K562SERBP1
UPF3BENSG00000125351.6987.778001693.66270-0.7779018.0955016.15540K562SF3A3
UPF3BENSG00000125351.6655.296501109.75300-0.7600011.9736010.11310K562SF3B4
UPF3BENSG00000125351.62017.906001319.330100.613009.578308.27540K562SRSF1
UPF3BENSG00000125351.61364.10830941.535600.534806.994805.67220K562SYNCRIP
UPF3BENSG00000125351.6886.290101335.21850-0.591206.250005.14880K562TARDBP
UPF3BENSG00000125351.6967.133001287.97680-0.413304.201203.16180K562TIA1
UPF3BENSG00000125351.6681.87790895.80660-0.393702.152901.33470K562TRIM56
UPF3BENSG00000125351.61878.597501619.425700.214102.053701.31700K562WDR43
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 UPF3B is not available on ENCORE database.





26 RBPs can affect the splicing of UPF3B :

Event TypeGene NameGene IDchrStrandExonStartExonEnd2ndExonStart2ndExonEndupstreamESupstreamEEdownstreamESdownstreamEEdPSIp-valueFDRis_includedCell LineAffected by RBPBound by RBP
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.223000.000000.00000excludedK562FTO
SEUPF3BENSG00000125351.6chrX-118975697118975741118975038118975221118977153118977264-0.065000.000610.01403excludedK562SF3B4
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.187000.000110.00656excludedK562PRPF8
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.136000.000020.00142excludedK562AKAP8L
SEUPF3BENSG00000125351.6chrX-118974556118974647118972228118972490118975038118975245-0.111000.000180.04697excludedK562METAP2
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975274-0.347000.000000.00000excludedK562AQR
SEUPF3BENSG00000125351.6chrX-118975697118975741118975038118975221118977153118977264-0.065000.000200.00306excludedK562AQR
SEUPF3BENSG00000125351.6chrX-118985457118985564118979160118979259118985729118985836-0.083000.000170.00267excludedK562AQR
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.286000.000000.00000excludedK562HNRNPA1
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.172000.000000.00001excludedK562PUS1
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.197000.000000.00044excludedK562MTPAP
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.188000.000010.00430excludedK562GPKOW
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.202000.000090.00763excludedK562EFTUD2
SEUPF3BENSG00000125351.6chrX-118975697118975741118975038118975221118977153118977264-0.083000.000100.00336excludedK562U2AF1
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.172000.000000.00004excludedK562U2AF1
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.152000.000470.06396excludedK562HNRNPM
SEUPF3BENSG00000125351.6chrX-118974556118974647118972228118972490118975038118975221-0.120000.000570.04284excludedK562HNRNPL
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.114000.000460.01885excludedK562UTP18
SEUPF3BENSG00000125351.6chrX-118975697118975741118975038118975221118977153118977264-0.052000.003270.05181excludedK562U2AF2
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.232000.000000.00000excludedK562U2AF2
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.198000.000010.00055excludedK562HNRNPU
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.126000.000110.00467excludedK562RBM15
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.122000.000250.00927excludedK562AGGF1
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.214000.000000.00000excludedK562CPSF6
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975245-0.252000.000000.00000excludedK562SF3B1
SEUPF3BENSG00000125351.6chrX-118974608118974647118972329118972490118975038118975221-0.218000.000000.01586excludedK562DDX3X
A3SSUPF3BENSG00000125351.6chrX-1189771531189773271189771531189772641189791601189792860.074000.000000.00000longerK562AQR
A3SSUPF3BENSG00000125351.6chrX-1189750381189752451189750381189752211189756971189757410.135000.000000.00000longerK562AQR
A3SSUPF3BENSG00000125351.6chrX-1189791601189792861189791601189792591189854571189855640.129000.000000.00000longerK562AQR
MXEUPF3BENSG00000125351.6chrX-118977153118977264118979160118979259118975038118975221118985457118985564-0.092000.002620.090762includedK562SF3B1
MXEUPF3BENSG00000125351.6chrX-1189756971189757411189771531189773271189750381189752211189791601189792590.059000.000040.000501includedK562AQR
MXEUPF3BENSG00000125351.6chrX-1189756971189757411189771531189773011189750381189752211189791601189792590.083000.000000.000001includedK562AQR
MXEUPF3BENSG00000125351.6chrX-1189771531189772641189791601189792861189756971189757411189854571189855640.080000.000890.008241includedK562AQR
MXEUPF3BENSG00000125351.6chrX-118977153118977264118979160118979259118975697118975741118985457118985564-0.097000.001530.020992includedHepG2SFPQ
MXEUPF3BENSG00000125351.6chrX-118975697118975741118977153118977264118975038118975221118979160118979217-0.131000.000000.000112includedHepG2SFPQ
MXEUPF3BENSG00000125351.6chrX-118975697118975741118977153118977264118975038118975221118979160118979217-0.141000.000000.000102includedHepG2RBFOX2
MXEUPF3BENSG00000125351.6chrX-1189756971189757411189771531189772641189750381189752211189791601189792170.080000.004540.081871includedK562SBDS
MXEUPF3BENSG00000125351.6chrX-118977153118977264118979160118979259118975038118975221118985457118985564-0.111000.000600.089242includedK562GPKOW
MXEUPF3BENSG00000125351.6chrX-1189756971189757411189771531189772641189750381189752211189791601189792170.103000.008830.089211includedK562HNRNPUL1

*: "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 UPF3B is not avaliable on ENCORE database.