SMN1

General Information

Gene Name : SMN1
Gene ID : ENSG00000172062.16
Essential Gene : Yes

Functions

Splicing regulation
Spliceosome
snoRNA / snRNA / telomerase

Localization(RBPImage: SMN1)

Nuclei
Nucleoplasm
Nucleolus
Cytoplasm
Compartment/Organelle
Cytosolic

Domains (AlphaFold: SMN1)

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

Antibody Validation

View validation images for all SMN1 antibodies

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	SMN1	ENSG00000172062.16	37.46	44.28	40.87	ENCSR000AEF
HepG2	SMN1	ENSG00000172062.16	33.12	55.06	44.09	ENCSR985KAT
K562	SMN1	ENSG00000172062.16	56.57	57.44	57.00	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	SMN1-BGKLV24-K562	ENCSR129ROE	SMN1	K562	Released		ENCSR419JMU	shRNA	KD% = 52.5,57.2
knockdown followed by RNA-seq	SMN1-BGHLV20-HepG2	ENCSR090UMI	SMN1	HepG2	Released		ENCSR305XWT	shRNA	KD% = 64.2,66.4

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
SMN1	ENCAB135MQH	RN077PW	1				BGHLV20-55, Released, ENCODE3	BGKLV24-59, Released, ENCODE3
SMN1	ENCAB606FBU	A301-863A	1				BGHLV20-55, Released, ENCODE4	BGKLV24-59, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project	Note
SMN1	K562	shRNA	ENCSR129ROE	ENCSR419JMU	SMN1_BGKLV24_59B,SMN1_BGKLV24_60B	non-target_BGKLV24_1B,non-target_BGKLV24_2B	52.5,57.2	Released	ENCODE3
SMN1	HepG2	shRNA	ENCSR090UMI	ENCSR305XWT	SMN1-BGHLV20-55_17736,SMN1-BGHLV20-56_17737	non-target-BGHLV20-1_17706,non-target-BGHLV20-2_17707	64.2,66.4	Released	ENCODE3

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

SMN1: Click to RBP Image Database

Nuclei

Nucleoplasm

Nucleolus

Cytoplasm

Compartment/Organelle

Cytosolic

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
SMN1	Product_ID: RN077PW Lot_ID: 1 Source: MBLI Target Name: SMN1-human
SMN1	Product_ID: A301-863A Lot_ID: 1 Source: Bethyl Labs Target Name: SMN1-human

Summary
Proteins Bound to RBP RNA

RNA Targets

eCLIP assay for SMN1 is not avaliable on ENCORE database.

Proteins bound to RNA

SMN1 RNA is bound by 1 proteins.

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eCLIP assay for SMN1 is not avaliable on ENCORE database.

1 proteins are bound to SMN1 RNA:

Show entries

Search:

Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr5	70247754	70247816	+	CDS,intron-Distal,intron-Proximal	3.47761	3.55754	HepG2	U2AF2
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 1 of 1 entries

eCLIP assay for SMN1 is not avaliable on ENCORE database.

Diffrential Expression

7,002 differentially expressed genes after Knockdown/Knockout SMN1 protein.

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80 RBPs can affect the levels of SMN1.

CanvasJS.com

7,002 differentially expressed genes after Knockdown/Knockout SMN1 protein :

Only display 100 entries as example. Please click "View All" button to see all 7,002 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
SLC7A2	ENSG00000003989.12	2138.25950	5291.74460	-1.30730	120.34620	117.53460	HepG2	SMN1
CRLF1	ENSG00000006016.6	6264.88380	3215.94230	0.96190	73.12360	70.72880	HepG2	SMN1
TFPI	ENSG00000003436.10	4715.23820	8000.71880	-0.76280	52.72190	50.58940	HepG2	SMN1
SPAG9	ENSG00000008294.16	1618.69710	3366.76020	-1.05650	45.78440	43.75490	HepG2	SMN1
NCAPD2	ENSG00000010292.8	2499.79490	4281.45530	-0.77630	42.75780	40.78960	HepG2	SMN1
PLXND1	ENSG00000004399.8	3006.19720	1715.38950	0.80930	37.75580	35.86360	HepG2	SMN1
DBNDD1	ENSG00000003249.9	1378.28940	671.69790	1.03690	35.04490	33.19810	HepG2	SMN1
IL32	ENSG00000008517.12	2795.30700	1641.65290	0.76780	33.07920	31.27110	HepG2	SMN1
ADIPOR2	ENSG00000006831.9	1928.15680	3138.51080	-0.70290	30.24490	28.49190	HepG2	SMN1
ITGA3	ENSG00000005884.13	499.90230	130.30410	1.93970	29.72040	27.97680	HepG2	SMN1
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".

80 RBPs can affect the gene expression of SMN1 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
SMN1	ENSG00000172062.12	462.96630	1305.82550	-1.49600	36.09680	34.01820	K562	HNRNPC
SMN1	ENSG00000172062.12	599.82320	1287.12270	-1.10150	25.99430	24.73080	HepG2	RBM22
SMN1	ENSG00000172062.12	2484.56460	1576.47530	0.65620	17.59580	16.28670	K562	AGGF1
SMN1	ENSG00000172062.12	3000.43060	1626.84820	0.88300	16.21840	14.94410	K562	PUS1
SMN1	ENSG00000172062.12	1294.09590	2146.29270	-0.72990	16.04710	14.48200	K562	UPF1
SMN1	ENSG00000172062.12	961.24630	2184.79410	-1.18450	13.70110	10.09090	K562	SMN1
SMN1	ENSG00000172062.12	2381.42070	1585.09210	0.58720	11.24230	10.06760	K562	RBM15
SMN1	ENSG00000172062.12	1295.15580	2129.43190	-0.71730	11.51300	9.86630	K562	GPKOW
SMN1	ENSG00000172062.12	2612.02950	1765.20450	0.56520	11.91360	9.84640	K562	DKC1
SMN1	ENSG00000172062.12	1411.39500	2230.39380	-0.66020	11.29560	9.69440	K562	CPSF6
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 91 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 SMN1 is not available on ENCORE database.

1 RBPs can affect the splicing of SMN1 :

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	SMN1	ENSG00000172062.12	chr5	+	70248238	70248407			70248265	70248407	70247601	70247821	0.21200	0.00000	0.00000	longer	K562	AQR
SE	SMN1	ENSG00000172062.12	chr5	+	70240484	70240580			70238544	70238697	70241892	70242003	-0.26400	0.00001	0.00021	excluded	K562	AQR

Showing 1 to 2 of 2 entries

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

SMN1

General Information

Functions

Localization(RBPImage: SMN1)

Domains (AlphaFold: SMN1)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

eCLIP assay for SMN1 is not avaliable on ENCORE database.

1 proteins are bound to SMN1 RNA:

eCLIP assay for SMN1 is not avaliable on ENCORE database.

Diffrential Expression

7,002 differentially expressed genes after Knockdown/Knockout SMN1 protein :

80 RBPs can affect the gene expression of SMN1 :

The Knockdown/knockout RNA-Seq assay for SMN1 is not available on ENCORE database.

1 RBPs can affect the splicing of SMN1 :

The Knockdown/knockout RNA-Seq assay for SMN1 is not avaliable on ENCORE database.