GNL3

General Information

Gene Name : GNL3
Gene ID : ENSG00000163938.16
Essential Gene : Yes

Functions

rRNA processing

Localization(RBPImage: GNL3)

Cytoplasm
Compartment/Organelle
Mitochondria

Domains (AlphaFold: GNL3)

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

Antibody Validation

Bethyl Labs: A300-599A

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	GNL3	ENSG00000163938.16	302.40	250.66	276.53	ENCSR000AEF
HepG2	GNL3	ENSG00000163938.16	106.43	205.32	155.88	ENCSR985KAT
K562	GNL3	ENSG00000163938.16	172.45	193.18	182.81	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: 358	ENCSR301UQM	GNL3	K562	Released	ENCAB664GBP	ENCSR977GTT
knockdown followed by RNA-seq	GNL3-BGKcLV08-K562	ENCSR455VFL	GNL3	K562	Released		ENCSR015KGT	CRISPR	KD% = 90.8,96.9
knockdown followed by RNA-seq	GNL3-BGHcLV05-HepG2	ENCSR940FIN	GNL3	HepG2	Released		ENCSR713OTF	CRISPR	KD% = 100.0,100.0

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
GNL3	358	K562	ENCSR301UQM	ENCSR977GTT	ENCAB664GBP	A300-599A	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
GNL3	ENCAB664GBP	A300-599A	1			Released, ENCODE3	BGHcLV05-19, Released, ENCODE3	BGKcLV08-93, Released, ENCODE4

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project
GNL3	K562	shRNA			BGKLV32-31,BGKLV32-32	BGKLV32-1,BGKLV32-2		NotSatisfied	ENCODE3
GNL3	HepG2	shRNA			BGHLV16-31,BGHLV16-32	BGHLV16-1,BGHLV16-2		NotSatisfied	ENCODE3
GNL3	HepG2	shRNA			BGHLV17-17,BGHLV17-18	BGHLV17-1,BGHLV17-2		NotSatisfied	ENCODE3
GNL3	HepG2	shRNA			BGHLV20-29,BGHLV20-30	BGHLV20-1,BGHLV20-2	redo transfection,redo transfection	NotSatisfied	ENCODE3
GNL3	HepG2	shRNA			BGHLV26-17,BGHLV26-18	BGHLV26-1,BGHLV26-2	redo transfection,redo transfection	NotSatisfied	ENCODE3
GNL3	K562	CRISPR			BGKcLV04-15,BGKcLV04-16	BGKcLV04-1,BGKcLV04-2	no clear band,	NotSatisfied	ENCODE3
GNL3	K562	CRISPR			BGKcLV04-15-D12,BGKcLV04-16-D12	BGKcLV04-1,BGKcLV04-2	no clear band,	NotSatisfied	ENCODE3
GNL3	K562	CRISPR			BGKcLV04-16-D12,BGKcLV04-15-D20	BGKcLV04-1,BGKcLV04-2	,no clear band	NotSatisfied	ENCODE3
GNL3	K562	CRISPR			BGKcLV04-15-D20,BGKcLV04-16-D20	BGKcLV04-1,BGKcLV04-2	no clear band,	NotSatisfied	ENCODE3
GNL3	K562	CRISPR			BGKcLV04-16-D20,BGKcLV04-15-D30	BGKcLV04-1,BGKcLV04-2	,0.0	NotSatisfied	ENCODE3
GNL3	K562	CRISPR			BGKcLV04-15-D30,BGKcLV04-16-D30	BGKcLV04-1,BGKcLV04-2	0.0,0.0	NotSatisfied	ENCODE3
GNL3	K562	CRISPR			BGKcLV04-16-D30,BGKcLV08-39	BGKcLV04-1,BGKcLV04-2	0.0,84.9	NotSatisfied	ENCODE3
GNL3	K562	CRISPR			BGKcLV08-39,BGKcLV08-40	BGKcLV08-1,BGKcLV08-2	84.9,85.1	NotSatisfied	ENCODE4
GNL3	K562	CRISPR	ENCSR455VFL	ENCSR015KGT	GNL3-BGKcLV08-93,GNL3-BGKcLV08-94	NT-BGKcLV08-1,NT-BGKcLV08-2	90.8,96.9	Released	ENCODE4
GNL3	HepG2	CRISPR	ENCSR940FIN	ENCSR713OTF	GNL3-BGHcLV05-19E,GNL3-BGHcLV05-20E	NT-BGHcLV05-1E,NT-BGHcLV05-2E	100.0,100.0	Released	ENCODE4

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

GNL3: Click to RBP Image Database

Cytoplasm

Compartment/Organelle

Mitochondria

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
GNL3	Product_ID: A300-599A Lot_ID: 1 Source: Bethyl Labs Target Name: GNL3-human

RNA Targets

GNL3 protein binds to 26 RNA regions.

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Proteins bound to RNA

GNL3 RNA is bound by 35 proteins.

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GNL3 protein has 26 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
GNL3	chrM	9952	9978	+	3.17651	33.28662	K562	MT-CO3	CDS
GNL3	chr1	173835454	173835473	-	3.70135	29.66015	K562	GAS5	intron-Distal
GNL3	chr3	193373566	193373576	+	4.81576	24.10216	K562	OPA1	intron-Distal
GNL3	chr3	193373576	193373588	+	4.81576	24.10216	K562	OPA1	intron-Distal
GNL3	chr1	173835444	173835454	-	4.39878	19.84626	K562	GAS5	intron-Distal
GNL3	chr10	128256376	128256388	-	5.48076	16.06251	K562	C10orf90	intron-Distal
GNL3	chr10	128256367	128256376	-	5.48076	16.06251	K562	C10orf90	intron-Distal
GNL3	chr4	83817004	83817069	-	3.08605	15.38251	K562	SEC31A, THAP9-AS1	intron-Distal,intron-Proximal
GNL3	chr13	92003190	92003215	+	5.33887	12.82783	K562	MIR17HG	intron-Distal
GNL3	chr13	92003325	92003347	+	5.61309	10.55661	K562	MIR17HG	intron-Distal

Showing 1 to 10 of 26 entries

35 proteins are bound to GNL3 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr3	52725445	52725462	+	intron-Distal,intron-Proximal	7.44975	400.00000	HepG2	NOLC1
chr3	52725439	52725445	+	intron-Distal	7.29236	400.00000	HepG2	NOLC1
chr3	52725395	52725439	+	intron-Distal	7.10250	400.00000	HepG2	NOLC1
chr3	52722908	52722974	+	intron-Distal,intron-Proximal	6.16122	400.00000	HepG2	NOLC1
chr3	52725394	52725462	+	intron-Distal,intron-Proximal	4.66919	400.00000	HepG2	DKC1
chr3	52726798	52726811	+	intron-Proximal	3.51081	71.78023	HepG2	NOLC1
chr3	52724784	52724829	+	intron-Distal,intron-Proximal	5.48639	66.75676	HepG2	NOLC1
chr3	52726756	52726797	+	intron-Distal,intron-Proximal	3.08434	64.61429	HepG2	NOLC1
chr3	52725425	52725445	+	intron-Distal	3.97685	52.60359	K562	SMNDC1
chr3	52725445	52725459	+	intron-Distal,intron-Proximal	3.93492	52.37072	K562	SMNDC1
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 126 entries

No autoregularoty interactions between protein GNL3 and its RNA.

Diffrential Expression

The Knockdown/knockout assay for GNL3 is not available on ENCORE database.
126 RBPs can affect the levels of GNL3.

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The Knockdown/knockout RNA-Seq assay for GNL3 is not available on ENCORE database.

126 RBPs can affect the gene expression of GNL3 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
GNL3	ENSG00000163938.12	1385.15620	2555.01550	-0.88330	34.56390	32.84130	HepG2	PUS1
GNL3	ENSG00000163938.12	1049.23500	2281.65850	-1.12070	32.87720	31.49850	HepG2	TIAL1
GNL3	ENSG00000163938.12	1372.79050	2453.34760	-0.83760	32.88600	31.06240	HepG2	ZC3H8
GNL3	ENSG00000163938.12	1135.32360	2833.41940	-1.31940	30.32270	28.60210	HepG2	HNRNPLL
GNL3	ENSG00000163938.12	1898.45410	3079.09010	-0.69770	29.07150	27.78000	HepG2	ZNF622
GNL3	ENSG00000163938.12	2904.49580	4823.47680	-0.73180	26.60990	25.06900	HepG2	ETF1
GNL3	ENSG00000163938.12	2064.00550	3480.97880	-0.75400	24.79030	23.49310	HepG2	NELFE
GNL3	ENSG00000163938.12	1985.42540	3769.75500	-0.92500	21.90630	20.44240	HepG2	PUF60
GNL3	ENSG00000163938.12	1179.11630	2355.05360	-0.99810	22.11650	19.38540	K562	RCC2
GNL3	ENSG00000163938.12	1743.15430	3608.08990	-1.04950	18.98630	17.50360	HepG2	DDX3X
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 150 entries

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

The Knockdown/knockout RNA-Seq assay for GNL3 is not available on ENCORE database.

20 RBPs can affect the splicing of GNL3 :

Show entries

Search:

Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	FDR	is_included	Cell Line	Affected by RBP
SE	GNL3	ENSG00000163938.12	chr3	+	52720784	52721023	52719935	52720121	52721261	52721399	-0.06700	0.00000	excluded	K562	AQR
A3SS	GNL3	ENSG00000163938.12	chr3	+	52720761	52720843	52720784	52720843	52719935	52720121	0.05300	0.00000	longer	K562	AQR
RI	GNL3	ENSG00000163938.12	chr3	+	52724607	52725087	52724607	52724720	52724960	52725087	0.20000	0.00000	included	K562	PUS1
RI	GNL3	ENSG00000163938.12	chr3	+	52724607	52725087	52724607	52724720	52724960	52725087	0.16200	0.00000	included	HepG2	SF3A3
RI	GNL3	ENSG00000163938.12	chr3	+	52724607	52725087	52724607	52724720	52724960	52725087	0.14500	0.00000	included	HepG2	PRPF8
RI	GNL3	ENSG00000163938.12	chr3	+	52724607	52725087	52724607	52724720	52724960	52725087	0.07000	0.00000	included	HepG2	TAF15
RI	GNL3	ENSG00000163938.12	chr3	+	52724607	52725087	52724607	52724720	52724960	52725087	0.13100	0.00000	included	K562	U2AF1
RI	GNL3	ENSG00000163938.12	chr3	+	52724607	52725087	52724607	52724720	52724960	52725087	0.14900	0.00000	included	K562	U2AF2
RI	GNL3	ENSG00000163938.12	chr3	+	52724607	52725087	52724607	52724720	52724960	52725087	0.06400	0.00001	included	HepG2	SF3B4
RI	GNL3	ENSG00000163938.12	chr3	+	52724607	52725087	52724607	52724720	52724960	52725087	0.16300	0.00000	included	HepG2	RBM22

Showing 1 to 10 of 26 entries

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

GNL3

General Information

Functions

Localization(RBPImage: GNL3)

Domains (AlphaFold: GNL3)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

GNL3 protein has 26 RNA targets:

35 proteins are bound to GNL3 RNA:

No autoregularoty interactions between protein GNL3 and its RNA.

Diffrential Expression

The Knockdown/knockout RNA-Seq assay for GNL3 is not available on ENCORE database.

126 RBPs can affect the gene expression of GNL3 :

The Knockdown/knockout RNA-Seq assay for GNL3 is not available on ENCORE database.

20 RBPs can affect the splicing of GNL3 :

The Knockdown/knockout RNA-Seq assay for GNL3 is not avaliable on ENCORE database.