DDX6

General Information

Gene Name : DDX6
Gene ID : ENSG00000110367.12
Essential Gene : Yes

Functions

RNA stability & decay
microRNA processing
Translation regulation
Viral RNA regulation
P-body / stress granules

Localization(RBPImage: DDX6)

Cytoplasm
Compartment/Organelle
P bodies
Cytosolic

Domains (AlphaFold: DDX6)

Helicase

Antibody Validation

Bethyl Labs: A300-460A

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	DDX6	ENSG00000110367.12	45.66	40.86	43.26	ENCSR000AEF
HepG2	DDX6	ENSG00000110367.12	21.29	33.87	27.58	ENCSR985KAT
K562	DDX6	ENSG00000110367.12	39.22	39.13	39.17	ENCSR000AEO

Assays

5 Released experiments are available on ENCORE database.

Assay Type	Exp_Name	ENCODE ID	Target label	Biosample	Status	Linked Antibody	Controls	Method	Note
eCLIP	eCLIP: 577	ENCSR893EFU	DDX6	K562	Released	ENCAB348UON	ENCSR207DWI
eCLIP	eCLIP: 589	ENCSR141OIM	DDX6	HepG2	Released	ENCAB348UON	ENCSR099KAK
knockdown followed by RNA-seq	DDX6-BGKLV08-K562	ENCSR119QWQ	DDX6	K562	Released		ENCSR913CAE	shRNA	KD% = 30.3,21.4
knockdown followed by RNA-seq	DDX6-BGHLV12-HepG2	ENCSR147ZBD	DDX6	HepG2	Released		ENCSR237YZT	shRNA	KD% = 95.4,94.4
knockdown followed by RNA-seq	DDX6-BGKcLV08-K562	ENCSR298ASI	DDX6	K562	Released		ENCSR015KGT	CRISPR	KD% = 52.7,50.8

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
DDX6	577	K562	ENCSR893EFU	ENCSR207DWI	ENCAB348UON	A300-460A	1	Released	ENCODE3
DDX6	589	HepG2	ENCSR141OIM	ENCSR099KAK	ENCAB348UON	A300-460A	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
DDX6	ENCAB348UON	A300-460A	1		Released, ENCODE3	Released, ENCODE3	BGHLV12-17, Released, ENCODE3	BGKcLV08-29, Released, ENCODE4

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project
DDX6	K562	shRNA	ENCSR119QWQ	ENCSR913CAE	DDX6-LV08-17,DDX6-LV08-18	Nontarget-LV08-1_00003527,nontarget-LV08-2_00003527	30.3,21.4	Released	ENCODE3
DDX6	HepG2	shRNA	ENCSR147ZBD	ENCSR237YZT	DDX6-BGHLV12-17,DDX6-BGHLV12-18	NT-BGHLV12-01,NT-BGHLV12-02	95.4,94.4	Released	ENCODE3
DDX6	K562	CRISPR			BGKcLV08-27,BGKcLV08-28	BGKcLV08-1,BGKcLV08-2	21.2,21.6	NotSatisfied	ENCODE4
DDX6	K562	CRISPR	ENCSR298ASI	ENCSR015KGT	DDX6-BGKcLV08-29,DDX6-BGKcLV08-30	NT-BGKcLV08-1,NT-BGKcLV08-2	52.7,50.8	Released	ENCODE4

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

DDX6: Click to RBP Image Database

Cytoplasm

Compartment/Organelle

P bodies

Cytosolic

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
DDX6	Product_ID: A300-460A Lot_ID: 1 Source: Bethyl Labs Target Name: DDX6-human

RNA Targets

DDX6 protein binds to 2,518 RNA regions.

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Proteins bound to RNA

DDX6 RNA is bound by 31 proteins.

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DDX6 protein has 2,518 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
DDX6	chr7	158343966	158343992	-	7.11335	400.00000	HepG2	PTPRN2	intron-Distal
DDX6	chr10	74035311	74035433	+	5.36734	400.00000	K562	DDIT4	3'-UTR
DDX6	chr21	46283013	46283033	-	6.24592	400.00000	HepG2	PTTG1IP	intron-Distal
DDX6	chr22	22890270	22890311	-	3.20401	400.00000	K562	PRAME	3'-UTR,intron-Distal,intron-Proximal
DDX6	chr17	80808152	80808221	+	7.79121	92.25653	HepG2	TBCD	intron-Distal
DDX6	chr16	3104557	3104632	-	6.74151	86.61892	K562	RP11-473M20.7	intron-Distal
DDX6	chr2	240287647	240287718	-	7.91249	70.72920	HepG2	HDAC4	intron-Distal
DDX6	chr11	5290779	5290831	-	3.23276	42.24418	K562	HBG2, HBE1	CDS,intron-Distal
DDX6	chr17	38078119	38078182	-	3.38020	42.19209	HepG2	ORMDL3	3'-UTR,intron-Distal
DDX6	chr10	73577057	73577078	-	3.33916	38.86652	K562	PSAP	3'-UTR,intron-Distal

Showing 1 to 10 of 100 entries

31 proteins are bound to DDX6 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr11	118620401	118620454	-	3'-UTR,intron-Distal	4.43587	400.00000	K562	UPF1
chr11	118620456	118620495	-	3'-UTR,intron-Distal	4.24075	400.00000	K562	UPF1
chr11	118620398	118620471	-	3'-UTR,intron-Distal	6.35949	400.00000	K562	FAM120A
chr11	118621708	118621761	-	3'-UTR,intron-Distal	5.60869	400.00000	K562	FAM120A
chr11	118620322	118620359	-	3'-UTR,intron-Distal	5.72448	400.00000	K562	FAM120A
chr11	118620901	118620962	-	3'-UTR,intron-Distal	5.65281	400.00000	K562	FAM120A
chr11	118621715	118621760	-	3'-UTR,intron-Distal	6.57566	400.00000	K562	UPF1
chr11	118621663	118621692	-	3'-UTR,intron-Distal	6.79215	400.00000	K562	UPF1
chr11	118622060	118622143	-	3'-UTR,intron-Distal,intron-Proximal	4.59853	400.00000	K562	PUM2
chr11	118621660	118621708	-	3'-UTR,intron-Distal	5.26939	400.00000	K562	FAM120A
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 160 entries

No autoregularoty interactions between protein DDX6 and its RNA.

Diffrential Expression

8,683 differentially expressed genes after Knockdown/Knockout DDX6 protein.

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88 RBPs can affect the levels of DDX6.

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8,683 differentially expressed genes after Knockdown/Knockout DDX6 protein :

Only display 100 entries as example. Please click "View All" button to see all 8,683 entries.

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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
TNFRSF12A	ENSG00000006327.9	3255.75610	550.15270	2.56500	78.36510	75.84590	HepG2	DDX6
IFRD1	ENSG00000006652.9	2916.51890	910.15740	1.68000	37.34460	35.46090	HepG2	DDX6
RHBDF1	ENSG00000007384.11	524.13390	110.61380	2.24430	30.52680	28.80730	HepG2	DDX6
PLXND1	ENSG00000004399.8	5843.89730	1712.97280	1.77030	27.91000	26.25940	HepG2	DDX6
BAIAP3	ENSG00000007516.9	811.96890	140.81110	2.52760	24.95150	23.36990	HepG2	DDX6
ZFX	ENSG00000005889.11	549.17600	1732.98600	-1.65790	23.97970	22.41470	HepG2	DDX6
GIPR	ENSG00000010310.4	271.69790	49.40690	2.45910	22.39490	20.86470	HepG2	DDX6
MAP3K9	ENSG00000006432.11	1114.82910	414.56220	1.42710	21.10100	19.60820	HepG2	DDX6
RPS20	ENSG00000008988.5	6347.42140	13664.32060	-1.10620	20.62110	19.14160	HepG2	DDX6
GCFC2	ENSG00000005436.9	305.91170	850.17590	-1.47460	20.11500	18.65430	HepG2	DDX6
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".

88 RBPs can affect the gene expression of DDX6 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
DDX6	ENSG00000110367.7	399.95720	1718.94750	-2.10360	40.73640	38.78470	HepG2	DDX6
DDX6	ENSG00000110367.7	2589.72860	4706.91990	-0.86200	40.36830	38.03250	K562	UPF1
DDX6	ENSG00000110367.7	1270.65110	2260.92330	-0.83130	28.00210	26.25520	HepG2	UPF1
DDX6	ENSG00000110367.7	805.45380	1701.59330	-1.07900	26.91120	25.64760	HepG2	TIAL1
DDX6	ENSG00000110367.7	1208.36470	3224.88760	-1.41620	23.77830	20.01700	K562	DDX6
DDX6	ENSG00000110367.7	2675.57390	1651.04180	0.69640	21.04400	19.99630	HepG2	SRSF1
DDX6	ENSG00000110367.7	1118.37840	1751.25930	-0.64700	15.10910	13.78320	HepG2	HNRNPU
DDX6	ENSG00000110367.7	2619.67940	4267.05980	-0.70390	14.03870	12.31200	K562	GRSF1
DDX6	ENSG00000110367.7	1959.39040	1343.21410	0.54460	12.35450	11.33500	HepG2	SRSF9
DDX6	ENSG00000110367.7	2646.49330	1946.97480	0.44270	11.73400	10.69100	HepG2	PUM1
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 103 entries

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

705 alternative splicing events after Knockdown/Knockout DDX6 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	LUC7L3	ENSG00000108848.11	chr17	+	48826579	48826705	48823902	48824063	48827861	48828208	0.07600	0.00001	included	HepG2	DDX6
SE	USMG5	ENSG00000173915.8	chr10	-	105155502	105155789	105152127	105152223	105156165	105156198	0.12700	0.00000	included	HepG2	DDX6
SE	DHX9	ENSG00000135829.12	chr1	+	182824711	182824848	182823175	182823313	182825666	182825707	0.13000	0.00001	included	HepG2	DDX6
SE	C1orf43	ENSG00000143612.14	chr1	-	154192311	154192413	154186932	154187050	154192817	154193082	0.16600	0.00002	included	HepG2	DDX6
SE	PKP4	ENSG00000144283.17	chr2	+	159525662	159525814	159522924	159523075	159526231	159526427	0.08900	0.00091	included	HepG2	DDX6
SE	S100A16	ENSG00000188643.6	chr1	-	153581374	153581506	153580474	153580653	153581653	153581813	0.21500	0.00000	included	HepG2	DDX6
SE	ITGA6	ENSG00000091409.10	chr2	+	173366499	173366629	173362702	173362828	173368818	173369262	0.22700	0.00069	included	HepG2	DDX6
SE	ALDOA	ENSG00000149925.12	chr16	+	30077196	30077248	30075744	30075826	30078554	30078687	0.17100	0.00000	included	HepG2	DDX6
SE	TPM1	ENSG00000140416.15	chr15	+	63353911	63353987	63353396	63353472	63354413	63354476	0.11500	0.00003	included	HepG2	DDX6
SE	APOC1	ENSG00000130208.5	chr19	+	45417928	45418031	45417503	45417746	45418128	45418206	0.13200	0.00000	included	HepG2	DDX6

Showing 1 to 10 of 100 entries

3 RBPs can affect the splicing of DDX6 :

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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	DDX6	ENSG00000110367.7	chr11	-	118629482	118629611			118627879	118627996	118630630	118630753	-0.08600	0.00000	0.00000	excluded	K562	AQR
MXE	DDX6	ENSG00000110367.7	chr11	-	118630630	118630753	118633920	118634015	118627879	118627996	118635916	118636063	-0.12100	0.00000	0.00000	2included	K562	AQR
SE	DDX6	ENSG00000110367.7	chr11	-	118629482	118629611			118627879	118627996	118630630	118630753	-0.05300	0.00002	0.00169	excluded	K562	TARDBP
A3SS	DDX6	ENSG00000110367.7	chr11	-	118651829	118651956			118651829	118651893	118656760	118657227	0.05400	0.00002	0.00018	longer	K562	AQR
MXE	DDX6	ENSG00000110367.7	chr11	-	118635916	118636063	118638930	118639091	118633920	118634015	118650340	118650445	0.08000	0.00020	0.00222	1included	K562	AQR
MXE	DDX6	ENSG00000110367.7	chr11	-	118635916	118636063	118638930	118639155	118633920	118634015	118650340	118650445	0.07100	0.00062	0.00597	1included	K562	AQR
SE	DDX6	ENSG00000110367.7	chr11	-	118635916	118636063			118633920	118634015	118638930	118639060	-0.06200	0.00143	0.01646	excluded	K562	AQR
MXE	DDX6	ENSG00000110367.7	chr11	-	118629482	118629611	118630630	118630753	118627879	118627996	118633920	118634015	0.13500	0.00228	0.05584	1included	HepG2	MATR3

Showing 1 to 8 of 8 entries

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

DDX6

General Information

Functions

Localization(RBPImage: DDX6)

Domains (AlphaFold: DDX6)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

DDX6 protein has 2,518 RNA targets:

31 proteins are bound to DDX6 RNA:

No autoregularoty interactions between protein DDX6 and its RNA.

Diffrential Expression

8,683 differentially expressed genes after Knockdown/Knockout DDX6 protein :

88 RBPs can affect the gene expression of DDX6 :

705 alternative splicing events after Knockdown/Knockout DDX6 protein :

3 RBPs can affect the splicing of DDX6 :

No autoregularoty alternative splicing events between protein DDX6 and its RNA.