SMG9

General Information

Gene Name : SMG9
Gene ID : ENSG00000105771.13
Essential Gene : Yes

Functions

Not Available

Localization

Not Available

Domains (AlphaFold: SMG9)

Not Available

Antibody Validation

Bethyl Labs: A302-210A

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	SMG9	ENSG00000105771.13	13.85	17.98	15.91	ENCSR000AEF
HepG2	SMG9	ENSG00000105771.13	22.03	16.66	19.34	ENCSR985KAT
K562	SMG9	ENSG00000105771.13	44.05	36.08	40.06	ENCSR000AEO

Assays

2 Released experiments are available on ENCORE database.

Assay Type	Exp_Name	ENCODE ID	Target label	Biosample	Status	Linked Antibody	Controls	Method	Note
knockdown followed by RNA-seq	SMG9-BGKcLV33-K562		SMG9	K562	Released			CRISPR	KD% = 77.8,71.8
knockdown followed by RNA-seq	SMG9-BGKcLV33-K562	ENCSR971FJU	SMG9	K562	Released		ENCSR271ZAB	CRISPR	KD% = band isn't on the position,

eCLIP

No eCLIP experiment available

Antibody Validation

GeneName	Antibody_DCC_ID	Product_ID	Lot_ID	Phosphate	HepG2 Primary Validation	K562 Primary Validation	HepG2 Secondary Validation	K562 Secondary Validation
SMG9	ENCAB220KQW	A302-210A	1				BGHcLV49-101, Experimented, ENCORE2	BGKcLV33-61, Released, ENCODE4

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project
SMG9	K562	CRISPR			BGKcLV33-57,BGKcLV33-58	BGKcLV33-1,BGKcLV33-2	77.8,71.8	Released	ENCODE4
SMG9	K562	CRISPR	ENCSR971FJU	ENCSR271ZAB	SMG9-BGKcLV33-61,SMG9-BGKcLV33-62	NT-BGKcLV33-1,NT-BGKcLV33-2	band isn't on the position,	Released	ENCODE4
SMG9	HepG2	CRISPR			BGHcLV31-57,BGHcLV31-58	BGHcLV31-1,BGHcLV31-2	NO CLEAR BAND,	NotSatisfied	ENCODE4
SMG9	HepG2	CRISPR			BGHcLV34-53,BGHcLV34-54	BGHcLV34-1,BGHcLV34-2	NO CLEAR BAND ON THE POSITION,	NotSatisfied	ENCORE2
SMG9	HepG2	CRISPR			BGHcLV49-101,BGHcLV49-102	BGHcLV49-1,BGHcLV49-2	94.5,83.3	LibPreping	ENCORE2

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
SMG9	Product_ID: A302-210A Lot_ID: 1 Source: Bethyl Labs Target Name: SMG9-human

Summary
Proteins Bound to RBP RNA

RNA Targets

eCLIP assay for SMG9 is not avaliable on ENCORE database.

Proteins bound to RNA

SMG9 RNA is bound by 13 proteins.

CanvasJS.com

eCLIP assay for SMG9 is not avaliable on ENCORE database.

13 proteins are bound to SMG9 RNA:

Show entries

Search:

Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr19	44235472	44235602	-	3'-UTR,intron-Distal,intron-Proximal	4.72368	14.74404	K562	UPF1
chr19	44238389	44238493	-	intron-Distal,intron-Proximal	6.20139	13.01998	K562	EFTUD2
chr19	44235602	44235708	-	3'-UTR,intron-Distal	3.59847	8.82905	K562	UPF1
chr19	44235463	44235703	-	3'-UTR,intron-Distal,intron-Proximal	5.02301	7.94456	HepG2	UPF1
chr19	44235349	44235457	-	3'-UTR,intron-Distal,intron-Proximal	3.60311	7.91779	K562	UPF1
chr19	44241773	44241882	-	3'-UTR,CDS,intron-Distal,intron-Proximal	3.23887	7.24530	K562	BUD13
chr19	44241826	44241894	-	3'-UTR,CDS,intron-Distal,intron-Proximal	3.60439	6.26686	K562	SF3B4
chr19	44238343	44238388	-	intron-Distal	5.16933	6.03057	K562	EFTUD2
chr19	44235516	44235743	-	3'-UTR,intron-Distal,intron-Proximal	4.55882	5.58993	HepG2	PABPN1
chr19	44252001	44252054	-	CDS,intron-Distal,intron-Proximal	4.15428	5.20093	K562	DDX24
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 23 entries

eCLIP assay for SMG9 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout assay for SMG9 is not available on ENCORE database.
79 RBPs can affect the levels of SMG9.

CanvasJS.com

The Knockdown/knockout RNA-Seq assay for SMG9 is not available on ENCORE database.

79 RBPs can affect the gene expression of SMG9 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
SMG9	ENSG00000105771.9	623.97470	1322.59330	-1.08380	23.31930	21.16090	K562	POLR2G
SMG9	ENSG00000105771.9	926.97220	477.30810	0.95750	19.78210	18.39790	HepG2	UTP3
SMG9	ENSG00000105771.9	1010.98860	577.67430	0.80730	15.48540	14.55400	HepG2	SRFBP1
SMG9	ENSG00000105771.9	842.03160	1724.31340	-1.03410	15.73790	13.80240	K562	PCBP3
SMG9	ENSG00000105771.9	758.19250	373.57870	1.02110	10.44100	9.21920	HepG2	EIF4A3
SMG9	ENSG00000105771.9	615.48290	321.34210	0.93750	9.82040	8.58030	HepG2	HNRNPC
SMG9	ENSG00000105771.9	1666.10700	1092.14600	0.60920	8.43460	7.44310	K562	HNRNPC
SMG9	ENSG00000105771.9	273.82610	556.61870	-1.02340	8.61350	7.22230	K562	G3BP2
SMG9	ENSG00000105771.9	396.40080	207.19070	0.93590	8.18680	7.19550	HepG2	RPS19
SMG9	ENSG00000105771.9	986.23230	553.92120	0.83210	7.32610	5.96150	HepG2	LARP4
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 89 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 SMG9 is not available on ENCORE database.

10 RBPs can affect the splicing of SMG9 :

Show entries

Search:

Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	p-value	FDR	is_included	Cell Line	Affected by RBP
A3SS	SMG9	ENSG00000105771.9	chr19	-	44238540	44238740	44238540	44238647	44241748	44241834	0.10000	0.00000	0.00015	longer	K562	NPM1
A3SS	SMG9	ENSG00000105771.9	chr19	-	44238540	44238740	44238540	44238647	44241748	44241834	0.15900	0.00000	0.00000	longer	K562	PUS1
A3SS	SMG9	ENSG00000105771.9	chr19	-	44238540	44238740	44238540	44238647	44241748	44241834	0.26300	0.00000	0.00000	longer	HepG2	U2AF1
A3SS	SMG9	ENSG00000105771.9	chr19	-	44238540	44238740	44238540	44238647	44241748	44241777	0.14300	0.00000	0.00003	longer	K562	RBM15
A3SS	SMG9	ENSG00000105771.9	chr19	-	44237777	44237908	44237777	44237885	44238540	44238647	0.09000	0.00003	0.00031	longer	K562	AQR
A3SS	SMG9	ENSG00000105771.9	chr19	-	44237475	44237626	44237475	44237604	44237777	44237885	0.13100	0.00003	0.00266	longer	K562	U2AF1
A3SS	SMG9	ENSG00000105771.9	chr19	-	44238540	44238740	44238540	44238647	44241748	44241834	-0.07600	0.00007	0.05525	shorter	K562	EIF4G2
SE	SMG9	ENSG00000105771.9	chr19	-	44248923	44249036	44244258	44244370	44251593	44251691	-0.24800	0.00026	0.00893	excluded	HepG2	HNRNPK
A3SS	SMG9	ENSG00000105771.9	chr19	-	44238540	44238740	44238540	44238647	44241748	44241834	0.11500	0.00031	0.01012	longer	HepG2	U2AF2
A3SS	SMG9	ENSG00000105771.9	chr19	-	44237475	44237626	44237475	44237604	44237777	44237885	0.05300	0.00032	0.00252	longer	K562	AQR

Showing 1 to 10 of 18 entries

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

SMG9

General Information

Functions

Localization

Domains (AlphaFold: SMG9)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

eCLIP assay for SMG9 is not avaliable on ENCORE database.

13 proteins are bound to SMG9 RNA:

eCLIP assay for SMG9 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout RNA-Seq assay for SMG9 is not available on ENCORE database.

79 RBPs can affect the gene expression of SMG9 :

The Knockdown/knockout RNA-Seq assay for SMG9 is not available on ENCORE database.

10 RBPs can affect the splicing of SMG9 :

The Knockdown/knockout RNA-Seq assay for SMG9 is not avaliable on ENCORE database.