SBDS

General Information

Gene Name : SBDS
Gene ID : ENSG00000126524.9
Essential Gene : Yes

Functions

rRNA processing

Localization(RBPImage: SBDS)

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

Domains (AlphaFold: SBDS)

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

Antibody Validation

GeneTex: GTX109168

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	SBDS	ENSG00000126524.9	38.62	31.71	35.16	ENCSR000AEF
HepG2	SBDS	ENSG00000126524.9	46.07	73.61	59.84	ENCSR985KAT
K562	SBDS	ENSG00000126524.9	115.20	117.11	116.16	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: 352	ENCSR059CWF	SBDS	K562	Released	ENCAB894TLT	ENCSR038TMA
knockdown followed by RNA-seq	SBDS-BGKLV24-K562	ENCSR219DXZ	SBDS	K562	Released		ENCSR419JMU	shRNA	KD% = 75.6,82.6
knockdown followed by RNA-seq	SBDS-BGHLV22-HepG2	ENCSR343DHN	SBDS	HepG2	Released		ENCSR279HMU	shRNA	KD% = 62.2,60.0

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
SBDS	352	K562	ENCSR059CWF	ENCSR038TMA	ENCAB894TLT	GTX109168	40023	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
SBDS	ENCAB894TLT	GTX109168	40023			Released, ENCODE3	BGHLV22-47, Released, ENCODE3	BGKLV24-55, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project	Note
SBDS	K562	shRNA	ENCSR219DXZ	ENCSR419JMU	SBDS_BGKLV24_55B,SBDS_BGKLV24_56B	non-target_BGKLV24_1B,non-target_BGKLV24_2B	75.6,82.6	Released	ENCODE3
SBDS	HepG2	shRNA	ENCSR343DHN	ENCSR279HMU	SBDS-BGHLV22-47,SBDS-BGHLV22-48	non-target-BGHLV22-1_17746,non-target-BGHLV22-2_17747	62.2,60.0	Released	ENCODE3

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

SBDS: Click to RBP Image Database

Nuclei

Nucleolus

Cytoplasm

Cytoskeleton

Microtubule

Cytosolic

Mitotic-Apparatus (Spindle; Centrosomes)

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
SBDS	Product_ID: GTX109168 Lot_ID: 40023 Source: GeneTex Target Name: SBDS-human

RNA Targets

SBDS protein binds to 5 RNA regions.

CanvasJS.com

Proteins bound to RNA

SBDS RNA is bound by 8 proteins.

CanvasJS.com

SBDS protein has 5 RNA targets:

Only display 100 entries as example. Please click "View All" button to see all 5 entries.

Show entries

Search:

RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
SBDS	chr14	76070547	76070598	+	3.53912	11.05504	K562	FLVCR2	intron-Distal
SBDS	chr15	45492629	45492647	-	3.49303	7.85449	K562	SHF	intron-Distal
SBDS	chr20	57607309	57607395	-	3.05580	4.26674	K562	ATP5E	5'-UTR,intron-Distal,intron-Proximal
SBDS	chr7	5340386	5340391	+	4.89805	4.19857	K562	SLC29A4	intron-Proximal
SBDS	chr7	5340391	5340411	+	4.89805	4.19857	K562	SLC29A4	intron-Distal,intron-Proximal

Showing 1 to 5 of 5 entries

8 proteins are bound to SBDS RNA:

Show entries

Search:

Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr7	66452955	66453059	-	3'-UTR,intron-Distal	3.93816	31.19954	K562	PUM2
chr7	66460396	66460470	-	5'-UTR,CDS,intron-Distal	5.38955	8.39621	K562	DDX3X
chr7	66458206	66458301	-	5'-UTR,CDS,intron-Distal	3.02065	6.24135	K562	YBX3
chr7	66460470	66460530	-	5'-UTR,intron-Distal	4.22002	6.20524	K562	DDX3X
chr7	66460224	66460279	-	CDS,intron-Distal	3.53867	4.28285	K562	AQR
chr7	66460307	66460365	-	CDS,intron-Distal	4.08730	4.07395	K562	SRSF1
chr7	66452836	66452930	-	3'-UTR,intron-Distal	3.61726	3.99895	HepG2	SUB1
chr7	66460040	66460083	-	intron-Distal	3.83462	3.31110	K562	TIA1
chr7	66453329	66453355	-	3'-UTR,intron-Distal	3.66407	3.22721	K562	YBX3
chr7	66453269	66453313	-	3'-UTR,intron-Distal	3.06361	3.07714	K562	YBX3
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 11 entries

No autoregularoty interactions between protein SBDS and its RNA.

Diffrential Expression

1,323 differentially expressed genes after Knockdown/Knockout SBDS protein.

CanvasJS.com

97 RBPs can affect the levels of SBDS.

CanvasJS.com

1,323 differentially expressed genes after Knockdown/Knockout SBDS protein :

Only display 100 entries as example. Please click "View All" button to see all 1,323 entries.

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
CYP24A1	ENSG00000019186.5	136.59250	470.31570	-1.78380	17.15650	13.62850	HepG2	SBDS
ACSM2B	ENSG00000066813.10	1690.02280	694.00130	1.28390	13.91820	10.78000	HepG2	SBDS
MAP3K9	ENSG00000006432.11	381.87240	867.56570	-1.18390	10.57220	7.81550	HepG2	SBDS
MLXIPL	ENSG00000009950.11	2152.70270	1060.86970	1.02080	9.60630	6.98590	HepG2	SBDS
CD9	ENSG00000010278.7	271.21660	605.90980	-1.15970	9.19430	6.63180	HepG2	SBDS
MCAM	ENSG00000076706.10	757.24170	1524.24490	-1.00930	8.96680	6.43700	HepG2	SBDS
KITLG	ENSG00000049130.9	115.40790	297.79930	-1.36760	8.94660	6.42310	HepG2	SBDS
CTSA	ENSG00000064601.12	1235.61440	2369.55500	-0.93940	8.37180	5.88970	HepG2	SBDS
CREB3L3	ENSG00000060566.9	259.90900	87.12670	1.57670	7.41750	5.02660	HepG2	SBDS
TGFB2	ENSG00000092969.7	33.83170	114.23440	-1.75550	7.37630	4.99000	HepG2	SBDS
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".

97 RBPs can affect the gene expression of SBDS :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
SBDS	ENSG00000126524.5	3442.57650	1508.07720	1.19070	66.34260	64.72840	HepG2	SRFBP1
SBDS	ENSG00000126524.5	876.53260	5393.50620	-2.62130	54.30120	49.89850	K562	SBDS
SBDS	ENSG00000126524.5	2256.76030	882.25820	1.35490	25.72510	24.04940	HepG2	SUPV3L1
SBDS	ENSG00000126524.5	3403.77580	877.52020	1.95550	23.07960	21.23920	HepG2	RAVER1
SBDS	ENSG00000126524.5	594.73920	1500.35940	-1.33500	17.93450	16.44150	HepG2	MATR3
SBDS	ENSG00000126524.5	7674.16160	5225.93730	0.55420	17.84690	16.32050	K562	DDX47
SBDS	ENSG00000126524.5	2178.38300	1391.38740	0.64660	15.81620	14.41160	HepG2	AUH
SBDS	ENSG00000126524.5	2059.45000	1407.40500	0.54910	15.11760	14.09410	HepG2	ZNF622
SBDS	ENSG00000126524.5	2401.72960	1597.50670	0.58820	14.32400	13.12750	HepG2	ETF1
SBDS	ENSG00000126524.5	1510.17260	977.07920	0.62810	14.14540	12.99830	HepG2	ACO1
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 112 entries

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

746 alternative splicing events after Knockdown/Knockout SBDS protein :

Only display 100 entries as example. Please click "View All" button to see all 746 entries.

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	NSUN6	ENSG00000241058.1	chr10	-	18932497	18932569	18931404	18931484	18937418	18937574	0.11600	0.00000	included	K562	SBDS
SE	RPE	ENSG00000197713.10	chr2	+	210880927	210880981	210880696	210880836	210881230	210881365	0.10600	0.00088	included	K562	SBDS
SE	UAP1	ENSG00000117143.9	chr1	+	162562521	162562572	162560112	162560301	162567581	162567648	0.08600	0.00008	included	K562	SBDS
SE	DLGAP5	ENSG00000126787.8	chr14	-	55615311	55615402	55614829	55615191	55617516	55617566	0.10500	0.00017	included	K562	SBDS
SE	WNK1	ENSG00000060237.12	chr12	+	989886	990165	987377	987527	990857	990955	0.06500	0.00217	included	K562	SBDS
SE	CTC-338M12.9	ENSG00000248103.1	chr5	+	180710157	180710243	180708375	180708613	180710342	180710653	0.16000	0.00017	included	K562	SBDS
SE	AC005307.3	ENSG00000267243.1	chr19	-	28944750	28944842	28928547	28928625	28957308	28957687	0.05200	0.00004	included	K562	SBDS
SE	MRRF	ENSG00000148187.13	chr9	+	125048317	125048445	125047447	125047566	125054027	125054077	0.25600	0.00029	included	K562	SBDS
SE	MYB	ENSG00000118513.14	chr6	+	135518098	135518461	135516885	135517140	135520045	135520188	0.05400	0.00324	included	K562	SBDS
SE	HNRNPD	ENSG00000138668.14	chr4	-	83276047	83276154	83274986	83275307	83276456	83276554	0.06200	0.00000	included	K562	SBDS

Showing 1 to 10 of 100 entries

2 RBPs can affect the splicing of SBDS :

Show entries

Search:

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
A3SS	SBDS	ENSG00000126524.5	chr7	-	66456162	66456389			66456162	66456288	66458203	66458404	0.11500	0.00000	0.00000	longer	K562	AQR
A3SS	SBDS	ENSG00000126524.5	chr7	-	66459206	66459440			66459206	66459328	66460276	66460553	0.10000	0.00000	0.00000	longer	K562	AQR
MXE	SBDS	ENSG00000126524.5	chr7	-	66458203	66458404	66459198	66459328	66456123	66456288	66460276	66460588	0.14100	0.00001	0.00572	1included	K562	HNRNPM

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".

SBDS

General Information

Functions

Localization(RBPImage: SBDS)

Domains (AlphaFold: SBDS)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

SBDS protein has 5 RNA targets:

8 proteins are bound to SBDS RNA:

No autoregularoty interactions between protein SBDS and its RNA.

Diffrential Expression

1,323 differentially expressed genes after Knockdown/Knockout SBDS protein :

97 RBPs can affect the gene expression of SBDS :

746 alternative splicing events after Knockdown/Knockout SBDS protein :

2 RBPs can affect the splicing of SBDS :

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