APEX1

General Information

Gene Name : APEX1
Gene ID : ENSG00000100823.11
Essential Gene : No

Functions

Not Available

Localization

Not Available

Domains (AlphaFold: APEX1)

Not Available

Antibody Validation

Thermo Fisher: MA1-440

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	APEX1	ENSG00000100823.11	293.66	276.79	285.23	ENCSR000AEF
HepG2	APEX1	ENSG00000100823.11	269.26	300.71	284.99	ENCSR985KAT
K562	APEX1	ENSG00000100823.11	153.18	184.60	168.89	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: 4028	ENCSR256NCI	APEX1	K562	Released	ENCAB328DHC	ENCSR937QWU
eCLIP	eCLIP: 4081	ENCSR554GSW	APEX1	HepG2	Released	ENCAB328DHC	ENCSR066WPD
knockdown followed by RNA-seq	APEX1-BGKcLV13-K562	ENCSR989ZNZ	APEX1	K562	Released		ENCSR712CQC	CRISPR	KD% = 70.4,71.9
knockdown followed by RNA-seq	APEX1-BGHcLV14-HepG2	ENCSR367BWL	APEX1	HepG2	Released		ENCSR750CPT	CRISPR	KD% = 65.6,60.5

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
APEX1	4028	K562	ENCSR256NCI	ENCSR937QWU	ENCAB328DHC	MA1-440	TB260470	Released	ENCODE4
APEX1	4081	HepG2	ENCSR554GSW	ENCSR066WPD	ENCAB328DHC	MA1-440	TB260470	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
APEX1	ENCAB328DHC	MA1-440	TB260470			Released, ENCODE4	BGHcLV14-5, Released, ENCODE4	BGKcLV13-3, Released, ENCODE4

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project
APEX1	K562	CRISPR	ENCSR989ZNZ	ENCSR712CQC	APEX1-BGKcLV13-3,APEX1-BGKcLV13-4	NT-BGKcLV13-1,NT-BGKcLV13-2	70.4,71.9	Released	ENCODE4
APEX1	K562	CRISPR			BGKcLV13-5,BGKcLV13-6	BGKcLV13-1,BGKcLV13-2	55.4,55.6	NotSatisfied	ENCODE4
APEX1	K562	CRISPR			BGKcLV13-7,BGKcLV13-8	BGKcLV13-1,BGKcLV13-2	34.6,38.4	NotSatisfied	ENCODE4
APEX1	HepG2	CRISPR			BGHcLV14-3,BGHcLV14-4	BGHcLV14-1,BGHcLV14-2	58.0,61.6	NotSatisfied	ENCODE4
APEX1	HepG2	CRISPR	ENCSR367BWL	ENCSR750CPT	APEX1-BGHcLV14-5,APEX1-BGHcLV14-6	NT-BGHcLV14-1,NT-BGHcLV14-2	65.6,60.5	Released	ENCODE4
APEX1	HepG2	CRISPR			BGHcLV14-7,BGHcLV14-8	BGHcLV14-1,BGHcLV14-2	40.9,55.7	NotSatisfied	ENCODE4

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

No Localization Information available

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
APEX1	Product_ID: MA1-440 Lot_ID: TB260470 Source: Thermo Fisher Target Name: APEX1-human

Summary
Proteins Bound to RBP RNA

RNA Targets

eCLIP assay for APEX1 is not avaliable on ENCORE database.

Proteins bound to RNA

APEX1 RNA is bound by 22 proteins.

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eCLIP assay for APEX1 is not avaliable on ENCORE database.

22 proteins are bound to APEX1 RNA:

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Search:

Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr14	20924933	20924962	+	CDS,intron-Distal	3.62128	22.08818	K562	YBX3
chr14	20924921	20924933	+	CDS,intron-Distal	3.77697	21.95924	K562	YBX3
chr14	20925764	20925812	+	3'-UTR	4.43429	16.44928	K562	PUM2
chr14	20924867	20924921	+	CDS,intron-Distal	3.44122	14.90763	K562	YBX3
chr14	20925640	20925756	+	3'-UTR,CDS	3.23001	13.21804	HepG2	LARP4
chr14	20924199	20924260	+	3'-UTR,CDS,intron-Distal	3.76662	12.82131	HepG2	BCLAF1
chr14	20924104	20924186	+	3'-UTR,CDS,intron-Distal	3.89314	12.06601	HepG2	G3BP1
chr14	20925857	20925899	+	3'-UTR	4.68533	11.77823	K562	PABPC4
chr14	20924826	20924869	+	3'-UTR,CDS,intron-Distal,intron-Proximal	4.73878	10.83378	HepG2	G3BP1
chr14	20924130	20924198	+	3'-UTR,CDS,intron-Distal	3.32948	10.40328	HepG2	BCLAF1
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 44 entries

eCLIP assay for APEX1 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout assay for APEX1 is not available on ENCORE database.
92 RBPs can affect the levels of APEX1.

CanvasJS.com

The Knockdown/knockout RNA-Seq assay for APEX1 is not available on ENCORE database.

92 RBPs can affect the gene expression of APEX1 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
APEX1	ENSG00000100823.7	3074.68140	6187.85270	-1.00900	39.02300	37.15560	HepG2	QKI
APEX1	ENSG00000100823.7	3331.73740	5580.27980	-0.74410	24.18790	22.75650	HepG2	TAF15
APEX1	ENSG00000100823.7	2394.35410	5038.77570	-1.07340	21.03220	19.50300	HepG2	EIF2S1
APEX1	ENSG00000100823.7	4055.72890	6203.54220	-0.61310	20.78030	19.21380	HepG2	AUH
APEX1	ENSG00000100823.7	3183.42990	5615.72380	-0.81890	20.24380	18.53430	HepG2	RBM25
APEX1	ENSG00000100823.7	3828.07930	5713.12450	-0.57770	18.42090	17.24350	HepG2	PTBP1
APEX1	ENSG00000100823.7	3040.56020	6101.69410	-1.00490	18.64720	17.17440	HepG2	DDX3X
APEX1	ENSG00000100823.7	3296.64400	5051.02420	-0.61560	17.80360	16.62590	HepG2	SRSF9
APEX1	ENSG00000100823.7	3412.38370	4701.47040	-0.46230	16.56510	15.50710	HepG2	ZNF622
APEX1	ENSG00000100823.7	3939.95390	5948.43480	-0.59430	15.84430	14.60750	HepG2	SF3B4
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 107 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 APEX1 is not available on ENCORE database.

31 RBPs can affect the splicing of APEX1 :

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	APEX1	ENSG00000100823.7	chr14	+	20924051	20924260	20923384	20923862	20924826	20924842	-0.06700	0.00000	excluded	K562	AQR
A5SS	APEX1	ENSG00000100823.7	chr14	+	20923405	20923587	20923405	20923553	20923736	20923761	0.08300	0.00000	longer	K562	AQR
A5SS	APEX1	ENSG00000100823.7	chr14	+	20923736	20924260	20923736	20923862	20924826	20925019	-0.06400	0.00000	shorter	K562	AQR
A5SS	APEX1	ENSG00000100823.7	chr14	+	20923736	20923932	20923736	20923862	20924072	20924260	0.07400	0.00000	longer	HepG2	TIAL1
A5SS	APEX1	ENSG00000100823.7	chr14	+	20923736	20924260	20923736	20923862	20924826	20925019	-0.07900	0.00008	shorter	K562	PTBP1
A5SS	APEX1	ENSG00000100823.7	chr14	+	20923384	20923553	20923384	20923487	20923736	20923761	-0.05700	0.00128	shorter	HepG2	SRSF7
A5SS	APEX1	ENSG00000100823.7	chr14	+	20923736	20923932	20923736	20923862	20924072	20924260	0.05400	0.00135	longer	HepG2	HNRNPC
RI	APEX1	ENSG00000100823.7	chr14	+	20923736	20924260	20923736	20923862	20924072	20924260	0.09000	0.00347	included	HepG2	HNRNPM
RI	APEX1	ENSG00000100823.7	chr14	+	20923736	20924260	20923736	20923862	20924072	20924260	0.06700	0.00000	included	HepG2	IGF2BP3
RI	APEX1	ENSG00000100823.7	chr14	+	20923736	20924260	20923736	20923862	20924072	20924260	0.13300	0.00000	included	HepG2	FTO

Showing 1 to 10 of 47 entries

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

APEX1

General Information

Functions

Localization

Domains (AlphaFold: APEX1)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

eCLIP assay for APEX1 is not avaliable on ENCORE database.

22 proteins are bound to APEX1 RNA:

eCLIP assay for APEX1 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout RNA-Seq assay for APEX1 is not available on ENCORE database.

92 RBPs can affect the gene expression of APEX1 :

The Knockdown/knockout RNA-Seq assay for APEX1 is not available on ENCORE database.

31 RBPs can affect the splicing of APEX1 :

The Knockdown/knockout RNA-Seq assay for APEX1 is not avaliable on ENCORE database.