SF3A1

General Information

Gene Name : SF3A1
Gene ID : ENSG00000099995.18
Essential Gene : Yes

Functions

Not Available

Localization

Not Available

Domains (AlphaFold: SF3A1)

Not Available

Antibody Validation

Bethyl Labs: A301-601A

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	SF3A1	ENSG00000099995.18	28.22	53.69	40.95	ENCSR000AEF
HepG2	SF3A1	ENSG00000099995.18	47.67	25.47	36.57	ENCSR985KAT
K562	SF3A1	ENSG00000099995.18	81.81	77.74	79.78	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: 4117	ENCSR317QOX	SF3A1	HepG2	Released	ENCAB549NKF	ENCSR618TKA
knockdown followed by RNA-seq	SF3A1-BGKcLV17-K562	ENCSR547ICR	SF3A1	K562	Released		ENCSR516TLX	CRISPR	KD% = 76.8,77.378703
knockdown followed by RNA-seq	SF3A1-BGHcLV18-HepG2	ENCSR556TJU	SF3A1	HepG2	Released		ENCSR670KAS	CRISPR	KD% = 96.2,93.3

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
SF3A1	4117	HepG2	ENCSR317QOX	ENCSR618TKA	ENCAB549NKF	A301-601A	1	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
SF3A1	ENCAB549NKF	A301-601A	1			Released, ENCODE4	BGHcLV18-43, Released, ENCODE4	BGKcLV17-45, Released, ENCODE4

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project	Note
SF3A1	K562	CRISPR	ENCSR547ICR	ENCSR516TLX	SF3A1-BGKcLV17-45,SF3A1-BGKcLV17-46	NT-BGKcLV17-1,NT-BGKcLV17-2	76.8,77.378703	Released	ENCODE4
SF3A1	HepG2	CRISPR	ENCSR556TJU	ENCSR670KAS	SF3A1-BGHcLV18-43,SF3A1-BGHcLV18-44	NT-BGHcLV18-1,NT-BGHcLV18-2	96.2,93.3	Released	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
SF3A1	Product_ID: A301-601A Lot_ID: 1 Source: Bethyl Labs Target Name: SF3A1-human

Summary
Proteins Bound to RBP RNA

RNA Targets

eCLIP assay for SF3A1 is not avaliable on ENCORE database.

Proteins bound to RNA

SF3A1 RNA is bound by 24 proteins.

CanvasJS.com

eCLIP assay for SF3A1 is not avaliable on ENCORE database.

24 proteins are bound to SF3A1 RNA:

Show entries

Search:

Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr22	30730162	30730195	-	3'-UTR,intron-Distal	4.75572	28.70287	K562	YBX3
chr22	30738200	30738291	-	CDS,intron-Distal,intron-Proximal	3.96316	21.96277	K562	UCHL5
chr22	30738246	30738340	-	3'-UTR,CDS,intron-Distal,intron-Proximal	3.21889	21.50090	K562	ZNF622
chr22	30729835	30730005	-	3'-UTR,intron-Distal	4.32976	18.09052	K562	FAM120A
chr22	30737680	30737755	-	CDS,intron-Distal,intron-Proximal	5.80999	17.11009	K562	LIN28B
chr22	30730110	30730162	-	3'-UTR,intron-Distal	4.54284	15.65055	K562	YBX3
chr22	30734776	30734855	-	3'-UTR,CDS,intron-Distal,intron-Proximal	4.31005	14.67529	K562	IGF2BP2
chr22	30730485	30730567	-	3'-UTR,intron-Distal	4.70136	14.18762	K562	PCBP1
chr22	30734902	30735026	-	3'-UTR,CDS,intron-Distal,intron-Proximal	3.56512	13.94298	K562	UCHL5
chr22	30737692	30737792	-	CDS,intron-Distal	3.15650	13.31533	K562	UCHL5
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 85 entries

eCLIP assay for SF3A1 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout assay for SF3A1 is not available on ENCORE database.
78 RBPs can affect the levels of SF3A1.

CanvasJS.com

The Knockdown/knockout RNA-Seq assay for SF3A1 is not available on ENCORE database.

78 RBPs can affect the gene expression of SF3A1 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
SF3A1	ENSG00000099995.14	2865.56750	5907.23600	-1.04370	47.54880	44.82310	K562	SF3A3
SF3A1	ENSG00000099995.14	8165.73110	5104.09640	0.67780	28.41730	26.69400	K562	AGGF1
SF3A1	ENSG00000099995.14	7568.92450	5131.99300	0.56050	10.75160	9.60580	K562	RBM15
SF3A1	ENSG00000099995.14	2395.45400	1740.08460	0.46100	10.03740	9.26220	HepG2	SRSF1
SF3A1	ENSG00000099995.14	1381.11810	2219.56660	-0.68440	9.35430	7.89280	HepG2	EIF4G2
SF3A1	ENSG00000099995.14	4223.79220	6028.95810	-0.51340	8.66400	7.30670	K562	GRSF1
SF3A1	ENSG00000099995.14	1697.58410	1152.02800	0.55920	7.31690	6.37400	HepG2	RPS19
SF3A1	ENSG00000099995.14	2599.53310	3818.59240	-0.55480	6.84930	5.95560	HepG2	BOP1
SF3A1	ENSG00000099995.14	2919.46090	1858.33740	0.65160	6.59260	5.81110	HepG2	AKAP1
SF3A1	ENSG00000099995.14	986.80820	1403.79830	-0.50850	7.36050	5.71870	HepG2	YBX3
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 87 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 SF3A1 is not available on ENCORE database.

1 RBPs can affect the splicing of SF3A1 :

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	Bound by RBP
A3SS	SF3A1	ENSG00000099995.14	chr22	-	30733014	30733227			30733014	30733169	30733678	30733886	0.20400	0.00000	0.00000	longer	K562	AQR

Showing 1 to 1 of 1 entries

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

SF3A1

General Information

Functions

Localization

Domains (AlphaFold: SF3A1)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

eCLIP assay for SF3A1 is not avaliable on ENCORE database.

24 proteins are bound to SF3A1 RNA:

eCLIP assay for SF3A1 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout RNA-Seq assay for SF3A1 is not available on ENCORE database.

78 RBPs can affect the gene expression of SF3A1 :

The Knockdown/knockout RNA-Seq assay for SF3A1 is not available on ENCORE database.

1 RBPs can affect the splicing of SF3A1 :

The Knockdown/knockout RNA-Seq assay for SF3A1 is not avaliable on ENCORE database.