LSM11

General Information

Gene Name : LSM11
Gene ID : ENSG00000155858.5
Essential Gene : Yes

Functions

3' end processing
snoRNA / snRNA / telomerase

Localization(RBPImage: LSM11)

Nuclei
Mutually Exclusive from Nucleolus
Speckles
Cytoplasm
Cytosolic
Nuclear release mitosis

Domains (AlphaFold: LSM11)

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

Antibody Validation

Bethyl Labs: A303-709A

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	LSM11	ENSG00000155858.5	3.80	3.34	3.57	ENCSR000AEF
HepG2	LSM11	ENSG00000155858.5	2.41	4.55	3.48	ENCSR985KAT
K562	LSM11	ENSG00000155858.5	3.61	3.16	3.38	ENCSR000AEO

Assays

4 Released experiments are available on ENCORE database.

Assay Type	Exp_Name	ENCODE ID	Target label	Biosample	Status	Linked Antibody	Controls	Method	Note
eCLIP	eCLIP: 444	ENCSR022BVV	LSM11	K562	Released	ENCAB344HWD	ENCSR952UOL
eCLIP	eCLIP: 592	ENCSR135VMS	LSM11	HepG2	Released	ENCAB344HWD	ENCSR114XBO
knockdown followed by RNA-seq	LSM11-BGKLV21-K562	ENCSR762FEO	LSM11	K562	Released		ENCSR572FFX	shRNA	KD% = 49.7,61.3
knockdown followed by RNA-seq	LSM11-BGHLV18-HepG2	ENCSR883BXR	LSM11	HepG2	Released		ENCSR674KEK	shRNA	KD% = 89.7,88.6

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
LSM11	444	K562	ENCSR022BVV	ENCSR952UOL	ENCAB344HWD	A303-709A	1	Released	ENCODE3
LSM11	592	HepG2	ENCSR135VMS	ENCSR114XBO	ENCAB344HWD	A303-709A	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
LSM11	ENCAB344HWD	A303-709A	1		Released, ENCODE3	Released, ENCODE3	BGHLV18-23, Released, ENCODE3	BGKLV21-29, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project	Note
LSM11	K562	shRNA	ENCSR762FEO	ENCSR572FFX	LSM11_BGKLV21_29_17576,LSM11_BGKLV21_30_17577	non-target_BGKLV21_1,non-target_BGKLV21_2	49.7,61.3	Released	ENCODE3
LSM11	HepG2	shRNA	ENCSR883BXR	ENCSR674KEK	LSM11_BGHLV18_23,LSM11_BGHLV18_24	NT_BGHLV18_1,NT_BGHLV18_2	89.7,88.6	Released	ENCODE3

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

LSM11: Click to RBP Image Database

Nuclei

Mutually Exclusive from Nucleolus

Speckles

Cytoplasm

Cytosolic

Nuclear release mitosis

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
LSM11	Product_ID: A303-709A Lot_ID: 1 Source: Bethyl Labs Target Name: LSM11-human

RNA Targets

LSM11 protein binds to 3,622 RNA regions.

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Proteins bound to RNA

LSM11 RNA is bound by 1 proteins.

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LSM11 protein has 3,622 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
LSM11	chr6	16266720	16266733	+	10.23607	400.00000	K562	GMPR	intron-Distal
LSM11	chr14	24107304	24107309	+	6.23331	400.00000	HepG2	DHRS2	intron-Distal
LSM11	chr6	16266560	16266570	+	8.68064	400.00000	K562	GMPR	intron-Distal
LSM11	chr14	24108509	24108539	+	3.33972	400.00000	HepG2	DHRS2	CDS
LSM11	chr2	171676364	171676368	+	8.71849	79.51811	K562	GAD1	intron-Distal
LSM11	chr7	148518122	148518145	-	7.10777	54.71699	K562	EZH2	intron-Distal
LSM11	chr17	64795794	64795863	+	7.24975	45.69962	HepG2	PRKCA	intron-Distal
LSM11	chr9	117073678	117073702	+	5.03037	45.51864	HepG2	COL27A1	3'-UTR
LSM11	chr2	85772215	85772220	+	4.84078	33.99259	HepG2	MAT2A	3'-UTR
LSM11	chr16	31202351	31202398	+	4.52654	25.88187	K562	FUS	3'-UTR,CDS

Showing 1 to 10 of 100 entries

1 proteins are bound to LSM11 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr5	157183560	157183724	+	3'-UTR	4.34521	15.01187	K562	UPF1
chr5	157183488	157183537	+	3'-UTR	3.69943	3.77931	K562	UPF1
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 2 of 2 entries

No autoregularoty interactions between protein LSM11 and its RNA.

Diffrential Expression

991 differentially expressed genes after Knockdown/Knockout LSM11 protein.

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119 RBPs can affect the levels of LSM11.

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991 differentially expressed genes after Knockdown/Knockout LSM11 protein :

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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
NEDD9	ENSG00000111859.12	2632.99190	6593.98970	-1.32440	31.22620	27.46310	HepG2	LSM11
CA9	ENSG00000107159.8	393.39750	987.64570	-1.32800	19.14500	15.55810	HepG2	LSM11
SCARB1	ENSG00000073060.11	2796.92250	4928.35730	-0.81730	12.15530	8.99440	HepG2	LSM11
PGC	ENSG00000096088.12	2317.73100	4098.13360	-0.82230	12.02540	8.89080	HepG2	LSM11
STC2	ENSG00000113739.6	986.31040	2047.10620	-1.05350	11.80370	8.69390	HepG2	LSM11
ARPC3	ENSG00000111229.11	2660.48550	1533.29650	0.79500	11.61900	8.55490	HepG2	LSM11
TUBB1	ENSG00000101162.3	651.52080	1218.92010	-0.90370	10.55210	7.60200	HepG2	LSM11
FOSL2	ENSG00000075426.7	501.89660	999.58510	-0.99390	9.14810	6.30150	HepG2	LSM11
ODAM	ENSG00000109205.12	347.86960	665.30310	-0.93550	9.10250	6.26890	HepG2	LSM11
WIPI1	ENSG00000070540.8	1219.10890	705.11420	0.78980	8.66640	5.89240	HepG2	LSM11
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".

119 RBPs can affect the gene expression of LSM11 :

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Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
LSM11	ENSG00000155858.5	209.68430	677.74380	-1.69250	39.74260	37.92550	HepG2	PCBP1
LSM11	ENSG00000155858.5	332.11460	749.43060	-1.17410	22.55900	21.48860	HepG2	SRSF1
LSM11	ENSG00000155858.5	101.18230	347.57250	-1.78040	22.60570	21.43370	HepG2	TIAL1
LSM11	ENSG00000155858.5	316.40740	718.00460	-1.18220	21.94980	20.54760	HepG2	SF3B4
LSM11	ENSG00000155858.5	246.19900	695.77740	-1.49880	21.03290	19.12770	HepG2	ASCC1
LSM11	ENSG00000155858.5	318.06650	689.61490	-1.11650	20.24880	19.02950	HepG2	PTBP1
LSM11	ENSG00000155858.5	129.69720	350.66860	-1.43500	18.98890	17.68230	HepG2	TRIM56
LSM11	ENSG00000155858.5	83.26230	291.36490	-1.80710	19.07440	17.67430	HepG2	RPS19
LSM11	ENSG00000155858.5	259.71410	688.05030	-1.40560	18.34170	16.70700	HepG2	G3BP1
LSM11	ENSG00000155858.5	140.36530	357.68970	-1.34950	17.27510	15.86140	HepG2	HNRNPU
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 130 entries

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

53 alternative splicing events after Knockdown/Knockout LSM11 protein :

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Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	2ndExonStart	2ndExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	FDR	is_included	Cell Line	Affected by RBP
SE	SEC31A	ENSG00000138674.12	chr4	-	83752089	83752128			83750152	83750211	83763292	83763634	0.28000	0.03018	included	HepG2	LSM11
SE	PRKAR1A	ENSG00000108946.10	chr17	+	66511127	66511260			66508590	66508689	66511534	66511717	0.35900	0.00105	included	HepG2	LSM11
SE	RPLP0	ENSG00000089157.11	chr12	-	120636434	120636573			120635124	120635265	120636656	120636803	0.14800	0.03018	included	HepG2	LSM11
SE	DHRS2	ENSG00000100867.10	chr14	+	24108049	24108213			24105575	24105981	24108387	24108565	-0.10900	0.00105	excluded	HepG2	LSM11
MXE	SNRNP70	ENSG00000104852.10	chr19	+	49589661	49589818	49593547	49593610	49588679	49588893	49593722	49593777	0.18600	0.00063	1included	K562	LSM11
MXE	BID	ENSG00000015475.14	chr22	-	18226568	18226779	18232870	18232940	18222114	18222254	18257146	18257258	0.21500	0.00201	1included	K562	LSM11
MXE	TALDO1	ENSG00000177156.6	chr11	+	755878	756002	758949	759057	747427	747578	760121	760253	0.14500	0.00013	1included	K562	LSM11
MXE	TALDO1	ENSG00000177156.6	chr11	+	755878	756002	759008	759057	747453	747578	760121	760253	0.12600	0.00006	1included	K562	LSM11
MXE	RPL8	ENSG00000161016.11	chr8	-	146016661	146016695	146017157	146017299	146015739	146015855	146017376	146017525	0.07200	0.00122	1included	K562	LSM11
MXE	RPL8	ENSG00000161016.11	chr8	-	146017013	146017257	146017257	146017299	146016661	146016880	146017376	146017525	0.12900	0.00013	1included	K562	LSM11

Showing 1 to 10 of 53 entries

LSM11

General Information

Functions

Localization(RBPImage: LSM11)

Domains (AlphaFold: LSM11)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

LSM11 protein has 3,622 RNA targets:

1 proteins are bound to LSM11 RNA:

No autoregularoty interactions between protein LSM11 and its RNA.

Diffrential Expression

991 differentially expressed genes after Knockdown/Knockout LSM11 protein :

119 RBPs can affect the gene expression of LSM11 :

53 alternative splicing events after Knockdown/Knockout LSM11 protein :

No RBPs affect the alternative splcing events of LSM11 on ENCORE database.

No autoregularoty alternative splicing events between protein LSM11 and its RNA.