PCBP1

General Information

Gene Name : PCBP1
Gene ID : ENSG00000169564.6
Essential Gene : Yes

Functions

Splicing regulation
RNA stability & decay
Translation regulation
Viral RNA regulation

Localization(RBPImage: PCBP1)

Nuclei
Mutually Exclusive from Nucleolus
Speckles
Cytoplasm
Cytosolic
Nuclear release mitosis

Domains (AlphaFold: PCBP1)

KH

Antibody Validation

MBLI: RN024P

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	PCBP1	ENSG00000169564.6	192.17	230.14	211.15	ENCSR000AEF
HepG2	PCBP1	ENSG00000169564.6	376.76	269.16	322.96	ENCSR985KAT
K562	PCBP1	ENSG00000169564.6	282.24	233.38	257.81	ENCSR000AEO

Assays

7 Released experiments are available on ENCORE database.

Assay Type	Exp_Name	ENCODE ID	Target label	Biosample	Status	Linked Antibody	Controls	Method	Note
eCLIP	eCLIP: 692	ENCSR256CHX	PCBP1	HepG2	Released	ENCAB000BFX	ENCSR825FTY
eCLIP	eCLIP: 719	ENCSR922WJV	PCBP1	K562	Released	ENCAB000BFX	ENCSR322KLN
knockdown followed by RNA-seq	PCBP1-BGKLV11-K562	ENCSR545AIK	PCBP1	K562	Released		ENCSR129RWD	shRNA	KD% = 91.3,89.8
knockdown followed by RNA-seq	PCBP1-BGHLV12-HepG2	ENCSR635FRH	PCBP1	HepG2	Released		ENCSR603TCV	shRNA	KD% = 94.2,93.6
knockdown followed by RNA-seq	PCBP1-BG293LV05-WT293		PCBP1	293T	Released			shRNA	KD% = ,
knockdown followed by RNA-seq	PCBP1-BG293LV06-WT293		PCBP1	293T	Released			shRNA	KD% = ,
RNA Bind-n-Seq	RBNS: PCBP1	ENCSR539RTM	PCBP1	cell-free sample	Released		ENCSR837OWO

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
PCBP1	692	HepG2	ENCSR256CHX	ENCSR825FTY	ENCAB000BFX	RN024P	1	Released	ENCODE4
PCBP1	719	K562	ENCSR922WJV	ENCSR322KLN	ENCAB000BFX	RN024P	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
PCBP1	ENCAB000BFX	RN024P	1		Released, ENCODE3	Released, ENCODE3	BGHLV12-55, Released, ENCODE3	BGKLV11-29, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project
PCBP1	K562	shRNA	ENCSR545AIK	ENCSR129RWD	PCBP1-LV11-29,PCBP1-LV11-30	Nontarget-LV11-1,nontarget-LV11-2	91.3,89.8	Released	ENCODE3
PCBP1	HepG2	shRNA	ENCSR635FRH	ENCSR603TCV	PCBP1-BGHLV12-55,PCBP1-BGHLV12-56	NT-BGHLV12-93,NT-BGHLV12-94	94.2,93.6	Released	ENCODE3
PCBP1	293T	shRNA			PCBP1-BG293LV05-33,PCBP1-BG293LV05-34	NT-BG293LV05-1,NT-BG293LV05-2	,	Released	ENCORE2
PCBP1	293T	shRNA			BG293LV05-35,BG293LV05-36	BG293LV05-1,BG293LV05-2		NotSatisfied	ENCORE2
PCBP1	293T	shRNA			PCBP1-BG293LV06-67B,PCBP1-BG293LV06-68B	NT-BG293LV06-1B,NT-BG293LV06-2B	,	Released	ENCORE2

RNA Bind-n-Seqn

GeneName	gene_aliases	Status	Project	Note
PCBP1	PCBP1		Released	ENCODE3

Localization Image in HepG2

PCBP1: Click to RBP Image Database

Nuclei

Mutually Exclusive from Nucleolus

Speckles

Cytoplasm

Cytosolic

Nuclear release mitosis

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
PCBP1	Product_ID: RN024P Lot_ID: 1 Source: MBLI Target Name: PCBP1-human

RNA Targets

PCBP1 protein binds to 3,127 RNA regions.

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The binding motifs of PCBP1

Proteins bound to RNA

PCBP1 RNA is bound by 26 proteins.

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PCBP1 protein has 3,127 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
PCBP1	chr19	56181842	56181913	+	7.50562	400.00000	K562	U2AF2	intron-Distal
PCBP1	chr11	2160117	2160131	-	4.69218	400.00000	HepG2	IGF2, INS-IGF2	5'-UTR,intron-Distal
PCBP1	chr16	204411	204420	+	7.53030	400.00000	K562	HBM, HBZ	3'-UTR,intron-Distal
PCBP1	chr11	2160434	2160466	-	4.90709	400.00000	HepG2	INS-IGF2, IGF2	5'-UTR,intron-Distal
PCBP1	chr11	2160303	2160311	-	6.11991	400.00000	HepG2	IGF2, INS-IGF2	5'-UTR,intron-Distal,intron-Proximal
PCBP1	chrX	48651859	48651962	+	4.45443	42.11623	K562	GATA1	intron-Distal
PCBP1	chr16	28834365	28834418	+	4.83546	39.89671	K562	ATXN2L	5'-UTR
PCBP1	chr8	101721686	101721716	-	3.69766	39.38144	K562	PABPC1	3'-UTR,CDS,intron-Distal,intron-Proximal
PCBP1	chr6	31597371	31597462	+	4.63607	37.04822	K562	PRRC2A	CDS
PCBP1	chr22	22890544	22890679	-	3.14184	32.74545	K562	PRAME	CDS,intron-Distal

Showing 1 to 10 of 100 entries

26 proteins are bound to PCBP1 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr2	70315134	70315150	+	CDS	3.88910	79.83401	K562	YBX3
chr2	70315150	70315154	+	CDS	3.89171	74.49524	K562	YBX3
chr2	70316189	70316279	+	3'-UTR	4.65572	74.10288	HepG2	FUBP3
chr2	70315154	70315158	+	CDS	3.57336	73.71370	K562	YBX3
chr2	70315158	70315176	+	CDS	3.53838	71.95433	K562	YBX3
chr2	70315966	70316047	+	3'-UTR	3.33308	58.28672	K562	PUM2
chr2	70315116	70315134	+	CDS	3.78193	54.86621	K562	YBX3
chr2	70315058	70315080	+	CDS	3.91923	45.77741	K562	YBX3
chr2	70316152	70316212	+	3'-UTR	4.83374	41.78212	HepG2	SUB1
chr2	70316135	70316188	+	3'-UTR	3.73757	40.05205	HepG2	FUBP3
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 81 entries

The PCBP1 protein binds to its own RNA.

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
PCBP1	chr2	70314712	70314800	+	3.25129	27.81810	K562	PCBP1	5'-UTR
PCBP1	chr2	70314672	70314712	+	3.59176	12.00375	K562	PCBP1	5'-UTR

Showing 1 to 2 of 2 entries

Diffrential Expression

8,524 differentially expressed genes after Knockdown/Knockout PCBP1 protein.

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106 RBPs can affect the levels of PCBP1.

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8,524 differentially expressed genes after Knockdown/Knockout PCBP1 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
SLC7A2	ENSG00000003989.12	5040.71650	12531.56950	-1.31390	102.96050	100.20920	HepG2	PCBP1
RPS20	ENSG00000008988.5	6440.67630	12356.22040	-0.94000	54.26920	52.22310	HepG2	PCBP1
SPAG9	ENSG00000008294.16	2302.48730	4819.62800	-1.06570	50.85830	48.87500	HepG2	PCBP1
ADIPOR2	ENSG00000006831.9	3579.42100	6234.39960	-0.80050	34.71830	32.97930	HepG2	PCBP1
CRLF1	ENSG00000006016.6	1438.98060	3386.27750	-1.23470	24.12290	22.62850	HepG2	PCBP1
UBE3C	ENSG00000009335.13	2245.31160	1299.02600	0.78940	22.96850	21.50080	HepG2	PCBP1
PROM1	ENSG00000007062.7	1145.19050	595.31910	0.94380	22.35360	20.89970	HepG2	PCBP1
LAMP2	ENSG00000005893.11	3745.16770	5740.78800	-0.61620	21.42860	19.99800	HepG2	PCBP1
TMEM132A	ENSG00000006118.10	1356.72470	752.60260	0.85010	20.80350	19.38840	HepG2	PCBP1
SLC25A13	ENSG00000004864.9	2682.94980	1671.15820	0.68290	19.75920	18.37580	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 100 entries

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

106 RBPs can affect the gene expression of PCBP1 :

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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
PCBP1	ENSG00000169564.5	1090.29400	9354.89590	-3.10100	99999.99999	99999.99999	HepG2	PCBP1
PCBP1	ENSG00000169564.5	887.88430	5599.66060	-2.65690	173.56630	169.19300	K562	PCBP1
PCBP1	ENSG00000169564.5	2636.45330	8415.89990	-1.67450	160.58580	157.80720	HepG2	SRSF9
PCBP1	ENSG00000169564.5	3154.44900	8238.95840	-1.38510	58.90800	55.48100	HepG2	TUFM
PCBP1	ENSG00000169564.5	4338.02420	8945.84720	-1.04420	40.03960	37.76360	HepG2	PUM2
PCBP1	ENSG00000169564.5	6233.65070	9910.20830	-0.66880	27.96620	26.42460	HepG2	SF3B4
PCBP1	ENSG00000169564.5	3308.11970	6218.78780	-0.91060	24.99620	23.27610	K562	HNRNPC
PCBP1	ENSG00000169564.5	6979.29690	10488.02060	-0.58760	22.31250	20.88380	HepG2	ETF1
PCBP1	ENSG00000169564.5	3965.12710	10125.96160	-1.35260	22.42310	20.64470	HepG2	EIF4A3
PCBP1	ENSG00000169564.5	6786.24920	9867.17500	-0.54000	18.79640	17.42870	HepG2	RECQL
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 121 entries

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

1,796 alternative splicing events after Knockdown/Knockout PCBP1 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	UAP1	ENSG00000117143.9	chr1	+	162562521	162562572	162560112	162560301	162567581	162567648	0.09000	0.00266	included	K562	PCBP1
SE	BAG6	ENSG00000204463.8	chr6	-	31612083	31612191	31611858	31611971	31612301	31612379	0.27000	0.00001	included	K562	PCBP1
SE	WSB1	ENSG00000109046.10	chr17	+	25634769	25634945	25633788	25633908	25636125	25636298	0.16200	0.00003	included	K562	PCBP1
SE	SNHG1	ENSG00000255717.2	chr11	-	62622359	62622410	62621990	62622023	62622604	62622708	0.10800	0.00015	included	K562	PCBP1
SE	IVNS1ABP	ENSG00000116679.11	chr1	-	185275616	185275757	185274667	185274775	185276145	185276271	-0.09800	0.00005	excluded	K562	PCBP1
SE	PFDN5	ENSG00000123349.9	chr12	+	53689622	53689725	53689325	53689423	53691633	53691708	-0.20400	0.00000	excluded	K562	PCBP1
SE	TNNT1	ENSG00000105048.12	chr19	-	55653224	55653288	55649328	55649442	55656911	55656933	-0.16100	0.00101	excluded	K562	PCBP1
SE	SLC26A6	ENSG00000225697.6	chr3	-	48669677	48669829	48669312	48669477	48670406	48670517	-0.39500	0.00049	excluded	K562	PCBP1
SE	CTTN	ENSG00000085733.11	chr11	+	70267575	70267686	70266505	70266616	70269045	70269101	-0.28300	0.00000	excluded	K562	PCBP1
SE	DECR1	ENSG00000104325.2	chr8	+	91029351	91029554	91013632	91013789	91031136	91031194	-0.14300	0.00030	excluded	K562	PCBP1

Showing 1 to 10 of 100 entries

PCBP1

General Information

Functions

Localization(RBPImage: PCBP1)

Domains (AlphaFold: PCBP1)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

PCBP1 protein has 3,127 RNA targets:

26 proteins are bound to PCBP1 RNA:

The PCBP1 protein binds to its own RNA.

Diffrential Expression

8,524 differentially expressed genes after Knockdown/Knockout PCBP1 protein :

106 RBPs can affect the gene expression of PCBP1 :

1,796 alternative splicing events after Knockdown/Knockout PCBP1 protein :

No RBPs affect the alternative splcing events of PCBP1 on ENCORE database.

No autoregularoty alternative splicing events between protein PCBP1 and its RNA.