WDR3

General Information

Gene Name : WDR3
Gene ID : ENSG00000065183.15
Essential Gene : Yes

Functions

rRNA processing

Localization(RBPImage: WDR3)

Nuclei
Nucleoplasm
Nucleolus
Cytoplasm
Cytosolic
Mitotic-Apparatus (Spindle; Centrosomes)

Domains (AlphaFold: WDR3)

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

Antibody Validation

Bethyl Labs: A301-553A

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	WDR3	ENSG00000065183.15	39.63	40.59	40.11	ENCSR000AEF
HepG2	WDR3	ENSG00000065183.15	42.06	42.24	42.15	ENCSR985KAT
K562	WDR3	ENSG00000065183.15	64.29	73.71	69.00	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: 685	ENCSR202HKN	WDR3	K562	Released	ENCAB768ADR	ENCSR033FWT
knockdown followed by RNA-seq	WDR3-BGKLV34-K562	ENCSR334BTA	WDR3	K562	Released		ENCSR174OYC	shRNA	KD% = 94.4,95.1
knockdown followed by RNA-seq	WDR3-BGHLV37-HepG2	ENCSR902VPO	WDR3	HepG2	Released		ENCSR225PRV	shRNA	KD% = 81.7,79.5

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
WDR3	685	K562	ENCSR202HKN	ENCSR033FWT	ENCAB768ADR	A301-553A	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
WDR3	ENCAB768ADR	A301-553A	1			Released, ENCODE3	BGHLV37-75, Released, ENCODE3	BGKLV34-49, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project
WDR3	K562	shRNA			BGKLV25-63,BGKLV25-64	BGKLV25-1,BGKLV25-2	redo transduction,redo transduction	NotSatisfied	ENCODE3
WDR3	K562	shRNA	ENCSR334BTA	ENCSR174OYC	WDR3_BGKLV34-49,WDR3_BGKLV34-50	NT_BGKLV34-1,NT_BGKLV34-2	94.4,95.1	Released	ENCODE3
WDR3	HepG2	shRNA			BGHLV22-53,BGHLV22-54	BGHLV22-1,BGHLV22-2	0.0,0.0	NotSatisfied	ENCODE3
WDR3	HepG2	shRNA			BGHLV37-73,BGHLV37-74	BGHLV37-1,BGHLV37-2	84.4,80.4	NotSatisfied	ENCODE3
WDR3	HepG2	shRNA	ENCSR902VPO	ENCSR225PRV	WDR3-BGHLV37-75C,WDR3-BGHLV37-76C	non-target-BGHLV37-1C,non-target-BGHLV37-2C	81.7,79.5	Released	ENCODE4
WDR3	HepG2	shRNA			BGHLV37-77,BGHLV37-78	BGHLV37-1,BGHLV37-2	32.1,35.2	NotSatisfied	ENCODE3
WDR3	HepG2	shRNA			BGHLV37-79,BGHLV37-80	BGHLV37-1,BGHLV37-2	71.5,68.3	NotSatisfied	ENCODE3

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

WDR3: Click to RBP Image Database

Nuclei

Nucleoplasm

Nucleolus

Cytoplasm

Cytosolic

Mitotic-Apparatus (Spindle; Centrosomes)

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
WDR3	Product_ID: A301-553A Lot_ID: 1 Source: Bethyl Labs Target Name: WDR3-human

RNA Targets

WDR3 protein binds to 19 RNA regions.

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Proteins bound to RNA

WDR3 RNA is bound by 14 proteins.

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WDR3 protein has 19 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
WDR3	chr11	93454953	93455030	+	3.29525	400.00000	K562	KIAA1731	intron-Distal,intron-Proximal
WDR3	chr3	160232891	160232920	-	3.39250	400.00000	K562	KPNA4	intron-Distal
WDR3	chr7	98479377	98479428	+	3.09367	60.62237	K562	TRRAP	intron-Distal
WDR3	chr11	93454903	93454953	+	3.12594	57.18912	K562	KIAA1731	intron-Distal
WDR3	chr20	26190044	26190143	-	8.68316	47.51603	K562	MIR663A	intron-Distal,intron-Proximal
WDR3	chr20	26190143	26190244	-	7.02811	40.73485	K562	MIR663A	intron-Distal,intron-Proximal
WDR3	chr6	133136469	133136498	+	3.69705	26.33442	K562	RPS12	intron-Distal
WDR3	chr20	26189953	26190044	-	5.26139	24.60873	K562	MIR663A	intron-Distal,intron-Proximal
WDR3	chr8	9628368	9628535	+	5.76108	11.19076	K562	TNKS	intron-Distal
WDR3	chr8	9629603	9629685	+	7.21350	9.05472	K562	TNKS	intron-Distal

Showing 1 to 10 of 19 entries

14 proteins are bound to WDR3 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr1	118502744	118502811	+	3'-UTR	5.66383	9.81960	K562	TARDBP
chr1	118475959	118476026	+	CDS,intron-Proximal	4.52160	8.86236	K562	DDX3X
chr1	118492737	118492808	+	CDS,intron-Proximal	5.22534	7.58908	K562	PRPF8
chr1	118495569	118495620	+	CDS,intron-Proximal	4.85661	7.48032	HepG2	G3BP1
chr1	118501433	118501516	+	intron-Proximal	3.95932	6.89441	K562	KHSRP
chr1	118496051	118496144	+	CDS,intron-Proximal	3.86700	6.39986	K562	SF3B4
chr1	118483498	118483563	+	3'-UTR,CDS	3.51284	6.14048	K562	ZNF622
chr1	118502560	118502612	+	3'-UTR	4.36686	5.82137	K562	YBX3
chr1	118492747	118492845	+	CDS,intron-Proximal	5.09293	5.69951	K562	AQR
chr1	118483502	118483563	+	3'-UTR,CDS	4.08468	5.52342	HepG2	PPIG
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 28 entries

No autoregularoty interactions between protein WDR3 and its RNA.

Diffrential Expression

4,409 differentially expressed genes after Knockdown/Knockout WDR3 protein.

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106 RBPs can affect the levels of WDR3.

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4,409 differentially expressed genes after Knockdown/Knockout WDR3 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
ABHD5	ENSG00000011198.3	2485.64630	1013.05140	1.29480	38.67720	35.77170	K562	WDR3
ACSM3	ENSG00000005187.7	4535.66910	2137.85850	1.08500	32.20350	29.47870	K562	WDR3
LAP3	ENSG00000002549.8	1190.15210	2159.25150	-0.85940	17.57740	15.38190	K562	WDR3
CALCOCO1	ENSG00000012822.11	1053.99620	541.99460	0.95940	16.32010	14.18820	K562	WDR3
SCIN	ENSG00000006747.10	1228.15280	655.86470	0.90490	15.83330	13.72190	K562	WDR3
MGST1	ENSG00000008394.8	312.75780	667.07530	-1.09280	15.76600	13.65910	K562	WDR3
ITGA2B	ENSG00000005961.13	280.37330	589.88040	-1.07310	14.31500	12.28170	K562	WDR3
CFLAR	ENSG00000003402.15	1328.53650	2175.70010	-0.71160	12.49600	10.57910	K562	WDR3
ARSD	ENSG00000006756.11	53.75270	2.95790	4.18360	12.37330	10.47470	K562	WDR3
ETV1	ENSG00000006468.9	228.69090	458.72270	-1.00420	10.94820	9.15220	K562	WDR3
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 WDR3 :

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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
WDR3	ENSG00000065183.11	316.86770	2971.32100	-3.22920	184.58560	180.66580	K562	WDR3
WDR3	ENSG00000065183.11	3156.48880	1688.12020	0.90280	29.98200	28.12730	K562	FXR1
WDR3	ENSG00000065183.11	394.59730	1168.01380	-1.56560	25.17140	23.58370	HepG2	DDX6
WDR3	ENSG00000065183.11	6409.18900	4067.51140	0.65590	23.46090	21.74680	K562	DDX47
WDR3	ENSG00000065183.11	476.71930	1123.01840	-1.23620	18.49610	17.05820	HepG2	EIF2S1
WDR3	ENSG00000065183.11	2361.98240	3472.50720	-0.55600	16.27670	14.70020	K562	UPF1
WDR3	ENSG00000065183.11	1172.80740	2274.04730	-0.95530	15.91730	13.47590	K562	UCHL5
WDR3	ENSG00000065183.11	982.49160	2098.37950	-1.09480	11.94660	10.77820	K562	HNRNPC
WDR3	ENSG00000065183.11	2887.36990	4083.21870	-0.50000	13.44620	10.72240	K562	TROVE2
WDR3	ENSG00000065183.11	3015.65580	1937.97260	0.63780	12.41540	10.68290	K562	SYNCRIP
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 125 entries

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

318 alternative splicing events after Knockdown/Knockout WDR3 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	KIF23	ENSG00000137807.9	chr15	+	69733106	69733418	69732646	69732826	69737128	69737380	0.28600	0.00012	included	K562	WDR3
SE	DNAH14	ENSG00000185842.10	chr1	+	225147854	225148004	225142660	225142800	225152180	225152311	0.11700	0.00140	included	K562	WDR3
SE	ZNF207	ENSG00000010244.12	chr17	+	30693683	30693776	30692348	30692506	30694790	30694962	0.21100	0.00000	included	K562	WDR3
SE	PSMD6	ENSG00000163636.6	chr3	-	64008318	64008477	64007993	64008199	64008950	64009148	0.09600	0.00113	included	K562	WDR3
SE	SREK1	ENSG00000153914.11	chr5	+	65451892	65454760	65449290	65449424	65455046	65455162	0.24100	0.00000	included	K562	WDR3
SE	ORC1	ENSG00000085840.8	chr1	-	52849501	52849609	52849091	52849241	52850221	52850393	0.09000	0.00001	included	K562	WDR3
SE	MRRF	ENSG00000148187.13	chr9	+	125048317	125048445	125047447	125047566	125054027	125054077	0.26700	0.00268	included	K562	WDR3
SE	SRSF6	ENSG00000124193.10	chr20	+	42087792	42088060	42087000	42087149	42088410	42088535	0.27800	0.00000	included	K562	WDR3
SE	ARHGAP6	ENSG00000047648.17	chrX	-	11166749	11166839	11162099	11162368	11174648	11174746	0.13400	0.00161	included	K562	WDR3
SE	HNRNPDL	ENSG00000152795.13	chr4	-	83346715	83346820	83345781	83346036	83347189	83347282	0.20700	0.00000	included	K562	WDR3

Showing 1 to 10 of 100 entries

2 RBPs can affect the splicing of WDR3 :

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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	WDR3	ENSG00000065183.11	chr1	+	118497937	118497981			118497166	118497250	118499690	118499819	-0.14800	0.00000	0.00001	excluded	K562	AQR
MXE	WDR3	ENSG00000065183.11	chr1	+	118499690	118499819	118501532	118501626	118497202	118497250	118501914	118509165	0.13600	0.00015	0.00455	1included	K562	U2AF1
SE	WDR3	ENSG00000065183.11	chr1	+	118497937	118497981			118497082	118497250	118499690	118499819	-0.09600	0.00158	0.03271	excluded	K562	U2AF1

Showing 1 to 3 of 3 entries

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

WDR3

General Information

Functions

Localization(RBPImage: WDR3)

Domains (AlphaFold: WDR3)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

WDR3 protein has 19 RNA targets:

14 proteins are bound to WDR3 RNA:

No autoregularoty interactions between protein WDR3 and its RNA.

Diffrential Expression

4,409 differentially expressed genes after Knockdown/Knockout WDR3 protein :

106 RBPs can affect the gene expression of WDR3 :

318 alternative splicing events after Knockdown/Knockout WDR3 protein :

2 RBPs can affect the splicing of WDR3 :

No autoregularoty alternative splicing events between protein WDR3 and its RNA.