SERBP1

General Information

Gene Name : SERBP1
Gene ID : ENSG00000142864.14
Essential Gene : No

Functions

RNA stability & decay
P-body / stress granules

Localization(RBPImage: SERBP1)

Cytoplasm
Compartment/Organelle
Mutually Exclusive from ER
Cytosolic

Domains (AlphaFold: SERBP1)

No checked domain (RRM, ZNF, KH, Helicase, Nuclease, dRBM or PUM_HD)

Antibody Validation

MBLI: RN056PW

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	SERBP1	ENSG00000142864.14	277.60	281.67	279.63	ENCSR000AEF
HepG2	SERBP1	ENSG00000142864.14	255.03	279.38	267.20	ENCSR985KAT
K562	SERBP1	ENSG00000142864.14	396.61	330.64	363.62	ENCSR000AEO

Assays

3 Released experiments are available on ENCORE database.

Assay Type	Exp_Name	ENCODE ID	Target label	Biosample	Status	Linked Antibody	Controls	Method	Note
eCLIP	eCLIP: 693	ENCSR121GQH	SERBP1	K562	Released	ENCAB229RIQ	ENCSR752YLF
knockdown followed by RNA-seq	SERBP1-BGKLV19-K562	ENCSR925RNE	SERBP1	K562	Released		ENCSR661HEL	shRNA	KD% = 80.8,78.4
knockdown followed by RNA-seq	SERBP1-BGHLV16-HepG2	ENCSR820ROH	SERBP1	HepG2	Released		ENCSR689PHN	shRNA	KD% = 73.9,75.7

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
SERBP1	693	K562	ENCSR121GQH	ENCSR752YLF	ENCAB229RIQ	RN056PW	1	Released	ENCODE3

Antibody Validation

GeneName	Antibody_DCC_ID	Product_ID	Lot_ID	Phosphate	HepG2 Primary Validation	K562 Primary Validation	HepG2 Secondary Validation	K562 Secondary Validation
SERBP1	ENCAB229RIQ	RN056PW	1			Released, ENCODE3	BGHLV16-51, Released, ENCODE3	BGKLV19-49, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project	Note
SERBP1	K562	shRNA	ENCSR925RNE	ENCSR661HEL	SERBP1_BGKLV19_49B,SERBP1_BGKLV19_50B	NT_BGKLV19_1B,NT_BGKLV19_2B	80.8,78.4	Released	ENCODE3
SERBP1	HepG2	shRNA	ENCSR820ROH	ENCSR689PHN	SERBP1_BGHLV16_51,SERBP1_BGHLV16_52	NT_BGHLV16_1,NT_BGHLV16_2	73.9,75.7	Released	ENCODE3

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

SERBP1: Click to RBP Image Database

Cytoplasm

Compartment/Organelle

Mutually Exclusive from ER

Cytosolic

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
SERBP1	Product_ID: RN056PW Lot_ID: 1 Source: MBLI Target Name: SERBP1-human

RNA Targets

SERBP1 protein binds to 132 RNA regions.

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Proteins bound to RNA

SERBP1 RNA is bound by 37 proteins.

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SERBP1 protein has 132 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
SERBP1	chr11	61734877	61735083	-	5.35887	400.00000	K562	FTH1	5'-UTR,CDS,intron-Distal,intron-Proximal
SERBP1	chr12	7076561	7076616	-	3.35397	400.00000	K562	PHB2	intron-Distal,intron-Proximal
SERBP1	chr16	30077130	30077250	+	4.06764	400.00000	K562	ALDOA	5'-UTR,intron-Distal,intron-Proximal
SERBP1	chr4	53578790	53578815	+	4.57396	400.00000	K562	DANCR	intron-Distal,intron-Proximal
SERBP1	chr4	53578785	53578790	+	4.73409	85.76186	K562	DANCR	intron-Proximal
SERBP1	chr17	7480124	7480198	+	3.44786	83.09716	K562	SNORA67, SENP3-EIF4A1, EIF4A1	intron-Distal
SERBP1	chr9	100745655	100745787	+	4.60975	54.34425	K562	ANP32B	5'-UTR
SERBP1	chr11	5274482	5274624	-	3.79606	43.29928	K562	HBG2	3'-UTR,CDS,intron-Distal,intron-Proximal
SERBP1	chr5	172447755	172447807	+	3.80579	39.58015	K562	ATP6V0E1	intron-Distal
SERBP1	chr19	17973415	17973438	+	3.42469	38.45205	K562	RPL18A	intron-Distal

Showing 1 to 10 of 100 entries

37 proteins are bound to SERBP1 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr1	67891816	67891891	-	CDS,intron-Distal,intron-Proximal	3.64027	64.04173	K562	ZNF622
chr1	67895975	67896044	-	5'-UTR,CDS,intron-Distal	4.75964	63.96059	K562	DDX3X
chr1	67895795	67895850	-	CDS,intron-Distal	3.31490	49.28470	K562	ZNF622
chr1	67895796	67895847	-	CDS,intron-Distal	4.34597	48.86582	K562	UCHL5
chr1	67895847	67895872	-	CDS,intron-Distal	4.21306	48.07849	K562	UCHL5
chr1	67895549	67895651	-	intron-Distal	5.13424	45.32328	HepG2	EFTUD2
chr1	67895850	67895876	-	CDS,intron-Distal	3.11748	44.55311	K562	ZNF622
chr1	67895970	67895991	-	5'-UTR,CDS,intron-Distal	4.01579	44.12425	K562	ZNF622
chr1	67895876	67895928	-	CDS,intron-Distal	3.06303	42.91876	K562	ZNF622
chr1	67891856	67891897	-	CDS,intron-Distal	3.62996	36.72550	HepG2	BCLAF1
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 200 entries

No autoregularoty interactions between protein SERBP1 and its RNA.

Diffrential Expression

3,915 differentially expressed genes after Knockdown/Knockout SERBP1 protein.

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134 RBPs can affect the levels of SERBP1.

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3,915 differentially expressed genes after Knockdown/Knockout SERBP1 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
IL32	ENSG00000008517.12	3291.42140	1372.08250	1.26220	29.94360	27.19150	HepG2	SERBP1
PLEKHB1	ENSG00000021300.9	639.06100	1432.23760	-1.16420	20.45520	18.10540	HepG2	SERBP1
TNFRSF12A	ENSG00000006327.9	765.97210	278.19180	1.46110	15.48950	13.38580	HepG2	SERBP1
ITGAL	ENSG00000005844.13	215.59150	55.94170	1.94620	14.78510	12.71880	HepG2	SERBP1
NR1H4	ENSG00000012504.9	1017.71580	533.29370	0.93220	12.13340	10.23920	HepG2	SERBP1
NCAPD2	ENSG00000010292.8	1606.32260	2755.62380	-0.77860	11.75520	9.88400	HepG2	SERBP1
CX3CL1	ENSG00000006210.6	3319.37830	1554.17010	1.09470	10.84540	9.02910	HepG2	SERBP1
ANLN	ENSG00000011426.6	1017.14810	1929.47340	-0.92370	10.64010	8.84950	HepG2	SERBP1
MTMR11	ENSG00000014914.15	169.11640	50.24510	1.75090	10.38960	8.62090	HepG2	SERBP1
CYP24A1	ENSG00000019186.5	687.73280	358.92930	0.93800	10.28770	8.52690	HepG2	SERBP1
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".

134 RBPs can affect the gene expression of SERBP1 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
SERBP1	ENSG00000142864.10	1471.59330	5667.50690	-1.94530	71.83250	68.25650	HepG2	SERBP1
SERBP1	ENSG00000142864.10	13227.33510	23982.41910	-0.85850	54.93720	52.33570	K562	UPF1
SERBP1	ENSG00000142864.10	3642.54890	10471.32960	-1.52340	48.40300	46.28040	HepG2	HNRNPLL
SERBP1	ENSG00000142864.10	11255.68870	25701.29870	-1.19120	37.27100	35.32260	K562	AQR
SERBP1	ENSG00000142864.10	12614.85700	20356.43320	-0.69040	36.08520	33.77660	K562	MTPAP
SERBP1	ENSG00000142864.10	16263.23870	22618.08970	-0.47590	33.82210	31.70190	K562	NSUN2
SERBP1	ENSG00000142864.10	6082.94640	10155.92280	-0.73950	33.31120	31.60510	HepG2	PCBP1
SERBP1	ENSG00000142864.10	2455.55080	9994.45030	-2.02510	33.02110	28.66170	K562	SERBP1
SERBP1	ENSG00000142864.10	4527.16810	13396.62650	-1.56520	27.16450	25.37650	K562	HNRNPC
SERBP1	ENSG00000142864.10	9301.40940	14531.98460	-0.64370	26.57970	25.04000	HepG2	ETF1
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 182 entries

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

330 alternative splicing events after Knockdown/Knockout SERBP1 protein :

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Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	FDR	is_included	Cell Line	Affected by RBP
SE	PICALM	ENSG00000073921.13	chr11	-	85701292	85701442	85694908	85695016	85707868	85707972	0.22100	0.00000	included	K562	SERBP1
SE	MYB	ENSG00000118513.14	chr6	+	135520663	135520719	135520045	135520188	135521222	135521337	0.13800	0.00006	included	K562	SERBP1
SE	C21orf33	ENSG00000160221.12	chr21	+	45556775	45556909	45555941	45556055	45557058	45557448	0.06500	0.00062	included	K562	SERBP1
SE	MAEA	ENSG00000090316.11	chr4	+	1291743	1291903	1283678	1283770	1305766	1305949	0.07500	0.00012	included	K562	SERBP1
SE	PRKCB	ENSG00000166501.8	chr16	+	24225978	24226194	24202410	24202551	24231281	24231932	0.14900	0.00087	included	K562	SERBP1
SE	EIF4A2	ENSG00000156976.10	chr3	+	186506098	186506209	186505591	186505671	186506913	186507080	0.12100	0.00010	included	K562	SERBP1
SE	RAN	ENSG00000132341.7	chr12	+	131357128	131357174	131356626	131356671	131357380	131357465	-0.06300	0.00023	excluded	K562	SERBP1
SE	PFDN5	ENSG00000123349.9	chr12	+	53689622	53689725	53689335	53689423	53691633	53691708	-0.11400	0.00032	excluded	K562	SERBP1
SE	CTTN	ENSG00000085733.11	chr11	+	70267575	70267686	70266505	70266616	70269045	70269101	-0.24600	0.00000	excluded	K562	SERBP1
SE	PICALM	ENSG00000073921.13	chr11	-	85689112	85689136	85687665	85687725	85692171	85692271	-0.12900	0.00361	excluded	K562	SERBP1

Showing 1 to 10 of 100 entries

20 RBPs can affect the splicing of SERBP1 :

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Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	2ndExonStart	2ndExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	FDR	is_included	Cell Line	Affected by RBP
SE	SERBP1	ENSG00000142864.10	chr1	-	67885691	67885907			67880955	67881022	67889882	67890033	-0.06900	0.00000	excluded	K562	AQR
SE	SERBP1	ENSG00000142864.10	chr1	-	67890613	67890642			67889882	67889960	67890765	67890931	-0.12100	0.00000	excluded	K562	AQR
SE	SERBP1	ENSG00000142864.10	chr1	-	67890859	67890906			67890570	67890642	67891817	67891968	-0.05700	0.00000	excluded	K562	SUPV3L1
A3SS	SERBP1	ENSG00000142864.10	chr1	-	67889882	67890005			67889882	67889960	67890570	67890660	-0.11500	0.00037	shorter	K562	FXR1
A3SS	SERBP1	ENSG00000142864.10	chr1	-	67890570	67890660			67890570	67890642	67890765	67890906	0.12900	0.00013	longer	HepG2	U2AF2
A3SS	SERBP1	ENSG00000142864.10	chr1	-	67889882	67890005			67889882	67889960	67890765	67890906	-0.07000	0.00000	shorter	K562	AQR
A3SS	SERBP1	ENSG00000142864.10	chr1	-	67889882	67890005			67889882	67889960	67890570	67890660	-0.10100	0.01450	shorter	HepG2	BCLAF1
A3SS	SERBP1	ENSG00000142864.10	chr1	-	67889882	67890005			67889882	67889960	67890570	67890669	0.15400	0.00000	longer	K562	SRSF1
MXE	SERBP1	ENSG00000142864.10	chr1	-	67885691	67885869	67889882	67889960	67880848	67881022	67890570	67890660	-0.12900	0.00020	2included	K562	SRSF1
MXE	SERBP1	ENSG00000142864.10	chr1	-	67890570	67890642	67890765	67890931	67889882	67890005	67891817	67891968	0.06500	0.00000	1included	K562	AQR

Showing 1 to 10 of 31 entries

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

SERBP1

General Information

Functions

Localization(RBPImage: SERBP1)

Domains (AlphaFold: SERBP1)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

SERBP1 protein has 132 RNA targets:

37 proteins are bound to SERBP1 RNA:

No autoregularoty interactions between protein SERBP1 and its RNA.

Diffrential Expression

3,915 differentially expressed genes after Knockdown/Knockout SERBP1 protein :

134 RBPs can affect the gene expression of SERBP1 :

330 alternative splicing events after Knockdown/Knockout SERBP1 protein :

20 RBPs can affect the splicing of SERBP1 :

No autoregularoty alternative splicing events between protein SERBP1 and its RNA.