SMAD5

General Information

Gene Name       : SMAD5
Gene ID             : ENSG00000113658.17
Essential Gene : No

Functions

Localization

Domains (AlphaFold: SMAD5)


Antibody Validation

Expression Level in Cell lines

Cell Line Gene Name Ensembl ID Rep1 TPM Rep2 TPM Average TPM Experiment ID
Gm12878SMAD5ENSG00000113658.175.837.536.68ENCSR000AEF
HepG2SMAD5ENSG00000113658.1720.9122.4321.67ENCSR985KAT
K562SMAD5ENSG00000113658.1715.2413.6414.44ENCSR000AEO

Assays

2 Released experiments are available on ENCORE database.

Assay TypeExp_NameENCODE IDTarget labelBiosampleStatusLinked AntibodyControlsMethodNote
knockdown followed by RNA-seq SMAD5-BGKcLV19-K562ENCSR649MBUSMAD5K562ReleasedENCSR978MMZ   CRISPRKD% = 90.8,94.7
knockdown followed by RNA-seq SMAD5-BGHcLV18-HepG2ENCSR383QYTSMAD5HepG2ReleasedENCSR670KAS   CRISPRKD% = 75.5,85.5






  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  
SMAD5ENCAB746HXR39-5700SA247535Released, ENCODE4BGHcLV18-47, Released, ENCODE4BGKcLV19-47, Released, ENCODE4


  KD RNA-Seq  
  GeneName    Cell_Line    Method    Exp_ID    Control_ID    Sample_reps    Control_reps    KD%    Status    Project    Note  
SMAD5K562CRISPRENCSR649MBUENCSR978MMZSMAD5-BGKcLV19-47,SMAD5-BGKcLV19-48NT-BGKcLV19-1,NT-BGKcLV19-290.8,94.7ReleasedENCODE4
SMAD5HepG2CRISPRENCSR383QYTENCSR670KASSMAD5-BGHcLV18-47,SMAD5-BGHcLV18-48NT-BGHcLV18-1,NT-BGHcLV18-275.5,85.5ReleasedENCODE4


  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
SMAD5Product_ID: 39-5700
Lot_ID: SA247535
Source: Thermo Fisher
Target Name: SMAD5-human		 SMAD5-HEPG2-CRISPR-39-5700.png<br>Caption: Western blot following CRISPR against SMAD5 in HepG2 whole cell lysate using SMAD5 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against SMAD5. SMAD5 protein appears as the green arrow, GAPDH serves as a control and appears in red arrow.
 ThermoFisher_39-5700_SA247535_SMAD5.png<br>Caption: IP-WB analysis of K562 whole cell lysate using the SMAD5 specific antibody, 39-5700. Lane 1 is 2.5% of five million whole cell lysate input. Lanes 2 and 3 are 50% of IP enrichment from five million whole cell lysate using normal IgG antibody and the SMAD5-specific antibody, 39-5700. 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.
 SMAD5-K562-CRISPR-39-5700.png<br>Caption: Western blot following CRISPR against SMAD5 in K562 whole cell lysate using SMAD5 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against SMAD5. SMAD5 protein appears as the green arrow, GAPDH serves as a control and appears in red arrow.








RNA Targets

  • eCLIP assay for SMAD5 is not avaliable on ENCORE database.



Proteins bound to RNA
  • SMAD5 RNA is bound by 20 proteins.  







eCLIP assay for SMAD5 is not avaliable on ENCORE database.





20 proteins are bound to SMAD5 RNA:

Chr Start End Strand Matched Area log2(fold change) -log(p-value) Cell Line Binding Protein Name
chr5135518300135518327+3'-UTR,intron-Distal4.110987.26586K562KHSRP
chr5135518232135518309+3'-UTR,intron-Distal3.842193.01017K562CPSF6
chr5135518299135518380+3'-UTR,intron-Distal3.039524.14643HepG2KHSRP
chr5135518327135518394+3'-UTR,intron-Distal5.308718.94695K562KHSRP
chr5135515220135515288+3'-UTR,intron-Distal3.238303.59190K562TIA1
chr5135518300135518387+3'-UTR,intron-Distal4.997825.29571HepG2FUBP3
chr5135513197135513303+3'-UTR,intron-Distal3.526966.99379K562TIA1
chr5135489280135489318+3'-UTR,5'-UTR,intron-Distal,intron-Proximal3.102883.94979HepG2BCLAF1
chr5135508361135508440+3'-UTR,CDS,intron-Proximal3.182286.42458K562KHSRP
chr5135489280135489301+3'-UTR,5'-UTR,intron-Distal,intron-Proximal3.485904.20387K562ZNF622
chr5135489318135489413+3'-UTR,5'-UTR,intron-Distal3.1947510.21526HepG2BCLAF1
chr5135518116135518299+3'-UTR,intron-Distal3.624815.90314HepG2KHSRP
chr5135515204135515307+3'-UTR,intron-Distal3.483813.23424HepG2FUBP3
chr5135513192135513261+3'-UTR,intron-Distal4.031013.55542HepG2TIAL1
chr5135513860135513940+3'-UTR,intron-Distal4.328135.33201K562IGF2BP1
chr5135468605135468651+5'-UTR3.086923.84771K562ZNF622
chr5135468544135468652+5'-UTR,intron-Proximal4.9482912.39129K562DDX3X
chr5135468623135468726+5'-UTR,intron-Proximal3.421107.89388HepG2PRPF8
chr5135496680135496772+CDS,intron-Distal3.392035.12480HepG2HNRNPK
chr5135508122135508167+CDS,intron-Proximal4.460648.85766HepG2BCLAF1
chr5135510140135510232+CDS3.152304.23325HepG2BCLAF1
chr5135496683135496789+CDS,intron-Distal3.2652111.65508HepG2U2AF2
chr5135508122135508166+CDS,intron-Proximal4.255564.21675K562ZNF622
chr5135499032135499081+CDS,intron-Distal,intron-Proximal4.372827.97334HepG2BCLAF1
chr5135489555135489646+CDS,intron-Distal3.928796.39464HepG2BCLAF1
chr5135510018135510095+CDS,intron-Proximal4.421267.08280K562SF3B4
chr5135489832135489864+CDS,intron-Distal,intron-Proximal5.9227315.81093HepG2PRPF8
chr5135496658135496771+CDS,intron-Distal4.2867016.41573HepG2PCBP2
chr5135510290135510324+CDS,intron-Proximal4.241303.89826HepG2BCLAF1
chr5135489474135489568+CDS,intron-Distal3.485626.14048K562ZNF622
chr5135489455135489555+CDS,intron-Distal3.123207.90382HepG2BCLAF1
chr5135489722135489767+CDS,intron-Distal3.201344.02686HepG2U2AF2
chr5135508184135508294+CDS5.080346.58593HepG2BCLAF1
chr5135499044135499081+CDS,intron-Distal,intron-Proximal4.333623.77023K562ZNF622
chr5135470735135470809+intron-Distal5.5198311.86869HepG2HNRNPM
chr5135518433135518538+intron-Distal4.894568.38423HepG2CSTF2
chr5135491585135491627+intron-Distal3.058033.35050HepG2SUGP2
chr5135491535135491567+intron-Distal3.957213.63454HepG2SUGP2
chr5135491126135491194+intron-Distal3.486664.33009HepG2SUGP2
chr5135468671135468775+intron-Distal,intron-Proximal4.104019.68074HepG2EFTUD2
chr5135489864135489885+intron-Distal,intron-Proximal6.7528513.87810HepG2PRPF8
chr5135490468135490521+intron-Distal4.478283.62238HepG2MATR3
chr5135491367135491432+intron-Distal3.079775.10681HepG2SUGP2
chr5135479193135479266+intron-Distal3.196983.10961HepG2MATR3
chr5135490568135490644+intron-Distal3.875843.23532K562MATR3
chr5135490577135490662+intron-Distal3.530126.50485HepG2SUGP2
chr5135490487135490533+intron-Distal3.681925.08575HepG2SUGP2
chr5135490005135490057+intron-Distal3.258803.59523HepG2SUGP2
chr5135490412135490468+intron-Distal3.121673.93186HepG2MATR3
chr5135490889135490942+intron-Distal4.641836.62827HepG2SUGP2
chr5135490211135490274+intron-Distal4.494045.31529HepG2SUGP2
chr5135490416135490487+intron-Distal3.338468.52173HepG2SUGP2
chr5135490714135490766+intron-Distal4.482535.83842HepG2SUGP2
chr5135491210135491275+intron-Distal3.687555.79523HepG2SUGP2
chr5135503555135503627+intron-Distal4.901725.18400HepG2ILF3
ChrStartEndStrandMatched Arealog2(fold change)-log(p-value)Cell LineBinding Protein Name




eCLIP assay for SMAD5 is not avaliable on ENCORE database.



Diffrential Expression

  • The Knockdown/knockout assay for SMAD5 is not available on ENCORE database.

  • 88 RBPs can affect the levels of SMAD5.  








The Knockdown/knockout RNA-Seq assay for SMAD5 is not available on ENCORE database.





88 RBPs can affect the gene expression of SMAD5 :

Gene NameGene IDKDMeanCNMeanlog2(fold change) *-log(pval) **-log(padj) **Cell LineAffected by RBPBound by RBP
SMAD5ENSG00000113658.121351.176802076.91760-0.620205.483404.76430HepG2AKAP1
SMAD5ENSG00000113658.121920.378202235.84260-0.219402.340901.70010HepG2AUH
SMAD5ENSG00000113658.12884.230201445.19960-0.708806.200004.77400HepG2BCCIP
SMAD5ENSG00000113658.12960.711301255.84520-0.386502.207401.40410HepG2BCLAF1
SMAD5ENSG00000113658.12851.789801599.00150-0.9086021.6389020.17230HepG2CKAP4
SMAD5ENSG00000113658.121350.525802460.17320-0.865207.290206.05380HepG2CNOT7
SMAD5ENSG00000113658.12871.690801347.80560-0.628706.635205.60430HepG2CPSF6
SMAD5ENSG00000113658.121571.013401865.61790-0.248002.754102.11240HepG2CELF1
SMAD5ENSG00000113658.121595.517202006.17240-0.330406.117105.07540HepG2DAZAP1
SMAD5ENSG00000113658.121294.939901989.65910-0.619605.550204.69190HepG2DDX3X
SMAD5ENSG00000113658.121003.413501260.80940-0.329402.553201.61060HepG2DHX30
SMAD5ENSG00000113658.12898.403701307.24400-0.541108.229907.07070HepG2DNAJC21
SMAD5ENSG00000113658.12706.237901295.58730-0.8754025.3667023.58260HepG2DNAJC2
SMAD5ENSG00000113658.12967.843901241.27590-0.359002.356001.50320HepG2EEF2
SMAD5ENSG00000113658.121279.624301643.06480-0.360702.429901.87250HepG2EIF2S1
SMAD5ENSG00000113658.121326.628001007.683100.396603.168102.20790HepG2EIF3D
SMAD5ENSG00000113658.122821.123301767.779900.674205.235104.30950HepG2EIF4B
SMAD5ENSG00000113658.12782.814101151.20980-0.556405.103002.81690HepG2EXOSC9
SMAD5ENSG00000113658.12571.25340900.53200-0.656608.236106.19540HepG2FAM120A
SMAD5ENSG00000113658.121436.427401831.75120-0.350702.510701.85010HepG2FXR1
SMAD5ENSG00000113658.121313.476001699.45020-0.371702.500101.86600HepG2G3BP1
SMAD5ENSG00000113658.12653.10870897.22460-0.458103.549302.52140HepG2GEMIN5
SMAD5ENSG00000113658.121145.231801527.89640-0.415902.942402.28420HepG2GPKOW
SMAD5ENSG00000113658.121138.019001467.95860-0.367303.105102.37590HepG2HNRNPC
SMAD5ENSG00000113658.121471.487302130.97920-0.534203.796902.00210HepG2HNRNPD
SMAD5ENSG00000113658.121398.815201827.52260-0.385707.633906.56460HepG2HNRNPL
SMAD5ENSG00000113658.12746.261401458.25610-0.9665028.2480026.47780HepG2HNRNPU
SMAD5ENSG00000113658.121104.001101489.56680-0.432208.324007.11870HepG2ILF2
SMAD5ENSG00000113658.121218.256801461.94630-0.263102.833601.80600HepG2KIF1C
SMAD5ENSG00000113658.121133.368901875.18930-0.726404.170502.62640HepG2KRR1
SMAD5ENSG00000113658.121356.593101832.38870-0.433703.474002.73750HepG2MAGOH
SMAD5ENSG00000113658.12752.392401487.27660-0.9831018.8890017.01120HepG2MSI2
SMAD5ENSG00000113658.12990.699001248.92980-0.334202.839001.61080HepG2NAA15
SMAD5ENSG00000113658.121212.560301989.30700-0.7142014.8576013.15540HepG2NOL12
SMAD5ENSG00000113658.12850.093501443.47100-0.7638017.4031015.61050HepG2PARN
SMAD5ENSG00000113658.121027.902701300.65450-0.339503.627002.79450HepG2PPIL4
SMAD5ENSG00000113658.121078.239101632.80750-0.5987011.5348010.56890HepG2PTBP1
SMAD5ENSG00000113658.121539.836901898.91900-0.302402.685802.09710HepG2PUF60
SMAD5ENSG00000113658.121769.419102015.72940-0.188002.556401.98140HepG2PUM1
SMAD5ENSG00000113658.12756.932301628.86380-1.1056029.7371028.10790HepG2PUS1
SMAD5ENSG00000113658.122458.325401559.570600.656404.019103.17620HepG2RAVER1
SMAD5ENSG00000113658.12968.697502145.50750-1.1472029.2507027.92300HepG2RBM22
SMAD5ENSG00000113658.122284.658501604.871400.509406.976105.94490HepG2RBM25
SMAD5ENSG00000113658.122200.912801817.129400.276303.563802.96580HepG2NELFE
SMAD5ENSG00000113658.122024.423801507.945100.424804.187703.37480HepG2RPLP0
SMAD5ENSG00000113658.121525.686702470.19570-0.695206.190004.99920HepG2RPS3A
SMAD5ENSG00000113658.121500.097901084.517800.467903.800702.89770HepG2RRP9
SMAD5ENSG00000113658.121068.730601298.66370-0.281103.296202.60350HepG2SAFB2
SMAD5ENSG00000113658.122679.130801704.164000.652605.052104.12250HepG2SF3A3
SMAD5ENSG00000113658.121786.384401443.256800.307602.436101.77240HepG2SF3B1
SMAD5ENSG00000113658.122087.173101699.901700.296004.003703.31400HepG2SF3B4
SMAD5ENSG00000113658.121553.662401820.65030-0.228803.042102.31070HepG2SLBP
SMAD5ENSG00000113658.121192.368001514.49870-0.345005.279004.43900HepG2SMN1
SMAD5ENSG00000113658.122297.685301774.354500.372806.502105.85090HepG2SRSF1
SMAD5ENSG00000113658.122223.538601443.553600.6231016.7449015.59270HepG2SRSF9
SMAD5ENSG00000113658.121452.154302132.26540-0.5542014.4459013.20620HepG2SUCLG1
SMAD5ENSG00000113658.121225.257701893.21450-0.627802.939501.57070HepG2SUGP2
SMAD5ENSG00000113658.122261.075001594.928900.503408.791107.88310HepG2TAF15
SMAD5ENSG00000113658.121156.227701417.10930-0.293502.585302.09940HepG2TIAL1
SMAD5ENSG00000113658.121112.405201565.86940-0.493302.992901.46110HepG2TRA2A
SMAD5ENSG00000113658.121052.019201429.62590-0.442503.773303.13700HepG2TRIM56
SMAD5ENSG00000113658.121111.039101511.33180-0.443907.447506.39480HepG2UPF1
SMAD5ENSG00000113658.12906.941801295.45830-0.514402.509001.55620HepG2UPF2
SMAD5ENSG00000113658.121012.515101553.44620-0.6175011.972909.99580HepG2UTP18
SMAD5ENSG00000113658.121145.258801459.13320-0.349404.532403.79730HepG2UTP3
SMAD5ENSG00000113658.121299.726802212.54980-0.767507.046505.30200HepG2XPO5
SMAD5ENSG00000113658.12774.355201392.45720-0.846609.952708.59580HepG2XRN2
SMAD5ENSG00000113658.121722.047101183.041500.5415012.0749010.83780HepG2ZC3H8
SMAD5ENSG00000113658.121898.711001511.108200.329302.459401.64000K562BOP1
SMAD5ENSG00000113658.121631.778801226.673500.411602.689501.66930K562EIF3D
SMAD5ENSG00000113658.121220.444701586.55040-0.378502.073601.35920K562EIF4A3
SMAD5ENSG00000113658.121065.469801384.93960-0.378302.648701.38900K562EWSR1
SMAD5ENSG00000113658.121296.817701704.81020-0.394603.502302.53840K562FIP1L1
SMAD5ENSG00000113658.121353.46920881.588800.618406.080804.29110K562FKBP4
SMAD5ENSG00000113658.122049.399201634.892100.325902.564601.74190K562FMR1
SMAD5ENSG00000113658.121259.353901649.95720-0.389703.323302.66880K562FXR1
SMAD5ENSG00000113658.122344.752001705.572800.459102.817702.10230K562G3BP2
SMAD5ENSG00000113658.121578.336301978.08270-0.325703.026702.23800K562GRSF1
SMAD5ENSG00000113658.121105.590801402.29920-0.343002.142101.32910K562HNRNPM
SMAD5ENSG00000113658.121407.698802017.60710-0.519305.239503.91800K562MATR3
SMAD5ENSG00000113658.121860.886901625.716400.194802.481501.77040K562NSUN2
SMAD5ENSG00000113658.121365.217801935.39550-0.503505.360804.15820K562PPIG
SMAD5ENSG00000113658.12724.82640910.19790-0.328502.216401.41440K562PSIP1
SMAD5ENSG00000113658.12921.994401964.01980-1.0910016.2596014.71660K562PTBP1
SMAD5ENSG00000113658.121436.365501835.92060-0.354102.646001.31400K562RBM34
SMAD5ENSG00000113658.121461.002301101.028900.408003.415401.78730K562SDAD1
SMAD5ENSG00000113658.122101.913901604.109800.389805.668304.53140K562SF3A3
SMAD5ENSG00000113658.121952.322601459.024900.420103.166002.12380K562SF3B1
SMAD5ENSG00000113658.121337.019401948.73780-0.543504.195203.31870K562TARDBP
SMAD5ENSG00000113658.121448.374001879.72150-0.376103.306702.40090K562TIA1
SMAD5ENSG00000113658.122254.266301653.605300.446903.613202.32730K562U2AF1
SMAD5ENSG00000113658.122142.068301707.699600.326903.540202.63140K562U2AF2
SMAD5ENSG00000113658.121811.332901474.987800.296202.573101.72610K562WDR3
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 SMAD5 is not available on ENCORE database.





11 RBPs can affect the splicing of SMAD5 :

Event TypeGene NameGene IDchrStrandExonStartExonEnd2ndExonStart2ndExonEndupstreamESupstreamEEdownstreamESdownstreamEEdPSIp-valueFDRis_includedCell LineAffected by RBPBound by RBP
SESMAD5ENSG00000113658.12chr5+135488363135488447135483520135483595135489280135489418-0.292000.000310.01498excludedK562PRPF8
SESMAD5ENSG00000113658.12chr5+1354835201354835951354685331354686511354892801354898520.335000.000300.01480includedK562FXR1
SESMAD5ENSG00000113658.12chr5+135496713135496796135489280135489852135498960135499080-0.077000.000320.00652excludedK562PUS1
SESMAD5ENSG00000113658.12chr5+135483520135483595135468533135468651135489280135489852-0.484000.000000.00000excludedK562PUS1
SESMAD5ENSG00000113658.12chr5+135488363135488447135483520135483595135489280135489418-0.303000.000230.01646excludedK562EFTUD2
SESMAD5ENSG00000113658.12chr5+135496544135496796135489280135489852135498960135499080-0.369000.000000.00000excludedK562U2AF1
SESMAD5ENSG00000113658.12chr5+1354835201354835951354685331354686511354892801354898520.360000.000250.01574includedHepG2PCBP1
SESMAD5ENSG00000113658.12chr5+135483520135483595135468533135468651135489280135489852-0.240000.002740.07181excludedK562UTP18
SESMAD5ENSG00000113658.12chr5+135496544135496796135489280135489852135498960135499080-0.258000.000000.00000excludedK562U2AF2
SESMAD5ENSG00000113658.12chr5+135496713135496796135489280135489852135498960135499080-0.087000.000130.00551excludedK562RBM15
SESMAD5ENSG00000113658.12chr5+135483520135483595135468533135468651135489280135489852-0.284000.003280.06664excludedK562RBM15
SESMAD5ENSG00000113658.12chr5+135483520135483595135468533135468651135489280135489852-0.271000.002630.05763excludedK562AGGF1
MXESMAD5ENSG00000113658.12chr5+1354892801354898521354965441354967961354685351354686511354989601354990800.132000.000000.002311includedK562EXOSC5

*: "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 SMAD5 is not avaliable on ENCORE database.