CPEB4

General Information

Gene Name : CPEB4
Gene ID : ENSG00000113742.12
Essential Gene : No

Functions

3' end processing
Translation regulation

Localization(RBPImage: CPEB4)

Nuclei
Nucleoplasm
Mutually Exclusive from Nucleolus
Cytoplasm
Compartment/Organelle
Cytosolic

Domains (AlphaFold: CPEB4)

RRM

Antibody Validation

MBLI: RN040PW

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	CPEB4	ENSG00000113742.12	12.29	13.77	13.03	ENCSR000AEF
HepG2	CPEB4	ENSG00000113742.12	4.58	5.02	4.80	ENCSR985KAT
K562	CPEB4	ENSG00000113742.12	6.74	8.90	7.82	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
eCLIP	eCLIP: 700	ENCSR046JHH	CPEB4	K562	Released	ENCAB442TOR	ENCSR533BNK
knockdown followed by RNA-seq	CPEB4-BGKLV25-K562	ENCSR795VAK	CPEB4	K562	Released		ENCSR031RRO	shRNA	KD% = 75.1,88.2

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
CPEB4	700	K562	ENCSR046JHH	ENCSR533BNK	ENCAB442TOR	RN040PW	1	Released	ENCODE4

Antibody Validation

GeneName	Antibody_DCC_ID	Product_ID	Lot_ID	Phosphate	HepG2 Primary Validation	K562 Primary Validation	HepG2 Secondary Validation	K562 Secondary Validation
CPEB4	ENCAB442TOR	RN040PW	1			Released, ENCODE3		BGKLV25-7, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project
CPEB4	K562	shRNA	ENCSR795VAK	ENCSR031RRO	CPEB4_BGKLV25-7B,CPEB4_BGKLV25-8B	NT_BGKLV25-1B,NT_BGKLV25-2B	75.1,88.2	Released	ENCODE3
CPEB4	HepG2	shRNA			BGHLV22-7,BGHLV22-8	BGHLV22-1,BGHLV22-2	,NO CLEAR BAND	NotSatisfied	ENCODE3
CPEB4	HepG2	CRISPR			BGHcLV12-23,BGHcLV12-24	BGHcLV12-1,BGHcLV12-2	NO CLEAR band on the position,	NotSatisfied	ENCODE4
CPEB4	HepG2	CRISPR			BGHcLV12-25,BGHcLV12-26	BGHcLV12-1,BGHcLV12-2	NO CLEAR band on the position,	NotSatisfied	ENCODE4

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

CPEB4: Click to RBP Image Database

Nuclei

Nucleoplasm

Mutually Exclusive from Nucleolus

Cytoplasm

Compartment/Organelle

Cytosolic

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
CPEB4	Product_ID: RN040PW Lot_ID: 1 Source: MBLI Target Name: CPEB4-human

RNA Targets

CPEB4 protein binds to 180 RNA regions.

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Proteins bound to RNA

CPEB4 RNA is bound by 10 proteins.

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CPEB4 protein has 180 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
CPEB4	chr8	101715517	101715539	-	4.24795	400.00000	K562	PABPC1	3'-UTR,intron-Distal
CPEB4	chr1	182352794	182352878	-	5.64480	400.00000	K562	GLUL	3'-UTR,intron-Distal
CPEB4	chr1	145442567	145442616	+	6.59683	400.00000	K562	TXNIP	3'-UTR
CPEB4	chr8	101734182	101734194	-	4.46868	79.45084	K562	PABPC1	5'-UTR,intron-Distal,intron-Proximal
CPEB4	chr8	101734157	101734182	-	4.28307	78.78202	K562	PABPC1	5'-UTR,intron-Distal,intron-Proximal
CPEB4	chr8	101715539	101715586	-	3.26306	72.74331	K562	PABPC1	3'-UTR,intron-Distal
CPEB4	chr14	35871088	35871177	-	8.80673	64.00011	K562	NFKBIA	3'-UTR,intron-Distal,intron-Proximal
CPEB4	chr1	145442510	145442567	+	5.09196	60.61796	K562	TXNIP	3'-UTR
CPEB4	chr19	34882405	34882505	+	4.10236	57.03588	K562	GPI	intron-Distal
CPEB4	chr5	179046737	179046855	-	5.06221	50.81200	K562	HNRNPH1	intron-Distal,intron-Proximal

Showing 1 to 10 of 100 entries

10 proteins are bound to CPEB4 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr5	173351415	173351524	+	intron-Distal	4.40745	12.24524	HepG2	SUGP2
chr5	173350708	173350754	+	intron-Distal	5.69624	11.84639	HepG2	SUGP2
chr5	173385167	173385308	+	3'-UTR	4.95901	11.42666	K562	PUM2
chr5	173351608	173351677	+	intron-Distal	4.41477	8.81208	HepG2	SUGP2
chr5	173351677	173351777	+	intron-Distal	3.85134	8.74865	HepG2	SUGP2
chr5	173317300	173317345	+	CDS	3.73963	8.55955	K562	RBM15
chr5	173350838	173350900	+	intron-Distal	4.12773	7.29258	HepG2	SUGP2
chr5	173387116	173387230	+	3'-UTR	4.07659	7.17745	HepG2	FUBP3
chr5	173317568	173317621	+	CDS	4.08956	7.03491	K562	RBM15
chr5	173371949	173371995	+	CDS,intron-Proximal	5.24286	6.84553	HepG2	U2AF2
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 26 entries

No autoregularoty interactions between protein CPEB4 and its RNA.

Diffrential Expression

2,544 differentially expressed genes after Knockdown/Knockout CPEB4 protein.

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171 RBPs can affect the levels of CPEB4.

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2,544 differentially expressed genes after Knockdown/Knockout CPEB4 protein :

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Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
LCP2	ENSG00000043462.7	1426.02340	645.09170	1.14430	31.59190	28.33340	K562	CPEB4
RNASET2	ENSG00000026297.11	1928.21880	864.14390	1.15780	27.76570	24.63970	K562	CPEB4
CD44	ENSG00000026508.12	506.51120	121.13580	2.06390	26.55660	23.53210	K562	CPEB4
ITGA2B	ENSG00000005961.13	1143.76850	581.15540	0.97670	21.33150	18.54030	K562	CPEB4
TMSB10	ENSG00000034510.4	6450.89680	4570.18620	0.49710	12.91240	10.57220	K562	CPEB4
PIK3C2A	ENSG00000011405.9	1684.44780	2448.76250	-0.53980	10.85100	8.67420	K562	CPEB4
VIM	ENSG00000026025.9	11928.43950	8756.90200	0.44580	10.13260	8.02890	K562	CPEB4
SLC30A9	ENSG00000014824.9	2345.47900	3293.58700	-0.48980	9.66020	7.59400	K562	CPEB4
SEC63	ENSG00000025796.9	3703.90160	4972.93460	-0.42510	8.78650	6.80510	K562	CPEB4
STARD3NL	ENSG00000010270.9	586.23660	903.29400	-0.62370	8.62430	6.65260	K562	CPEB4
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 100 entries

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

171 RBPs can affect the gene expression of CPEB4 :

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Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
CPEB4	ENSG00000113742.8	2171.21310	534.50130	2.02210	76.17400	73.21620	K562	HNRNPC
CPEB4	ENSG00000113742.8	3621.09230	1535.44990	1.23770	62.87910	60.20070	K562	DDX47
CPEB4	ENSG00000113742.8	520.16950	1483.70660	-1.51220	53.96370	50.16100	K562	CPEB4
CPEB4	ENSG00000113742.8	3417.28480	1696.57810	1.01010	50.41320	48.97540	HepG2	SRFBP1
CPEB4	ENSG00000113742.8	3319.51900	1565.34620	1.08440	48.76130	46.51950	HepG2	AUH
CPEB4	ENSG00000113742.8	2813.40010	948.00490	1.56920	48.31880	46.42510	HepG2	BOP1
CPEB4	ENSG00000113742.8	744.71270	1762.07860	-1.24250	42.96000	41.40200	HepG2	NELFE
CPEB4	ENSG00000113742.8	2048.63210	914.65260	1.16330	41.54150	39.13020	HepG2	EIF4G1
CPEB4	ENSG00000113742.8	2111.14700	832.16550	1.34300	40.56170	38.15130	K562	PTBP1
CPEB4	ENSG00000113742.8	681.32090	1556.01840	-1.19150	39.74340	37.92550	HepG2	PCBP1
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 199 entries

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

34 alternative splicing events after Knockdown/Knockout CPEB4 protein :

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Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	2ndExonStart	2ndExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	p-value	FDR	is_included	Cell Line	Affected by RBP
SE	RPS24	ENSG00000138326.14	chr10	+	79799961	79799983			79796951	79797062	79800372	79800455	0.09000	0.00000	0.00048	included	K562	CPEB4
SE	DIAPH1	ENSG00000131504.11	chr5	-	140967790	140967817			140966608	140966764	140998364	140998622	0.28800	0.00000	0.00000	included	K562	CPEB4
SE	TXN2	ENSG00000100348.5	chr22	-	36872821	36872903			36863082	36863964	36876621	36876689	0.08800	0.00000	0.00193	included	K562	CPEB4
SE	GAS5	ENSG00000234741.3	chr1	-	173834608	173834685			173834366	173834420	173835898	173835934	0.08900	0.00000	0.00048	included	K562	CPEB4
SE	PTBP1	ENSG00000011304.12	chr19	+	805491	805569			805012	805187	806407	806556	-0.07700	0.00000	0.00601	excluded	K562	CPEB4
SE	PRKDC	ENSG00000253729.3	chr8	-	48694722	48694815			48691564	48691654	48694938	48695159	-0.07300	0.00000	0.00093	excluded	K562	CPEB4
SE	HIST1H2AC	ENSG00000180573.8	chr6	+	26127925	26127989			26124430	26124861	26138281	26139344	-0.08400	0.00000	0.00601	excluded	K562	CPEB4
MXE	KMT2D	ENSG00000167548.10	chr12	-	49435699	49435773	49435871	49436113	49435437	49435488	49436343	49436428	0.16800	0.00000	0.00833	1included	K562	CPEB4
MXE	H2AFY	ENSG00000113648.12	chr5	-	134686512	134686603	134688635	134688735	134681657	134681747	134696186	134696297	-0.10300	0.00000	0.00002	2included	K562	CPEB4
SE	UAP1	ENSG00000117143.9	chr1	+	162562521	162562572			162560112	162560301	162567581	162567648	0.07100	0.00001	0.03370	included	K562	CPEB4

Showing 1 to 10 of 34 entries

3 RBPs can affect the splicing of CPEB4 :

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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
A5SS	CPEB4	ENSG00000113742.8	chr5	+	173378826	173379040	173378826	173378941	173380093	173380275	0.06500	0.00015	0.00359	longer	K562	AQR
A3SS	CPEB4	ENSG00000113742.8	chr5	+	173378795	173379040	173378826	173379040	173376939	173377081	0.09300	0.00020	0.00163	longer	K562	AQR
SE	CPEB4	ENSG00000113742.8	chr5	+	173359452	173359503	173337415	173337607	173371969	173372143	-0.28100	0.00047	0.00648	excluded	K562	AQR
A3SS	CPEB4	ENSG00000113742.8	chr5	+	173337499	173337607	173337525	173337607	173317679	173317861	0.11800	0.00049	0.00368	longer	K562	AQR
A3SS	CPEB4	ENSG00000113742.8	chr5	+	173376882	173377081	173376962	173377081	173376510	173376600	-0.22800	0.00055	0.04912	shorter	K562	SRSF1
A3SS	CPEB4	ENSG00000113742.8	chr5	+	173376882	173377081	173376962	173377081	173376510	173376600	0.54800	0.00120	0.05987	longer	K562	SF3B4

Showing 1 to 6 of 6 entries

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

CPEB4

General Information

Functions

Localization(RBPImage: CPEB4)

Domains (AlphaFold: CPEB4)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

CPEB4 protein has 180 RNA targets:

10 proteins are bound to CPEB4 RNA:

No autoregularoty interactions between protein CPEB4 and its RNA.

Diffrential Expression

2,544 differentially expressed genes after Knockdown/Knockout CPEB4 protein :

171 RBPs can affect the gene expression of CPEB4 :

34 alternative splicing events after Knockdown/Knockout CPEB4 protein :

3 RBPs can affect the splicing of CPEB4 :

No autoregularoty alternative splicing events between protein CPEB4 and its RNA.