RPS3

General Information

Gene Name : RPS3
Gene ID : ENSG00000149273.14
Essential Gene : Yes

Functions

Ribosome & basic translation
Translation regulation

Localization(RBPImage: RPS3)

Cytoplasm
Compartment/Organelle
ER
Cytosolic

Domains (AlphaFold: RPS3)

KH

Antibody Validation

Bethyl Labs: A303-840A

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	RPS3	ENSG00000149273.14	4340.00	3429.07	3884.53	ENCSR000AEF
HepG2	RPS3	ENSG00000149273.14	2399.63	2490.16	2444.89	ENCSR985KAT
K562	RPS3	ENSG00000149273.14	2919.93	2845.68	2882.80	ENCSR000AEO

Assays

4 Released experiments are available on ENCORE database.

Assay Type	Exp_Name	ENCODE ID	Target label	Biosample	Status	Linked Antibody	Controls	Method	Note
eCLIP	eCLIP: 530	ENCSR120EAR	RPS3	K562	Released	ENCAB855QRN	ENCSR494JFR
eCLIP	eCLIP: 540	ENCSR766FAC	RPS3	HepG2	Released	ENCAB855QRN	ENCSR745BIL
knockdown followed by RNA-seq	RPS3-BGKLV13-K562	ENCSR410MIQ	RPS3	K562	Released		ENCSR084SCN	shRNA	KD% = 20.2,27.9
knockdown followed by RNA-seq	RPS3-BGKcLV04-K562	ENCSR865UKM	RPS3	K562	Released		ENCSR005JBU	CRISPR	KD% = 58.0,61.1

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
RPS3	530	K562	ENCSR120EAR	ENCSR494JFR	ENCAB855QRN	A303-840A	1	Released	ENCODE3
RPS3	540	HepG2	ENCSR766FAC	ENCSR745BIL	ENCAB855QRN	A303-840A	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
RPS3	ENCAB855QRN	A303-840A	1		Released, ENCODE3	Released, ENCODE3		BGKcLV04-25, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project	Note
RPS3	K562	shRNA	ENCSR410MIQ	ENCSR084SCN	RPS3_BGKLV13_65,RPS3_BGKLV13_66	non-target_BGKLV13_73,non-target_BGKLV13_74	20.2,27.9	Released	ENCODE3
RPS3	HepG2	shRNA			BGHLV14-43,BGHLV14-44	BGHLV14-1,BGHLV14-2	14.9,43.7	NotSatisfied	ENCODE3	Bad Correlation between replicates
RPS3	K562	CRISPR	ENCSR865UKM	ENCSR005JBU	RPS3-BGKcLV04-25C,RPS3-BGKcLV04-26C	NT-BGKcLV04-1C,NT-BGKcLV04-2C	58.0,61.1	Released	ENCODE3
RPS3	K562	CRISPR			BGKcLV04-25-D12,BGKcLV04-26-D12	BGKcLV04-1,BGKcLV04-2		NotSatisfied	ENCODE3
RPS3	K562	CRISPR			BGKcLV04-26-D12,BGHcLV05-35	BGKcLV04-1,BGKcLV04-2	,28.0	NotSatisfied	ENCODE3
RPS3	HepG2	CRISPR			BGHcLV05-35,BGHcLV05-36	BGHcLV05-1,BGHcLV05-2	28.0,22.4	NotSatisfied	ENCODE4
RPS3	HepG2	CRISPR			BGHcLV05-35-D13,BGHcLV05-36-D13	BGHcLV05-1,BGHcLV05-2	0.0,0.0	NotSatisfied	ENCODE4
RPS3	HepG2	CRISPR			BGHcLV05-36-D13,BGHcLV09-13	BGHcLV05-1,BGHcLV05-2	0.0,28.6	NotSatisfied	ENCODE4
RPS3	HepG2	CRISPR			BGHcLV09-13,BGHcLV09-14	BGHcLV09-1,BGHcLV09-2	28.6,9.4	NotSatisfied	ENCODE4
RPS3	HepG2	CRISPR			BGHcLV10-37,BGHcLV10-38	BGHcLV10-1,BGHcLV10-2	0.0,0.0	NotSatisfied	ENCODE4
RPS3	HepG2	CRISPR			BGHcLV10-39,BGHcLV10-40	BGHcLV10-1,BGHcLV10-2	0.0,0.0	NotSatisfied	ENCODE4
RPS3	HepG2	CRISPR			BGHcLV47-61,BGHcLV47-62	BGHcLV47-1,BGHcLV47-2	50.1,61.9	LibPreping	ENCORE2
RPS3	HepG2	CRISPR			BGHcLV47-63,BGHcLV47-64	BGHcLV47-1,BGHcLV47-2	0.0,0.0	NotSatisfied	ENCORE2

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

RPS3: Click to RBP Image Database

Cytoplasm

Compartment/Organelle

ER

Cytosolic

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
RPS3	Product_ID: A303-840A Lot_ID: 1 Source: Bethyl Labs Target Name: RPS3-human

RNA Targets

RPS3 protein binds to 8,231 RNA regions.

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Proteins bound to RNA

RPS3 RNA is bound by 46 proteins.

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RPS3 protein has 8,231 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
RPS3	chr9	116823835	116823870	-	4.85592	400.00000	HepG2	AMBP	3'-UTR,CDS,intron-Distal
RPS3	chr3	133476734	133476750	+	4.55019	400.00000	HepG2	TF	3'-UTR,CDS
RPS3	chrX	132670284	132670319	-	4.04046	400.00000	HepG2	GPC3	CDS,intron-Distal
RPS3	chr14	94847424	94847443	-	4.81442	400.00000	HepG2	SERPINA1	CDS,intron-Distal
RPS3	chr2	216283991	216284028	-	4.38239	400.00000	HepG2	FN1	CDS,intron-Distal,intron-Proximal
RPS3	chr7	45928345	45928357	+	5.49555	74.36613	HepG2	IGFBP1	CDS
RPS3	chr16	56642550	56642596	+	3.57149	73.58241	K562	MT2A	5'-UTR,CDS,intron-Proximal
RPS3	chr17	79813329	79813378	-	4.54293	64.47743	HepG2	P4HB	5'-UTR,CDS,intron-Distal,intron-Proximal
RPS3	chr19	6697497	6697556	-	3.05709	64.33938	HepG2	C3	CDS,intron-Distal
RPS3	chr10	102116398	102116462	+	4.65847	58.34387	HepG2	SCD	CDS

Showing 1 to 10 of 100 entries

46 proteins are bound to RPS3 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr11	75113487	75113490	+	3'-UTR,5'-UTR,CDS,intron-Distal,intron-Proximal	4.73651	400.00000	K562	PABPC4
chr11	75113421	75113428	+	3'-UTR,5'-UTR,CDS,intron-Distal,intron-Proximal	4.33900	400.00000	K562	PABPC4
chr11	75113407	75113423	+	3'-UTR,5'-UTR,CDS,intron-Distal,intron-Proximal	5.57941	400.00000	HepG2	SUB1
chr11	75115903	75115912	+	3'-UTR,5'-UTR,CDS	4.32366	400.00000	K562	PABPC4
chr11	75113395	75113398	+	3'-UTR,5'-UTR,CDS,intron-Distal,intron-Proximal	5.10439	400.00000	HepG2	SUB1
chr11	75115207	75115246	+	3'-UTR,CDS,intron-Distal	5.13237	400.00000	HepG2	SUB1
chr11	75115109	75115167	+	3'-UTR,CDS,intron-Distal,intron-Proximal	6.11579	400.00000	HepG2	SUB1
chr11	75115063	75115081	+	3'-UTR,CDS,intron-Distal,intron-Proximal	4.49573	400.00000	K562	PABPC4
chr11	75113449	75113487	+	3'-UTR,5'-UTR,CDS,intron-Distal,intron-Proximal	4.41877	400.00000	K562	PABPC4
chr11	75116672	75116687	+	3'-UTR,intron-Distal	4.30001	400.00000	K562	PABPC4
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 250 entries

The RPS3 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
RPS3	chr11	75110563	75110610	+	4.34588	48.54254	K562	RPS3	5'-UTR,CDS
RPS3	chr11	75115212	75115252	+	3.59991	47.49819	K562	RPS3	3'-UTR,CDS,intron-Distal,intron-Proximal
RPS3	chr11	75113455	75113491	+	3.60424	26.13060	HepG2	RPS3	3'-UTR,5'-UTR,CDS,intron-Distal,intron-Proximal
RPS3	chr11	75115093	75115155	+	3.46961	25.17550	K562	RPS3	3'-UTR,CDS,intron-Distal,intron-Proximal
RPS3	chr11	75115166	75115208	+	4.50601	25.10715	K562	RPS3	3'-UTR,CDS,intron-Distal,intron-Proximal
RPS3	chr11	75115062	75115089	+	3.34743	24.21937	HepG2	RPS3	3'-UTR,CDS,intron-Distal,intron-Proximal
RPS3	chr11	75115714	75115727	+	3.58068	22.90073	K562	RPS3	3'-UTR,CDS,intron-Proximal
RPS3	chr11	75111770	75111805	+	3.78820	22.33407	K562	RPS3	5'-UTR,CDS,intron-Distal
RPS3	chr11	75115210	75115252	+	3.68866	20.50494	HepG2	RPS3	3'-UTR,CDS,intron-Distal,intron-Proximal
RPS3	chr11	75115776	75115824	+	3.18231	19.28267	K562	RPS3	3'-UTR,CDS,intron-Proximal

Showing 1 to 10 of 14 entries

Diffrential Expression

3,270 differentially expressed genes after Knockdown/Knockout RPS3 protein.

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151 RBPs can affect the levels of RPS3.

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3,270 differentially expressed genes after Knockdown/Knockout RPS3 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
ACSM3	ENSG00000005187.7	2125.84040	5478.29420	-1.36570	36.35580	32.80810	K562	RPS3
ANLN	ENSG00000011426.6	1612.71590	3367.09180	-1.06200	14.52220	12.13620	K562	RPS3
GCLM	ENSG00000023909.5	1399.13930	2359.67380	-0.75400	10.10480	8.07180	K562	RPS3
AC004381.6	ENSG00000005189.15	680.72240	1208.49690	-0.82810	9.59180	7.60900	K562	RPS3
SLC4A1	ENSG00000004939.9	836.09120	234.10660	1.83640	8.79990	6.89710	K562	RPS3
MRC2	ENSG00000011028.9	584.59200	303.93910	0.94350	8.09850	6.27390	K562	RPS3
ANK1	ENSG00000029534.15	3741.28360	2116.02510	0.82210	7.99960	6.18890	K562	RPS3
LAMP2	ENSG00000005893.11	1413.15600	2230.58530	-0.65850	7.96480	6.15970	K562	RPS3
GIPR	ENSG00000010310.4	392.52730	702.74460	-0.84020	7.77240	5.98390	K562	RPS3
RPS20	ENSG00000008988.5	7592.64860	11186.65110	-0.55910	7.62830	5.85460	K562	RPS3
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".

151 RBPs can affect the gene expression of RPS3 :

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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
RPS3	ENSG00000149273.10	14229.96800	46215.47690	-1.69940	233.03240	230.57530	HepG2	SRSF1
RPS3	ENSG00000149273.10	11353.71030	42527.85760	-1.90520	225.58760	222.48480	HepG2	PTBP1
RPS3	ENSG00000149273.10	13754.77210	47329.33940	-1.78280	212.52790	209.76830	HepG2	NELFE
RPS3	ENSG00000149273.10	16960.11430	44276.81000	-1.38440	134.96260	132.00730	HepG2	SF3B4
RPS3	ENSG00000149273.10	8691.06640	45245.67810	-2.38020	123.25910	118.86630	K562	RPS3
RPS3	ENSG00000149273.10	16649.09550	46058.50710	-1.46800	96.40730	93.64090	HepG2	QKI
RPS3	ENSG00000149273.10	18843.09440	41794.78620	-1.14930	90.58880	88.07150	HepG2	PCBP1
RPS3	ENSG00000149273.10	19079.20610	37598.81500	-0.97870	73.44320	71.39360	HepG2	SRSF9
RPS3	ENSG00000149273.10	22068.57850	44080.99800	-0.99820	73.15330	70.91670	HepG2	RECQL
RPS3	ENSG00000149273.10	15010.69710	41801.13600	-1.47760	70.95870	68.03930	HepG2	RBM25
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 183 entries

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

44 alternative splicing events after Knockdown/Knockout RPS3 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	YWHAZ	ENSG00000164924.13	chr8	-	101965106	101965285	101960823	101961128	101965496	101965616	0.05100	0.00070	included	K562	RPS3
SE	ALDOA	ENSG00000149925.12	chr16	+	30077196	30077248	30075744	30075826	30078554	30078687	0.13800	0.00284	included	K562	RPS3
SE	RIF1	ENSG00000080345.13	chr2	+	152325567	152325621	152325161	152325270	152326224	152326378	0.07500	0.00859	included	K562	RPS3
SE	WSB1	ENSG00000109046.10	chr17	+	25634769	25634945	25633807	25633908	25636125	25636298	0.22800	0.00349	included	K562	RPS3
SE	EIF4A2	ENSG00000156976.10	chr3	+	186506098	186506209	186505591	186505671	186506913	186507080	0.12500	0.00014	included	K562	RPS3
SE	CALU	ENSG00000128595.12	chr7	+	128387606	128388421	128379345	128379486	128388626	128388858	0.06300	0.00001	included	K562	RPS3
SE	TIAL1	ENSG00000151923.13	chr10	-	121339982	121340358	121339446	121339522	121341433	121341521	0.29900	0.01555	included	K562	RPS3
SE	ZMYM4	ENSG00000146463.7	chr1	+	35862652	35862724	35862152	35862271	35862977	35863063	0.11400	0.00038	included	K562	RPS3
A3SS	WSB1	ENSG00000109046.10	chr17	+	25634769	25636298	25636125	25636298	25633807	25633908	0.22100	0.02311	longer	K562	RPS3
A5SS	MAT2A	ENSG00000168906.8	chr2	+	85770023	85770166	85770023	85770157	85770792	85772403	-0.17500	0.00406	shorter	K562	RPS3

Showing 1 to 10 of 44 entries

21 RBPs can affect the splicing of RPS3 :

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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	RPS3	ENSG00000149273.10	chr11	+	75113395	75113423	75112683	75112777	75115715	75115912	-0.12500	0.00000	excluded	HepG2	U2AF1
SE	RPS3	ENSG00000149273.10	chr11	+	75113395	75113490	75112683	75112777	75115063	75115251	-0.09400	0.00000	excluded	HepG2	U2AF2
SE	RPS3	ENSG00000149273.10	chr11	+	75113347	75113490	75112690	75112777	75115063	75115251	-0.11200	0.00000	excluded	K562	U2AF1
SE	RPS3	ENSG00000149273.10	chr11	+	75113395	75113490	75112683	75112777	75115063	75115251	-0.09700	0.00000	excluded	K562	U2AF2
SE	RPS3	ENSG00000149273.10	chr11	+	75113347	75113490	75112654	75112777	75115063	75115251	-0.06900	0.00000	excluded	K562	SF3B1
A3SS	RPS3	ENSG00000149273.10	chr11	+	75115715	75115912	75115803	75115912	75112683	75112777	0.69200	0.00001	longer	HepG2	U2AF1
A5SS	RPS3	ENSG00000149273.10	chr11	+	75112683	75113490	75112683	75112777	75115063	75115251	-0.11000	0.00000	shorter	K562	U2AF1
A5SS	RPS3	ENSG00000149273.10	chr11	+	75112683	75113490	75112683	75112777	75115063	75115251	-0.14000	0.00000	shorter	HepG2	U2AF2
A5SS	RPS3	ENSG00000149273.10	chr11	+	75112683	75113490	75112683	75112777	75115063	75115251	-0.24300	0.00000	shorter	K562	U2AF2
A5SS	RPS3	ENSG00000149273.10	chr11	+	75112683	75113490	75112683	75112777	75115063	75115251	-0.06900	0.00000	shorter	K562	SF3B1

Showing 1 to 10 of 45 entries

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

RPS3

General Information

Functions

Localization(RBPImage: RPS3)

Domains (AlphaFold: RPS3)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

RPS3 protein has 8,231 RNA targets:

46 proteins are bound to RPS3 RNA:

The RPS3 protein binds to its own RNA.

Diffrential Expression

3,270 differentially expressed genes after Knockdown/Knockout RPS3 protein :

151 RBPs can affect the gene expression of RPS3 :

44 alternative splicing events after Knockdown/Knockout RPS3 protein :

21 RBPs can affect the splicing of RPS3 :

No autoregularoty alternative splicing events between protein RPS3 and its RNA.