SMAD4

General Information

Gene Name : SMAD4
Gene ID : ENSG00000141646.13
Essential Gene : No

Functions

Not Available

Localization

Not Available

Domains (AlphaFold: SMAD4)

Not Available

Antibody Validation

Thermo Fisher: 701682

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	SMAD4	ENSG00000141646.13	44.25	31.09	37.67	ENCSR000AEF
HepG2	SMAD4	ENSG00000141646.13	48.72	52.43	50.58	ENCSR985KAT
K562	SMAD4	ENSG00000141646.13	25.01	26.47	25.74	ENCSR000AEO

Assays

2 Released experiments are available on ENCORE database.

Assay Type	Exp_Name	ENCODE ID	Target label	Biosample	Status	Linked Antibody	Controls	Method	Note
knockdown followed by RNA-seq	SMAD4-BGKcLV17-K562	ENCSR965MSX	SMAD4	K562	Released		ENCSR516TLX	CRISPR	KD% = 68.9,79.5
knockdown followed by RNA-seq	SMAD4-BGHcLV18-HepG2	ENCSR700FWD	SMAD4	HepG2	Released		ENCSR670KAS	CRISPR	KD% = 91.5,90.3

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
SMAD4	ENCAB628ZTV	701682	2023880			Released, ENCODE4	BGHcLV18-45, Released, ENCODE4	BGKcLV17-47, Released, ENCODE4

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project	Note
SMAD4	K562	CRISPR	ENCSR965MSX	ENCSR516TLX	SMAD4-BGKcLV17-47,SMAD4-BGKcLV17-48	NT-BGKcLV17-1,NT-BGKcLV17-2	68.9,79.5	Released	ENCODE4
SMAD4	HepG2	CRISPR	ENCSR700FWD	ENCSR670KAS	SMAD4-BGHcLV18-45,SMAD4-BGHcLV18-46	NT-BGHcLV18-1,NT-BGHcLV18-2	91.5,90.3	Released	ENCODE4

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

No Localization Information available

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
SMAD4	Product_ID: 701682 Lot_ID: 2023880 Source: Thermo Fisher Target Name: SMAD4-human

Summary
Proteins Bound to RBP RNA

RNA Targets

eCLIP assay for SMAD4 is not avaliable on ENCORE database.

Proteins bound to RNA

SMAD4 RNA is bound by 24 proteins.

CanvasJS.com

eCLIP assay for SMAD4 is not avaliable on ENCORE database.

24 proteins are bound to SMAD4 RNA:

Show entries

Search:

Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr18	48556819	48556946	+	5'-UTR,intron-Distal	3.51662	20.03640	HepG2	DDX3X
chr18	48556694	48556819	+	5'-UTR,intron-Distal,intron-Proximal	3.12950	19.54534	HepG2	DDX3X
chr18	48610879	48610961	+	3'-UTR	5.13222	13.97136	K562	FAM120A
chr18	48561544	48561631	+	intron-Distal	4.79331	10.89104	HepG2	PTBP1
chr18	48581288	48581329	+	3'-UTR,CDS	3.53133	9.83933	K562	YBX3
chr18	48568696	48568778	+	intron-Distal	5.83583	9.42242	HepG2	PCBP2
chr18	48581263	48581288	+	3'-UTR,CDS	3.74955	9.26008	K562	YBX3
chr18	48591676	48591745	+	intron-Distal,intron-Proximal	4.70134	9.01206	HepG2	U2AF2
chr18	48557004	48557060	+	intron-Distal,intron-Proximal	4.46818	8.44359	HepG2	EFTUD2
chr18	48603036	48603090	+	3'-UTR,CDS	3.49427	8.28018	K562	YBX3
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 58 entries

eCLIP assay for SMAD4 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout assay for SMAD4 is not available on ENCORE database.
79 RBPs can affect the levels of SMAD4.

CanvasJS.com

The Knockdown/knockout RNA-Seq assay for SMAD4 is not available on ENCORE database.

79 RBPs can affect the gene expression of SMAD4 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
SMAD4	ENSG00000141646.9	665.29630	1168.78360	-0.81290	18.12700	16.84890	HepG2	TRIM56
SMAD4	ENSG00000141646.9	732.07920	1192.18420	-0.70350	14.24190	12.95520	HepG2	HNRNPU
SMAD4	ENSG00000141646.9	1368.15820	1992.41870	-0.54230	12.96670	11.78580	HepG2	SUCLG1
SMAD4	ENSG00000141646.9	696.68110	1061.69670	-0.60780	10.77000	9.62840	HepG2	SAFB2
SMAD4	ENSG00000141646.9	872.48710	1238.12460	-0.50500	9.51600	8.43680	HepG2	SMN1
SMAD4	ENSG00000141646.9	733.96260	1059.24750	-0.52930	9.18410	8.07740	HepG2	DNAJC2
SMAD4	ENSG00000141646.9	1373.38710	2218.07640	-0.69160	8.14170	7.11970	HepG2	DDX3X
SMAD4	ENSG00000141646.9	1272.40630	1746.12300	-0.45660	7.79250	6.85640	HepG2	PCBP1
SMAD4	ENSG00000141646.9	1304.09170	2102.92390	-0.68940	7.78870	6.75160	HepG2	NCBP2
SMAD4	ENSG00000141646.9	902.29120	1341.92050	-0.57260	7.26830	6.13140	K562	SRSF1
Gene Name	Gene ID	KDMean	CNMean	log2(fold change)	-log(pval)	-log(padj)	Cell Line	Affected by RBP	Bound by RBP

Showing 1 to 10 of 85 entries

*: "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 SMAD4 is not available on ENCORE database.

4 RBPs can affect the splicing of SMAD4 :

Show entries

Search:

Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	p-value	FDR	is_included	Cell Line	Affected by RBP
SE	SMAD4	ENSG00000141646.9	chr18	+	48603676	48603789	48603007	48603146	48604625	48605240	0.29400	0.00021	0.00576	included	K562	SRSF1
SE	SMAD4	ENSG00000141646.9	chr18	+	48584494	48584614	48581150	48581363	48586235	48586286	-0.27500	0.00038	0.00913	excluded	HepG2	U2AF1
SE	SMAD4	ENSG00000141646.9	chr18	+	48603676	48603789	48603007	48603146	48604625	48605240	0.12400	0.00042	0.01253	included	HepG2	SRSF1
SE	SMAD4	ENSG00000141646.9	chr18	+	48603676	48603789	48603007	48603146	48604625	48605240	0.29700	0.00125	0.02320	included	K562	HNRNPC
SE	SMAD4	ENSG00000141646.9	chr18	+	48603676	48603789	48603007	48603146	48604625	48605240	0.08200	0.00318	0.06793	included	HepG2	HNRNPK

Showing 1 to 5 of 5 entries

*: "Inf" was shown as "99999.99999" and "-Inf" was shown as "-99999.99999".
**: "-log(0)" was displayed as "99999.99999".

SMAD4

General Information

Functions

Localization

Domains (AlphaFold: SMAD4)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

eCLIP assay for SMAD4 is not avaliable on ENCORE database.

24 proteins are bound to SMAD4 RNA:

eCLIP assay for SMAD4 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout RNA-Seq assay for SMAD4 is not available on ENCORE database.

79 RBPs can affect the gene expression of SMAD4 :

The Knockdown/knockout RNA-Seq assay for SMAD4 is not available on ENCORE database.

4 RBPs can affect the splicing of SMAD4 :

The Knockdown/knockout RNA-Seq assay for SMAD4 is not avaliable on ENCORE database.